40710f848501eb48692babdc889a513f3dcda7ef abenetpa Fri Sep 25 09:01:51 2020 -0700 improved color code descriptions refs #25424 diff --git src/hg/makeDb/trackDb/human/dbVarCommon.html src/hg/makeDb/trackDb/human/dbVarCommon.html index a386a35..f619a9a 100644 --- src/hg/makeDb/trackDb/human/dbVarCommon.html +++ src/hg/makeDb/trackDb/human/dbVarCommon.html @@ -43,42 +43,49 @@ Variants with AF >= 0.01 for Global Population.
  • NCBI Curated Common SVs: all populations from gnomAD - Variants with AF >= 0.01 from gnomAD Structural Variants.
  • NCBI Curated Common SVs: all populations from 1000 Genomes - Variants with AF >= 0.01 from 1000 Genomes Consortium Phase 3 Integrated SV.
  • NCBI Curated Common SVs: all populations from DECIPHER - Variants with AF >= 0.01 from DECIPHER Consensus CNVs.

    • Display Conventions and Configuration

    -Items in all subtracks follow the same conventions: items are shaded according to variant type. +Items in all subtracks follow the same conventions: items are colored by variant type, and are +based on the dbVar colors described in the +dbVar Overview page. Red for copy number loss or deletion, -blue for copy number gain or duplication and -violet for copy number variation. Mouseover on items indicates -Allele Frequencies (AF). All tracks can be filtered according to the Variant Size and Variant Type. +blue for copy number gain or duplication, and +violet for copy number variation. +

    + +

    +Mouseover on items indicates genes affected, size, variant type, and allele frequencies (AF). +All tracks can be filtered according to the Variant Size and Variant Type. +

    Data Access

    The raw data can be explored interactively with the Table Browser, or the Data Integrator. For automated analysis, the data may be queried from our REST API. -The data can also be found directly from the dbVar nstd186 data access. For questions about dbVar track data, please contact dbvar@ncbi.nlm.nih.gov.

    Credits

    Thanks to the dbVAR team at NCBI, especially Timothy Hefferon for technical coordination and consultation, and to Christopher Lee, Anna Benet-Pages, and Maximilian Haeussler of the Genome Browser team for engineering the track display.

    References

    Lappalainen I, Lopez J, Skipper L, Hefferon T, Spalding JD, Garner J, Chen C, Maguire M, Corbett M, Zhou G et al.