# 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: BN/NHsdMcwi (ICL) # SAMPLE-INFO: Provided by the Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) # SEQUENCED-BY: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner) # SEQUENCER: SOLID # SECONDARY-ANALYSIS: BWA-0.5.8c, GATK-v1.0.6001, samtools, Picard # GRANT-NUMBER: EURATRANS (HEALTH-F4-2010-241504) # WHERE-BRED: Medical College of Wisconsin # STRAIN-RGD-ID: 61498 # # 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