Description
The tracks listed here contain data from the
nstd186 (NCBI Curated Common Structural Variants) study. This is a collection of structural
variants (SV) originally submitted to dbVar which are part of a study with at least 100 samples and
have an allele frequency of >=0.01 in at least one population. The complete dataset is imported
from these common-population studies:
gnomAD Structural Variants
(nstd166):
Catalog of SVs detected from the sequencing of the complete genome of 10,847 unrelated
individuals from the GnomAD v2.1 release.
1000 Genomes Consortium Phase 3 Integrated SV
(estd219):
Structural variants of the 1000 Genomes project Phase 3 as reported in a separate article
specifically dedicated to the analysis of SVs. Many of these data are identical to those reported
in the estd214 study.
DECIPHER Common CNVs
(nstd183):
Consensus set of common population CNVs selected from high-resolution controls sets where frequency
information is available.
There are two tracks in this collection:
Display Conventions
These tracks are multi-view composite tracks that contain multiple data types (views). Each view
within a track has separate display controls, as described
here. Some dbVar tracks
contain multiple subtracks, corresponding to subsets of data. If a track contains many subtracks,
only some subtracks will be displayed by default. The user can select which subtracks are displayed
via the display controls on the track details page.
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, as well as in the
dbVar Track Hub, where additional subtracks are included. For questions about
dbVar track data, please contact
dbvar@ncbi.
nlm.
nih.
gov.
Credits
Thanks to the dbVAR team at NCBI, especially John Lopez and Timothy Hefferon for technical
coordination and consultation, and to Christopher Lee, Anna Benet-Pages, and Daniel Schmelter 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.
DbVar and DGVa: public archives for genomic structural variation.
Nucleic Acids Res. 2013 Jan;41(Database issue):D936-41.
PMID: 23193291; PMC: PMC3531204
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