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 of last meeting action items v biocaddie All-Hands meeting v Brief updates from All 2
3 Updates Action Items v Visit datamed.biocaddie.org and provide feedback via the prototype_issues repository in GitHub v Metadata management issues to be entered in issues under WG3- MetadataSpecifications Jeff/Alejandra/Philippe v Ajay Pillai (Program manager, LINCS) to coordinate a meeting to discuss LINCS-bioCADDIE collaborative accomplishments during the BD2K and/or the biocaddie All-Hands Meeting - Ron 3
4 biocaddie AHM v v v Face-to-face meeting with the LINCS group? v slide upload unsuccessful v notes? Jeff AHM - a preliminary agenda, discussion items and deliverables Meeting with the CEDAR (Center for Expanded Data Annotation and Retrieval) group v a tighter technical connection with what s going on in BioCADDIE. v exchange ideas v interaction between the respective projects in the long run. v Interaction between the respective software-engineering teams Head count 4
5 work Task 1 Terminology server Develop terminology server 1) Create UI-Browser for TS; integration 1.1 to Scigraph API 2) Create auto complete feature; Integrate terminology server 2 Integration of Pilot Project 2.1 pp 1.1 GWAS Finder; %20cancer&datasource=0001&SessionName=hcnhoh4etoginht0cf q0nlhf pp 2.2 isee-delve; %20cancer&datasource=0002&SessionName=hcnhoh4etoginht0cf q0nlhf81 pp 2.1 DataRank; ranking by citation count Completed 2.3 function for GEO (series data only) 2.4 pp 3.2 PDB Status Finished - PDB GEO,LINCS 5
6 work Task Status 3 Core UI 3.1 Design interface/implementation 3.2 Add global statistics Completed 3.3 Add search history function Completed 3.4 Link dataset to PubMed Completed 3.5 List similar dataset 3.6 Search Data repositories - Discussion 3.7 Display most Accessed Datasets Not Started 3.8 Group metadata for each dataset Not Started 3.6 Verify duplicate data repositories Not Started 3.7 Refine search results based on user's search history Not Started 3.8 Allow Boolean search Not Started 3.9 Add feedback form Not Started 4 Server Access 4.1 VPN access to all developers Completed 5 Elastic Search Aggregations - Discussion 6
7 work Task ElasticSearch Endpoint Developers have access to API keys ElasticSearch EndPoint Documentation Updates being added to GitHub wiki ElasticSearch Endpoint Enhancements Have requested additional storage for end-point Have written procedures to manage internal (marvel) indices Installed and tested ES plugins Data Ingestion Pipeline ü Cross data source transformations algorithms updated ü Determine best practices for versioning of index deployments Reconciliation of indices with WG3 metadata model Data Set Ingestion PDB/GEO: re-indexed LINCS: met LINCS team and will move to use their new APIs dbgap, BioProject: Currently in-process ICPSR: Scheduled discussion with George s group. Already in contact regarding data access Due Operational Deployed 7
8 Other issues v Harvester PP presentations: w Guoqian Jiang, Mayo Clinic College of Medicine : Feasibility Study of Indexing Clinical Research Data Using HL7 FHIR, October 13 th w Christopher Mungall, Lawrence Berkeley National Laboratory: Distributed data discovery using GYM: GitHub, YAML and Markdown, October 20 th w Ramkiran Gouripeddi, University of Utah: Metadata Discovery and Integration to Support Repurposing of Heterogeneous Data using the OpenFurther Platform, October 27 th
9 Other issues v Please deposit codes in GitHub. Please contact me at Anupama.E.Gururaj@uth.tmc.edu if you need access 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
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
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
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
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
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
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
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
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
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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
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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
Executive Committee Meeting
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