CN109656910A - Expansible Large Scale Biology medicine sample management and Visualization Platform - Google Patents
Expansible Large Scale Biology medicine sample management and Visualization Platform Download PDFInfo
- Publication number
- CN109656910A CN109656910A CN201811487666.9A CN201811487666A CN109656910A CN 109656910 A CN109656910 A CN 109656910A CN 201811487666 A CN201811487666 A CN 201811487666A CN 109656910 A CN109656910 A CN 109656910A
- Authority
- CN
- China
- Prior art keywords
- platform
- sample
- user
- large scale
- data
- 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
Landscapes
- Information Retrieval, Db Structures And Fs Structures Therefor (AREA)
Abstract
The present invention is expansible Large Scale Biology medicine sample Visualization Platform.The platform includes sample statistics module, visualization model, retrieval module and mongodb Database Systems.User logs in the platform and carries out identity and Authority Verification, and after user completes Authority Verification, user uploads to platform addition data information.Quality examination is carried out to the data information of addition, mongodb Database Systems are stored in by the data information of quality examination.User checks the statistics of search result by sample information present in many condition integrated retrieval mongodb database.After search complete, the platform counts sample searches result, is presented to the user in the form of Visual Chart etc..The present invention is directed to magnanimity biomedicine sample, realizes more easily distributed deployment and expansible storage, while can provide more easily operation, greatly improves biomedical sample management and service efficiency.
Description
Technical field
It is a kind of expansible Large Scale Biology medicine sample management and visual the present invention relates to biology or medical domain
Change platform.
Background technique
It is also more and more about biomedical data with the rapid development of modern biomedical, wherein very crucial
A part of data are the data about biomedical sample.These data are all derived from the data of true organism, for doctor
Learning will be of great significance with the research in biological field.So being one for the management of biomedical sample is worth closing
The problem of note.
Current domestic most of management or searching platform with biology and medicine relevant information is all based on documentation management,
Lack the management platform specifically for biomedical sample, so the biomedical sample management platform established in this patent can
Sample information is preferably managed, and researcher is helped preferably to utilize associated biomolecule medicine sample information.
It is most of in existing sample database system to use relevant database, such as mysql.Relevant database is
A kind of database that comparison is classical, but there is some problems for its performance in storage size and scalability.When needs are deposited
When storing up mass data, traditional database is difficult to carry out the extension of convenient distributed deployment and storage, this is just to open ended
Data scale is limited.And it after the data volume in relevant database becomes larger, is operated on the database
Speed and efficiency can be greatly reduced, and influence the usage experience of sample database system.So how to use novel storage management technique
It is a good problem to study to improve the operating efficiency of platform.This patent in order to solve problem above, using novel
Non-relational database can not only very easily be extended data storage, and can optimize the effect of database manipulation
Rate promotes the experience of user.
In addition to this, the quality of sample is irregular in most of sample database systems, believes the sample entered in sample database
Breath lacks corresponding inspection and control, it is difficult to the user of system be allowed to obtain really valuable data.This patent is directed to this
Problem, sample storage during joined sample quality detection link, improved by the inspection to sample data into
Enter into sample database the quality of sample information.
In most of sample databases, the form of retrieval is relatively simple, can only be retrieved according to certain items or certain conditions,
Search terms and retrieval form cannot be freely selected, can sometimes be difficult to meet the various demands of user.In search result,
Also lack corresponding statistics and visualization, it cannot be more vivid, whole to sample results are searched to system user offer one
Assurance.
Summary of the invention
The present invention be in order to keep the management of magnanimity biomedicine sample more convenient with it is efficient, provide a kind of expansible
Large Scale Biology medicine sample management and Visualization Platform, the present invention provides following technical schemes:
A kind of expansible Large Scale Biology medicine sample management and Visualization Platform, the platform includes sample statistics mould
Block, visualization model, retrieval module and mongodb database, the platform intergration integrate mongodb database, mongodb number
It is responsible for the functions such as newly-increased of the storages of data, sample data according to library.
Preferably, the platform carries out the control of the quality of data using xml schema technology to different data item.
Preferably, the platform uses xml technical definition sample metadata, and the platform uses the file of excel form
Carrier as sample data information.
Preferably, by increasing the Key-Value of mongodb database, increasing data information amount and improving operating efficiency.
A kind of expansible Large Scale Biology medicine sample management and Visualization Platform operating method, include the following steps:
Step 1: user logs in expansible Large Scale Biology medicine sample management and Visualization Platform and carries out identity and power
Limit verifying；
Step 2: after user completes Authority Verification, user uploads to platform addition data information；
Step 3: quality examination is carried out to the data information of addition, is not stored in by the data information of quality examination
Mongodb database is returned to client and corrects mistake, is stored in mongodb database by the data information of quality examination；
Step 4: user checks retrieval knot by sample information present in many condition integrated retrieval mongodb database
The statistics of fruit；
Step 5: after search complete, expansible Large Scale Biology medicine sample management and Visualization Platform search sample
Hitch fruit is counted, and is presented to the user in the form of Visual Chart.
Preferably, many condition integrated retrieval by realize any search terms combination and with or non-form carry out
Conjunctive search.
The invention has the following advantages:
1, the platform uses the non-relational database mongodb towards big data, with traditional Relational DataBase phase
Than the sample of more big data quantity can be accommodated, and it can be realized the extension of more easily distributed deployment and storage, while can be real
Now operation faster, greatly improves the service efficiency of platform.
2, the platform can be realized the quality control of sample.It can be to upload sample file during sample storage
In sample data checked, avoid sample from lacking excessive data or the format using mistake, can protect to a certain extent
The sample quality in database is demonstrate,proved, platform user is enabled preferably to utilize sample data.
3, the platform can be realized many condition integrated retrieval of sample.Compared with other manage platform, the inspection of this platform
Rope module can be supplied to user and freely add the function of search terms, and can be realized search for generally and " with or it is non-" logic
Search, enables this platform more to meet the different search needs of user.
4, the statistics and visualization of sample data can be better achieved in the platform.This platform is equipped with the system of sample data
Meter and visualization model, can not only provide various types of sample statistics information, and it is visually more intuitive to be able to use family
Understand platform in sample distribution situation.
Detailed description of the invention
Fig. 1 is expansible Large Scale Biology medicine sample management and Visualization Platform flow chart.
Specific embodiment
Below in conjunction with specific embodiment, describe the invention in detail.
Specific embodiment one:
A kind of expansible Large Scale Biology medicine sample management and Visualization Platform, it is characterized in that: the platform includes
Sample statistics module, visualization model, retrieval module and mongodb database, the platform are connected with mongodb database
It connects.
The platform uses non-relational database mongodb to be responsible for the storage managements of data, sample data it is new
Increase and other operations are all responsible for by mongodb.According to there was only a database server, in the future basis in current demand cluster
The raising that the increase of data volume and operating efficiency require can further increase the quantity of database server in cluster to extend
The storage of data, meanwhile, further progress data backup and load balancing, thus further lifting system reliability and available
Property.
The platform can be realized the quality control of sample.It can be in upload sample file during sample storage
Sample data checked, avoid sample from lacking excessive data or the format using mistake, can guarantee to a certain extent
Sample quality in database enables platform user preferably to utilize sample data.
The platform can be realized many condition integrated retrieval of sample.Compared with other manage platform, the retrieval of this platform
Module can be supplied to user and freely add the function of search terms, and can be realized search for generally and " with or it is non-" logic search
Rope enables this platform more to meet the search need of user.
The statistics and visualization of sample data can be better achieved in the platform.This platform is equipped with the statistics of sample data
And visualization model, various types of sample statistics information can not only be provided, it is visually more intuitive to be able to use family
Understand the distribution situation of sample in platform.
Specific embodiment two:
A kind of expansible Large Scale Biology medicine sample management and Visualization Platform operating method, include the following steps:
Step 1: user logs in expansible Large Scale Biology medicine sample management and Visualization Platform and carries out identity and power
Limit verifying；
Step 2: after user completes Authority Verification, user uploads to platform addition data information；
Step 3: quality examination is carried out to the data information of addition, is not stored in by the data information of quality examination
Mongodb database is returned to client and corrects mistake, is stored in mongodb database by the data information of quality examination；
Step 4: user checks retrieval knot by sample information present in many condition integrated retrieval mongodb database
The statistics of fruit.
Step 5: after search complete, expansible Large Scale Biology medicine sample Visualization Platform is to sample searches result
It is counted, is presented to the user in the form of Visual Chart.
It needs to log in this platform using the user of this platform and carries out identity and Authority Verification.Different accounts can assign difference
Permission, different permissions can be able to carry out different operations, to guarantee the safety of sample data.
After completing identity authority verifying, there is the user of corresponding authority that can add sample data into platform.For side
Just user uses this platform, this platform uses carrier of the form as sample information of excel file, user only need by
Sample information is filled into excel table according to specification and completes the upload of sample file in interface.For specification sample
The quality of this information, this platform have made corresponding excel template to sample information uploader, and user can be under respective interface
It carries template and uses.The template that is there is provided using this platform upload sample information enable to the sample uploaded have better quality and
Higher inspection percent of pass.
It can be to the information progress quality examination of sample in upper transmitting file during upload.Here this platform uses xml
Schema technology to carry out different data item the control of the quality of data, and the technology is it can be found that the data item lacked in sample
With do not meet data item as defined in data format.If the sample information in the sample file uploaded is not examined by sample quality
It looks into, the sample information in this document will not be put in storage, and the information that specification is not met in sample can be returned to user by platform
Sample information mistake is corrected for user, if sample information has passed through sample quality inspection, which can be added into database
In.The present invention increases data information amount and improves operating efficiency by the Key-Value of increase mongodb database.
User can retrieve sample information present in platform database.This platform provides a variety of retrieval modes,
May be implemented any search terms combination and " with or it is non-" form carry out conjunctive search, user can choose think it is to be used
Search terms and search form carry out the retrieval of sample.After the completion of search, this platform can carry out a letter to sample searches result
Single statistics, such as the statistics of gender and Sample preservation mechanism, are then presented to the user in a manner of Visual Chart.
Other than way of search, user can carry out the statistics of diversified forms and visual for the data in entire platform
Change checks, such as: count the sample distribution situation between Sample preservation different from visualizing mechanism and each Sample preservation machine
Sample distribution situation inside structure, statistics is with visualization sample in national distribution situation etc..
The above is only the preferred embodiment of expansible Large Scale Biology medicine sample management and Visualization Platform,
The protection scope of expansible Large Scale Biology medicine sample management and Visualization Platform is not limited merely to above-described embodiment, all
The technical solution belonged under thinking all belongs to the scope of protection of the present invention.It should be pointed out that for those skilled in the art
For, several improvements and changes without departing from the principles of the present invention, such modifications and variations also should be regarded as of the invention
Protection scope.
Claims (6)
1. a kind of expansible Large Scale Biology medicine sample management and Visualization Platform, it is characterized in that: the platform includes sample
This statistical module, visualization model, retrieval module and mongodb database, the platform are connected with mongodb database,
Mongodb database be responsible for the storage of data, sample data it is newly-increased.
2. one kind according to claim 1 expansible Large Scale Biology medicine sample management and Visualization Platform, special
Sign is: the platform carries out data quality control to different data item using xml schema technology.
3. one kind according to claim 1 expansible Large Scale Biology medicine sample management and Visualization Platform, special
Sign is: the platform adopts xml technical definition metadata, and the platform is using excel formal file as sample data information
Carrier.
4. one kind according to claim 1 expansible Large Scale Biology medicine sample management and Visualization Platform, special
Sign is: the Key-Value by increasing mongodb database, increases data information amount and improves operating efficiency.
5. a kind of expansible Large Scale Biology medicine sample management and Visualization Platform operation side as described in claim 1
Method, it is characterized in that: including the following steps:
Step 1: user logs in expansible Large Scale Biology medicine sample management and Visualization Platform progress identity and permission and tests
Card；
Step 2: after user completes Authority Verification, user uploads to platform addition data information；
Step 3: quality examination is carried out to the data information of addition, mongodb is not stored in by the data information of quality examination
Database is returned to client and corrects mistake, is stored in mongodb database by the data information of quality examination；
Step 4: user checks search result by sample information present in many condition integrated retrieval mongodb database
Statistics；
Step 5: after search complete, expansible Large Scale Biology medicine sample management and Visualization Platform are to sample searches knot
Fruit is counted, and is presented to the user in the form of Visual Chart.
6. operating method according to claim 5, it is characterized in that: many condition integrated retrieval is by realizing any retrieval
Combination and with or non-form carry out conjunctive search.
Priority Applications (1)
| Application Number | Priority Date | Filing Date | Title |
|---|---|---|---|
| CN201811487666.9A CN109656910B (en) | 2018-12-06 | 2018-12-06 | Extensible large-scale biomedical sample management and visualization platform |
Applications Claiming Priority (1)
| Application Number | Priority Date | Filing Date | Title |
|---|---|---|---|
| CN201811487666.9A CN109656910B (en) | 2018-12-06 | 2018-12-06 | Extensible large-scale biomedical sample management and visualization platform |
Publications (2)
| Publication Number | Publication Date |
|---|---|
| CN109656910A true CN109656910A (en) | 2019-04-19 |
| CN109656910B CN109656910B (en) | 2021-04-13 |
Family
ID=66112703
Family Applications (1)
| Application Number | Title | Priority Date | Filing Date |
|---|---|---|---|
| CN201811487666.9A Active CN109656910B (en) | 2018-12-06 | 2018-12-06 | Extensible large-scale biomedical sample management and visualization platform |
Country Status (1)
| Country | Link |
|---|---|
| CN (1) | CN109656910B (en) |
Cited By (1)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| CN112699161A (en) * | 2019-10-23 | 2021-04-23 | 上海磐门信息科技有限公司 | Medical statistical system and method |
Citations (4)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| CN104933112A (en) * | 2015-06-04 | 2015-09-23 | 浙江力石科技股份有限公司 | Distributed Internet transaction information storage and processing method |
| CN107066531A (en) * | 2017-03-01 | 2017-08-18 | 苏州朗动网络科技有限公司 | A kind of business data radar monitoring method and system based on enterprise's big data platform |
| CN107066532A (en) * | 2017-03-01 | 2017-08-18 | 苏州朗动网络科技有限公司 | A kind of method and system for generating enterprise's transverse and longitudinal graph of a relation |
| US20180218114A1 (en) * | 2017-01-31 | 2018-08-02 | Onramp Bioinformatics, Inc. | Method for managing complex genomic data workflows |
-
2018
- 2018-12-06 CN CN201811487666.9A patent/CN109656910B/en active Active
Patent Citations (4)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| CN104933112A (en) * | 2015-06-04 | 2015-09-23 | 浙江力石科技股份有限公司 | Distributed Internet transaction information storage and processing method |
| US20180218114A1 (en) * | 2017-01-31 | 2018-08-02 | Onramp Bioinformatics, Inc. | Method for managing complex genomic data workflows |
| CN107066531A (en) * | 2017-03-01 | 2017-08-18 | 苏州朗动网络科技有限公司 | A kind of business data radar monitoring method and system based on enterprise's big data platform |
| CN107066532A (en) * | 2017-03-01 | 2017-08-18 | 苏州朗动网络科技有限公司 | A kind of method and system for generating enterprise's transverse and longitudinal graph of a relation |
Cited By (1)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| CN112699161A (en) * | 2019-10-23 | 2021-04-23 | 上海磐门信息科技有限公司 | Medical statistical system and method |
Also Published As
| Publication number | Publication date |
|---|---|
| CN109656910B (en) | 2021-04-13 |
Similar Documents
| Publication | Publication Date | Title |
|---|---|---|
| CN102708136B (en) | The index to feature and search including the use of reusable index field | |
| Holzschuher et al. | Performance of graph query languages: comparison of cypher, gremlin and native access in neo4j | |
| CN105701098B (en) | The method and apparatus for generating index for the table in database | |
| CN104737154B (en) | Related information broadcasting system | |
| Haarbrandt et al. | Automated population of an i2b2 clinical data warehouse from an openEHR-based data repository | |
| US8412735B2 (en) | Data quality enhancement for smart grid applications | |
| CN103631842B (en) | For detecting the method and system of multiple row compound keys row set | |
| Howe et al. | Database-as-a-service for long-tail science | |
| CN106055621A (en) | Log retrieval method and device | |
| Wu et al. | Differential diagnosis model of hypocellular myelodysplastic syndrome and aplastic anemia based on the medical big data platform | |
| Vera et al. | Data modeling for NoSQL document-oriented databases | |
| CN105653559A (en) | Method and device for searching in database | |
| CN103488671A (en) | Method and system for querying and integrating structured and instructured data | |
| CN105556474B (en) | Manage the memory and memory space of data manipulation | |
| CN104050223A (en) | Pivot facets for text mining and search | |
| CN106021260A (en) | Method and system to search for at least one relationship pattern in a plurality of runtime artifacts | |
| CN108536692A (en) | A kind of generation method of executive plan, device and database server | |
| US11887013B2 (en) | System and method for facilitating model-based classification of transactions | |
| AU2014101659A4 (en) | Metadata automated system | |
| US10171311B2 (en) | Generating synthetic data | |
| Bekhuis et al. | Towards automating the initial screening phase of a systematic review | |
| CN109656910A (en) | Expansible Large Scale Biology medicine sample management and Visualization Platform | |
| O’hare et al. | High-value token-blocking: efficient blocking method for record linkage | |
| CN110222102A (en) | The data management system and method for rocket engine ground test | |
| KR20220152505A (en) | Managing method for EHR based on block chain |
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 | ||
| GR01 | Patent grant | ||
| GR01 | Patent grant |