< Kaviar >
(~Known VARiants) is a very simple tool for answering a very specific question:
What variants have been reported already for a given specific genomic location?
This is the 2011 version of Kaviar.
Visit
db.systemsbiology.org/kaviar
for latest version.
1. Specify the coordinate system
Human reference version (freeze) is
hg18 (NCBI Build 36.1)
hg19 (GRCh37)
Coordinates are
zero-based
one-based
2. Specify your queries
Enter genomic positions. Not genomic ranges, but rather specific positions you're interested in.
You can use a variety of
supported formats
.
Chromosome:
(e.g. "chr1", "chrX", "17")
Coordinate(s):
(e.g. "42101", "77119, 555911,714019")
Alternatively, list coordinates (e.g. paste here from Excel a list of chromosome : position coordinates):
...or upload a text file with the coordinates:
3. Specify the output format
Preferred output format:
table (easier on human eyes)
text (easier to parse by scripts)
JSON (JavaScript Object Notation)
VCF (Variant Call Format)
4.
Suggestions for improvements are
most welcome
.