# RGD-PIPELINE: ftp-file-extracts # MODULE: variants-ver-1.0.1 # GENERATED-ON: 2021/04/10 # PURPOSE: non-synonomous variants for rat strains, extracted from RGD database # CONTACT: rgd.data@mcw.edu # FORMAT: tab delimited text # # SAMPLE: F344/NHsd (ICAHN) # SAMPLE-INFO: Provided by The Icahn School of Medicine at Mount Sinai (Dr. Percio S. Gulko) # SEQUENCED-BY: null # SEQUENCER: Illumina HiSeq 2000 # SECONDARY-ANALYSIS: SOAP2.21 (SOAPsnp, SOAPcoverage, GapCloser, SOAPaligner), CNVDetector # GRANT-NUMBER: NIH: R01-AR46213, R01-AR052439 (NIAMS) and R01-AI54348 (NIAID); The Shenzhen Municipal Government of China (grants JC201005260191A and CXB201108250096A) # WHERE-BRED: Harlan Laboratories # STRAIN-RGD-ID: 61109 # # COLUMN INFORMATION: # #1 VID unique variant id #2 VAR_TYPE variant type:'snv','ins','del' #3 CHROMOSOME chromosome #4 POSITION position on chromosome #5 REF_NUC reference nucleotide #6 VAR_NUC variant nucleotide #7 REF_AA reference amino acid #8 VAR_AA variant amino acid #9 PREDICTION polyphen prediction #10 TRANSCRIPT transcript id #11 POS_NUC nucleotide position of variant relative to 1st nucleotide of CDS #12 POS_AA aminoacid position of variant relative to protein 1st aminoacid