/usr/lib/R/site-library/biovizBase/extdata/crc1-missense.csv is in r-bioc-biovizbase 1.12.3-1.
This file is owned by root:root, with mode 0o644.
The actual contents of the file can be viewed below.
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 | "Hugo_Symbol","Entrez_Gene_Id","Center","NCBI_Build","Chromosome","Start_position","End_position","Strand","Variant_Classification","Variant_Type","Reference_Allele","Tumor_Seq_Allele1","Tumor_Seq_Allele2"
"TARDBP","23435","Broad",36,"chr1",11003085,11003085,"+","Missense","SNP","G","G","A"
"INADL","10207","Broad",36,"chr1",62352395,62352395,"+","Missense","SNP","T","T","G"
"CFH","3075","Broad",36,"chr1",194960885,194960885,"+","Missense","SNP","G","G","A"
"CYS1","192668","Broad",36,"chr2",10116508,10116508,"-","Missense","SNP","C","C","T"
"RASGRP3","25780","Broad",36,"chr2",33617747,33617747,"+","Missense","SNP","C","C","T"
"C2orf78","388960","Broad",36,"chr2",73894280,73894280,"+","Missense","SNP","T","T","C"
"FER1L5","90342","Broad",36,"chr2",96732769,96732769,"+","Missense","SNP","T","T","G"
"TTN","7273","Broad",36,"chr2",179160267,179160267,"-","Missense","SNP","C","C","T"
"IGFBP5","3488","Broad",36,"chr2",217251189,217251189,"-","Missense","SNP","C","C","T"
"RAF1","5894","Broad",36,"chr3",12620699,12620699,"-","Missense","SNP","G","G","A"
"LTF","4057","Broad",36,"chr3",46472880,46472880,"-","Missense","SNP","C","C","T"
"PPP2R3A","5523","Broad",36,"chr3",137203130,137203130,"+","Missense","SNP","A","A","C"
"PCCB","5096","Broad",36,"chr3",137457429,137457429,"+","Missense","SNP","C","C","A"
"KLHL6","89857","Broad",36,"chr3",184708629,184708629,"-","Missense","SNP","G","G","A"
"PAK2","5062","Broad",36,"chr3",198024055,198024055,"+","Missense","SNP","A","A","T"
"SLC10A7","84068","Broad",36,"chr4",147434591,147434591,"-","Missense","SNP","G","G","A"
"ACSL1","2180","Broad",36,"chr4",185915412,185915412,"-","Missense","SNP","A","A","C"
"CMYA5","202333","Broad",36,"chr5",79070342,79070342,"+","Missense","SNP","C","C","A"
"FAM81B","153643","Broad",36,"chr5",94775579,94775579,"+","Missense","SNP","G","G","A"
"PCDHGC3","5098","Broad",36,"chr5",140838266,140838266,"+","Missense","SNP","T","T","G"
"AKD1","221264","Broad",36,"chr6",109992724,109992724,"-","Missense","SNP","C","C","T"
"C6orf204","387119","Broad",36,"chr6",118993492,118993492,"-","Missense","SNP","G","G","A"
"POT1","25913","Broad",36,"chr7",124286401,124286401,"-","Missense","SNP","A","A","C"
"GRM8","2918","Broad",36,"chr7",125960456,125960456,"-","Missense","SNP","A","A","C"
"KIAA1539","80256","Broad",36,"chr9",35097658,35097658,"-","Missense","SNP","A","A","C"
"BAAT","570","Broad",36,"chr9",103164773,103164773,"-","Missense","SNP","G","G","T"
"ABL1","25","Broad",36,"chr9",132745783,132745783,"+","Missense","SNP","C","C","A"
"SEC16A","9919","Broad",36,"chr9",138481305,138481305,"-","Missense","SNP","C","C","T"
"ITIH5","80760","Broad",36,"chr10",7661761,7661761,"-","Missense","SNP","C","C","T"
"ITPRIP","85450","Broad",36,"chr10",106064683,106064683,"-","Missense","SNP","T","T","G"
"IRF7","3665","Broad",36,"chr11",603430,603430,"-","Missense","SNP","G","G","A"
"TRIM34","53840","Broad",36,"chr11",5610148,5610148,"+","Missense","SNP","A","A","C"
"IPO7","10527","Broad",36,"chr11",9420281,9420281,"+","Missense","SNP","G","G","T"
"ANO3","63982","Broad",36,"chr11",26495005,26495005,"+","Missense","SNP","C","C","T"
"OR8H2","390151","Broad",36,"chr11",55629818,55629818,"+","Missense","SNP","G","G","A"
"CEP164","22897","Broad",36,"chr11",116737834,116737834,"+","Missense","SNP","C","C","A"
"CASC1","55259","Broad",36,"chr12",25165980,25165980,"-","Missense","SNP","G","G","T"
"KRAS","3845","Broad",36,"chr12",25289548,25289548,"-","Missense","SNP","C","C","T"
"DDX11","1663","Broad",36,"chr12",31142142,31142142,"+","Missense","SNP","G","G","C"
"PUS7L","83448","Broad",36,"chr12",42434771,42434771,"-","Missense","SNP","T","T","A"
"PAN2","9924","Broad",36,"chr12",55006974,55006974,"-","Missense","SNP","T","T","G"
"LOC643677","643677","Broad",36,"chr13",102199348,102199348,"-","Missense","SNP","G","G","A"
"ZFP106","64397","Broad",36,"chr15",40503502,40503502,"-","Missense","SNP","C","C","T"
"BBS4","585","Broad",36,"chr15",70816269,70816269,"+","Missense","SNP","A","A","C"
"UBFD1","56061","Broad",36,"chr16",23481033,23481033,"+","Missense","SNP","C","C","G"
"MAP2K3","5606","Broad",36,"chr17",21149010,21149010,"+","Missense","SNP","G","G","A"
"TOP2A","7153","Broad",36,"chr17",35812691,35812691,"-","Missense","SNP","T","T","C"
"ROCK1","6093","Broad",36,"chr18",16788810,16788810,"-","Missense","SNP","C","C","T"
"NFATC1","4772","Broad",36,"chr18",75322338,75322338,"+","Missense","SNP","G","G","A"
"OR10H3","26532","Broad",36,"chr19",15713495,15713495,"+","Missense","SNP","G","G","T"
"TMEM147","10430","Broad",36,"chr19",40730140,40730140,"+","Missense","SNP","C","C","T"
"SAE1","10055","Broad",36,"chr19",52338664,52338664,"+","Missense","SNP","G","G","A"
"PPP2R1A","5518","Broad",36,"chr19",57407795,57407795,"+","Missense","SNP","G","G","A"
"GZF1","64412","Broad",36,"chr20",23298287,23298287,"+","Missense","SNP","A","A","C"
"EFCAB8","388795","Broad",36,"chr20",31012946,31012946,"+","Missense","SNP","C","C","T"
"PTPRT","11122","Broad",36,"chr20",40223536,40223536,"-","Missense","SNP","C","C","T"
"CASS4","57091","Broad",36,"chr20",54467136,54467136,"+","Missense","SNP","G","G","A"
"GTPBP5","26164","Broad",36,"chr20",60201983,60201983,"+","Missense","SNP","C","C","T"
"CHAF1B","8208","Broad",36,"chr21",36688774,36688774,"+","Missense","SNP","C","C","T"
"LCA5L","150082","Broad",36,"chr21",39699770,39699770,"-","Missense","SNP","T","T","G"
"CHEK2","11200","Broad",36,"chr22",27437953,27437953,"-","Missense","SNP","C","C","A"
"FAM47A","158724","Broad",36,"chrX",34059280,34059280,"-","Missense","SNP","C","C","T"
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