US20160350933A1

US20160350933A1 - Method of forming a probability map

Info

Publication number: US20160350933A1
Application number: US15/165,644
Authority: US
Inventors: Moira F. Schieke
Original assignee: Cubisme Inc
Current assignee: Cubisme Inc
Priority date: 2015-05-29
Filing date: 2016-05-26
Publication date: 2016-12-01
Also published as: US20170287175A1; US9922433B2; US10347015B2; US20230010515A1; US20200167976A1; US11263793B2; US20160350946A1; US20180276856A1

Abstract

A method of using a moving window to form a probability map is disclosed. According to one embodiment, a method may include obtaining measures of imaging parameters for stops of a moving window on an image. Probabilities of an event associated with the stops of the moving window are obtained, for example by matching the measures of the imaging parameters to a classifier.

Description

CROSS-REFERENCE TO RELATED APPLICATIONS

This application claims priority to U.S. Provisional Patent Application No. 62/167,940, filed May 29, 2015, the entirety of which is incorporated herein by reference.

BACKGROUND OF THE DISCLOSURE

Field of the Disclosure
The disclosure relates to a method of forming a probability map, and more particularly, to a method of forming a probability map based on molecular and structural imaging data, such as magnetic resonance imaging (MRI) parameters, computed tomography (CT) parameters, positron emission tomography (PET) parameters, single-photon emission computed tomography (SPECT) parameters, micro-PET parameters, micro-SPECT parameters, Raman parameters, and/or bioluminescence optical (BLO) parameters, or based on other structural imaging data, such as from CT and/or ultrasound images.
Brief Description of the Related Art
Big Data represents the information assets characterized by such a high volume, velocity and variety to require specific technology and analytical methods for its transformation into value. Big Data is used to describe a wide range of concepts: from the technological ability to store, aggregate, and process data, to the cultural shift that is pervasively invading business and society, both drowning in information overload. Precision medicine is a medical model that proposes the customization of healthcare—with medical decisions, practices, and/or products being tailored to the individual patient. In this model, diagnostic testing is often employed for selecting appropriate and optimal therapies based on the context of a patient's genetic content or other molecular or cellular analysis.

SUMMARY OF THE DISCLOSURE

The invention proposes an objective to provide a method of using a moving window to form a probability map based on molecular and structural imaging data, such as MRI parameters, CT parameters, PET parameters, SPECT parameters, micro-PET parameters, micro-SPECT parameters, Raman parameters, and/or BLO parameters, and/or other structural imaging data, such as from CT and/or ultrasound images. The method may build a dataset or database of big data based on molecular and structural imaging data (and/or other structural imaging data) and the corresponding biopsy tissue-based data. A classifier or biomarker library may be constructed or established from the big data dataset. In an embodiment, a biomarker is a characteristic that is objectively measured and evaluated as an indicator of normal biological processes, pathogenic processes, or pharmacologic responses to a therapeutic intervention. The invention introduces the use of a moving window as a basic process for creating a probability map of a specific tissue or tumor characteristic for an individual patient from the patient's registered imaging dataset by using a matching dataset from the established or constructed classifier or biomarker library containing population-based information for the given set of molecular imaging (and/or other imaging) data and other information (such as clinical and demographic data). The method provides direct biopsy tissue-based evidence for the medical or biological test or diagnosis of tissues or organs of an individual patient and show biomarker(s) within a single tumor focus with high sensitivity and specificity.
The invention also proposes an objective to provide a method of forming a probability change map based on imaging data before and after a medical treatment. The imaging data may include (1) molecular and structural imaging data, such as MRI parameters, CT parameters, PET parameters, SPECT parameters, micro-PET parameters, micro-SPECT parameters, Raman parameters, and/or BLO parameters, and/or (2) other structural imaging data, such as from CT and/or ultrasound images. The method may build a big data dataset based on molecular and structural imaging (and/or other structural imaging) data and the corresponding biopsy tissue-based data. A classifier or biomarker library may be constructed or established from the big data dataset. The invention introduces the use of a moving window for creating a probability change map of a specific tissue or tumor characteristic for a patient by matching the patient's molecular imaging (and/or other imaging) information before and after the treatment in the patient's registered (multi-parametric) image dataset to the established or constructed classifier or biomarkers. The method may use the molecular imaging (or other imaging) data matching a classifier or biomarkers derived from direct biopsy tissue-based evidence to obtain the change of probabilities for treatment responses or progression and show biomarker(s) of response and/or progression within a single tumor focus with high sensitivity and specificity. The invention provides a method for effective and timely evaluation of the effectiveness of the treatment, such as neoadjuvant chemotherapy for breast cancer, or radiation treatment for prostate cancer.
The invention also proposes an objective to provide a method for collecting data for an image-tissue-clinical database for cancer.
The invention also proposes an objective to apply a big data technology to build a probability map from multi-parameter molecular imaging data, including MRI parameters, PET parameters, SPECT parameters, micro-PET parameters, micro-SPECT parameters, Raman parameters, and/or BLO parameters, and/or from other imaging data, including data from CT and/or ultrasound images. The invention provides a non-invasive method (such as molecular imaging methods, for example, MRI, Raman imaging, CT imaging) to diagnose a specific tissue characteristic, such as breast cancer cells or prostate cancer cells, with better resolution (resolution size is 50% smaller, or 25% smaller than the current resolution capability), and with a higher confidence level. With data accumulated in the dataset or database of big data, the confidence level (for example, percentage of accurate diagnosis of a specific cancer cell) can be greater than 90%, or 95%, and eventually, greater than 99%.
The invention also proposes an objective to apply a big data technology to build a probability change map from imaging data before and after a treatment. The imaging data may include (1) molecular and structural imaging data, including MRI parameters, CT parameters, PET parameters, SPECT parameters, micro-PET parameters, micro-SPECT parameters, Raman parameters, and/or BLO parameters, and/or (2) other structural imaging data, including data from CT and/or ultrasound images. The invention provides a method for effective and timely evaluation of the effectiveness of a treatment, such as neoadjuvant chemotherapy for breast cancer or radiation treatment for prostate cancer.
In order to achieve the above objectives, the invention may provide a method of forming a probability map composed of multiple computation voxels with the same size. The method may include the following steps described below. First, a big data database including multiple data sets is created. Each of the data sets in the big data database may include a first set of information data, which may be obtained by a non-invasive method or a less-invasive method (as compared to a method used to obtain the following second set of information data), may be obtained more easily (than the method used to obtain the following second set of information data), or may provide information, obtained by a non-invasive method, for a specific tissue, to be biopsied or to be obtained by an invasive method, of an organ (e.g., prostate or breast) of a subject with a spatial volume covering, e.g., less than 10% or even less than 1% of the spatial volume of the organ of the subject. The organ of the subject, for example, may be the prostate or breast of a human patient. The first set of data information may include measures of molecular imaging (and/or other imaging, Note: the method in the invention can be used for other imaging data, and therefore “the other imaging data” may not be mentioned hereafter.) parameters, such as measures of MRI parameters and/or CT parameters, for a volume and location of the specific tissue to be biopsied (e.g., prostate or breast) from the organ of the subject. Each of the molecular imaging parameters for the specific tissue may have a measure calculated based on an average of measures, for said each of the molecular imaging parameters, obtained from regions, portions, locations or volumes of interest of multiple registered images, such as MRI slices, PET slices, or SPECT images, registered to or aligned with respective regions, portions, locations or volumes of interest of the specific tissue to be biopsied. All of the regions, portions, locations or volumes of interest of the registered images may have a total volume covering and substantially equaling the volume of the specific tissue to be biopsied. Each of the data sets in the big data database may further include a second set of information data, which may be obtained by an invasive method or a more-invasive method (as compared to the method used to obtain the above first set of information data), may be obtained with more difficulty (as compared to the method used to obtain the above first set of information data), or may provide information for the specific tissue, having been biopsied or obtained by an invasive method, of the organ of the subject. The second set of information data may provide information data with decisive, conclusive results for a better judgment or decision making. For example, the second set of information data may include a biopsy result, data or information (i.e., pathologist diagnosis, for example cancer or no cancer) for the biopsied specific tissue. Each of the data sets in the big data database may also include: (1) dimensions related to molecular imaging parameter measures, such as the thickness T of an MRI slice and the size of an MRI voxel of the MRI slice, including the width of the MRI voxel and the thickness or height of the MRI voxel (which may be the same as the thickness T of the MRI slice), (2) clinical data (e.g., age and sex of the patient and/or Gleason score of a prostate cancer) associated with the biopsied specific tissue and/or the subject, and (3) risk factors for cancer associated with the subject (such as smoking history, sun exposure, and premalignant lesions, gene). For example, if the biopsied specific tissue is obtained by a needle, the biopsied specific tissue is cylinder-shaped with a diameter or radius Rn (that is, an inner diameter or radius of the needle) and a height tT normalized to the thickness T of the MRI slice. The invention proposes a method to transform the volume of the cylinder-shaped biopsied specific tissue (or Volume of Interest (VOI)) into other shapes for easy or meaningful computing purposes, for medical instrumentation purposes, or for clearer final data presentation purposes. For example, the long cylinder of the biopsy specific tissue (with radius Rn and height tT) may be transformed into a planar cylinder (with radius Rw, which is the radius Rn multiplied by the square root of the number of registered images for the specific tissue to be biopsied) to match the MRI slice thickness T. The information of the radius Rw of the planner cylinder, which has a volume the same or about the same as the volume of the biopsied specific tissue, i.e., VOI, and has a height of the MRI slice thickness T, is used to define the size (e.g., the radius) of a moving window in calculating a probability map for a patient (e.g., human). The invention proposes that, for each of the data sets, the volume of the biopsy specific tissue, i.e., VOI, may be substantially equal to the volume of the moving window to be used in calculating probability maps. In other words, the volume of the biopsy specific tissue, i.e., VOI, defines the size of the moving window to be used in calculating probability maps. In above, the concept of obtaining a feature size (e.g., the radius) of the moving window to be used in calculating a probability map for an MRI slice is disclosed. Statistically, the moving window may be determined with the radius Rw (i.e., feature size), perpendicular to a thickness of the moving window, based on a statistical distribution or average of the radii Rw (calculated from VOIs) associated with a subset data from the big data database. Next, a classifier for an event such as biopsy-diagnosed tissue characteristic for e.g., specific cancerous cells or occurrence of prostate cancer or breast cancer is created based on the subset data associated with the event from the big data database. The subset data may be obtained from all data associated with the given event. A classifier or biomarker library can be constructed or obtained using statistical methods, correlation methods, big data methods, and/or learning and training methods.
After the big data database and the classifier are created or constructed, an image of a patient, such as MRI slice image (i.e., a molecular image) or other suitable image, is obtained by a device or system such as MRI system. Furthermore, based on the feature size, e.g., the radius Rw, of the moving window obtained from the subset data in the big data database, the size of a computation voxel, which becomes the basic unit of the probability map, is defined. In other words, a step size of the moving window may determine a size of the voxels of a probability map. If the moving window is circular, the biggest square inscribed in the moving window is then defined. Next, the biggest square is divided into n²small squares each having a width Wsq, where n is an integer, such as 2, 3, 4, 5, 6, or more than 6. The divided squares define the size and shape of the computation voxels in the probability map for the image of the patient. The moving window may move across the patient's image at a regular step or interval of a fixed distance, e.g., substantially equal to the width Wsq of the computation voxels. A stop of the moving window overlaps with the neighboring stop of the moving window. Alternatively, the biggest square may be divided into n rectangles each having a width Wrec and a length Lrec, where n is an integer, such as 2, 3, 4, 5, 6, 7, 8, or more than 8. The divided rectangles and step size of the moving window defines the size and shape of the computation voxels in the probability map for the image of the patient. The moving window may move across the patient's image at a regular step or interval of a fixed distance, e.g., substantially equal to the width of the computation voxels (i.e., the width Wrec), in the x direction and at a regular step or interval of a fixed distance, e.g., substantially equal to the length of computation voxels (i.e., the length Lrec), in the y direction. A stop of the moving window overlaps with the neighboring stop of the moving window. In an alternative embodiment, each of the stops of the moving window may have a width, length or diameter less than the side length (e.g., the width or length) of voxels in the image of the patient.
After the size and shape of the computation voxel is obtained or defined, the stepping of the moving window and the overlapping between two neighboring stops of the moving window can then be determined. Measures of specific imaging parameters for each stop of the moving window are obtained from the patient's imaging information or image. The specific imaging parameters may include molecular imaging parameters, such as MRI parameters, PET parameters, SPECT parameters, micro-PET parameters, micro-SPECT parameters, Raman parameters, and/or BLO parameters, and/or other imaging parameters, such as CT parameters and/or ultrasound imaging parameters. Each of the specific imaging parameters for each stop of the moving window may have a measure calculated based on an average of measures, for said each of the specific imaging parameters, for voxels of the patient's image inside said each stop of the moving window. In the case that some voxels of the patient's image may be only partially inside that stop of the moving window, the average can be weighed by the area proportion. A registered (multi-parametric) image dataset may be created for the patient to include multiple imaging parameters, such as molecular parameters and/or other imaging parameters, obtained from various modalities (e.g., equipment, machines, etc.), or devices or from a defined time-point (e.g., specific date) or time range (e.g., within five days after treatment). Each of the image parameters in the patient's registered (multi-parametric) image dataset requires alignment or registration. The registration can be done by, for examples, using unique anatomical marks, structures, tissues, geometry, shapes or using mathematical algorithms and computer pattern recognition.
Next, the specific imaging parameters for each stop of the moving window may be reduced using, e.g., subset selection, aggregation, and dimensionality reduction into a parameter set for said each stop of the moving window. In other words, the parameter set includes measures for independent imaging parameters. The imaging parameters used in the parameter set may have multiple types, such as two types, more than two types, more than three types, or more than four types, independent from each other or one another, or may have a single type. For example, the imaging parameters used in the parameter set may include (a) MRI parameters and PET parameters, (b) MRI parameters and SPET parameters, (c) MRI parameters and CT parameters, (d) MRI parameters and ultrasound imaging parameters, (e) Raman imaging parameters and CT parameters, (f) Raman imaging parameters and ultrasound imaging parameters, (g) MRI parameters, PET parameters, and ultrasound imaging parameters, or (h) MRI parameters, PET parameters, and CT parameters.
Next, the parameter set for each stop of the moving window is matched to the classifier to obtain a probability PW of the event for each stop of the moving window. A probability of the event for each of the computation voxels may be computed from the probabilities PWs of the event for related stops of the moving window. According to the described approach, multiple moving window readings are used to determine final probability values for the computation voxels of a probability map for an event. More specifically, probabilities of the event for the computation voxels are obtained based on overlapped stops of the moving window and used to form the probability map of the event for the image (e.g., patient's MRI slice) for the patient having imaging information (e.g., molecular imaging information). Using a moving window in the x-y direction would create a two-dimensional (2D) probability map. In order to obtain a three-dimensional (3D) probability map, the above processes for all MRI slices of the patient would be performed in the z direction in addition to the x-y direction.
After the probability map is obtained, the patient may undergo a biopsy to obtain a tissue sample for a suspected region of the probability map from an organ of the patient (i.e., that is shown on the image of the patient). The tissue sample is then sent to be examined by pathology. Based on the pathology diagnosis of the tissue sample, it can be determined whether the probabilities for the suspected region of the probability map are precise or not. In the invention, the probability map may provide information for a portion or all of the organ of the patient with a spatial volume greater than 80% or even 90% of the spatial volume of the organ, than the spatial volume of the tissue sample (which may be less than 10% or even 1% of the spatial volume of the organ), and/or than the spatial volume of the specific tissue provided for the first and second sets of information data in the big data database.
In order to further achieve the above objectives, the invention may provide a method of forming a probability change map between before and after a treatment. The method is described in the following steps: (1) following methods and procedures described above, the probability of the event for each stop of the moving window in the MRI slice for a patient before the treatment can be obtained, using molecular imaging parameters (or other images) taken before the treatment. Similarly, the probability of the event for each stop of the moving window in the MRI slice for the patient after the treatment can be obtained, using molecular imaging parameters (or other images) taken after the treatment. All molecular imaging parameters (or other images) are from the registered (multi-parametric) image dataset. (2) calculating a probability change PMC between the probabilities of the event before and after the treatment for each stop of the moving window; (3) calculating a probability change PVC of each of computation voxels in the MRI slice, associated with the treatment, using the probability changes PMCs for the stops of the moving window, by calculating the probability of each of computation voxels from the probabilities of the stops of the moving window. The obtained probability changes PVCs for the computation voxels then form a probability change map for the MRI slice, associated with the treatment. Performing the above processes for all MRI slices in the z direction, a 3D probability change map can be obtained.
In general, the invention proposes an objective to provide a method, system (including, e.g., hardware, devices, computers, processors, software, and/or tools), device, tool, software or hardware for forming or generating a clinical decision support data map, e.g., a probability map, based on first data of a first type (e.g., first measures of MRI parameters) from a first subject such as a human or an animal. The method, system, device, tool, software or hardware may include building a database of big data including second data of the first type (e.g., second measures of the MRI parameters) from a population of second subjects and third data of a second type (e.g., biopsy results, data or information) from the population of second subjects. The third data of the second type may provide information data with decisive, conclusive results for a better judgment or decision making (e.g., having cancer or not). The second and third data of the first and second types from each of the second subjects in the population, for example, may be obtained from a common portion of said each of the second subjects in the population. A classifier related to a decision-making characteristic (e.g., occurrence of prostate cancer or breast cancer) is established or constructed from the database of big data. The method, system, device, tool, software or hardware may provide an algorithm and a computing method for generating the decision data map with finer voxels associated with the decision-making characteristic for the first subject by matching the first data of the first type to the established or constructed classifier. The method, system, device, tool, software or hardware provides a decisive-conclusive-result-based evidence for a better judgment or decision making based on the first data of the first type (without any data of the second type from the first subject). The second data of the first type, for example, may be obtained by a non-invasive method or a less-invasive method (as compared to a method used to obtain the third data of the second type), may be obtained more easily (as compared to the method used to obtain the third data of the second type), or may provide information, obtained by, e.g., a non-invasive method, for a specific tissue, to be biopsied or to be obtained by an invasive method, of an organ of each second subject with a spatial volume covering, e.g., less than 10% or even less than 1% of the spatial volume of the organ. The second data of the first type may include measures or data of molecular imaging (and/or other imaging) parameters, such as measures of MRI parameters and/or CT data. The third data of the second type, for example, may be obtained by an invasive method or a more-invasive method (as compared to the method used to obtain the second data of the first type), may be harder to obtain (as compared to the method used to obtain the second data of the first type), or may provide information for the specific tissue, having been biopsied or obtained by an invasive method, of the organ of each second subject. The third data of the second type may include biopsy results, data, and information (for example having cancer or no cancer) for the biopsied specific tissues of the second subjects in the population. The decision making may be related to, for example, a decision on whether the first subject has cancerous cells or not. This invention provides a method to make better decision, judgment or conclusion for the first subject (a patient, for example) based on the first data of the first type, without any data of the second type from the first subject. This invention provides a method to use MRI imaging data to directly diagnose whether an organ or tissue (such as breast or prostate) of the first subject has cancerous cells or not without performing a biopsy test for the first subject. In general, this invention provides a method to make decisive conclusion, with 90% or over 90% accuracy (or confidence level), or with 95% or over 95% accuracy (or confidence level), or eventually, with 99% or over 99% accuracy (or confidence level). Furthermore, the invention provides a method for improvement of the spatial resolution of data or images with a voxel 75%, 50% or 25%, in 1D dimension, smaller than that created by the current available method.
These, as well as other components, steps, features, benefits, and advantages of the present disclosure, will now become clear from a review of the following detailed description of illustrative embodiments, the accompanying drawings, and the claims.

BRIEF DESCRIPTION OF THE DRAWINGS

The drawings disclose illustrative embodiments of the present disclosure. They do not set forth all embodiments. Other embodiments may be used in addition or instead. Details that may be apparent or unnecessary may be omitted to save space or for more effective illustration. Conversely, some embodiments may be practiced without all of the details that are disclosed. When the same reference number or reference indicator appears in different drawings, it may refer to the same or like components or steps.

Aspects of the disclosure may be more fully understood from the following description when read together with the accompanying drawings, which are to be regarded as illustrative in nature, and not as limiting. The drawings are not necessarily to scale, emphasis instead being placed on the principles of the disclosure. In the drawings:

FIG. 1A is a schematic drawing showing a “Big Data” probability map creation in accordance with an embodiment of the present invention;

FIGS. 1B-1G show a subset data table in accordance with an embodiment of the present invention;

FIGS. 1H-1M show a subset data table in accordance with an embodiment of the present invention;

FIG. 2A is a schematic drawing showing a biopsy tissue and multiple MRI slices registered to the biopsy tissue in accordance with an embodiment of the present invention;

FIG. 2B is a schematic drawing of a MRI slice in accordance with an embodiment of the present invention;

FIG. 2C is a schematic drawing showing multiple voxels of a MRI slice covered by a region of interest (ROI) on the MRI slice in accordance with an embodiment of the present invention;

FIG. 2D shows a data table in accordance with an embodiment of the present invention;

FIG. 2E shows a planar cylinder transformed from a long cylinder of a biopsied tissue in accordance with an embodiment of the present invention;

FIG. 3A is a schematic drawing showing a circular window and a two-by-two grid array within a square inscribed in the circular window in accordance with an embodiment of the present invention;

FIG. 3B is a schematic drawing showing a circular window and a three-by-three grid array within a square inscribed in the circular window in accordance with an embodiment of the present invention;

FIG. 3C is a schematic drawing showing a circular window and a four-by-four grid array within a square inscribed in the circular window in accordance with an embodiment of the present invention;

FIG. 4 is a flow chart illustrating a computing method of generating or forming a probability map in accordance with an embodiment of the present invention;

FIG. 5 shows a MRI slice showing a prostate, as well as a computation region on the MRI slice, in accordance with an embodiment of the present invention;

FIG. 6A is a schematic drawing showing a circular window moving across a computation region of a MRI slice in accordance with an embodiment of the present invention;

FIG. 6B shows a square inscribed in a circular window having a corner aligned with a corner of a computation region of a MRI slice in accordance with an embodiment of the present invention;

FIG. 7A is a schematic drawing showing multiple voxels of a MRI slice covered by a circular window in accordance with an embodiment of the present invention;

FIG. 7B shows a data table in accordance with an embodiment of the present invention;

FIG. 8 shows a computation region defined with nine computation voxels for a probability map in accordance with an embodiment of the present invention;

FIGS. 9A, 9C, 9E, and 9G show four stops of a circular moving window, each of which includes four non-overlapped small squares, in accordance with an embodiment of the present invention;

FIGS. 9B, 9D, 9F, and 9H show a circular window moving across a computation region defined with nine computation voxels in accordance with an embodiment of the present invention;

FIGS. 10A, 10B, and 10C show example initial probabilities for computation voxels, updated probabilities for the computation voxels, and optimal probabilities for the computation voxels, respectively, in accordance with an embodiment of the present invention;

FIG. 11 shows a computation region defined with thirty-six computation voxels for a probability map in accordance with an embodiment of the present invention;

FIGS. 12A, 12C, 12E, 12G, 13A, 13C, 13E, 13G, 14A, 14C, 14E, 14G, 15A, 15C, 15E, and 15G show sixteen stops of a circular moving window, each of which includes nine non-overlapped small squares, in accordance with an embodiment of the present invention;

FIGS. 12B, 12D, 12F, 12H, 13B, 13D, 13F, 13H, 14B, 14D, 14F, 14H, 15B, 15D, 15F, and 15H show a circular window moving across a computation region defined with thirty-six computation voxels in accordance with an embodiment of the present invention;

FIGS. 16A, 16B, and 16C show example initial probabilities for computation voxels, updated probabilities for the computation voxels, and optimal probabilities for the computation voxels, respectively, in accordance with an embodiment of the present invention;

FIGS. 17A-17C show three probability maps;

FIG. 17D shows a composite probability image or map;

FIG. 18 shows a MRI slice showing a breast, as well as a computation region on the MRI slice, in accordance with an embodiment of the present invention;

FIGS. 19A-19R show a description of various parameters (“parameter charts” and “biomarker” charts could be used to explain many items that could be included in a big data database, this would include the ontologies, mRNA, next generation sequencing, etc., and exact data in “subset” databases could then be more specific and more easily generated data);

FIG. 20 is a flow chart depicting a method of evaluating, identifying, or determining the effect of a treatment (e.g., neoadjuvant chemotherapy or minimally invasive treatment of prostate cancer) or a drug used in the treatment on a subject in accordance with an embodiment of the present invention;

FIG. 21 is a flow chart depicting a method of evaluating, identifying, or determining the effect of a treatment or a drug used in the treatment on a subject in accordance with an embodiment of the present invention;

FIG. 22 is a flow chart depicting a method of evaluating, identifying, or determining the effect of a treatment or a drug used in the treatment on a subject in accordance with an embodiment of the present invention; and

FIG. 23 is a diagram showing two Gaussian curves of two given different groups with respect to parameter measures.

While certain embodiments are depicted in the drawings, one skilled in the art will appreciate that the embodiments depicted are illustrative and that variations of those shown, as well as other embodiments described herein, may be envisioned and practiced within the scope of the present disclosure.

DETAILED DESCRIPTION OF THE INVENTION

Illustrative embodiments are now described. Other embodiments may be used in addition or instead. Details that may be apparent or unnecessary may be omitted to save space or for a more effective presentation. Conversely, some embodiments may be practiced without all of the details that are disclosed.
Computing methods described in the present invention may be performed on any type of image, such as molecular and structural image (e.g., MRI image, CT image, PET image, SPECT image, micro-PET, micro-SPECT, Raman image, or bioluminescence optical (BLO) image), structural image (e.g., CT image or ultrasound image), fluoroscopy image, structure/tissue image, optical image, infrared image, X-ray image, or any combination of these types of images, based on a registered (multi-parametric) image dataset for the image. The registered (multi-parametric) image dataset may include multiple imaging data or parameters obtained from one or more modalities, such as MRI, PET, SPECT, CT, fluoroscopy, ultrasound imaging, BLO imaging, micro-PET, micro-SPECT, Raman imaging, structure/tissue imaging, optical imaging, infrared imaging, and/or X-ray imaging. For a patient, the registered (multi-parametric) image dataset may be created by aligning or registering in space all parameters obtained from different times or from various machines. Methods in first, second and third embodiments of the invention may be performed on a MRI image based on the registered (multi-parametric) image dataset, including, e.g., MRI parameters and/or PET parameters, for the MRI image.
Referring to FIG. 1A, a big data database 70 is created to include multiple data sets, each of which may include: (1) a first set of information data, which may be obtained by a non-invasive method or a less-invasive method (as compared to a method used to obtain the following second set of information data), wherein the first set of data information may include measures for multiple imaging parameters, including, e.g., molecular and structural imaging parameters (such as MRI parameters, CT parameters, PET parameters, SPECT parameters, micro-PET parameters, micro-SPECT parameters, Raman parameters, and/or BLO parameters) and/or other structural imaging data (such as from CT and/or ultrasound images), for a volume and location of a tissue to be biopsied (e.g., prostate or breast) from a subject such as human or animal, (2) combinations each of specific some of the imaging parameters, (3) dimensions related to imaging parameters (e.g., molecular and structural imaging parameters), such as the thickness T of an MRI slice and the size of an MRI voxel of the MRI slice, including the width or side length of the MRI voxel and the thickness or height of the MRI voxel (which may be substantially equal to the thickness T of the MRI slice), (4) a second set of information data obtained by an invasive method or a more-invasive method (as compared to the method used to obtain the first set of information data), wherein the second set of the information data may include tissue-based information from a biopsy performed on the subject, (5) clinical data (e.g., age and sex of the subject and/or Gleason score of a prostate cancer) associated with the biopsied tissue and/or the subject, and (6) risk factors for cancer associated with the subject.
Some or all of the subjects for creating the big data database 70 may have been subjected to a treatment such as neoadjuvant chemotherapy or (preoperative) radiation therapy. Alternatively, some or all of the subjects for creating the big data database 70 are not subjected to a treatment such as neoadjuvant chemotherapy or (preoperative) radiation therapy. The imaging parameters in each of the data sets of the big data database 70 may be obtained from different modalities, including two or more of the following: MRI, PET, SPECT, CT, fluoroscopy, ultrasound imaging, BLO imaging, micro-PET, micro-SPECT, and Raman imaging. Accordingly, the imaging parameters in each of the data sets of the big data database 70 may include four or more types of MRI parameters depicted in FIGS. 19A-19H, one or more types of PET parameters depicted in FIG. 19I, one or more types of biomarker features depicted in FIG. 19J, and other parameters depicted in FIG. 19K. Alternatively, the first set of information data may only include a type of imaging parameter (such as T1 mapping). In each of the data sets of the big data database 70, each of the imaging parameters (such as T1 mapping) for the tissue to be biopsied may have a measure calculated based on an average of measures, for said each of the imaging parameters, for multiple regions, portions, locations or volumes of interest of multiple registered images (such as MRI slices) registered to or aligned with respective regions, portions, locations or volumes of the tissue to be biopsied, wherein all of the regions, portions, locations or volumes of interest of the registered images may have a total volume covering and substantially equaling the volume of the tissue to be biopsied. The number of the registered images for the tissue to be biopsied may be greater than or equal to 2, 5 or 10.
In the case of the biopsied tissue obtained by a needle, the biopsied tissue may be long cylinder-shaped with a radius Rn, which is substantially equal to an inner radius of the needle, and a height tT normalized to the thickness T of the MRI slice. In the invention, the volume of the long cylinder-shaped biopsied tissue may be transformed into another shape, which may have a volume the same or about the same as the volume of the long cylinder-shaped biopsied tissue (or Volume of Interest, VOI), for easy or meaningful computing purposes, for medical instrumentation purposes, or for clearer final data presentation purposes. For example, the long cylinder of the biopsied tissue with the radius Rn and height tT may be transformed into a planar cylinder to match the MRI slice thickness T. The planar cylinder, for example, may have a height equal to the MRI slice thickness T, a radius Rw equal to the radius Rn multiplied by the square root of the number of the registered images, and a volume the same or about the same as the volume of the biopsied tissue, i.e., VOI. The radius Rw of the planner cylinder is used to define the size (e.g., the radius Rm) of a moving window MW in calculating a probability map for a patient (e.g., human). In the invention, the volume of the biopsied tissue, i.e., VOI, for each of the data sets, for example, may be substantially equal to the volume of the moving window MW to be used in calculating probability maps. In other words, the volume of the biopsied tissue, i.e., VOI, defines the size of the moving window MW to be used in calculating probability maps. Statistically, the moving window MW may be determined with the radius Rm, perpendicular to a thickness of the moving window MW, based on the statistical distribution or average of the radii Rw (calculated from multiple VOIs) associated with a subset data (e.g., the following subset data DB-1 or DB-2) from the big data database 70.
The tissue-based information in each of the data sets of the big data database 70 may include (1) a biopsy result, data, information (i.e., pathologist diagnosis, for example cancer or no cancer) for the biopsied tissue, (2) mRNA data or expression patterns, (3) DNA data or mutation patterns (including that obtained from next generation sequencing), (4) ontologies, (5) biopsy related feature size or volume (including the radius Rn of the biopsied tissue, the volume of the biopsied tissue (i.e., VOI), and/or the height tT of the biopsied tissue), and (6) other histological and biomarker findings such as necrosis, apoptosis, percentage of cancer, increased hypoxia, vascular reorganization, and receptor expression levels such as estrogen, progesterone, HER2, and EPGR receptors. For example, regarding the tissue-based information of the big data database 70, each of the data sets may include specific long chain mRNA biomarkers from next generation sequencing that are predictive of metastasis-free survival, such as HOTAIR, RP11-278 L15.2-001, LINC00511-009, AC004231.2-001. The clinical data in each of the data sets of the big data database 70 may include the timing of treatment, demographic data (e.g., age, sex, race, weight, family type, and residence of the subject), and TNM staging depicted in, e.g., FIGS. 19N and 19O or FIGS. 19P, 19Q and 19R. Each of the data sets of the big data database 70 may further include information regarding neoadjuvant chemotherapy and/or information regarding (preoperative) radiation therapy. Imaging protocol details, such as MRI magnet strength, pulse sequence parameters, PET dosing, time at PET imaging, may also be included in the big data database 70. The information regarding (preoperative) radiation therapy may include the type of radiation, the strength of radiation, the total dose of radiation, the number of fractions (depending on the type of cancer being treated), the duration of the fraction from start to finish, the dose of the fraction, the duration of the preoperative radiation therapy from start to finish, and the type of machine used for the preoperative radiation therapy. The information regarding neoadjuvant chemotherapy may include the given drug(s), the number of cycles (i.e., the duration of the neoadjuvant chemotherapy from start to finish), the duration of the cycle from start to finish, and the frequency of the cycle.
Data of interest are selected from the big data database 70 into a subset, used to build a classifier CF. The subset from the big data database 70 may be selected for a specific application, such as prostate cancer, breast cancer, breast cancer after neoadjuvant chemotherapy, or prostate cancer after radiation. In the case of the subset selected for prostate cancer, the subset may include data in a tissue-based or biopsy-based subset data DB-1. In the case of the subset selected for breast cancer, the subset may include data in a tissue-based or biopsy-based subset data DB-2. Using suitable methods, such as statistical methods, correlation methods, big data methods, and/or learning and training methods, the classifier CF may be constructed or created based on a first group associated with a first data type or feature (e.g., prostate cancer or breast cancer) in the subset, a second group associated with a second data type or feature (e.g., non-prostate cancer or non-breast cancer) in the subset, and some or all of the variables in the subset associated with the first and second groups. Accordingly, the classifier CF for an event, such as the first data type or feature, may be created based on the subset associated with the event from the big data database 70. The event may be a biopsy-diagnosed tissue characteristic, such as having specific cancerous cells, or occurrence of prostate cancer or breast cancer.
After the database 70 and the classifier CF are created or constructed, a probability map, composed of multiple computation voxels with the same size, is generated or constructed for, e.g., evaluating or determining the health status of a patient (e.g., human subject), the physical condition of an organ or other structure inside the patient's body, or the patient's progress and therapeutic effectiveness by the steps described below. First, an image of the patient is obtained by a device or system, such as MRI system. The image of the patient, for example, may be a molecular image (e.g., MRI image, PET image, SPECT image, micro-PET image, micro-SPECT image, Raman image, or BLO image) or other suitable image (e.g., CT image or ultrasound image). In addition, based on the step size of a moving window and/or the radius Rm of the moving window MW obtained from the subset, e.g., the subset data DB-1 or DB-2, in the big data database 70, the size of the computation voxel, which becomes the basic unit of the probability map, is defined.
If the moving window MW is circular, the biggest square inscribed in the moving window MW is then defined. Next, the biggest square inscribed in the moving window MW is divided into n²small squares, i.e., cubes, each having a width Wsq, where n is an integer, such as 2, 3, 4, 5, 6, or more than 6. The divided squares define the size and shape of the computation voxels in the probability map for the image of the patient. For example, each of the computation voxels of the probability map may be defined as a square, i.e., cube, having the width Wsq and a volume the same or about the same as that of each of the divided squares. The moving window MW may move across the image of the patient at a regular step or interval of a fixed distance, e.g., substantially equal to the width Wsq (i.e., the width of the computation voxels), in the x and y directions. A stop of the moving window MW overlaps with the neighboring stop of the moving window MW.
Alternatively, the biggest square inscribed in the moving window MW may be divided into n rectangles each having a width Wrec and a length Lrec, where n is an integer, such as 2, 3, 4, 5, 6, 7, 8, or more than 8. The divided rectangles define the size and shape of the computation voxels in the probability map for the image of the patient. Each of the computation voxels of the probability map, for example, may be a rectangle having the width Wrec, the length Lrec, and a volume the same or about the same as that of each of the divided rectangles. The moving window MW may move across the patient's molecular image at a regular step or interval of a fixed distance, e.g., substantially equal to the width Wrec (i.e., the width of the computation voxels), in the x direction and at a regular step or interval of a fixed distance, e.g., substantially equal to the length Lrec (i.e., the length of the computation voxels), in the y direction. A stop of the moving window MW overlaps with the neighboring stop of the moving window MW. In an alternative embodiment, each of the stops of the moving window MW may have a width, length or diameter less than the side length (e.g., the width or length) of voxels in the image of the patient.
After the size and shape of the computation voxels are obtained or defined, the stepping of the moving window MW and the overlapping between two neighboring stops of the moving window MW can then be determined. Measures of specific imaging parameters for each stop of the moving window MW may be obtained from the patient's image and/or different parameter maps (e.g., MRI parameter map(s), PET parameter map(s) and/or CT parameter map(s)) registered to the patient's image. The specific imaging parameters may include two or more of the following: MRI parameters, PET parameters, SPECT parameters, micro-PET parameters, micro-SPECT parameters, Raman parameters, BLO parameters, CT parameters, and ultrasound imaging parameters. Each of the specific imaging parameters for each stop of the moving window MW, for example, may have a measure calculated based on an average of measures, for said each of the specific imaging parameters, for voxels of the patient's image inside said each stop of the moving window MW. In the case that some voxels of the patient's image only partially inside that stop of the moving window MW, the average can be weighed by the area proportion. The specific imaging parameters of different modalities may be obtained from registered image sets (or registered parameter maps), and rigid and nonrigid standard registration techniques may be used to get each section of anatomy into the same exact coordinate location on each of the registered (multi-parametric) image dataset.
A registered (multi-parametric) image dataset may be created for the patient to include multiple registered images (including two or more of the following: MRI slice images, PET images, SPECT images, micro-PET images, micro-SPECT images, Raman images, BLO images, CT images, and ultrasound images) and/or corresponding imaging parameters (including two or more of the following: MRI parameters, PET parameters, SPECT parameters, micro-PET parameters, micro-SPECT parameters, Raman parameters, BLO parameters, CT parameters, and/or ultrasound imaging parameters) obtained from various equipment, machines, or devices or from a defined time-point (e.g., specific date) or time range (e.g., within five days after treatment). Each of the imaging parameters in the patient's registered (multi-parametric) image dataset requires alignment or registration. The registration can be done by, for example, using unique anatomical marks, structures, tissues, geometry, and/or shapes or using mathematical algorithms and computer pattern recognition. The measures of the specific imaging parameters for each stop of the moving window MW, for example, may be obtained from the registered (multi-parametric) image dataset for the patient.
Next, the specific imaging parameters for each stop of the moving window MW may be reduced using, e.g., subset selection, aggregation, and dimensionality reduction into a parameter set for said each stop of the moving window MW. In other words, the parameter set includes measures for independent imaging parameters. The imaging parameters used in the parameter set may have multiple types, such as two types, more than two types, more than three types, or more than four types, independent from each other or one another, or may have a single type. For example, the imaging parameters used in the parameter set may include (a) MRI parameters and PET parameters, (b) MRI parameters and SPET parameters, (c) MRI parameters and CT parameters, (d) MRI parameters and ultrasound imaging parameters, (e) Raman imaging parameters and CT parameters, (f) Raman imaging parameters and ultrasound imaging parameters, (g) MRI parameters, PET parameters, and ultrasound imaging parameters, or (h) MRI parameters, PET parameters, and CT parameters.
Next, the parameter set for each stop of the moving window MW is matched to the classifier CF to obtain a probability PW of the event for said each stop of the moving window MW. After the probabilities PWs of the event for the stops of the moving window MW are obtained, an algorithm may be performed based on the probabilities PWs of the event for the stops of the moving window MW to compute probabilities of the event for the computation voxels.
Description of Subset Data DB-1:
Referring to FIGS. 1B-1G, the tissue-based or biopsy-based subset data DB-1 from the big data database 70 includes multiple data sets each listed in the corresponding one of its rows 2 through N, wherein the number of the data sets may be greater than 100, 1,000 or 10,000. Each of the data sets in the subset data DB-1 may include: (1) measures for MRI parameters associated with a prostate biopsy tissue (i.e., biopsied sample of the prostate) obtained from a subject (e.g., human), as shown in columns A-O; (2) measures for processed parameters associated with the prostate biopsy tissue, as shown in columns P and Q; (3) a result or pathologist diagnosis of the prostate biopsy tissue, such as prostate cancer, normal tissue, or benign condition, as shown in a column R; (4) sample characters associated with the prostate biopsy tissue, as shown in columns S-X; (5) MRI characters associated with MRI slices registered to respective regions, portions, locations or volumes of the prostate biopsy tissue, as shown in columns Y, Z and AA; (6) clinical or pathology parameters associated with the prostate biopsy tissue or the subject, as shown in columns AB-AN; and (7) personal information associated with the subject, as shown in columns AO-AR. Needles used to obtain the prostate biopsy tissues may have the same cross-sectional shape (e.g., round shape or square shape) and the same inner diameter or width, e.g., ranging from, equal to or greater than 0.1 millimeters up to, equal to or less than 5 millimeters, and more preferably ranging from, equal to or greater than 1 millimeter up to, equal to or less than 3 millimeters.
The MRI parameters in the columns A-O of the subset data DB-1 are T1 mapping, T2 raw signal, T2 mapping, delta Ktrans (ΔKtrans), tau, Dt IVIM, fp IVIM, ADC (high b-values), nADC (high b-values), R*, Ktrans from Tofts Model (TM), Ktrans from Extended Tofts Model (ETM), Ktrans from Shutterspeed Model (SSM), Ve from TM, and Ve from SSM. For more information about the MRI parameters in the subset data DB-1, please refer to FIGS. 19A through 19H. The processed parameter in the column P of the subset data DB-1 is average Ve, obtained by averaging Ve from TM and Ve from SSM. The processed parameter in the column Q of the subset data DB-1 is average Ktrans, obtained by averaging Ktrans from TM, Ktrans from ETM, and Ktrans from SSM. All data can have normalized values, such as z scores.
Measures in the respective columns T, U and V of the subset data DB-1 are Gleason scores associated with the respective prostate biopsy tissues and primary and secondary Gleason grades associated with the Gleason scores; FIG. 19L briefly explains Gleason score, the primary Gleason grade, and the secondary Gleason grade. Measures in the column W of the subset data DB-1 may be the diameters of the prostate biopsy tissues, and the diameter of each of the prostate biopsy tissues may be substantially equal to an inner diameter of a cylinder needle, through which a circular or round hole passes for receiving said each of the prostate biopsy tissues. Alternatively, measures in the column W of the subset data DB-1 may be the widths of the prostate biopsy tissues, and the width of each of the prostate biopsy tissues may be substantially equal to an inner width of a needle, through which a square or rectangular hole passes for receiving said each of the prostate biopsy tissues. The clinical or pathology parameters in the columns AB-AN of the subset data DB-1 are prostate specific antigen (PSA), PSA velocity, % free PSA, Histology subtype, location within a given anatomical structure of gland, tumor size, PRADS, pathological diagnosis (e.g., Atypia, benign prostatic hypertrophy (BPH), prostatic intraepithelial neoplasia (PIN), or Atrophy), pimonidazole immunoscore (hypoxia marker), pimonidazole genescore (hypoxia marker), primary tumor (T), regional lymph nodes (N), and distant metastasis (M). For more information about the clinical or pathology parameters in the subset data DB-1, please refer to FIGS. 19M through 19O. Other data or information in the big data database 70 may be added to the subset data DB-1. For example, each of the data sets in the subset data DB-1 may further include risk factors for cancer associated with the subject, such as smoking history, sun exposure, premalignant lesions, gene information or data, etc. Each of the data sets in the subset data DB-1 may also include imaging protocol details, such as MRI magnet strength, and pulse sequence parameters, and/or information regarding (preoperative) radiation therapy, including the type of radiation, the strength of radiation, the total dose of radiation, the number of fractions (depending on the type of cancer being treated), the duration of the fraction from start to finish, the dose of the fraction, the duration of the preoperative radiation therapy from start to finish, and the type of machine used for the preoperative radiation therapy. A post-therapy data or information for prostate cancer may also be included in the subset data DB-1. For example, data regarding ablative minimally invasive techniques or radiation treatments (care for early prostate cancer or post-surgery), imaging data or information following treatment, and biopsy results following treatment are included in the subset data DB-1.
Referring to FIGS. 1D and 1E, data in the column W of the subset data DB-1 are various diameters; data in the column X of the subset data DB-1 are various lengths; data in the column Y of the subset data DB-1 are the various numbers of MRI slices registered to respective regions, portions, locations or volumes of a prostate biopsy tissue; data in the column Z of the subset data DB-1 are various MRI area resolutions; data in the column AA of the subset data DB-1 are various MRI slice thicknesses. Alternatively, the diameters of all the prostate biopsy tissues in the column W of the subset data DB-1 may be the same; the lengths of all the prostate biopsy tissues in the column X of the subset data DB-1 may be the same; all the data in the column Y of the subset data DB-1 may be the same; all the data in the column Z of the subset data DB-1 may be the same; all the data in the column AA of the subset data DB-1 may be the same.
Description of Subset Data DB-2:
Referring to FIGS. 1H-1M, the tissue-based or biopsy-based subset data DB-2 from the big data database 70 includes multiple data sets each listed in the corresponding one of its rows 2 through N, wherein the number of the data sets may be greater than 100, 1,000 or 10,000. Each of the data sets in the subset data DB-2 may include: (1) measures for MRI parameters associated with a breast biopsy tissue (i.e., biopsied sample of the breast) obtained from a subject (e.g., human or animal model), as shown in columns A-O, R, and S; (2) measures for processed parameters associated with the breast biopsy tissue, as shown in columns P and Q; (3) features of breast tumors associated with the breast biopsy tissue, as shown in columns T-Z; (4) a result or pathologist diagnosis of the breast biopsy tissue, such as breast cancer, normal tissue, or benign condition, as shown in a column AA; (5) sample characters associated with the breast biopsy tissue, as shown in columns AB-AD; (6) MRI characters associated with MRI slices registered to respective regions, portions, locations or volumes of the breast biopsy tissue, as shown in columns AE-AG; (7) a PET parameter (e.g., maximum standardized uptake value (SUVmax) depicted in FIG. 19I) associated with the breast biopsy tissue or the subject, as shown in a column AH; (8) clinical or pathology parameters associated with the breast biopsy tissue or the subject, as shown in columns AI-AT; and (9) personal information associated with the subject, as shown in columns AU-AX. Needles used to obtain the breast biopsy tissues may have the same cross-sectional shape (e.g., round shape or square shape) and the same inner diameter or width, e.g., ranging from, equal to or greater than 0.1 millimeters up to, equal to or less than 5 millimeters, and more preferably ranging from, equal to or greater than 1 millimeter up to, equal to or less than 3 millimeters. Alternatively, an intra-operative incisional biopsy tissue sampling may be performed by a surgery to obtain the breast biopsy. Intraoperative magnetic resonance imaging (iMRI) may be used for obtaining a specific localization of the breast biopsy tissue to be biopsied during the surgery.
The MRI parameters in the columns A-O, R, and S of the subset data DB-2 are T1 mapping, T2 raw signal, T2 mapping, delta Ktrans (ΔKtrans), tau, Dt IVIM, fp IVIM, ADC (high b-values), R*, Ktrans from Tofts Model (TM), Ktrans from Extended Tofts Model (ETM), Ktrans from Shutterspeed Model (SSM), Ve from TM, Ve from SSM, kep from Tofts Model (TM), kep from Shutterspeed Model (SSM), and mean diffusivity (MD) from diffusion tensor imaging (DTI). For more information about the MRI parameters in the subset data DB-2, please refer to FIGS. 19A through 20H. The processed parameter in the column P of the subset data DB-2 is average Ve, obtained by averaging Ve from TM and Ve from SSM. The processed parameter in the column Q of the subset data DB-2 is average Ktrans, obtained by averaging Ktrans from TM, Ktrans from ETM, and Ktrans from SSM. The features of breast tumors may be extracted from breast tumors with dynamic contrast-enhanced MRI image (DCE-MRI).
Measures in the column AC of the subset data DB-2 may be the diameters of the breast biopsy tissues, and the diameter of each of the breast biopsy tissues may be substantially equal to an inner diameter of a cylinder needle, through which a circular or round hole passes for receiving said each of the breast biopsy tissues. Alternatively, the measures in the column AC of the subset data DB-2 may be the widths of the breast biopsy tissues, and the width of each of the breast biopsy tissues may be substantially equal to an inner width of a needle, through which a square or rectangular hole passes for receiving said each of the breast biopsy tissues. The clinical or pathology parameters in the columns AI-AT of the subset data DB-2 are estrogen hormone receptor positive (ER+), progesterone hormone receptor positive (PR+), HER2/neu hormone receptor positive (HER2/neu+), immunohistochemistry subtype, path, BIRADS, Oncotype DX score, primary tumor (T), regional lymph nodes (N), distant metastasis (M), tumor size, and location. For more information about the clinical or pathology parameters in the subset data DB-2, please refer to FIGS. 19P through 19R. Other data or information in the big data database 70 may be added to the subset data DB-2. For example, each of the data sets in the subset data DB-2 may further include specific long chain mRNA biomarkers from next generation sequencing that are predictive of metastasis-free survival, such as HOTAIR, RP11-278 L15.2-001, LINC00511-009, and AC004231.2-001. Each of the data sets in the subset data DB-2 may also include risk factors for cancer associated with the subject, such as smoking history, sun exposure, premalignant lesions, gene information or data, etc. Each of the data sets in the subset data DB-2 may also include imaging protocol details, such as MRI magnet strength, pulse sequence parameters, PET dosing, time at PET imaging, etc.
Referring to FIG. 1K, data in the column AC of the subset data DB-2 are various diameters; data in the column AD of the subset data DB-2 are various lengths; data in the column AE of the subset data DB-2 are the various numbers of MRI slices registered to respective regions, portions, locations or volumes of a breast biopsy tissue; data in the column AF of the subset data DB-2 are various MRI area resolutions; data in the column AG of the subset data DB-2 are various MRI slice thicknesses. Alternatively, the diameters of all the breast biopsy tissues in the column AC of the subset data DB-2 may be the same; the lengths of all the breast biopsy tissues in the column AD of the subset data DB-2 may be the same; all the data in the column AE of the subset data DB-2 may be the same; all the data in the column AF of the data DB-2 may be the same; all the data in the column AG of the subset data DB-2 may be the same.
A similar subset data like the subset data DB-1 or DB-2 may be established from the big data database 70 for generating probability maps for brain cancer, liver cancer, lung cancer, rectal cancer, sarcomas, cervical cancer, or cancer metastasis to any organ such as liver, bone, and brain. In this case, the subset data may include multiple data sets, each of which may include: (1) measures for MRI parameters (e.g., those in the columns A-O, R, and S of the subset data DB-2) associated with a biopsy tissue (e.g., biopsied brain sample, biopsied liver sample, biopsied lung sample, biopsied rectal sample, biopsied sarcomas sample, or biopsied cervix sample) obtained from a subject (e.g., human); (2) processed parameters (e.g., those in the columns P and Q of the subset data DB-2) associated with the biopsy tissue; (3) a result or pathologist diagnosis of the biopsy tissue, such as cancer, normal tissue, or benign condition; (4) sample characters (e.g., those in the columns S-X of the subset data DB-1) associated with the biopsy tissue; (5) MRI characters (e.g., those in the columns Y, Z and AA of the subset data DB-1) associated with MRI slices registered to respective regions, portions, locations or volumes of the biopsy tissue; (6) a PET parameter (e.g., SUVmax depicted in FIG. 19I) associated with the biopsy tissue or the subject; (7) CT parameters (e.g., HU and Hetwave) associated with the biopsy tissue or the subject; (8) clinical or pathology parameters (e.g., those in the columns AB-AN of the subset data DB-1 or the columns AI-AT of the subset data DB-2) associated with the biopsy tissue or the subject; and (9) personal information (e.g., those in the columns AO-AR of the subset data DB-1) associated with the subject.
Description of Biopsy Tissue, MRI Slices Registered to the Biopsy Tissue, and MRI Parameters for the Biopsy Tissue:
Referring to FIG. 2A, a biopsy tissue or sample 90, such as any one of the biopsied tissues provided for the pathologist diagnosis depicted in the big data database 70, any one of the prostate biopsy tissues provided for the pathologist diagnosis depicted in the subset data DB-1, or any one of the breast biopsy tissues provided for the pathologist diagnosis depicted in the subset data DB-2, may be obtained from a subject (e.g., human) by core needle biopsy, such as MRI-guided needle biopsy. Alternatively, an intra-operative incisional biopsy tissue sampling may be performed by a surgery to obtain the biopsy tissue 90 from the subject. One or more fiducial markers that could be seen on subsequent imaging may be placed during the surgery to match tissues or identify positions of various portions of an organ with respect to the one or more fiducial markers. The fiducial marker is an object placed in the field of view of an imaging system which appears in the image produced, for use as a point of reference or a measure.
The core needle biopsy is a procedure used to determine whether an abnormality or a suspicious area of an organ (e.g., prostate or breast) is a cancer, a normal tissue, or a benign condition or to determine any other tissue characteristic such as mRNA expression, receptor status, and molecular tissue characteristics. With regard to imaging-guided needle biopsy, magnetic resonance (MR) or CT imaging may be used to guide a cylinder needle to the abnormality or the suspicious area so that a piece of tissue, such as the biopsy tissue 90, is removed from the abnormality or the suspicious area by the cylinder needle, and the removed tissue is then sent to be examined by pathology.
During or before the core needle biopsy (e.g., imaging-guided needle biopsy), parallel MRI or CT slices SI₁through SI_Nregistered to multiple respective regions, portions, locations or volumes of the tissue 90 may be obtained. The number of the registered MRI or CT slices SI₁-SI_Nmay range from, equal to or greater than 2 up to, equal to or less than 10. The registered MRI or CT slices SI₁-SI_Nmay have the same slice thickness T, e.g., ranging from, equal to or greater than 1 millimeter up to, equal to or less than 10 millimeters, and more preferably ranging from, equal to or greater than 3 millimeters up to, equal to or less than 5 millimeters.
Referring to FIGS. 2A and 2E, the biopsy tissue 90 obtained from the subject by the cylinder needle may be long cylinder-shaped with a height tT normalized to the slice thickness T and with a circular cross section perpendicular to its axial direction AD, and the circular cross section of the biopsy tissue 90 may have a diameter D1, perpendicular to its height tT extending along the axial direction AD, ranging from, equal to or greater than 0.5 millimeters up to, equal to or less than 4 millimeters. The diameter D1 of the biopsy tissue 90 may be substantially equal to an inner diameter of the cylinder needle, through which a circular or round hole passes for receiving the biopsy tissue 90. The axial direction AD of the tissue 90 to be biopsied may be parallel with the slice thickness direction of each of the MRI or CT slices SI₁-SI_N. As shown in FIG. 2B, each of the MRI or CT slices SI₁-SI_Nmay have an imaging plane 92 perpendicular to the axial direction AD of the tissue 90 to be biopsied, wherein an area of the imaging plane 92 is a side length W1 multiplied by another side length W2. The MRI or CT slices SI₁-SI_Nmay have the same area resolution, which is a field of view (FOV) of one of the MRI or CT slices SI₁-SI_N(i.e., the area of its imaging plane 92) divided by the number of all voxels in the imaging plane 92 of said one of the MRI or CT slices SI₁-SI_N.
Regions, i.e., portions, locations or volumes, of interest (ROIs) 94 of the respective MRI or CT slices SI₁-SI_Nare registered to and aligned with the respective regions, portions, locations or volumes of the biopsy tissue 90 to determine or calculate measures of imaging parameters for the regions, portions, locations or volumes of the biopsy tissue 90. The ROIs 94 of the MRI or CT slices SI₁-SI_Nmay have the same diameter, substantially equal to the diameter D1 of the biopsy tissue 90, i.e., the inner diameter of the needle for taking the biopsy tissue 90, and may have a total volume covering and substantially equaling the volume of the biopsy tissue 90. As shown in FIG. 2C, the ROI 94 of each of the MRI or CT slices SI₁-SI_Nmay cover or overlap multiple voxels, e.g., 96 a through 96 f. A MRI or other imaging parameter (e.g., T1 mapping) for the ROI 94 of each of the MRI slices SI₁-SI_Nmay be measured by summing values of the MRI parameter for the voxels 96 a-96 f in said each of the MRI slices SI₁-SI_Nweighed or multiplied by the respective percentages of areas A1, A2, A3, A4, A5 and A6, overlapping with the respective voxels 96 a-96 f in the ROI 94 of said each of the MRI slices SI₁-SI_N, occupying the ROI 94 of said each of the MRI slices SI₁-SI_N. Accordingly, the MRI parameter for the whole biopsy tissue 90 may be measured by dividing the sum of measures for the MRI parameter for the ROIs 94 of the MRI slices SI₁-SI_Nby the number of the MRI slices SI₁-SI_N. By this way, other MRI parameters (e.g., those in the columns B-O of the subset data DB-1 or those in the columns B-O, R and S of the subset data DB-2) for the whole biopsy tissue 90 are measured. The measures for the various MRI parameters (e.g., T1 mapping, T2 raw signal, T2 mapping, etc.) for the ROI 94 of each of the MRI slices SI₁-SI_Nmay be derived from different parameter maps registered to the corresponding region, portion, location or volume of the biopsy tissue 90. In an alternative example, the measures for some of the MRI parameters for the ROI 94 of each of the MRI slices SI₁-SI_Nmay be derived from different parameter maps registered to the corresponding region, portion, location or volume of the biopsy tissue 90, and the measures for the others may be derived from the same parameter map registered to the corresponding region, portion, location or volume of the biopsy tissue 90. The aforementioned method for measuring the MRI parameters for the whole biopsy tissue 90 can be applied to each of the MRI parameters in the big data database 70 and the subset data DB-1 and DB-2.
Taking an example of T1 mapping, in the case of (1) four MRI slices SI₁-SI₄having four respective regions, portions, locations or volumes registered to respective quarters of the biopsy tissue 90 and (2) the ROI 94 of each of the MRI slices SI₁-SI₄covering or overlapping the six voxels 96 a-96 f, values of T1 mapping for the voxels 96 a-96 f in each of the MRI slices SI₁-SI₄and the percentages of the areas A1-A6 occupying the ROI 94 of each of the MRI slices SI₁-SI₄are assumed as shown in FIG. 2D. A measure of T1 mapping for the ROI 94 of the MRI slice SI₁, i.e., 1010.64, may be obtained or calculated by summing (1) the value, i.e., 1010, for the voxel 96 a multiplied by the percentage, i.e., 6%, of the area A1, overlapping with the voxel 96 a in the ROI 94 of the MRI slice SI₁, occupying the ROI 94 of the MRI slice SI₁, (2) the value, i.e., 1000, for the voxel 96 b multiplied by the percentage, i.e., 38%, of the area A2, overlapping with the voxel 96 b in the ROI 94 of the MRI slice SI₁, occupying the ROI 94 of the MRI slice SI₁, (3) the value, i.e., 1005, for the voxel 96 c multiplied by the percentage, i.e., 6%, of the area A3, overlapping with the voxel 96 c in the ROI 94 of the MRI slice SI₁, occupying the ROI 94 of the MRI slice SI₁, (4) the value, i.e., 1020, for the voxel 96 d multiplied by the percentage, i.e., 6%, of the area A4, overlapping with the voxel 96 d in the ROI 94 of the MRI slice SI₁, occupying the ROI 94 of the MRI slice SI₁, (5) the value, i.e., 1019, for the voxel 96 e multiplied by the percentage, i.e., 38%, of the area A5, overlapping with the voxel 96 e in the ROI 94 of the MRI slice SI₁, occupying the ROI 94 of the MRI slice SI₁, and (6) the value, i.e., 1022, for the voxel 96 f multiplied by the percentage, i.e., 6%, of the area A6, overlapping with the voxel 96 f in the ROI 94 of the MRI slice SI₁, occupying the ROI 94 of the MRI slice SI₁. By this way, T1 mapping for the ROIs 94 of the MRI slices SI₂, SI₃, and SI₄, i.e., 1006.94, 1022, and 1015.4, are obtained or measured. Accordingly, T1 mapping for the whole biopsy tissue 90, i.e., 1013.745, is obtained or measured by dividing the sum, i.e., 4054.98, of T1 mapping for the ROIs 94 of the MRI slices SI₁-SI₄by the number of the MRI slices SI₁-SI₄, i.e., 4.
The volume of the long cylinder-shaped biopsied tissue 90 may be transformed into another shape, which may have a volume the same or about the same as the volume of the long cylinder-shaped biopsied tissue 90 (or Volume of Interest (VOI)), which may be π×Rn²×tT, where Rn is the radius of the biopsied tissue 90, and tT is the height of the biopsied tissue 90), for easy or meaningful computing purposes, for medical instrumentation purposes, or for clearer final data presentation purposes. For example, referring to FIG. 2E, the long cylinder of the biopsied tissue 90 with the radius Rn and height tT may be transformed into a planar cylinder 98 to match the slice thickness T. The planar cylinder 98, having a volume, e.g., the same or about the same as the VOI of the biopsied tissue 90, may be defined by the following formula: π×Rn²×M×St=r×Rw²×pT, where Rn is the radius of the biopsy tissue 90 (which is substantially equal to the inner radius of the needle for taking the biopsy tissue 90), M is the number of the MRI slices SI₁-SI_N, St is the slice thickness T of the MRI slices SI₁-SI_N, Rw is the radius of the planar cylinder 98, and pT is the height or thickness of the planar cylinder 98 perpendicular to the radius Rw of the planar cylinder 98. The height tT of the biopsy tissue 90 may be substantially equal to the slice thickness T multiplied by the number of the MRI slices SI₁-SI_N. In the invention, the height pT of the planar cylinder 98 is substantially equal to the slice thickness T, for example. Accordingly, the planar cylinder 98 may have the height pT equal to the slice thickness T and the radius Rw equal to the radius Rn multiplied by the square root of the number of the registered MRI slices SI₁-SI_N. The radius Rw of the planner cylinder 98 may be used to define the radius Rm of a moving window MW in calculating probability maps, e.g., illustrated in first through sixth embodiments, for a patient (e.g., human). Each of the biopsy tissue 90, the planar cylinder 98 and the moving window MW may have a volume at least 2, 3, 5, 10 or 15 times greater than that of each voxel of the MRI slices SI₁-SI_Nand than that of each voxel of an MRI image 10 from a subject (e.g., patient) depicted in a step S1 of FIG. 4. In addition, because the planar cylinder 98 is transformed from the biopsy tissue 90, the measures of the MRI parameters for the whole biopsy tissue 90 may be considered as those for the planar cylinder 98.
Further, each of biopsy tissues provided for pathologist diagnoses in a subset data, e.g., DB-1 or DB-2, of the big data database 70 may have a corresponding planar cylinder 98 with its radius Rw, and data (such as pathologist diagnosis and measures of imaging parameters) for said each of the biopsy tissues in the subset data, e.g., DB-1 or DB-2, of the big data database 70 may be considered as those for the corresponding planar cylinder 98. Statistically, the moving window MW may be determined with the radius Rm, perpendicular to a thickness of the moving window MW, based on the statistical distribution or average of the radii Rw of the planar cylinders 98 transformed from the volumes of the biopsy tissues provided for the pathologist diagnoses in the subset data, e.g., DB-1 or DB-2, of the big data database 70. In the invention, each of the biopsy tissues provided for the pathologist diagnoses in the subset data, e.g., DB-1 or DB-2, of the big data database 70, for example, may have a volume, i.e., VOI, substantially equal to the volume of the moving window MW to be used in calculating one or more probability maps. In other words, the volume of the biopsy tissue, i.e., VOI, defines the size (e.g., the radius Rm) of the moving window MW to be used in calculating one or more probability maps.
Each of the prostate biopsy tissues provided for the pathologist diagnoses in the subset data DB-1 may be referred to the illustration of the biopsy tissue 90. In the column W of the subset data DB-1, the diameter of each of the prostate biopsy tissues may be referred to the illustration of the diameter D1 of the biopsy tissue 90. The MRI slices registered to the respective regions, portions, locations or volumes of each of the prostate biopsy tissues provided for the pathologist diagnoses in the subset data DB-1 may be referred to the illustration of the MRI slices SI₁-SI_Nregistered to the respective regions, portions, locations or volumes of the biopsy tissue 90. The measures of the MRI parameters for each of the prostate biopsy tissues, i.e., for each of the corresponding planar cylinders 98, in the respective columns A-O of the subset data DB-1 may be calculated as the measures of the MRI parameters for the whole biopsy tissue 90, i.e., for the planar cylinder 98 transformed from the volume of the biopsy tissue 90, are calculated. In the column Z of the subset data DB-1, the MRI slices registered to the respective regions, portions, locations or volumes of each of the prostate biopsy tissues may have the same area resolution, which may be referred to the illustration of the area resolution of the MRI slices SI₁-SI_Nregistered to the respective regions, portions, locations or volumes of the biopsy tissue 90. In the column AA of the subset data DB-1, the MRI slices registered to the respective regions, portions, locations or volumes of each of the prostate biopsy tissues may have the same slice thickness, which may be referred to the illustration of the slice thickness T of the MRI slices SI₁-SI_N.
In the column S of the subset data DB-1, the percentage of cancer for the whole volume of the prostate biopsy tissue in each of all or some of the data sets may be replaced by the percentage of cancer for a partial volume of the prostate biopsy tissue; a MRI slice is imaged for and registered to at least a portion of the volume of the prostate biopsy tissue. In this case, the MRI parameters, in the columns A-O of the subset data DB-1, that are in said each of all or some of the data sets are measured for a ROI of the MRI slice registered to the partial volume of the prostate biopsy tissue. The ROI of the MRI slice covers or overlaps multiple voxels in the MRI slice, and each of the MRI parameters for the ROI of the MRI slice may be measured by summing values of said each of the MRI parameters for the voxels weighed or multiplied by respective percentages of areas, overlapping with the respective voxels in the ROI of the MRI slice, occupying the ROI of the MRI slice. Measures for the MRI parameters for the ROI of the MRI slice may be derived from different parameter maps registered to the partial volume of the prostate biopsy tissue. In an alternative example, the measures for some of the MRI parameters for the ROI of the MRI slice may be derived from different parameter maps registered to the partial volume of the prostate biopsy tissue, and the measures for the others may be derived from the same parameter map registered to the partial volume of the prostate biopsy tissue.
Each of the breast biopsy tissues provided for the pathologist diagnoses in the subset data DB-2 may be referred to the illustration of the biopsy tissue 90. In the column AC of the subset data DB-2, the diameter of each of the breast biopsy tissues may be referred to the illustration of the diameter D1 of the biopsy tissue 90. The MRI slices registered to the respective regions, portions, locations or volumes of each of the breast biopsy tissues provided for the pathologist diagnoses in the subset data DB-2 may be referred to the illustration of the MRI slices SI₁-SI_Nregistered to the respective regions, portions, locations or volumes of the biopsy tissue 90. The measures of the MRI parameters for each of the breast biopsy tissues, i.e., for each of the corresponding planar cylinders 98, in the respective columns A-O, R, and S of the subset data DB-2 may be calculated as the measures of the MRI parameters for the whole biopsy tissue 90, i.e., for the planar cylinder 98 transformed from the volume of the biopsy tissue 90, are calculated. In the column AF of the subset data DB-2, the MRI slices registered to the respective regions, portions, locations or volumes of each of the breast biopsy tissues may have the same area resolution, which may be referred to the illustration of the area resolution of the MRI slices SI₁-SI_Nregistered to the respective regions, portions, locations or volumes of the biopsy tissue 90. In the column AG of the subset data DB-2, the MRI slices registered to the respective regions, portions, locations or volumes of each of the breast biopsy tissues may have the same slice thickness, which may be referred to the illustration of the slice thickness T of the MRI slices SI₁-SI_N.
In the column AB of the subset data DB-2, the percentage of cancer for the whole volume of the breast biopsy tissue in each of all or some of the data sets may be replaced by the percentage of cancer for at least a portion of the volume of the breast biopsy tissue; a MRI slice is imaged for and registered to the partial volume of the breast biopsy tissue. In this case, the MRI parameters, in the columns A-O, R, and S of the subset data DB-2, that are in said each of all or some of the data sets are measured for a ROI of the MRI slice registered to the partial volume of the breast biopsy tissue. The ROI of the MRI slice covers or overlaps multiple voxels in the MRI slice, and each of the MRI parameters for the ROI of the MRI slice may be measured by summing values of said each of the MRI parameters for the voxels weighed or multiplied by respective percentages of areas, overlapping with the respective voxels in the ROI of the MRI slice, occupying the ROI of the MRI slice. Measures for the MRI parameters for the ROI of the MRI slice may be derived from different parameter maps registered to the partial volume of the breast biopsy tissue. In an alternative example, the measures for some of the MRI parameters for the ROI of the MRI slice may be derived from different parameter maps registered to the partial volume of the breast biopsy tissue, and the measures for the others may be derived from the same parameter map registered to the partial volume of the breast biopsy tissue.
In an alternative example, the biopsied tissue 90 may be obtained by a needle with a square through hole therein. In this case, the biopsied tissue 90 may have a longitudinal shape with a square-shaped cross-section having a width Wb (which is substantially equal to an inner width of the needle, i.e., the width of the square through hole of the needle) and a height Ht (which is substantially equal to, e.g., the slice thickness T multiplied by the number of the MRI slices SI₁-SI_N). The volume of the biopsied tissue 90 may be transformed into a flat square FS with a width Wf and a thickness or height fT. The flat square FS, having a volume the same or about the same as the volume of the biopsied tissue 90 (or Volume of Interest (VOI), which may be the height Ht multiplied by the square of the width Wb), may be defined by the following formula: Wb²×M×St=Wf²×fT, where Wb is the width of the biopsy tissue 90, M is the number of the MRI slices SI₁-SI_N, St is the slice thickness T of the MRI slices SI₁-SI_N, Wf is the width of the flat square FS, and fT is the height or thickness of the flat square FS perpendicular to the width Wf of the flat square FS. In the invention, the height or thickness fT of the flat square FS is substantially equal to the slice thickness T, for example. Accordingly, the flat square FS may have the height or thickness fT equal to the slice thickness T and the width Wf equal to the width Wb multiplied by the square root of the number of the registered MRI slices SI₁-SI_N. In the case of the moving window MW with a square shape, the width Wf of the flat square FS may be used to define the width of the moving window MW in calculating probability maps. Each of the biopsy tissue 90, the flat square FS and the square moving window MW may have a volume at least 2, 3, 5, 10 or 15 times greater than that of each voxel of the MRI slices SI₁-SI_Nand than that of each voxel of an MRI image, e.g., 10 from a subject (e.g., patient) depicted in a step S1 of FIG. 4. Further, each of biopsy tissues provided for pathologist diagnoses in a subset data of the big data database 70 may have a corresponding flat square FS with its width Wf, and data (such as pathologist diagnosis and measures of imaging parameters) for said each of the biopsy tissues in the subset data of the big data database 70 may be considered as those for the corresponding flat square FS.
Description of Area Resolution and Voxels of a Single MRI Slice:
In the invention, an area resolution of a single MRI slice such as single slice MRI image 10 shown in FIG. 5 or 18 is a field of view (FOV) of the single MRI slice divided by the number of all voxels in the FOV of the single MRI slice. Each of the voxels of the single MRI slice may have a pixel (or pixel plane), perpendicular to the slice thickness direction of the single MRI slice, having a square area with the same four side lengths.
Description of Moving Window and Probability Map:
Any probability map in the invention may be composed of multiple computation voxels with the same size, which are basic units of the probability map. The size of the computation voxels used to compose the probability map may be defined based on the size of the moving window MW, which is determined or defined based on information data associated with the biopsy tissues provided for the pathologist diagnoses in the subset data, e.g., DB-1 or DB-2, of the big data database 70. The information data, for example, may include the radii Rw of planar cylinders 98 transformed from the volumes of the biopsy tissues. In addition, each of the computation voxels of the probability map may have a volume or size equal to, greater than or less than that of any voxel in a single MRI slice, such as MRI image 10 shown in FIG. 5 or 18, depicted in steps S1-S6 of FIG. 4.
The moving window MW may have various shapes, such as a circular shape, a square shape, a rectangular shape, a hexagonal shape, or an octagonal shape. In the invention, referring to FIG. 3A, the moving window MW is a circular moving window 2 with a radius Rm, for example. The radius Rm of the circular moving window 2 may be calculated, determined, or defined based on the statistical distribution or average of the radii Rw of planar cylinders 98 obtained from biopsy tissues associated with a subset data, e.g., DB-1 or DB-2, of the big data database 70. For example, in the first embodiment of the invention, the radius Rm of the circular moving window 2 may be calculated, determined or defined based on the statistical distribution or average of the radii Rw of the planar cylinders 98 obtained from the prostate biopsy tissues associated with the subset data DB-1; the approach to obtain the radius Rw of the planar cylinder 98 from the biopsy tissue 90 may be applied to obtain the radii Rw of the planar cylinders 98 from the prostate biopsy tissues associated with the subset data DB-1. In the third embodiment of the invention, the radius Rm of the circular moving window 2 may be calculated, determined or defined based on the statistical distribution or average of the radii Rw of the planar cylinders 98 obtained from the breast biopsy tissues associated with the subset data DB-2; the approach to obtain the radius Rw of the planar cylinder 98 from the biopsy tissue 90 may be applied to obtain the radii Rw of the planar cylinders 98 from the breast biopsy tissues associated with the subset data DB-2.
Referring to FIG. 3A, 3B or 3C, a square 4 having its four vertices lying on the circular moving window 2, i.e., the biggest square 4 inscribed in the circular moving window 2, is defined and divided into multiple small units or grids 6. The small grids 6 may be n²small squares each having a width Wsq, where n is an integer, such as 2, 3, 4, 5, 6, or more than 6. Based on the size (e.g., the width Wsq) and shape of the divided squares 6, the size and shape of the computation voxels used to compose the probability map may be defined. In other words, each of the computation voxels used to compose the probability map, for example, may be defined as a square with the width Wsq and a volume the same or about the same as that of each square 6 based on the radius Rm of the circular moving window 2 and the number of the squares 6 in the circular moving window 2, i.e., based on the width Wsq of the squares 6 in the circular moving window 2.
The circular moving window 2 in FIG. 3A is shown with a two-by-two square array in the square 4, each square 6 of which has the same area (i.e., a quarter of the square 4). In FIG. 3A, the four non-overlapped squares 6 have the same width Wsq, which is equal to the radius Rm of the circular moving window 2 divided by √{square root over (2)}. In the case of the circular moving window 2 having the radius Rm of √{square root over (2)} millimeters, each square 6 may have an area of 1 millimeter by 1 millimeter, that is, each square 6 has the width Wsq of 1 millimeter.
In an alternative example, referring to FIG. 3B, the square 4 may have a three-by-three square array, each square 6 of which has the same area (i.e., a ninth of the square 4); the nine non-overlapped squares 6 have the same width Wsq, which is equal to the radius Rm of the circular moving window 2 divided by ⅔√{square root over (2)}. In an alternative example, referring to FIG. 3C, the square 4 may have a four-by-four square array, each square 6 of which has the same area (i.e., one sixteenth of the square 4); the sixteen non-overlapped squares 6 have the same width Wsq, which is equal to the radius Rm of the circular moving window 2 divided by 2√{square root over (2)}.
Accordingly, the moving window MW (e.g., the circular moving window 2) may be defined to include four or more non-overlapped grids 6 having the same square shape, the same size or area (e.g., 1 millimeter by 1 millimeter), and the same width Wsq, e.g., equal to, greater than or less than any side length of pixels of voxels in a single MRI slice, such as MRI image 10 shown in FIG. 5 or 18, depicted in the steps S1-S3 of FIG. 4. Each of the squares 6, for example, may have an area less than 25% of that of the moving window MW and equal to, greater than or less than that of the pixel of each voxel of the single MRI slice; each of the squares 6, for example, may have a volume equal to, greater than or less than that of each voxel of the single MRI slice. In the case of the moving window MW defined to include four or more non-overlapped squares 6 with the width Wsq, the moving window MW may move across the single MRI slice at a regular step or interval of a fixed distance of the width Wsq in the x and y directions so that the computation voxels of the probability map are defined. A stop of the moving window MW overlaps with the neighboring stop of the moving window MW.
Alternatively, the grids 6 may be n rectangles each having a width Wrec and a length Lrec, where n is an integer, such as 2, 3, 4, 5, 6, 7, 8, or more than 8. Based on the size (e.g., the width Wrec and the length Lrec) and shape of the divided rectangles 6, the size and shape of the computation voxels used to compose the probability map may be defined. In other words, each of the computation voxels used to compose the probability map, for example, may be defined as a rectangle with the width Wrec, the length Lrec, and a volume the same or about the same as that of each rectangle 6 based on the radius Rm of the circular moving window 2 and the number of the rectangles 6 in the circular moving window 2, i.e., based on the width Wrec and length Lrec of the rectangles 6 in the circular moving window 2. Accordingly, the moving window MW (e.g., the circular moving window 2) may be defined to include four or more non-overlapped grids 6 having the same rectangle shape, the same size or area, the same width Wrec, e.g., equal to, greater than or less than any side length of pixels of voxels in a single MRI slice, such as MRI image 10 shown in FIG. 5 or 18, depicted in the steps S1-S3 of FIG. 4, and the same length Lrec, e.g., equal to, greater than or less than any side length of the pixels of the voxels in the single MRI slice. Each of the rectangles 6, for example, may have an area less than 25% of that of the moving window MW and equal to, greater than or less than that of the pixel of each voxel of the single MRI slice. Each of the rectangles 6, for example, may have a volume equal to, greater than or less than that of each voxel of the single MRI slice. In the case of the moving window MW defined to include four or more non-overlapped rectangles 6 with the width Wrec and the length Lrec, the moving window MW may move across the single MRI slice at a regular step or interval of a fixed distance of the width Wrec in the x direction and at a regular step or interval of a fixed distance of the length Lrec in the y direction so that the computation voxels of the probability map are defined. A stop of the moving window MW overlaps with the neighboring stop of the moving window MW.
In the case of the moving window MW with a square shape, the square moving window MW may be determined with a width Wsm based on the statistical distribution or average of the widths Wf of flat squares FS obtained from biopsy tissues associated with a subset data of the big data database 70. The square moving window MW may be divided into the aforementioned small grids 6. In this case, each of the computation voxels of the probability map, for example, may be defined as a square with the width Wsq and a volume the same or about the same as that of each square 6 based on the width Wsm of the square moving window MW and the number of the squares 6 in the square moving window MW, i.e., based on the width Wsq of the squares 6 in the square moving window MW. Alternatively, each of the computation voxels of the probability map may be defined as a rectangle with the width Wrec, the length Lrec, and a volume the same or about the same as that of each rectangle 6 based on the width Wsm of the square moving window MW and the number of the rectangles 6 in the square moving window MW, i.e., based on the width Wrec and length Lrec of the rectangles 6 in the square moving window MW.
Description of Classifier CF:
The classifier CF for an event, such as biopsy-diagnosed tissue or tumor characteristic for, e.g., specific cancerous cells or occurrence of prostate cancer or breast cancer, may be created or established based on a subset (e.g., the subset data DB-1 or DB-2 or the aforementioned subset data established for generating the voxelwise probability map of brain cancer, liver cancer, lung cancer, rectal cancer, sarcomas, cervical cancer, or cancer metastasis to any organ such as liver, bone, and brain) obtained from the big data database 70. The subset may have all data associated with the given event from the big data database 70. The classifier CF may be a Bayesian classifier, which may be created by performing the following steps: constructing database, preprocessing parameters, ranking parameters, identifying a training dataset, and determining posterior probabilities for test data.
In the step of constructing database, a first group and a second group may be determined or selected from a tissue-based or biopsy-based subset data, such as the aforementioned subset data, e.g., DB-1 or DB-2, from the big data database 70, and various variables associated with each of the first and second groups are obtained from the tissue-based or biopsy-based subset data. The variables may be MRI parameters in the columns A-O of the subset data DB-1 or the columns A-O, R, and S of the subset data DB-2. Alternatively, the variables may be T1 mapping, T2 raw signal, T2 mapping, delta Ktrans, tau, Dt IVIM, fp IVIM, ADC (high b-values), R*, Ktrans from TM, Ktrans from ETM, Ktrans from SSM, Ve from TM, Ve from ETM, Ve from SSM, and standard PET.
The first group, for example, may be associated with a first data type or feature in a specific column of the subset data DB-1 or DB-2, and the second group may be associated with a second data type or feature in the specific column of the subset data DB-1 or DB-2, wherein the specific column of the subset data DB-1 or DB-2 may be one of the columns R-AR of the subset data DB-1 or one of the columns AA-AX of the subset data DB-2. In a first example, the first data type is associated with prostate cancer in the column R of the subset data DB-1, and the second data type is associated with non-prostate cancer (e.g., normal tissue and benign condition) in the column R of the subset data DB-1. In a second example, the first data type is associated with breast cancer in the column AA of the subset data DB-2, and the second data type is associated with non-breast cancer (e.g., normal tissue and benign condition) in the column AA of the subset data DB-2. In the case of the first group associated with a cancer type (e.g., prostate cancer or breast cancer) and the second group associated with a non-cancer type (e.g., non-prostate cancer or non-breast cancer), the cancer type may include data of interest for a single parameter, such as malignancy, mRNA expression, etc., and the non-cancer type may include normal tissue and benign conditions. The benign conditions may vary based on tissues. For example, the benign conditions for breast tissues may include fibroadenomas, cysts, etc.
In a third example, the first data type is associated with one of Gleason scores 0 through 10, such as Gleason score 5, in the column T of the subset data DB-1, and the second data type is associated with the others of Gleason scores 0 through 10, such as Gleason scores 0 through 4 and 6 through 10, in the column T of the subset data DB-1. In a fourth example, the first data type is associated with two or more of Gleason scores 0 through 10, such as Gleason scores greater than 7, in the column T of the subset data DB-1, and the second data type is associated with the others of Gleason scores 0 through 10, such as Gleason scores equal to and less than 7, in the column T of the subset data DB-1. In a fifth example, the first data type is associated with the percentage of cancer in a specific range from a first percent (e.g., 91 percent) to a second percent (e.g., 100 percent) in the column S of the subset data DB-1, and the second data type is associated with the percentage of cancer beyond the specific range in the column S of the subset data DB-1. In a sixth example, the first data type is associated with a small cell subtype in the column AE of the subset data DB-1, and the second data type is associated with a non-small cell subtype in the column AE of the subset data DB-1. Any event depicted in the invention may be the above-mentioned first data type or feature, occurrence of prostate cancer, occurrence of breast cancer, or a biopsy-diagnosed tissue or tumor characteristic for, e.g., specific cancerous cells.
After the step of constructing database is completed, the step of preprocessing parameters is performed to determine what the variables are conditionally independent. A technique for dimensionality reduction may allow reduction of some of the variables that are conditionally dependent to a single variable. Use of dimensionality reduction preprocessing of data may allow optimal use of all valuable information in datasets. The simplest method for dimensionality reduction may be simple aggregation and averaging of datasets. In one example, aggregation may be used for dynamic contrast-enhanced MRI (DCE-MRI) datasets. Ktrans and Ve measures from various different pharmacokinetic modeling techniques may be averaged to reduce errors and optimize sensitivity to tissue change.
For the variables, averaging and subtraction may be used to consolidate measures. Accordingly, five or more types of parameters may be selected or obtained from the variables. The five or more selected parameters are conditionally independent and may include T1 mapping, T2 mapping, delta Ktrans (obtained by subtracting “Ktrans from Tofts Model” from “Ktrans from Shutterspeed Model”), tau, Dt IVIM, fp IVIM, R*, average Ve, and average Ktrans in the respective columns A, C-G, J, P, and Q of the subset data DB-1 or DB-2. Alternatively, the five or more selected parameters may include T1 mapping, T2 mapping, delta Ktrans, tau, fp IVIM, R*, average Ve, average Ktrans, standard PET, and a parameter D obtained by averaging Dt IVIM and ADC (high b-values), wherein the parameter D is conditionally independent of every other selected parameter.
After the step of preprocessing parameters is complete, the step of ranking parameters is performed to determine the optimal ones of the five or more selected parameters for use in classification, e.g., to find the optimal parameters that are most likely to give the highest posterior probabilities, so that a rank list of the five or more selected parameters is obtained. A filtering method, such as t-test, may be to look for an optimal distance between the first group (indicated by GR1) and the second group (indicated by GR2) for every one of the five or more selected parameters, as shown in FIG. 23. FIG. 23 shows two Gaussian curves of two given different groups (i.e., the first and second groups GR1 and GR2) with respect to parameter measures. In FIG. 23, X axis is values for a specific parameter, and Y axis is the number of tissue biopsies.
Four different criteria may be computed for ranking the five or more selected parameters. The first criterion is the p-value derived from a t-test of the hypothesis that the two features sets, corresponding to the first group and the second group, coming from distributions with equal means. The second criterion is the mutual information (MI) computed between the classes and each of the first and second groups. The last two criteria are derived from the minimum redundancy maximum relevance (mRMR) selection method.
In the step of identifying a training dataset, a training dataset of the first group and the second group is identified based on the rank list after the step of ranking parameters, and thereby the Bayesian classifier may be created based on the training dataset of the first group and the second group. In the step of determining posterior probabilities for test data, the posterior probabilities for the test data may be determined using the Bayesian classifier. Once the Bayesian classifier is created, the test data may be applied to predict posterior probabilities for high resolution probability maps.
In an alternative example, the classifier CF may be a neural network (e.g., probabilistic neural network, single-layer feed forward neural network, multi-layer perception neural network, or radial basis function neural network), a discriminant analysis, a decision tree (e.g., classification and regression tree, quick unbiased and efficient statistical tree, Chi-square automatic interaction detector, C5.0, or random forest decision tree), an adaptive boosting, a K-nearest neighbors algorithm, or a support vector machine. In this case, the classifier CF may be created based on information associated with the various MRI parameters for the ROIs 94 of the MRI slices SI₁-SI_Nregistered to each of the biopsy tissues depicted in the subset data DB-1 or DB-2.

First Embodiment

After the big data database 70 and the classifier CF are created or constructed, a (voxelwise) probability map (i.e., a decision data map), composed of multiple computation voxels with the same size, for an event (i.e., a decision-making characteristic) may be generated or constructed for, e.g., evaluating or determining the health status of a subject such as healthy individual or patient, the physical condition of an organ or other structure inside the subject's body, or the subject's progress and therapeutic effectiveness by sequentially performing six steps S1 through S6 illustrated in FIG. 4. The steps S1-S6 may be performed based on the moving window MW with a suitable shape such as a circular shape, a square shape, a rectangular shape, a hexagonal shape, or an octagonal shape. The moving window MW is selected for a circular shape, i.e., the circular moving window 2, to perform the steps S1-S6 as mentioned in the following paragraphs. Referring to FIG. 4, in the step S1, a MRI image 10 (single slice) shown in FIG. 5 is obtained from the subject by a MRI device or system. The MRI image 10 (i.e., a molecular image) is composed of multiple voxels in its field of view (FOV) to show an anatomical region of the subject, such as a prostate. In an alternative embodiment, the MRI image 10 may show another anatomical region of the subject, such as a breast, brain, liver, lung, cervix, bone, sarcomas, metastatic lesion or site, capsule around the prostate, pelvic lymph nodes around the prostate, or lymph node.
In the step S2, a desired or anticipated region 11 is determined on the MRI image 10, and a computation region 12 for the probability map is set in the desired or anticipated region 11 of the MRI image 10 and defined with the computation voxels based on the size (e.g., the radius Rm) of the moving window 2 and the size and shape of the small grids 6 in the moving window 2 such as the width Wsq of the small squares 6 or the width Wrec and the length Lrec of the small rectangles 6. A side length of the computation region 12 in the x direction, for example, may be calculated by obtaining a first maximum positive integer of a side length of the desired or anticipated region 11 in the x direction divided by the width Wsq of the small squares 6 in the moving window 2, and multiplying the width Wsq by the first maximum positive integer; a side length of the computation region 12 in the y direction may be calculated by obtaining a second maximum positive integer of a side length of the desired or anticipated region 11 in the y direction divided by the width Wsq of the small squares 6 in the moving window 2, and multiplying the width Wsq by the second maximum positive integer. Alternatively, a side length of the computation region 12 in the x direction may be calculated by obtaining a first maximum positive integer of a side length of the desired or anticipated region 11 in the x direction divided by the width Wrec of the small rectangles 6 in the moving window 2, and multiplying the width Wrec by the first maximum positive integer; a side length of the computation region 12 in the y direction may be calculated by obtaining a second maximum positive integer of a side length of the desired or anticipated region 11 in the y direction divided by the length Lrec of the small rectangles 6 in the moving window 2, and multiplying the length Lrec by the second maximum positive integer. The computation region 12 may cover at least 10, 25, 50, 80, 90 or 95 percent of the FOV of the MRI image 10, which may include the anatomical region of the subject. The computation region 12, for example, may be shaped like a parallelogram such as square or rectangle.
The size and shape of the computation voxels used to compose the probability map, for example, may be defined based on then step size or radius Rm of the moving window 2, wherein the radius Rm is calculated based on, e.g., the statistical distribution or average of the radii Rw of the planar cylinders 98 transformed from the volumes of the prostate biopsy tissues provided for the pathologist diagnoses depicted in the subset data DB-1, as illustrated in the section of “description of moving window and probability map.” Each of the computation voxels, for example, may be defined as a square with the width Wsq in the case of the moving window 2 defined to include the small squares 6 each having the width Wsq. Alternatively, each of the computation voxels may be defined as a rectangle with the width Wrec and the length Lrec in the case of the moving window 2 defined to include the small rectangles 6 each having the width Wrec and the length Lrec.
A step for abbreviated search functions (such as looking for one or more specific areas of the MRI image 10 where diffusion signals are above a certain signal value) may be performed between the steps S1 and S2, and the computation region 12 may cover the one or more specific areas of the MRI image 10. For clear illustration of the following steps, FIGS. 6A and 6B show the computation region 12 without the MRI image 10. Referring to FIG. 6A, in the step S3 of FIG. 4, after the computation region 12 and the size and shape of the computation voxels of the probability map are defined or determined, the stepping of the moving window 2 and the overlapping between two neighboring stops of the moving window 2 are determined. In the step S3, the moving window 2, illustrated in FIG. 3A, 3B or 3C for example, moves across the computation region 12 at a regular step or interval of a fixed distance in the x and y directions, and measures of specific MRI parameters (each, for example, may be the mean or a weighted mean) for each stop of the moving window 2 for the computation region 12 may be derived or obtained from the MRI image 10 or a registered imaging dataset including, e.g., the MRI image 10 and different MRI parameter maps registered to the MRI image 10. In an alternative example, the measures for some of the specific MRI parameters for each stop of the moving window 2 may be derived from different MRI parameter maps registered to the MRI image 10, and the measures for the others may be derived from the same parameter map registered to the MRI image 10. The fixed distance in the x direction may be substantially equal to the width Wsq in the case of the computation voxels defined as the squares with the width Wsq or may be substantially equal to the width Wrec in the case of the computation voxels defined as the rectangles with the width Wrec and the length Lrec. The fixed distance in the y direction may be substantially equal to the width Wsq in the case of the computation voxels defined as the squares with the width Wsq or may be substantially equal to the length Lrec in the case of the computation voxels defined as the rectangles with the width Wrec and the length Lrec.
For more elaboration, referring to FIGS. 6A and 6B, the moving window 2 may start at a corner Cx of the computation region 12. In the beginning of moving the moving window 2 across the computation region 12, the square 4 inscribed in the moving window 2 may have a corner Gx aligned with the corner Cx of the computation region 12. In other words, the square 4 inscribed in the moving window 2 has an upper side 401 aligned with an upper side 121 of the computation region 12 and a left side 402 aligned with a left side 122 of the computation region 12. Two neighboring stops of the moving window 2 that are shifted from each other by the fixed distance in the x or y direction partially overlap each other, and the ratio of the overlap of the two neighboring stops of the moving window 2 to the area of any one of the two neighboring stops of the moving window 2 may range from, equal to or greater than 50 percent up to, equal to or less than 99 percent.
The specific MRI parameters for each stop of the moving window 2 may include T1 mapping, T2 raw signal, T2 mapping, delta Ktrans, tau, Dt IVIM, fp IVIM, ADC (high b-values), nADC (high b-values), R*, Ktrans from TM, ETM and SSM, and Ve from TM and SSM, which may be referred to the types of the MRI parameters in the columns A-O of the subset data DB-1, respectively. Alternatively, the specific MRI parameters for each stop of the moving window 2 may include four or more of the following: T1 mapping, T2 raw signal, T2 mapping, Ktrans from TM, ETM, and SSM, Ve from TM and SSM, delta Ktrans, tau, ADC (high b-values), nADC (high b-values), Dt IVIM, fp IVIM, and R*. The specific MRI parameters of different modalities may be obtained from registered (multi-parametric) image sets (or the MRI parameter maps in the registered (multi-parametric) image dataset), and rigid and nonrigid standard registration techniques may be used to get each section of anatomy into the same exact coordinate location on each of the registered (multi-parametric) image sets (or on each of the MRI parameter maps).
Referring to FIG. 7A, the moving window 2 at each stop may cover or overlap multiple voxels, e.g., 14 a through 14 f, in the computation region 12, of the MRI image 10. A MRI parameter such as T1 mapping for each stop of the moving window 2 may be calculated or measured by summing values of the MRI parameter for the voxels 14 a-14 f weighed or multiplied by the respective percentages of areas B1, B2, B3, B4, B5 and B6, overlapping with the respective voxels 14 a-14 f in the moving window 2, occupying the moving window 2. By this way, other MRI parameters (e.g., those in the columns B-O of the subset data DB-1) for each stop of the moving window 2 are measured. Taking an example of T1 mapping, in the case of the moving window 2 at a certain stop, values of T1 mapping for the voxels 14 a-14 f and the percentages of the areas B1-B6 occupying the moving window 2 are assumed as shown in FIG. 7B. A measure, i.e., 1010.64, of T1 mapping for the stop of the moving window 2 may be obtained or calculated by summing (1) the value, i.e., 1010, of T1 mapping for the voxel 14 a multiplied by the percentage, i.e., 6%, of the area B1, overlapping with the voxel 14 a in the moving window 2, occupying the moving window 2, (2) the value, i.e., 1000, of T1 mapping for the voxel 14 b multiplied by the percentage, i.e., 38%, of the area B2, overlapping with the voxel 14 b in the moving window 2, occupying the moving window 2, (3) the value, i.e., 1005, of T1 mapping for the voxel 14 c multiplied by the percentage, i.e., 6%, of the area B3, overlapping with the voxel 14 c in the moving window 2, occupying the moving window 2, (4) the value, i.e., 1020, of T1 mapping for the voxel 14 d multiplied by the percentage, i.e., 6%, of the area B4, overlapping with the voxel 14 d in the moving window 2, occupying the moving window 2, (5) the value, i.e., 1019, of T1 mapping for the voxel 14 e multiplied by the percentage, i.e., 38%, of the area B5, overlapping with the voxel 14 e in the moving window 2, occupying the moving window 2, and (6) the value, i.e., 1022, of T1 mapping for the voxel 14 f multiplied by the percentage, i.e., 6%, of the area B6, overlapping with the voxel 14 f in the moving window 2, occupying the moving window 2. Alternatively, the measure of each of the specific MRI parameters for each stop of the moving window 2 may be the Gaussian weighted average of measures, for said each of the specific MRI parameters, for the voxels, e.g., 14 a-14 f of the MRI image 10 overlapping with said each stop of the moving window 2.
The registered imaging dataset may be created for the subject to include, e.g., multiple registered MRI slice images (including, e.g., MRI image 10) and/or corresponding MRI parameters obtained from various equipment, machines, or devices or from a defined time-point (e.g., specific date) or time range (e.g., within five days after treatment). Each of the MRI parameters in the subject's registered imaging dataset requires alignment or registration. The registration can be done by, for examples, using unique anatomical marks, structures, tissues, geometry, and/or shapes or using mathematical algorithms and computer pattern recognition. The measures of the specific imaging parameters for each stop of the moving window 2, for example, may be obtained from the registered imaging dataset for the subject.
Referring to FIG. 4, in the step S4 (optional), the reduction of the MRI parameters may be performed using, e.g., subset selection, aggregation, and dimensionality reduction so that a parameter set for each stop of the moving window 2 is obtained. The parameter set for each stop of the moving window 2 may include the measures for some of the specific MRI parameters from the step S3 (e.g., T1 mapping, T2 mapping, delta Ktrans, tau, Dt IVIM, fp IVIM, and R*) and values of average Ktrans (obtained by averaging Ktrans from TM, Ktrans from ETM, and Ktrans from SSM) and average Ve (obtained by averaging Ve from TM and Ve from SSM). T2 raw signal, ADC (high b-values), and nADC (high b-values) are not selected into the parameter set because the three MRI parameters are not determined to be conditionally independent. T1 mapping, T2 mapping, delta Ktrans, tau, Dt IVIM, fp IVIM, and R* are selected into the parameter set because the seven MRI parameters are determined to be conditionally independent. Performing the step S4 may reduce parameter noise, create new parameters, and assure conditional independence needed for (Bayesian) classification described in the step S5.
In the step S5, the parameter set for each stop of the moving window 2 from the step S4 (or the measures of some or all of the specific MRI parameters for each stop of the moving window 2 from the step S3) may be matched to a biomarker library or the classifier CF for an event (e.g., the first data type or feature depicted in the section of “description of classifier CF”, or biopsy-diagnosed tissue characteristic for, e.g., specific cancerous cells or occurrence of prostate or breast cancer) created based on data associated with the event from the subset data DB-1. Accordingly, a probability PW of the event for each stop of the moving window 2 is obtained. In other words, the probability PW of the event for each stop of the moving window 2 may be obtained based on the parameter set (from the step S4) or the measures of some or all of the specific MRI parameters (from the step S3) for said each stop of the moving window 2 to match a matching dataset from the established or constructed biomarker library or classifier CF. The biomarker library or classifier CF, for example, may contain population-based information of MRI imaging data and other information such as clinical and demographic data for the event. In the invention, the probability PW of the event for each stop of the moving window 2 is assumed to be that for the square 4 inscribed in said each stop of the moving window 2.
In the step S6, probabilities PVs of the event may be computed for the respective computation voxels based on the probabilities PWs of the event for the stops of the moving window 2, and the probabilities PVs of the event for the respective computation voxels form the probability map. The probability map may be obtained in a short time (such as 10 minutes or 1 hour) after the MRI slice 10 obtained. The moving window 2 may be defined to include at least four squares 6, as shown in FIG. 3A, 3B or 3C. Each of the squares 6 within the moving window 2, for example, may have an area less than 25% of that of the moving window 2. Two neighboring stops of the moving window 2, for example, may have an overlapped region with an area ranging from 20% to 99% of that of any one of the two neighboring stops of the moving window 2, and some of the squares 6 inside each of the two neighboring stops of the moving window 2 may be within the overlapped region of the two neighboring stops of the moving window 2. Alternatively, two neighboring stops of the moving window 2 may have an overlapped region with an area ranging from 1% to 20% of that of any one of the two neighboring stops of the moving window 2.
The square 4 inscribed in the moving window 2 with the radius Rm is divided into, e.g., four small squares 6 each having width Wsq as shown in FIG. 3A, and in the step S2, the computation region 12 for the probability map is defined with, e.g., nine computation voxels V1 through V9 shown in FIG. 8 based on the width Wsq of the four small squares 6 in the moving window 2. Each of the nine computation voxels V1-V9 used to compose the probability map is defined as a square with the width Wsq. Next, referring to FIGS. 9B, 9D, 9F and 9H, the moving window 2 moves across the computation region 12 at a regular step or interval of a fixed distance in the x and y directions, and measures of the specific MRI parameters for four stops P_1-1, P_1-2, P_2-1and P_2-2of the moving window 2 are obtained from the MRI image 10 or the registered imaging dataset. In the example, the fixed distance is substantially equal to the width Wsq. Referring to FIGS. 9A and 9B, four small squares 6 a, 6 b, 6 c and 6 d, i.e., the four squares 6, within the square 4 inscribed in the stop P_1-1of the moving window 2 overlap or cover the four computation voxels V1, V2, V4 and V5, respectively, and each of the squares 6 a, 6 b, 6 c and 6 d has an area less than 25% of that of the stop P_1-1of the moving window 2. Referring to FIGS. 9C and 9D, four small squares 6 e, 6 f, 6 g and 6 h, i.e., the four squares 6, within the square 4 inscribed in the stop P_1-2of the moving window 2 overlap or cover the four computation voxels V2, V3, V5 and V6, respectively, and each of the squares 6 e, 6 f, 6 g and 6 h has an area less than 25% of that of the stop P_1-2of the moving window 2. Referring to FIGS. 9E and 9F, four small squares 6 i, 6 j, 6 k and 6 l, i.e., the four squares 6, within the square 4 inscribed in the stop P_2-1of the moving window 2 overlap or cover the four computation voxels V4, V5, V7 and V8, respectively, and each of the squares 6 i, 6 j, 6 k and 6 l has an area less than 25% of that of the stop P_2-1of the moving window 2. Referring to FIGS. 9G and 9H, four small squares 6 m, 6 n, 6 o and 6 p, i.e., the four squares 6, within the square 4 inscribed in the stop P_2-2of the moving window 2 overlap or cover the four computation voxels V5, V6, V8 and V9, respectively, and each of the squares 6 m, 6 n, 6 o and 6 p has an area less than 25% of that of the stop P_2-2of the moving window 2. For details about the squares 6 a-6 p, please refer to the squares 6 illustrated in FIG. 3A.
After the measures of the specific MRI parameters for the stops P_1-1, P_1-2, P_2-1and P_2-2of the moving window 2 are obtained, the step S5 is performed to obtain the probabilities PWs of the event for the respective stops P_1-1, P_1-2, P_2-1and P_2-2of the moving window 2. The probabilities PWs of the event for the four stops P_1-1, P_1-2, P_2-1and P_2-2of the moving window 2, for example, are 0.8166, 0.5928, 0.4407 and 0.5586, respectively. In the example, the four probabilities PWs of the event for the four stops P_1-1, P_1-2, P_2-1and P_2-2of the moving window 2 are assumed to be those for the four squares 4 inscribed in the respective stops P_1-1, P_1-2, P_2-1and P_2-2of the moving window 2, respectively. In other words, the four probabilities of the event for the four squares 4 inscribed in the four stops P_1-1, P_1-2, P_2-1and P_2-2of the moving window 2 are 0.8166, 0.5928, 0.4407 and 0.5586, respectively.
Next, optimal probabilities of the event for the computation voxels V1-V9 are determined based on the probabilities PWs of the event for the respective stops P_1-1, P_1-2, P_2-1and P_2-2of the moving window 2. FIG. 10A shows example initial probabilities for computation voxels in accordance with an embodiment of the present invention. FIG. 10B shows example updated probabilities for the computation voxels, and FIG. 10C shows example optimal probabilities for the computation voxels in accordance with an embodiment of the present invention. In an embodiment, the determination of the optimal probabilities could be an averaging of the moving window values.
In an alternative example, the square 4 inscribed in the moving window 2 with the radius Rm is divided into, e.g., nine small squares 6 each having width Wsq as shown in FIG. 3B, and in the step S2, the computation region 12 for the probability map is defined with, e.g., 36 computation voxels X1 through X36 as shown in FIG. 11 based on the width Wsq of the nine small squares 6 in the moving window 2. Each of the 36 computation voxels X1-X36 used to compose the probability map is defined as a square with the width Wsq. Next, referring to FIGS. 12B, 12D, 12F, 12H, 13B, 13D, 13F, 13H, 14B, 14D, 14F, 14H, 15B, 15D, 15F, and 15H, the moving window 2 moves across the computation region 12 at a regular step or interval of a fixed distance in the x and y directions, and measures of the specific MRI parameters for sixteen stops P_1-1, P_1-2, P_1-3, P_1-4, P_2-1, P_2-2, P_2-3, P_2-4, P_3-1, P_3-2, P_3-3, P_3-4, P_4-1, P_4-2, P_4-3, and P_4-4of the moving window 2 are obtained from the MRI image 10 or the registered imaging dataset. In the example, the fixed distance is substantially equal to the width Wsq.
Referring to FIGS. 12A and 12B, nine small squares G1 through G9, i.e., the nine squares 6, within the square 4 inscribed in the stops P_1-1of the moving window 2 overlap or cover the nine computation voxels X1, X2, X3, X7, X8, X9, X13, X14 and X15, respectively, and each of the squares G1-G9 may have an area less than 10% of that of the stop P_1-1of the moving window 2. For details about the squares G1-G9, please refer to the squares 6 illustrated in FIG. 3B. Referring to FIGS. 12C and 12D, nine small squares G10 through G18, i.e., the nine squares 6, within the square 4 inscribed in the stop P_1-2of the moving window 2 overlap or cover the nine computation voxels X2, X3, X4, X8, X9, X10, X14, X15 and X16, respectively, and each of the squares G10-G18 may have an area less than 10% of that of the stop P_1-2of the moving window 2. For details about the squares G10-G18, please refer to the squares 6 illustrated in FIG. 3B. Referring to FIGS. 12E and 12F, nine small squares G19 through G27, i.e., the nine squares 6, within the square 4 inscribed in the stop P_1-3of the moving window 2 overlap or cover the nine computation voxels X3, X4, X5, X9, X10, X11, X15, X16 and X17, respectively, and each of the squares G19-G27 may have an area less than 10% of that of the stop P_1-3of the moving window 2. For details about the squares G19-G27, please refer to the squares 6 illustrated in FIG. 3B. Referring to FIGS. 12G and 12H, nine small squares G28 through G36, i.e., the nine squares 6, within the square 4 inscribed in the stop P_1-4of the moving window 2 overlap or cover the nine computation voxels X4, X5, X6, X10, X11, X12, X16, X17 and X18, respectively, and each of the squares G28-G36 may have an area less than 10% of that of the stop P_1-4of the moving window 2. For details about the squares G28-G36, please refer to the squares 6 illustrated in FIG. 3B.
Referring to FIGS. 13A and 13B, nine small squares G37 through G45, i.e., the nine squares 6, within the square 4 inscribed in the stop P_2-1of the moving window 2 overlap or cover the nine computation voxels X7, X8, X9, X13, X14, X15, X19, X20 and X21, respectively, and each of the squares G37-G45 may have an area less than 10% of that of the stop P_2-1of the moving window 2. For details about the squares G37-G45, please refer to the squares 6 illustrated in FIG. 3B. Referring to FIGS. 13C and 13D, nine small squares G46 through G54, i.e., the nine squares 6, within the square 4 inscribed in the stop P_2-2of the moving window 2 overlap or cover the nine computation voxels X8, X9, X10, X14, X15, X16, X20, X21 and X22, respectively, and each of the squares G46-G54 may have an area less than 10% of that of the stop P_2-2of the moving window 2. For details about the squares G46-G54, please refer to the squares 6 illustrated in FIG. 3B. Referring to FIGS. 13E and 13F, nine small squares G55 through G63, i.e., the nine squares 6, within the square 4 inscribed in the stop P_2-3of the moving window 2 overlap or cover the nine computation voxels X9, X10, X11, X15, X16, X17, X21, X22 and X23, respectively, and each of the squares G55-G63 may have an area less than 10% of that of the stop P_2-3of the moving window 2. For details about the squares G55-G63, please refer to the squares 6 illustrated in FIG. 3B. Referring to FIGS. 13G and 13H, nine small squares G64 through G72, i.e., the nine squares 6, within the square 4 inscribed in the stop P_2-4of the moving window 2 overlap or cover the nine computation voxels X10, X11, X12, X16, X17, X18, X22, X23 and X24, respectively, and each of the squares G64-G72 may have an area less than 10% of that of the stop P_2-4of the moving window 2. For details about the squares G64-G72, please refer to the squares 6 illustrated in FIG. 3B.
Referring to FIGS. 14A and 14B, nine small squares G73 through G81, i.e., the nine squares 6, within the square 4 inscribed in the stop P_3-1of the moving window 2 overlap or cover the nine computation voxels X13, X14, X15, X19, X20, X21, X25, X26 and X27, respectively, and each of the squares G73-G81 may have an area less than 10% of that of the stop P_3-1of the moving window 2. For details about the squares G73-G81, please refer to the squares 6 illustrated in FIG. 3B. Referring to FIGS. 14C and 14D, nine small squares G82 through G90, i.e., the nine squares 6, within the square 4 inscribed in the stop P_3-2of the moving window 2 overlap or cover the nine computation voxels X14, X15, X16, X20, X21, X22, X26, X27 and X28, respectively, and each of the squares G82-G90 may have an area less than 10% of that of the stop P_3-2of the moving window 2. For details about the squares G82-G90, please refer to the squares 6 illustrated in FIG. 3B. Referring to FIGS. 14E and 14F, nine small squares G91 through G99, i.e., the nine squares 6, within the square 4 inscribed in the stop P_3-3of the moving window 2 overlap or cover the nine computation voxels X15, X16, X17, X21, X22, X23, X27, X28 and X29, respectively, and each of the squares G91-G99 may have an area less than 10% of that of the stop P_3-3of the moving window 2. For details about the squares G91-G99, please refer to the squares 6 illustrated in FIG. 3B. Referring to FIGS. 14G and 14H, nine small squares G100 through G108, i.e., the nine squares 6, within the square 4 inscribed in the stop P_3-4of the moving window 2 overlap or cover the nine computation voxels X16, X17, X18, X22, X23, X24, X28, X29 and X30, respectively, and each of the squares G100-G108 may have an area less than 10% of that of the stop P_3-4of the moving window 2. For details about the squares G100-G108, please refer to the squares 6 illustrated in FIG. 3B.
Referring to FIGS. 15A and 15B, nine small squares G109 through G117, i.e., the nine squares 6, within the square 4 inscribed in the stop P_4-1of the moving window 2 overlap or cover the nine computation voxels X19, X20, X21, X25, X26, X27, X31, X32 and X33, respectively, and each of the squares G109-G117 may have an area less than 10% of that of the stop P_4-1of the moving window 2. For details about the squares G109-G117, please refer to the squares 6 illustrated in FIG. 3B. Referring to FIGS. 15C and 15D, nine small squares G118 through G126, i.e., the nine squares 6, within the square 4 inscribed in the stop P_4-2of the moving window 2 overlap or cover the nine computation voxels X20, X21, X22, X26, X27, X28, X32, X33 and X34, respectively, and each of the squares G118-G126 may have an area less than 10% of that of the stop P_4-2of the moving window 2. For details about the squares G118-G126, please refer to the squares 6 illustrated in FIG. 3B. Referring to FIGS. 15E and 15F, nine small squares G127 through G135, i.e., the nine squares 6, within the square 4 inscribed in the stop P_4-3of the moving window 2 overlap or cover the nine computation voxels X21, X22, X23, X27, X28, X29, X33, X34 and X35, respectively, and each of the squares G127-G135 may have an area less than 10% of that of the stop P_4-3of the moving window 2. For details about the squares G127-G135, please refer to the squares 6 illustrated in FIG. 3B. Referring to FIGS. 15G and 15H, nine small squares G136 through G144, i.e., the nine squares 6, within the square 4 inscribed in the stop P_4-4of the moving window 2 overlap or cover the nine computation voxels X22, X23, X24, X28, X29, X30, X34, X35 and X36, respectively, and each of the squares G136-G144 may have an area less than 10% of that of the stop P_4-4of the moving window 2. For details about the squares G136-G144, please refer to the squares 6 illustrated in FIG. 3B.
After the measures of the specific MRI parameters for the sixteen stops P_1-1-P_4-4of the moving window 2 are obtained, the step S5 is performed to obtain the probabilities PWs of the event for the respective stops P_1-1-P_4-4of the moving window 2. The probabilities PWs of the event for the sixteen stops P_1-1, P_1-2, P_1-3, P_1-4, P_2-1, P_2-2, P_2-3, P_2-4, P_3-1, P_3-2, P_3-3, P_3-4, P_4-1, P_4-2, P_4-3, and P_4-4of the moving window 2, for example, are 0.6055, 0.5628, 0.5366, 0.4361, 0.4982, 0.5534, 0.5521, 0.4227, 0.4618, 0.5132, 0.6214, 0.5810, 0.4371, 0.4698, 0.5774, and 0.5613, respectively. In the example, the sixteen probabilities PWs of the event for the sixteen stops P_1-1-P_4-4of the moving window 2 are assumed to be those for the sixteen squares 4 inscribed in the respective stops P_1-1-P_4-4of the moving window 2, respectively. In other words, the sixteen probabilities of the event for the sixteen squares 4 inscribed in the sixteen stops P_1-1-P_4-4of the moving window 2 are 0.6055, 0.5628, 0.5366, 0.4361, 0.4982, 0.5534, 0.5521, 0.4227, 0.4618, 0.5132, 0.6214, 0.5810, 0.4371, 0.4698, 0.5774, and 0.5613, respectively.
Next, optimal probabilities of the event for the computation voxels X1-X36 is determined based on the probabilities PWs of the event for the sixteen stops P_1-1-P_4-4of the moving window 2. FIGS. 16A, 16B, and 16C show example initial probabilities for computation voxels, updated probabilities for the computation voxels, and optimal probabilities for the computation voxels, respectively, in accordance with an embodiment of the present invention.
The process described above is performed to generate the moving window 2 across the computation regions 12 of the MRI slice 10 along the x and y directions to create a two-dimensional (2D) probability map. In order to obtain a three-dimensional (3D) probability map, the process, including the steps S1-S6, may be applied to each of all MRI slices (including the MRI slice 10) of the subject arranged in the z direction perpendicular to the x and y directions.
The invention provides a computing method, i.e., the steps S1-S6, to obtain measures of the specific MRI parameters for multiple large regions or volumes of the MRI image 10 (i.e., the stops of the moving window 2), each including multiple voxels of the MRI image 10, and obtain a probability map having small regions (i.e., computation voxels) with extremely accurate probabilities based on the measures of the specific MRI parameters for the large regions or volumes, which overlaps, of the MRI image 10. Because of calculation for the probabilities based on the large regions or volumes of the MRI image 10, registered or aligned errors between the registered image sets (or registered parameter maps) can be compensated.
In the computing method depicted in FIG. 4, the steps S1-S6, for example, may be performed on a MRI system, which may include one or more MRI machines. A probability map for occurrence of prostate cancer, for example, may be formed by the MRI system to perform the steps S1-S6 and shows a probability of cancer for a small portion of the prostate.
By repeating the stops S1-S6 or the steps S5 and S6 for various events such as occurrence of prostate cancer, occurrence of small cell subtype, and occurrence of Gleason scores greater than 7, multiple probability maps for the various events are obtained or formed. The probability maps, for example, include a prostate cancer probability map shown in FIG. 17A, a small cell subtype probability map shown in FIG. 17B, and a probability map of Gleason scores greater than 7 shown in FIG. 17C. Some or all of the probability maps may be selected to be combined into a composite probability image or map to provide most useful information to interpreting Radiologist and Oncologist. The composite probability image or map may show areas of interest. For example, the composite probability image or map shows areas with high probability of cancer (>98%), high probability of small cell subtype, and high probability of Gleason score >7, as shown in FIG. 17D.
In an alternative embodiment, the subset data DB-1 may further include measures for a PET parameter (e.g., SUVmax) and a SPECT parameter. In this case, the classifier CF, e.g., Bayesian classifier, for the event (e.g., occurrence of prostate cancer) may be created based on data associated with the event and specific variables, including, e.g., the PET parameter, the SPECT parameter, some or all of the MRI parameters depicted in the section of the “description of classifier CF,” and the processed parameters of average Ve and average Ktrans, in the subset data DB-1. Next, by using the computing method depicted in FIG. 4, the probability map for the event may be generated or formed based on measures of the specific variables for each stop of the moving window 2.
In the invention, the computing method (i.e., the steps S1-S6) depicted in FIG. 4, for example, may be performed on a software, a device, or a system including, e.g., hardware, one or more computing devices, computers, processors, software, and/or tools to obtain the above-mentioned probability map(s) for the event(s) and/or the above-mentioned composite probability image or map. Accordingly, a doctor questions the software, device or system about a suspected region of an image such as MRI slice image, and the latter provides a probability map for the event (e.g., occurrence of prostate cancer) and/or a likelihood measurement of cancer (e.g., malignancy) as an answer.

Second Embodiment

In the case of the MRI image 10 obtained from the subject (e.g., human patient) that has been given a treatment, such as neoadjuvant chemotherapy or (preoperative) radiation therapy, or has taken or been injected with one or more drugs for a treatment, such as neoadjuvant chemotherapy, the effect of the treatment or the drugs on the subject may be evaluated, identified, or determined by analyzing the probability map(s) for the event(s) depicted in the first embodiment and/or the composite probability image or map depicted in the first embodiment. Accordingly, a method of evaluating, identifying, or determining the effect of the treatment or the drugs on the subject may include the following steps: (a) administering to the subject the treatment or the drugs, (b) after the step (a), obtaining the MRI image 10 from the subject by the MRI system, (c) after the step (b), performing the steps S2-S6 to obtain the probability map(s) for the event(s) depicted in the first embodiment and/or obtaining the composite probability image or map depicted in the first embodiment, and (d) after the step (c), analyzing the probability map(s) for the event(s) and/or the composite probability image or map.

Third Embodiment

The steps S1-S6 may be employed to generate a probability map of breast cancer. In this case, in the steps S1 and S2, the MRI image 10 shows the breast anatomical structure of the subject as shown in FIG. 18, and the computation region 12, set in the desired or anticipated region 11 of the MRI image 10, is defined with the computation voxels and covers at least 10, 25, 50, 80, 90 or 95 percent of the FOV of the MRI image 10, which includes the breast anatomical structure. The steps S3 and S4 are then sequentially performed. Next, in the step S5, a probability of breast cancer for each stop of the moving window 2 may be obtained by matching the parameter set for said each stop of the moving window 2 from the step S4 (or the measures of some or all of the specific MRI parameters for said each stop of the moving window 2 from the step S3) to the classifier CF created for breast cancer.

Fourth Embodiment

FIG. 20 is a flow chart of evaluating, identifying, or determining the effect of a treatment, such as neoadjuvant chemotherapy or (preoperative) radiation therapy, or a drug for the treatment on a subject (e.g., human or animal). Referring to FIG. 20, in a step S21, a first MRI, or other imaging modality, slice image is obtained from the subject by the MRI device or system. The first MRI slice image is composed of multiple voxels in its field of view (FOV) to show an anatomical region of the subject, such as prostate or breast. In a step S22, the steps S2-S6 are performed on the first MRI slice image to generate a first probability map.
After the step S21 or S22 is performed, step S23 is performed. In the step S23, the subject is given the treatment, such as a drug given intravenously or orally. For certain cancers such as prostate cancer, the treatment may be the (preoperative) radiation therapy (or called radiotherapy), a proton beam therapy, a minimally invasive treatment (such as ablation or radiation), or an ablation therapy such as high-intensity focused ultrasound treatment. The (preoperative) radiation therapy for prostate cancer may be performed by a radiotherapy device such as Truebeam or CyberKnife and may use high-energy radiation (e.g., gamma rays) to shrink tumors and kill cancer cells.
In a step S24, after the subject gets or receives the treatment such as an oral or intravenous drug, a second MRI slice image is obtained from the subject by the MRI device or system. The second MRI slice image is composed of multiple voxels in its FOV to show the same anatomical region of the subject as the first MRI slice image shows. In a step S25, the steps S2-S6 are performed on the second MRI slice image to generate a second probability map. The first and second probability maps may be generated for an event or data type, such as prostate cancer, breast cancer, one of Gleason scores 0 through 10, two or more of Gleason scores 0 through 10 (e.g., Gleason scores greater than 7), tissue necrosis, or the percentage of cancer in a specific range from a first percent (e.g., 91 percent) to a second percent (e.g., 100 percent). Next, in a step S26, by comparing the first and second probability maps, the effect of the treatment or the drug used in the treatment on the subject may be identified, determined, or evaluated as effective or ineffective. Based on the result from the step S26, a doctor can decide or judge whether the treatment or the drug should be adjusted or changed. The method depicted in the steps S21-S26 can detect responses or progression after the treatment or the drug within less than one week or two weeks, allowing earlier adjustments to the treatment regime.

Fifth Embodiment

FIG. 21 is a flow chart of evaluating, identifying, or determining the effect of a treatment, such as neoadjuvant chemotherapy or (preoperative) radiation therapy, or a drug for the treatment on a subject (e.g., human or animal). Referring to FIG. 21, in a step S31, a first MRI slice image is obtained from the subject by the MRI device or system. The first MRI slice image is composed of multiple voxels in its field of view (FOV) to show an anatomical region of the subject, such as prostate or breast. In a step S32, the steps S2-S5 are performed on the first MRI slice image to obtain first probabilities of an event or data type for stops of the moving window 2 for the computation region 12 of the first MRI slice image. In other words, the first probabilities of the event or data type for the stops of the moving window 2 on the first MRI slice image for the subject before the treatment are obtained based on measures of the specific MRI parameters for the stops of the moving window 2 on the first MRI slice image to match a matching dataset from the established classifier CF or biomarker library. The measures of the specific MRI parameters for the stops of the moving window 2 on the first MRI slice image, for example, may be obtained from a registered (multi-parametric) image dataset including, e.g., the first MRI slice image and/or different parameter maps registered to the fist MRI slice. The event or data type, for example, may be prostate cancer, breast cancer, one of Gleason scores 0 through 10, two or more of Gleason scores 0 through 10 (e.g., Gleason scores greater than 7), tissue necrosis, or the percentage of cancer in a specific range from a first percent (e.g., 91 percent) to a second percent (e.g., 100 percent).
After the step S31 or S32 is performed, step S33 is performed. In the step S33, the subject is given the treatment, such as a drug given intravenously or orally. For certain cancers such as prostate cancer, the treatment may be the (preoperative) radiation therapy (or called radiotherapy), a proton beam therapy, a minimally invasive treatment (such as ablation or radiation), or an ablation therapy such as high-intensity focused ultrasound treatment. The (preoperative) radiation therapy for prostate cancer may be performed by a radiotherapy device such as Truebeam or CyberKnife and may use high-energy radiation (e.g., gamma rays) to shrink tumors and kill cancer cells.
In a step S34, after the subject gets or receives the treatment such as an oral or intravenous drug, a second MRI slice image is obtained from the subject by the MRI device or system. The second MRI slice image is composed of multiple voxels in its FOV to show the same anatomical region of the subject as the first MRI slice image shows. In a step S35, the steps S2-S5 are performed on the second MRI slice image to obtain second probabilities of the event or data type for stops of the moving window 2 for the computation region 12 of the second MRI slice image. In other words, the second probabilities of the event or data type for the stops of the moving window 2 on the second MRI slice image for the subject after the treatment are obtained based on measures of the specific MRI parameters for the stops of the moving window 2 on the second MRI slice image to match the matching dataset from the established classifier CF or biomarker library. The measures of the specific MRI parameters for the stops of the moving window 2 on the second MRI slice image, for example, may be obtained from a registered (multi-parametric) image dataset including, e.g., the second MRI slice image and/or different parameter maps registered to the second MRI slice.
The stops of the moving window 2 for the computation region 12 of the first MRI slice may substantially correspond to or may be substantially aligned with or registered to the stops of the moving window 2 for the computation region 12 of the second MRI slice, respectively. Each of the stops of the moving window 2 for the computation region 12 of the first MRI slice and the registered or aligned one of the stops of the moving window 2 for the computation region 12 of the second MRI slice may substantially cover the same anatomical region of the subject.
Next, in a step S36, the first and second probabilities of the event or data type for each aligned or registered pair of the stops of the moving window 2 on the first and second MRI slice images are subtracted from each other into a corresponding probability change PMC for said each aligned or registered pair of the stops of the moving window 2 on the first and second MRI slice images. For example, for each aligned or registered pair of the stops of the moving window 2 on the first and second MRI slice images, the probability change PMC may be obtained by subtracting the first probability of the event or data type from the second probability of the event or data type.
In a step S37, probability changes PVCs for respective computation voxels used to compose a probability change map for the event or data type are computed based on the probability changes PMCs for the aligned or registered pairs of the stops of the moving window 2 on the first and second MRI slice images.
The process uses the moving window 2 in the x and y directions to create a 2D probability change map. In addition, the above process may be applied to multiple MRI slices of the subject registered in the z direction, perpendicular to the x and y directions, to form a 3D probability change map.
In a step S38, by analyzing the probability change map, the effect of the treatment or the drug used in the treatment on the subject may be identified, determined, or evaluated as effective or ineffective. Based on the result from the step S38, a doctor can decide or judge whether the treatment or the drug should be adjusted or changed. The method depicted in the steps S31-S38 can detect responses or progression after the treatment or the drugs within less than one week or two weeks, allowing earlier adjustments to the treatment regime.

Sixth Embodiment

FIG. 22 is a flow chart of evaluating, identifying, or determining the effect of a treatment, such as neoadjuvant chemotherapy or (preoperative) radiation therapy, or a drug used in the treatment on a subject (e.g., human or animal). Referring to FIG. 22, in a step S41, a first MRI slice image is obtained from the subject by the MRI device or system. The first MRI slice image is composed of multiple voxels in its field of view (FOV) to show an anatomical region of the subject, such as prostate or breast. In a step S42, the steps S2-S6 are performed on the first MRI slice image to generate a first probability map composed of first computation voxels.
After the step S41 or S42 is performed, step S43 is performed. In the step S43, the subject is given a treatment such as an oral or intravenous drug. For certain cancers such as prostate cancer, the treatment may be the (preoperative) radiation therapy (or called radiotherapy), a proton beam therapy, or an ablation therapy such as high-intensity focused ultrasound treatment. The (preoperative) radiation therapy for prostate cancer may be performed by a radiotherapy device such as Truebeam or CyberKnife and may use high-energy radiation (e.g., gamma rays) to shrink tumors and kill cancer cells.
In a step S44, after the subject gets or receives the treatment such as an oral or intravenous drug, a second MRI slice image is obtained from the subject by the MRI device or system. The second MRI slice image is composed of multiple voxels in its FOV to show the same anatomical region of the subject as the first MRI slice image shows. In a step S45, the steps S2-S6 are performed on the second MRI slice image to generate a second probability map composed of second computation voxels. Each of the second computation voxels may substantially correspond to or may be substantially aligned with or registered to one of the first computation voxels. The first and second probability maps may be generated for an event or data type such as prostate cancer, breast cancer, one of Gleason scores 0 through 10, two or more of Gleason scores 0 through 10 (e.g., Gleason scores greater than 7), tissue necrosis, or the percentage of cancer in a specific range from a first percent (e.g., 91 percent) to a second percent (e.g., 100 percent).
In a step S46, by subtracting a probability for each of the first computation voxels from a probability for the corresponding, registered or aligned one of the second computation voxels, a corresponding probability change is obtained or calculated. Accordingly, a probability change map is formed or generated based on the probability changes. Next, in a step S47, by analyzing the probability change map, the effect of the treatment or the drug used in the treatment on the subject may be identified, determined, or evaluated as effective or ineffective. Based on the result from the step S47, a doctor can decide or judge whether the treatment or the drug should be adjusted or changed. The method depicted in the steps S41-S47 can detect responses or progression after the treatment or the drug within less than one week or two weeks, allowing earlier adjustments to the treatment regime.
The steps, features, benefits and advantages that have been discussed are merely illustrative. None of them, nor the discussions relating to them, are intended to limit the scope of protection in any way. Numerous other embodiments are also contemplated. These include embodiments that have fewer, additional, and/or different steps, features, benefits and advantages. These also include embodiments in which the steps are arranged and/or ordered differently.

Claims

What is claimed is:

1. A method for generating a probability map, comprising:

generating a moving window for application to a computation region of a medical image;

applying the moving window to the computation of the medical image;

obtaining measures of imaging parameters for stops of the moving window, wherein at least two neighboring stops of the moving window partially overlap; and

obtaining first probabilities of an event for each of the stops of the moving window.

2. The method of claim 1, wherein obtaining the first probabilities of the event comprises matching the measures of the imaging parameters to a classifier for the event.

3. The method of claim 2, wherein the classifier comprises a Bayesian classifier.

4. The method of claim 2, wherein the classifier is created based on information associated with multiple measures of the imaging parameters for biopsy tissues and diagnoses for the biopsy tissues.

5. The method of claim 1, wherein the imaging parameters comprise at least four types of magnetic resonance imaging (MRI) or other imaging parameters.

6. The method of claim 1, further comprising creating a probability map based on the first probabilities, wherein the probability map comprises a plurality of voxels that provide an indication of a likelihood of the event occurring with a portion of the medical image associated with a respective voxel, and wherein the two neighboring stops of the moving window are shifted from each other by a distance substantially equal to a side length of one of the voxels.

7. The method of claim 6, wherein the moving window overlaps areas associated with multiple voxels of the probability map at each stop.

8. The method of claim 1, wherein said event is occurrence of a cancer.

9. The method of claim 1, further comprising obtaining second probabilities of the event for multiple voxels of a probability map based on information associated with the first probabilities.

10. The method of claim 9, wherein obtaining the second probabilities of the event comprises calculating multiple assumed probabilities for respective voxels of the probability map based on the first probabilities of the event covering the respective voxels.

11. The method of claim 1, wherein the medical image comprises a magnetic resonance imaging (MRI) image.

12. The method of claim 1, wherein the moving window has a size defined based on a volume of a biopsy tissue.

13. The method of claim 12, wherein the moving window has a volume defined based on a volume of a biopsy tissue.

14. The method of claim 1, wherein the moving window has a circular shape.

15. The method of claim 1, further comprising calculating a third probability of the event for a voxel of a probability map based on the first probability and a second probability of the first event.

16. The method of claim 1, further comprising:

obtaining a third probability of a second event for a first stop of the moving window by matching the first measure to a first classifier;

obtaining a fourth probability of the second event for a second stop of the moving window by matching second measures of the imaging parameter to the first classifier;

calculating a fifth probability of the first event based on the first and second probabilities of the first event;

calculating a sixth probability of the second event based on the third and fourth probabilities of the second event; and

creating a composite probability map based on information associated with the fifth probability of the first event and the sixth probability of the second event.

17. The method of claim 16, wherein the first event is that a cancer occurs, and the second event is associated with a Gleason score.

18. The method of claim 1, further comprising reducing the measures of the imaging parameters into a parameter set for each step of the moving window.

19. The method of claim 18, wherein the obtaining the first probabilities of the event comprises matching the parameter set to a classifier for the event at each stop of the moving window.

20. The method of claim 18, wherein the obtaining the first probabilities of the event comprises matching the parameter set to a biomarker library having a plurality of stored parameters associated with various events.