Note: This track on hg19 has been frozen in its current state and will receive no further updates. The hg38 version of this track is regularly updated to reflect the most recent DECIPHER release.
Description
NOTE:
Decipher is not updating hg19 anymore. This data is outdated. New Decipher data will not appear on hg19. Please use the hg38 track !
To go to the corresponding location in hg38 now, go back to the chromosome
view, click in the menu bar "View > In other Genomes" and select the hg38
assembly.
Data Display Agreement Notice
These data are only available for display in the Browser, and not for bulk
download. Access to bulk data may be obtained directly from DECIPHER
(https://www.deciphergenomics.org/about/data-sharing) and is subject to a
Data Access Agreement, in which the user certifies that no attempt to
identify individual patients will be undertaken. The same restrictions
apply to the public data displayed at UCSC in the UCSC Genome Browser;
no one is authorized to attempt to identify patients by any means.
These data are made available as soon as possible and may be a
pre-publication release. For information on the proper use of DECIPHER
data, please see https://www.deciphergenomics.org/about/data-sharing.
The DECIPHER consortium provides these data in good faith as a research
tool, but without verifying the accuracy, clinical validity, or utility of
the data. The DECIPHER consortium makes no warranty, express or implied,
nor assumes any legal liability or responsibility for any purpose for
which the data are used.
The
DECIPHER
database of submicroscopic chromosomal imbalance
collects clinical information about chromosomal
microdeletions/duplications/insertions, translocations and inversions,
and displays this information on the human genome map.
This track shows genomic regions of reported cases and their
associated phenotype information. All data have passed the strict
consent requirements of the DECIPHER project and are approved for
unrestricted public release. Clicking the Patient View ID link
brings up a more detailed informational page on the patient at the
DECIPHER web site.
Display Conventions and Configuration
The genomic locations of DECIPHER variants are labeled with the DECIPHER variant descriptions.
Mouseover on items shows variant details, clinical interpretation, and associated conditions.
Further information on each variant is displayed on the details page by a click onto any variant.
For the CNVs track, the entries are colored by the type of variant:
- red for loss
- blue for gain
- grey for amplification
A light-to-dark color gradient indicates the clinical significance of each variant, with
the lightest shade being benign, to the darkest shade being pathogenic. Detailed information on the
CNV color code is described here.
Items can be filtered according to the size of the variant, variant type, and clinical significance
using the track Configure options.
For the SNVs track, the entries are colored according to the estimated clinical significance
of the variant:
- black for likely or definitely pathogenic
- dark grey for uncertain or unknown
- light grey for likely or definitely benign
Method
Data provided by the DECIPHER project group are imported and processed
to create a simple BED track to annotate the genomic regions associated
with individual patients.
Contact
For more information on DECIPHER, please contact
contact@deciphergenomics.
org
References
Firth HV, Richards SM, Bevan AP, Clayton S, Corpas M, Rajan D, Van Vooren S, Moreau Y, Pettett RM,
Carter NP.
DECIPHER: Database of Chromosomal Imbalance and Phenotype in Humans Using Ensembl Resources.
Am J Hum Genet. 2009 Apr;84(4):524-33.
PMID: 19344873; PMC: PMC2667985
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