CN107945150A - 基因测序的图像处理方法及系统 - Google Patents
基因测序的图像处理方法及系统 Download PDFInfo
- Publication number
- CN107945150A CN107945150A CN201710607295.2A CN201710607295A CN107945150A CN 107945150 A CN107945150 A CN 107945150A CN 201710607295 A CN201710607295 A CN 201710607295A CN 107945150 A CN107945150 A CN 107945150A
- Authority
- CN
- China
- Prior art keywords
- image
- bright spot
- module
- image processing
- pending
- Prior art date
- Legal status (The legal status is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the status listed.)
- Granted
Links
- 238000012163 sequencing technique Methods 0.000 title claims abstract description 109
- 108090000623 proteins and genes Proteins 0.000 title claims abstract description 96
- 238000003672 processing method Methods 0.000 title claims abstract description 62
- 238000007781 pre-processing Methods 0.000 claims abstract description 19
- 238000004364 calculation method Methods 0.000 claims abstract description 11
- 238000004458 analytical method Methods 0.000 claims abstract description 10
- 238000012545 processing Methods 0.000 claims description 71
- 238000001914 filtration Methods 0.000 claims description 34
- 238000000034 method Methods 0.000 claims description 25
- 238000001514 detection method Methods 0.000 claims description 22
- 239000011159 matrix material Substances 0.000 claims description 12
- 238000003860 storage Methods 0.000 claims description 8
- 230000008859 change Effects 0.000 claims description 7
- 238000012887 quadratic function Methods 0.000 claims description 6
- 238000009826 distribution Methods 0.000 claims description 5
- 230000003595 spectral effect Effects 0.000 claims description 5
- 238000002203 pretreatment Methods 0.000 claims description 4
- 238000007689 inspection Methods 0.000 claims description 2
- 238000010586 diagram Methods 0.000 description 19
- 230000006870 function Effects 0.000 description 5
- 230000008569 process Effects 0.000 description 5
- 238000002493 microarray Methods 0.000 description 4
- 238000012360 testing method Methods 0.000 description 4
- 108091028043 Nucleic acid sequence Proteins 0.000 description 3
- 230000008901 benefit Effects 0.000 description 3
- 238000005516 engineering process Methods 0.000 description 3
- 150000007523 nucleic acids Chemical group 0.000 description 3
- 230000003287 optical effect Effects 0.000 description 3
- 230000011218 segmentation Effects 0.000 description 3
- 241000239290 Araneae Species 0.000 description 2
- 230000003321 amplification Effects 0.000 description 2
- 238000006243 chemical reaction Methods 0.000 description 2
- 239000000463 material Substances 0.000 description 2
- 238000003199 nucleic acid amplification method Methods 0.000 description 2
- 238000012634 optical imaging Methods 0.000 description 2
- 230000009467 reduction Effects 0.000 description 2
- 230000000717 retained effect Effects 0.000 description 2
- 239000000523 sample Substances 0.000 description 2
- 241000208340 Araliaceae Species 0.000 description 1
- 238000001712 DNA sequencing Methods 0.000 description 1
- 235000005035 Panax pseudoginseng ssp. pseudoginseng Nutrition 0.000 description 1
- 235000003140 Panax quinquefolius Nutrition 0.000 description 1
- 238000003559 RNA-seq method Methods 0.000 description 1
- 238000012512 characterization method Methods 0.000 description 1
- 238000005260 corrosion Methods 0.000 description 1
- 230000007797 corrosion Effects 0.000 description 1
- 238000011161 development Methods 0.000 description 1
- 230000018109 developmental process Effects 0.000 description 1
- 239000012634 fragment Substances 0.000 description 1
- 235000008434 ginseng Nutrition 0.000 description 1
- 238000004519 manufacturing process Methods 0.000 description 1
- 230000004048 modification Effects 0.000 description 1
- 238000012986 modification Methods 0.000 description 1
- 230000011664 signaling Effects 0.000 description 1
- 239000007787 solid Substances 0.000 description 1
- 238000004381 surface treatment Methods 0.000 description 1
Classifications
-
- G—PHYSICS
- G06—COMPUTING; CALCULATING OR COUNTING
- G06T—IMAGE DATA PROCESSING OR GENERATION, IN GENERAL
- G06T7/00—Image analysis
- G06T7/0002—Inspection of images, e.g. flaw detection
- G06T7/0012—Biomedical image inspection
-
- G—PHYSICS
- G02—OPTICS
- G02B—OPTICAL ELEMENTS, SYSTEMS OR APPARATUS
- G02B21/00—Microscopes
- G02B21/36—Microscopes arranged for photographic purposes or projection purposes or digital imaging or video purposes including associated control and data processing arrangements
- G02B21/365—Control or image processing arrangements for digital or video microscopes
-
- G—PHYSICS
- G06—COMPUTING; CALCULATING OR COUNTING
- G06T—IMAGE DATA PROCESSING OR GENERATION, IN GENERAL
- G06T5/00—Image enhancement or restoration
- G06T5/70—Denoising; Smoothing
-
- G—PHYSICS
- G06—COMPUTING; CALCULATING OR COUNTING
- G06T—IMAGE DATA PROCESSING OR GENERATION, IN GENERAL
- G06T7/00—Image analysis
- G06T7/10—Segmentation; Edge detection
- G06T7/11—Region-based segmentation
-
- G—PHYSICS
- G06—COMPUTING; CALCULATING OR COUNTING
- G06T—IMAGE DATA PROCESSING OR GENERATION, IN GENERAL
- G06T7/00—Image analysis
- G06T7/10—Segmentation; Edge detection
- G06T7/136—Segmentation; Edge detection involving thresholding
-
- G—PHYSICS
- G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
- G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
- G16B25/00—ICT specially adapted for hybridisation; ICT specially adapted for gene or protein expression
-
- G—PHYSICS
- G06—COMPUTING; CALCULATING OR COUNTING
- G06T—IMAGE DATA PROCESSING OR GENERATION, IN GENERAL
- G06T2207/00—Indexing scheme for image analysis or image enhancement
- G06T2207/10—Image acquisition modality
- G06T2207/10056—Microscopic image
-
- G—PHYSICS
- G06—COMPUTING; CALCULATING OR COUNTING
- G06T—IMAGE DATA PROCESSING OR GENERATION, IN GENERAL
- G06T2207/00—Indexing scheme for image analysis or image enhancement
- G06T2207/20—Special algorithmic details
- G06T2207/20024—Filtering details
-
- G—PHYSICS
- G06—COMPUTING; CALCULATING OR COUNTING
- G06T—IMAGE DATA PROCESSING OR GENERATION, IN GENERAL
- G06T2207/00—Indexing scheme for image analysis or image enhancement
- G06T2207/30—Subject of image; Context of image processing
- G06T2207/30004—Biomedical image processing
-
- G—PHYSICS
- G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
- G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
- G16B40/00—ICT specially adapted for biostatistics; ICT specially adapted for bioinformatics-related machine learning or data mining, e.g. knowledge discovery or pattern finding
- G16B40/10—Signal processing, e.g. from mass spectrometry [MS] or from PCR
Landscapes
- Engineering & Computer Science (AREA)
- Physics & Mathematics (AREA)
- Theoretical Computer Science (AREA)
- General Physics & Mathematics (AREA)
- Computer Vision & Pattern Recognition (AREA)
- Health & Medical Sciences (AREA)
- General Health & Medical Sciences (AREA)
- Medical Informatics (AREA)
- Multimedia (AREA)
- Life Sciences & Earth Sciences (AREA)
- Biophysics (AREA)
- Biotechnology (AREA)
- Radiology & Medical Imaging (AREA)
- Genetics & Genomics (AREA)
- Molecular Biology (AREA)
- Bioinformatics & Cheminformatics (AREA)
- Bioinformatics & Computational Biology (AREA)
- Quality & Reliability (AREA)
- Evolutionary Biology (AREA)
- Spectroscopy & Molecular Physics (AREA)
- Nuclear Medicine, Radiotherapy & Molecular Imaging (AREA)
- Chemical & Material Sciences (AREA)
- Analytical Chemistry (AREA)
- Optics & Photonics (AREA)
- Image Processing (AREA)
- Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
Abstract
Description
Claims (10)
Applications Claiming Priority (2)
Application Number | Priority Date | Filing Date | Title |
---|---|---|---|
CN201610882547 | 2016-10-10 | ||
CN2016108825478 | 2016-10-10 |
Publications (2)
Publication Number | Publication Date |
---|---|
CN107945150A true CN107945150A (zh) | 2018-04-20 |
CN107945150B CN107945150B (zh) | 2021-11-09 |
Family
ID=61898788
Family Applications (2)
Application Number | Title | Priority Date | Filing Date |
---|---|---|---|
CN201710607306.7A Active CN107918931B (zh) | 2016-10-10 | 2017-07-24 | 图像处理方法及系统及计算机可读存储介质 |
CN201710607295.2A Active CN107945150B (zh) | 2016-10-10 | 2017-07-24 | 基因测序的图像处理方法及系统及计算机可读存储介质 |
Family Applications Before (1)
Application Number | Title | Priority Date | Filing Date |
---|---|---|---|
CN201710607306.7A Active CN107918931B (zh) | 2016-10-10 | 2017-07-24 | 图像处理方法及系统及计算机可读存储介质 |
Country Status (3)
Country | Link |
---|---|
CN (2) | CN107918931B (zh) |
HK (2) | HK1247722A1 (zh) |
WO (3) | WO2018068511A1 (zh) |
Cited By (9)
Publication number | Priority date | Publication date | Assignee | Title |
---|---|---|---|---|
WO2020037574A1 (zh) * | 2018-08-22 | 2020-02-27 | 深圳市真迈生物科技有限公司 | 基于图像构建测序模板的方法、碱基识别方法和装置 |
CN112289377A (zh) * | 2018-08-22 | 2021-01-29 | 深圳市真迈生物科技有限公司 | 检测图像上的亮斑的方法、装置和计算机程序产品 |
CN112289381A (zh) * | 2018-08-22 | 2021-01-29 | 深圳市真迈生物科技有限公司 | 基于图像构建测序模板的方法、装置和计算机程序产品 |
CN112288783A (zh) * | 2018-08-22 | 2021-01-29 | 深圳市真迈生物科技有限公司 | 基于图像构建测序模板的方法、碱基识别方法和装置 |
CN112285070A (zh) * | 2018-08-22 | 2021-01-29 | 深圳市真迈生物科技有限公司 | 检测图像上的亮斑的方法和装置、图像配准方法和装置 |
WO2021030952A1 (zh) | 2019-08-16 | 2021-02-25 | 深圳市真迈生物科技有限公司 | 碱基识别方法、系统、计算机程序产品和测序系统 |
CN115294035A (zh) * | 2022-07-22 | 2022-11-04 | 深圳赛陆医疗科技有限公司 | 亮点定位方法、亮点定位装置、电子设备及存储介质 |
US11847766B2 (en) | 2018-08-22 | 2023-12-19 | Genemind Biosciences Company Limited | Method and device for detecting bright spots on image, and computer program product |
US12008775B2 (en) | 2018-08-22 | 2024-06-11 | Genemind Biosciences Company Limited | Method and device for image registration, and computer program product |
Families Citing this family (8)
Publication number | Priority date | Publication date | Assignee | Title |
---|---|---|---|---|
CN112288781B (zh) * | 2018-08-22 | 2024-07-05 | 深圳市真迈生物科技有限公司 | 图像配准方法、装置和计算机程序产品 |
CN113012757B (zh) | 2019-12-21 | 2023-10-20 | 深圳市真迈生物科技有限公司 | 识别核酸中的碱基的方法和系统 |
CN111951324B (zh) * | 2020-07-30 | 2024-03-29 | 佛山科学技术学院 | 一种铝型材包装长度检测方法及系统 |
CN113034481A (zh) * | 2021-04-02 | 2021-06-25 | 广州绿怡信息科技有限公司 | 设备图像模糊检测方法及装置 |
CN113781351B (zh) * | 2021-09-16 | 2023-12-08 | 广州安方生物科技有限公司 | 图像处理方法、设备及计算机可读存储介质 |
CN114166805B (zh) * | 2021-11-03 | 2024-01-30 | 格力电器(合肥)有限公司 | Ntc温度传感器检测方法、装置、ntc温度传感器及制造方法 |
CN114311572A (zh) * | 2021-12-31 | 2022-04-12 | 深圳市新科聚合网络技术有限公司 | Smd led注塑支架在线检测装置及其检测方法 |
CN117721191B (zh) * | 2024-02-07 | 2024-05-10 | 深圳赛陆医疗科技有限公司 | 基因测序方法、测序装置、可读存储介质和基因测序系统 |
Citations (4)
Publication number | Priority date | Publication date | Assignee | Title |
---|---|---|---|---|
CN101930116A (zh) * | 2009-06-23 | 2010-12-29 | 索尼公司 | 生物样本图像获取装置、获取方法以及获取程序 |
CN102354398A (zh) * | 2011-09-22 | 2012-02-15 | 苏州大学 | 基于密度中心与自适应的基因芯片处理方法 |
CN105389581A (zh) * | 2015-10-15 | 2016-03-09 | 哈尔滨工程大学 | 一种胚芽米胚芽完整度智能识别系统及其识别方法 |
CN105741266A (zh) * | 2016-01-22 | 2016-07-06 | 北京航空航天大学 | 一种病理图像细胞核快速定位方法 |
Family Cites Families (9)
Publication number | Priority date | Publication date | Assignee | Title |
---|---|---|---|---|
JP2007315772A (ja) * | 2006-05-23 | 2007-12-06 | Canon Inc | 蛍光検出装置および生化学反応分析装置 |
CN102174384B (zh) * | 2011-01-05 | 2014-04-02 | 深圳华因康基因科技有限公司 | 对基因测序仪的测序及信号处理进行控制的方法及系统 |
JP5413408B2 (ja) * | 2011-06-09 | 2014-02-12 | 富士ゼロックス株式会社 | 画像処理装置、プログラム及び画像処理システム |
KR101348680B1 (ko) * | 2013-01-09 | 2014-01-09 | 국방과학연구소 | 영상추적기를 위한 표적포착방법 및 이를 이용한 표적포착장치 |
US20140349281A1 (en) * | 2013-05-22 | 2014-11-27 | Sunpower Technologies Llc | System and Method for Dispensing Barcoded Solutions |
CN104297249A (zh) * | 2014-09-15 | 2015-01-21 | 浙江大学 | 基于心肌细胞传感器的药物心脏毒性检测分析方法 |
CA2966555C (en) * | 2014-12-30 | 2023-06-13 | Ventana Medical Systems, Inc. | Systems and methods for co-expression analysis in immunoscore computation |
CN105039147B (zh) * | 2015-06-03 | 2016-05-04 | 西安交通大学 | 一种高通量基因测序碱基荧光图像捕获系统装置及方法 |
CN105205788B (zh) * | 2015-07-22 | 2018-06-01 | 哈尔滨工业大学深圳研究生院 | 一种针对高通量基因测序图像的去噪方法 |
-
2017
- 2017-05-23 WO PCT/CN2017/085439 patent/WO2018068511A1/zh active Application Filing
- 2017-07-24 CN CN201710607306.7A patent/CN107918931B/zh active Active
- 2017-07-24 CN CN201710607295.2A patent/CN107945150B/zh active Active
- 2017-09-08 WO PCT/CN2017/101054 patent/WO2018068599A1/zh active Application Filing
- 2017-09-08 WO PCT/CN2017/101056 patent/WO2018068600A1/zh active Application Filing
-
2018
- 2018-05-31 HK HK18107167.2A patent/HK1247722A1/zh unknown
- 2018-05-31 HK HK18107186.9A patent/HK1247724A1/zh unknown
Patent Citations (4)
Publication number | Priority date | Publication date | Assignee | Title |
---|---|---|---|---|
CN101930116A (zh) * | 2009-06-23 | 2010-12-29 | 索尼公司 | 生物样本图像获取装置、获取方法以及获取程序 |
CN102354398A (zh) * | 2011-09-22 | 2012-02-15 | 苏州大学 | 基于密度中心与自适应的基因芯片处理方法 |
CN105389581A (zh) * | 2015-10-15 | 2016-03-09 | 哈尔滨工程大学 | 一种胚芽米胚芽完整度智能识别系统及其识别方法 |
CN105741266A (zh) * | 2016-01-22 | 2016-07-06 | 北京航空航天大学 | 一种病理图像细胞核快速定位方法 |
Non-Patent Citations (3)
Title |
---|
IHOR SMAL: "Quantitative Comparison of Spot Detection Methods in Fluorescence Microscopy", 《IEEE TRANSACTIONS ON MEDICAL IMAGING》 * |
JULIEN GHAYE: "Image Thresholding Techniques for Localization of Sub-Resolution Fluorescent Biomarkers", 《CYTOMETRY》 * |
叶丙刚: "高通量基因测序图像处理与数据分析", 《中国博士学位论文全文数据库》 * |
Cited By (15)
Publication number | Priority date | Publication date | Assignee | Title |
---|---|---|---|---|
US11170506B2 (en) | 2018-08-22 | 2021-11-09 | Genemind Biosciences Company Limited | Method for constructing sequencing template based on image, and base recognition method and device |
CN112289377B (zh) * | 2018-08-22 | 2022-11-15 | 深圳市真迈生物科技有限公司 | 检测图像上的亮斑的方法、装置和计算机程序产品 |
CN112289381A (zh) * | 2018-08-22 | 2021-01-29 | 深圳市真迈生物科技有限公司 | 基于图像构建测序模板的方法、装置和计算机程序产品 |
CN112288783A (zh) * | 2018-08-22 | 2021-01-29 | 深圳市真迈生物科技有限公司 | 基于图像构建测序模板的方法、碱基识别方法和装置 |
CN112285070A (zh) * | 2018-08-22 | 2021-01-29 | 深圳市真迈生物科技有限公司 | 检测图像上的亮斑的方法和装置、图像配准方法和装置 |
US12008775B2 (en) | 2018-08-22 | 2024-06-11 | Genemind Biosciences Company Limited | Method and device for image registration, and computer program product |
CN112289377A (zh) * | 2018-08-22 | 2021-01-29 | 深圳市真迈生物科技有限公司 | 检测图像上的亮斑的方法、装置和计算机程序产品 |
US11847766B2 (en) | 2018-08-22 | 2023-12-19 | Genemind Biosciences Company Limited | Method and device for detecting bright spots on image, and computer program product |
WO2020037574A1 (zh) * | 2018-08-22 | 2020-02-27 | 深圳市真迈生物科技有限公司 | 基于图像构建测序模板的方法、碱基识别方法和装置 |
CN112285070B (zh) * | 2018-08-22 | 2022-11-11 | 深圳市真迈生物科技有限公司 | 检测图像上的亮斑的方法和装置、图像配准方法和装置 |
CN112289381B (zh) * | 2018-08-22 | 2021-12-14 | 深圳市真迈生物科技有限公司 | 基于图像构建测序模板的方法、装置和计算机产品 |
WO2021030952A1 (zh) | 2019-08-16 | 2021-02-25 | 深圳市真迈生物科技有限公司 | 碱基识别方法、系统、计算机程序产品和测序系统 |
CN115294035B (zh) * | 2022-07-22 | 2023-11-10 | 深圳赛陆医疗科技有限公司 | 亮点定位方法、亮点定位装置、电子设备及存储介质 |
CN115294035A (zh) * | 2022-07-22 | 2022-11-04 | 深圳赛陆医疗科技有限公司 | 亮点定位方法、亮点定位装置、电子设备及存储介质 |
WO2024016632A1 (zh) * | 2022-07-22 | 2024-01-25 | 深圳赛陆医疗科技有限公司 | 亮点定位方法、亮点定位装置、电子设备及存储介质 |
Also Published As
Publication number | Publication date |
---|---|
CN107945150B (zh) | 2021-11-09 |
WO2018068511A1 (zh) | 2018-04-19 |
WO2018068600A1 (zh) | 2018-04-19 |
HK1247722A1 (zh) | 2018-09-28 |
CN107918931A (zh) | 2018-04-17 |
CN107918931B (zh) | 2021-11-09 |
WO2018068599A1 (zh) | 2018-04-19 |
HK1247724A1 (zh) | 2018-09-28 |
Similar Documents
Publication | Publication Date | Title |
---|---|---|
CN107945150A (zh) | 基因测序的图像处理方法及系统 | |
CN113344849B (zh) | 一种基于YOLOv5的微乳头检测系统 | |
EP3306566B1 (en) | Method and system for processing image | |
EP3785223B1 (en) | Systems and methods for segmentation and analysis of 3d images | |
WO2021226382A1 (en) | Systems and methods for characterizing a tumor microenvironment using pathological images | |
WO2021030952A1 (zh) | 碱基识别方法、系统、计算机程序产品和测序系统 | |
WO2020037573A1 (zh) | 检测图像上的亮斑的方法、装置和计算机程序产品 | |
Pécot et al. | Background fluorescence estimation and vesicle segmentation in live cell imaging with conditional random fields | |
Wang et al. | Identifying neutrophils in H&E staining histology tissue images | |
CN108229098A (zh) | 单分子的识别、计数方法及装置 | |
CN114170212A (zh) | 一种基于ct影像中肺小结节假阳检测方法及系统 | |
He et al. | An automated three-dimensional detection and segmentation method for touching cells by integrating concave points clustering and random walker algorithm | |
CN112364881A (zh) | 一种进阶采样一致性图像匹配算法 | |
CN112289377B (zh) | 检测图像上的亮斑的方法、装置和计算机程序产品 | |
Bouilhol et al. | DeepSpot: A deep neural network for RNA spot enhancement in single-molecule fluorescence in-situ hybridization microscopy images | |
Zhang et al. | A novel concavity based method for automatic segmentation of touching cells in microfluidic chips | |
Kostopoulou et al. | 2D-gel spot detection and segmentation based on modified image-aware grow-cut and regional intensity information | |
CN116977271A (zh) | 缺陷检测方法、模型训练方法、装置及电子设备 | |
RU2656761C1 (ru) | Способ и система сегментации изображений очагов легких | |
Nguyen et al. | Pavement crack detection and segmentation based on deep neural network | |
EP2776975A1 (en) | Methods and apparatus for image analysis using profile weighted intensity features | |
CN108345769A (zh) | 一种整合图像空间信息的基于体素点全基因组关联分析方法 | |
US8600144B2 (en) | Methods and apparatus for image analysis using profile weighted intensity features | |
Arz et al. | 3D cell nuclei segmentation with balanced graph partitioning | |
CN115359040B (zh) | 预测待测对象的组织样本属性的方法、设备和介质 |
Legal Events
Date | Code | Title | Description |
---|---|---|---|
PB01 | Publication | ||
PB01 | Publication | ||
SE01 | Entry into force of request for substantive examination | ||
SE01 | Entry into force of request for substantive examination | ||
REG | Reference to a national code |
Ref country code: HK Ref legal event code: DE Ref document number: 1247720 Country of ref document: HK |
|
CB02 | Change of applicant information |
Address after: 518000 Shenye Jinyuan Building, No. 116 Qingshuihe Road, Qingshuihe Street, Luohu District, Shenzhen City, Guangdong Province, 2 5th and 6th floors Applicant after: Shenzhen Zhenmai Biotechnology Co., Ltd. Address before: 518000 National Supercomputing Shenzhen Center Research Building, No. 9 Tuxue Road, Xili University Town, Nanshan District, Shenzhen City, Guangdong Province, 10th Floor Applicant before: SHENZHEN HANHAI GENE BIOTECHNOLOGY CO., LTD. |
|
CB02 | Change of applicant information | ||
GR01 | Patent grant | ||
GR01 | Patent grant |