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Release Notes
melissacline edited this page Aug 10, 2020
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This page describes the timing of the upcoming releases to the BRCA Exchange data and portal, and documents recent releases. In accordance to the development process, the software development proceeds in specific stages of:
- first prototyping new functionality with wireframes or software prototypes
- then soliciting feedback on those prototypes from the larger BRCA Exchange community, and updating the prototypes and wireframes accordingly
- next developing software to implement the functionality prototyped,
- finally staging a beta release, in which the software is evaluated in its accuracy at implementing the prototyped functionality.
- Released to beta on August 5, 2020
- Released to production on August 12, 2020
- Introduction of structured search query links for searching PubMed and Google.
- Released to beta on July 7, 2020
- Released to production on July 14, 2020
- Integration with the ClinGen Allele Registry
- Released to beta on June 1, 2020
- Released to production on June 8, 2020
- No user-facing features. Data update only.
- Released to beta on April 22, 2020
- Released to production on April 29, 2020
- Integration of gnomAD subpopulation data and 95% Confidence Filter Allele Frequency threshold
- Completed migration to Python 3
- Released to beta on March 5, 2020
- Released to production on March 12, 2020
- Introduction of an API endpoint for the GA4GH Variant Representation Standard (VRS) 1.0
- Released to beta on December 19, 2019
- Released to production on January 2, 2020
- Updated LOVD with Clinical Classification annotations
- HGVS-compliant genomic coordinates
- Released to beta on November 6, 2019
- Released to production on November 13, 2019
- Integration of gnomAD intronic variants
- Integration of a new, generalized back-end pipeline
- Released to beta on August 22, 2019
- Released to production on August 22, 2019
- Integration with gnomAD exonic and splice region variants
- Introduction of the crowdsourcing campaign
- Released to beta on May 22, 2019
- Released to production on May 29, 2019
- Expanded support for previous versions of variants
- Update of the BIC tile to indicate that BIC is no longer actively curated
- Released to beta on April 24, 2019
- Released to production on May 1, 2019
- Updated the documentation organization
- Released to beta on February 26, 2019
- Released to production on March 8, 2019
- Added the Functional Assay tile, with a subtile for the Findlay/Starita functional assay data
- Updated the help text for the Functional Assay and Literature Search data
- Several behind-the-scenes security and performance improvements
- Released to beta on December 18, 2018
- Released to production on January 4, 2019
- Incorporated the first (early) release of literature search results
- Added support for displaying changes from previous versions of LOVD submissions, analogous to the support for ClinVar submissions.
- Released to beta on November 8, 2018
- Released to production on November 15, 2018
- Renamed the portals to Summary View and Detail View
- Group LOVD submissions by variant, submitter and analysis method. Previously, LOVD submissions were grouped by variant and submitter only.
- Released to beta on October 12, 2018
- Released to production on October 19, 2018
- Updated data only, no new portal features
- Released to beta on September 7, 2018
- Released to production on September 14, 2018
- in silico_ prior probabilities for missense variants
- List of the expected synonyms (alternative variant names) expected for each variant
- Released to beta on August 1, 2018
- Released to production on August 8, 2018
- Database performance optimization
- Help text reorganization
- Released to beta on July 5, 2018
- Released to production on July 12, 2018
- Updated LOVD tile and documentation
- Help text tooltips
- Released to beta on June 3, 2018
- Released to production on June 10, 2018
- Release of MuPIT integration
- Update of the transcript visualization tile
- Released to beta on April 27, 2018
- Released to production on May 7, 2018
- Release of the transcript visualization tile
- Release of expanded versioning information, showing updates to individual ClinVar submissions
- Refactoring of the Allele Frequency tile as a nested tile, for improved display properties
- Expanded help text on variant searching, the clinical significance tiles, and the transcript visualization tile
- Released to beta on April 3, 2018
- Released to production on April 10, 2018
- Updated help text, including a new FAQ item describing how BRCA Exchange differs from other variant portals.
- Released to beta on February 23, 2018
- Released to production on March 2, 2018
- Updated data, no UI changes.
- Released to beta on January 26, 2018
- Released to production on February 5, 2018
- Nested clinical significance tiles
- New help material under the expert-reviewed portal
- Released to beta on December 20, 2017
- Released to production on January 3, 2018
- Updated data, no new UI features
- Released to beta on November 29, 2017
- Released to production on December 6, 2017
- Updated data, no new UI features
- Released to beta on October 26, 2017
- Anticipating a release to production on November 2, 2017
- For variants contained in LOVD, added hyperlinks to the original LOVD variant data
- Added functionality to view the scaled allele frequency graphs at the 1% and 0.1% scale
- Released to beta on September 25, 2017
- Released to production on October 2, 2017
- Standardized on the NCBI Entrez gene boundaries, fixing a configuration bug that was pulling in variants outside of the gene from the population frequency repositories (ExAC, 1000 Genomes, ESP).
- For variants contained in ClinVar, added hyperlinks to the original variant data at ClinVar.
- Expanded the search functionality to allow spaces between the gene name (or reference sequence identifier) and variant identifier
- Containerized the pipeline as a Docker container
- Released to beta on August 24, 2017
- Released to production on September 8, 2017
- Splicing data will be generated by the pipeline
- Allele frequency graphs on variant detail pages
- Link to download new splicing data. This will be a separate download from our current download since the data is so different
- Released to beta on August 1, 2017
- Target release to production on August 7, 2017
- Under the Variant Detail pages in the All Public Data portal, the genomic coordinates are now hyperlinked to the UCSC Genome Browser, and its new BRCA Exchange track hub! Credits to Max Haeussler and Zack Fischmann.
- The Facts & Stats pages now offers graphs showing the breakdown of variants by expert review status.
- Max allele frequency is now calculated from the subpopulations in ExAC, 1000 Genomes and ESP, as the largest of any reference population allele frequency.
- Max allele frequency is now one of the default columns in the All Public Data portal, replacing Allele Frequency (which is still available as an optional field)
- Released to beta on June 26, 2017
- Target release to production on June 30, 2017
- Adds content from ExAC Minus TCGA: allele frequencies, allele counts, allele numbers, and homozygous allele counts for the subpopulations AFR, AMR, EAS, FIN, NFE, OTH, SAS.
- Released to beta on May 24, 2017
- Target release to production on May 31, 2017
- Adds the LOVD fields Variant Effect, Genetic Origin, Submitters, Functional Analysis Method and Functional Analysis Result. Many thanks to the LOVD team!
- Adds the Show / Hide Column Section buttons to the All Public Data portal.
- Makes column selection and filter selection persistent between sessions.
- Adds the Restore Defaults button to restore default settings for column selection and filters.
- Released to beta on April 24, 2017
- Target release to production on May 1, 2017
- New tiled user interface for the variant details pages
- New Facts & Stats page
- Released to beta on March 22, 2017
- Target release to production on March 29, 2017
- Back-end refactoring
- Released to beta on February 21, 2011
- Target release to production on March 1, 2017
- Updates the data
- Adds the video to the home page
- Adds the Data Submission Policy
- Released to beta on December 12, 2016
- Released to production on January 6, 2017
- An interface to allow users to see how the data on a variant has been changing, implementing the Versioning 2.0 wireframes.
- Released to beta on November 3, 2016
- Released to production on November 8, 2016
- An interface to allow users to download previous versions of the download data, implementing the Versioning 1.0 wireframes.
- Release notes outlining what major changes have been made to the variant data since the previous release, and showing the provenance of that data.
- Updated data
- Data generated by automated execution of Luigi scripts.
- Support GA4GH APIs, along with a help page on how to use these APIs
- Released to beta on Aug 30, 2016
- Released to production on Sept 12, 2016
- A world map showing the geographic locations of the community members
- Ability for users to register their accounts and log in to change account information
- Automated email notification when users create new accounts
- Password recovery
- Updated navigation bar at top of screen
- For reference here is a link to the wireframes
- Released to beta on Aug 18, 2016
- Released to production on Aug 29, 2016
- Replaces the previous Default Mode / Research Pages toggle on the menu bar with a new Expert Reviewed / All Public Data toggle in the upper text box on the Variants page.
- Provides specific user interface features in Expert Reviewed mode as outlined in the Expert Reviewed Wireframes
- Updated wording on the front page
Note: We had anticipated updating the variant data with this release. We have had to delay the update to ensure the quality of the data to be released. We anticipate having new data available near the beginning of September.