Core Technology Development Team Meeting
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1 Core Technology Development Team Meeting To hear the meeting, you must call in Toll-free phone number: Access Code: For international call in numbers, please visit:
2 Agenda v Updates regarding action items v Discussion of generating and embedding metadata submission template - CEDAR v Updates from all teams Supported by the NIH grant 1U24 AI to the University of California, San Diego 2
3 Updates- action items v Review the CEDAR template document and provide feedback via commenting; v Put CEDAR folks in touch with a biocaddie curator who can start working with CEDAR templates Supported by the NIH grant 1U24 AI to the University of California, San Diego 3
4 biocaddie metadata submission form v Use case : submission of metadata to Datamed for indexing by: 1. Repositories 2. Individual researchers v Can CEDAR template be used? v Can CEDAR template be downloaded and embedded on DataMed website? Supported by the NIH grant 1U24 AI to the University of California, San Diego 4
5 Issues Aggregated in GitHub from those reported via GitHub, Contact Us form and Questionnaire Total Issues 82 Number Open 46 Number Closed 36 Associated with v0.5 Number of Bugs Number of Enhancements Number of QuesFons Number Open 35 Number Closed 23 Number Open 2 Number Closed 3 Number Open 18 Number Closed 10 Number Open 5 Number Closed 3 Supported by the NIH grant 1U24 AI to the University of California, San Diego 5
6 Ongoing work Task Supported by the NIH grant 1U24 AI to the University of California, San Diego Status 1 Metadata Ingestion 1.1 Import repositories expansion to be discussed at EC/WG6 Ongoing 1.2 Data repository suggestion form at biocaddie/datamed - to be discussed at EC 1.3 Metadata mapping review/ reconciliation between curators Ongoing Metadata management Ongoing 1.4 a. License/Access information b. HIVE 1.5 Indexing Ongoing 1.6 NLP-based indexing : Gene/protein, Disease, Drug/chemical, Evaluation Biological process, Organism, Format, Access, Cell types phase 1.7 Indexing data papers 2 Terminology server 2.1 Develop terminology server 10/ Integrate terminology server (UI) 01/ Integrate terminology server (Indexing) Ongoing 2.4 Spelling correction Not Started 6
7 Ongoing work Task Status 4 Interface Design 4.1 Global statistics : link to data types/pilots) Not Started 4.2 Design interface Ongoing 4.3 Implement new design Ongoing 4.4 Breadcrumb for website navigation Ongoing 4.5 Display most Accessed Datasets Not Started 4.6 Integration of Tableau visualization Ongoing 5 Personalized search 5.1 Search history Implemented 5.2 Share search results: Export function to citation managers; copy citation to clipboard Not Started 5.4 User account : collections Not Started 5.5 Privacy policy statement - - to be discussed at EC Implemented 5.6 Search on any column by clicking on column header Not Started 6 Searching/Ranking algorithms 6.1 Similar datasets to be expanded Not Started 6.2 Refine search results based on user s selection Not Started Supported by the NIH grant 1U24 AI to the University of California, San Diego 7
8 Ongoing work Task Status 7 Display of results 7.1 Sort datasets author, published date, repository, title Not Started 7.2 What fields should be displayed? Ongoing 7.3 Browsing (grouping facets/metadata) Implemented 7.4 Accessibility information Ongoing 7.5 Allow users to select multiple repositories Implemented 7.6 Improve faceted browsing Ongoing 7.7 Display all records from one repository Not started 7.8 Select number of results per page Not started 7.9 Additional filters Not started 8 Link to external resources 8.1 Pubmed: click through to pubmed records of citing publications: copy citation to clipboard Not Started 8.2 Grants Implemented 9 Feedback 9.1 GitHub Implemented 9.2 Feedback form Implemented Supported by the NIH grant 1U24 AI to the University of California, San Diego 8
9 Ongoing work Task Status 10 Documentation 10.1 Source code Not Started 10.2 Tutorials Not Started 10.3 Help menu Not Started 11 Usability studies 11.1 UI Analysis Completed 11.2 User studies Ongoing 12 Data Duplication issue 13 Generation of benchmark for the dataset 13.1 Select search engine: Lucene, Terrier, Indri Completed 13.2 Dump elasticsearch data into JSON file and convert JSON file to XML format Completed 13.3 Install Indri, Lucene, Terrier, Semantic Vectors Completed 13.4 Execute designed queries To be started 14 Relationship Network Graph 15 Collaborative research support Supported by the NIH grant 1U24 AI to the University of California, San Diego 9
10 Other issues v Please deposit codes in GitHub. Please contact me at Anupama.E.Gururaj@uth.tmc.edu if you need access v Review the CEDAR template document and provide feedback via commenting v Put CEDAR in touch with a biocaddie curator who can start working with CEDAR templates v Any other issues? v Thank You
Core Technology Development Team Meeting
Core Technology Development Team Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Core Technology Development Team Meeting
Core Technology Development Team Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Core Technology Development Team Meeting
Core Technology Development Team Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Core Technology Development Team Meeting
Core Technology Development Team Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Core Technology Development Team Meeting
Core Technology Development Team Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Core Technology Development Team Meeting
Core Technology Development Team Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Core Technology Development Team Meeting
Core Technology Development Team Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Core Technology Development Team Meeting
Core Technology Development Team Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Core Technology Development Team Meeting
Core Technology Development Team Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Core Technology Development Team Meeting
Core Technology Development Team Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Executive Committee Meeting
Executive Committee Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Core Technology Development Team Meeting
Core Technology Development Team Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Core Technology Development Team Meeting
Core Technology Development Team Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Core Technology Development Team Meeting
Core Technology Development Team Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Steering Committee Meeting
Steering Committee Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Core Technology Development Team Meeting
Core Technology Development Team Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Executive Committee Meeting
Executive Committee Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
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Core Technology Development Team Meeting
Core Technology Development Team Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Core Technology Development Team Meeting
Core Technology Development Team Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Steering Committee Meeting
Steering Committee Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please isit: https://www.readytalk.com/account-administration/international-numbers
Core Technology Development Team Meeting
Core Technology Development Team Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Core Technology Development Team Meeting
Core Technology Development Team Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
Executive Committee Meeting
Executive Committee Meeting To hear the meeting, you must call in Toll-free phone number: 1-866-740-1260 Access Code: 2201876 For international call in numbers, please visit: https://www.readytalk.com/account-administration/international-numbers
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Core Technology Development Team Meeting
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Steering Committee Meeting
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