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Comment: C: How to convert vcf to MAF ?
6.6 years ago by Cyriac Kandoth 6.1k
4
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1
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3.3k
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Answer: A: Are There Any Caveats When Creating A Maf File For Music?
updated 6.8 years ago by 45k • written 12.1 years ago by 6.1k
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Comment: C: Does a no-normal pipeline exist for MuSiC?
7.3 years ago by Cyriac Kandoth 6.1k
2
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1
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4.8k
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Answer: Answer: List of genes sequenced in genome sequencing data from TCGA
updated 3.6 years ago by 45k • written 10.9 years ago by 6.1k
147
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34
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60k
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17 follow
Tutorial: Working with MAF files (Mutation Annotation Format) from the TCGA (The Cancer Genome Atlas)
music cancer tcga mutation maf
updated 2.7 years ago by 45k • written 12.5 years ago by 6.1k
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Answer: Answer: Human dna reference file with no prefix 'chr'
3.5 years ago by Cyriac Kandoth 6.1k
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1
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30k
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Answer: Answer: Converting Vcf File To Maf
updated 4.6 years ago by 45k • written 11.9 years ago by 6.1k
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1
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12k
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Answer: A: From TCGA to GDC (Genomic data commons)
8.0 years ago by Cyriac Kandoth 6.1k
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1
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5.3k
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Answer: A: Getting 1000 Genomes phase one MAF values
8.1 years ago by Cyriac Kandoth 6.1k
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2
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6.8k
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Answer: Answer: How to get minor allele frequency of a list of variants; for example NM_004401 (
updated 3.6 years ago by 45k • written 10.9 years ago by 6.1k
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1
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4.7k
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Answer: A: Installing ensembl 86 VEP and vcf2maf and getting SNP MAFs
8.2 years ago by Cyriac Kandoth 6.1k
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5.3k
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Comment: C: Getting 1000 Genomes phase one MAF values
8.2 years ago by Cyriac Kandoth 6.1k
8
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2
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15k
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Answer: A: Variant allele frequency in TCGA and ICGC
8.2 years ago by Cyriac Kandoth 6.1k
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0
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13k
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Comment: C: Karyotypically Ordered Hg19
8.7 years ago by Cyriac Kandoth 6.1k
5
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3.1k
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Answer: A: Where is the pathogenicity in TCGA MAF files?
8.9 years ago by Cyriac Kandoth 6.1k
3
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1
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3.5k
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Answer: A: Selecting TCGA samples by barcode in CG Hub
9.0 years ago by Cyriac Kandoth 6.1k
2
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1
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3.4k
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Answer: A: genome version in cbioportal
9.0 years ago by Cyriac Kandoth 6.1k
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2
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4.5k
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Comment: C: RUN genome music (MuSiC2) error
9.0 years ago by Cyriac Kandoth 6.1k
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0
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12k
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Comment: C: TCGA CNV Files
9.1 years ago by Cyriac Kandoth 6.1k
8
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3
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12k
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Answer: Answer: TCGA CNV Files
updated 3.8 years ago by 45k • written 11.2 years ago by 6.1k
30
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14
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19k
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8 follow
Tutorial: Installation of the MuSiC suite on unsupported Linux distributions
genome-music linux smg
updated 2.7 years ago by 45k • written 12.7 years ago by 6.1k
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0
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19k
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Comment: C: Installation of the MuSiC suite on unsupported Linux distributions
9.1 years ago by Cyriac Kandoth 6.1k
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0
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19k
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Comment: C: Installation of the MuSiC suite on unsupported Linux distributions
9.1 years ago by Cyriac Kandoth 6.1k
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0
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4.5k
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Comment: C: annotating TCGA VCF file
9.3 years ago by Cyriac Kandoth 6.1k
0
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1
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3.8k
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Comment: C: is needed info (BAM and MAF) files for normal tissues in MUSIC?
9.3 years ago by Cyriac Kandoth 6.1k
5
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0
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3.3k
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Answer: A: TCGA data: CNV SNP 6.0 vs LowPass DNAseq
9.3 years ago by Cyriac Kandoth 6.1k
0
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1
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12k
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Comment: C: From TCGA to GDC (Genomic data commons)
9.3 years ago by Cyriac Kandoth 6.1k
0
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0
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12k
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Comment: C: From TCGA to GDC (Genomic data commons)
9.3 years ago by Cyriac Kandoth 6.1k
0
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1
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9.3k
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Comment: C: TCGA VCF & MAF content
9.3 years ago by Cyriac Kandoth 6.1k
5
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0
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9.3k
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Answer: A: TCGA VCF & MAF content
9.3 years ago by Cyriac Kandoth 6.1k
0
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0
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9.3k
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Comment: C: TCGA VCF & MAF content
9.3 years ago by Cyriac Kandoth 6.1k
1
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0
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4.0k
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Answer: A: Mismatch in exome capture and mapping reference assembly in TCGA WXS data ?
9.4 years ago by Cyriac Kandoth 6.1k
0
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1
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3.1k
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Comment: C: required data files and dependences to run maf2maf and maf2vcf
9.4 years ago by Cyriac Kandoth 6.1k
26
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6
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8.0k
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Doesn't Base Quality Score Recalibration degrade sensitivity in heavily mutated cancers?
sequencing SNP
updated 3.9 years ago by 45k • written 11.4 years ago by 6.1k
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0
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5.3k
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Comment: C: Protein database for TCGA MAF files
9.5 years ago by Cyriac Kandoth 6.1k
0
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0
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30k
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Comment: C: Converting Vcf File To Maf
9.6 years ago by Cyriac Kandoth 6.1k
2
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1
reply
2.8k
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Comment: C: Non-coding variants in TCGA data
9.6 years ago by Cyriac Kandoth 6.1k
3
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0
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4.4k
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Answer: A: Vcf Statistics Given A Gff3 Annotation
9.6 years ago by Cyriac Kandoth 6.1k
0
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1
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4.0k
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Comment: C: Are there recommended steps if MuSiC reports too many significantly mutated gene
9.6 years ago by Cyriac Kandoth 6.1k
0
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1
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4.0k
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Comment: C: Are there recommended steps if MuSiC reports too many significantly mutated gene
9.6 years ago by Cyriac Kandoth 6.1k
4
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1
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4.0k
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Answer: A: Are there recommended steps if MuSiC reports too many significantly mutated gene
9.6 years ago by Cyriac Kandoth 6.1k
4
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0
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2.7k
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Answer: Answer: Tool/algorithm to assess the effect of several mutations
updated 3.3 years ago by 45k • written 9.7 years ago by 6.1k
0
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0
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5.4k
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Comment: C: How to determine whether a gene is present or absent?
9.7 years ago by Cyriac Kandoth 6.1k
0
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1
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3.2k
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Comment: C: MuSiC original files for testing/ MAF, rois and soo on
9.9 years ago by Cyriac Kandoth 6.1k
1
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0
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2.6k
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Answer: A: Is it possible to get seq data for cancers via database?
9.9 years ago by Cyriac Kandoth 6.1k
0
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0
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3.4k
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Comment: C: Are there certain mutations ubiquitous in ALL cancers?
9.9 years ago by Cyriac Kandoth 6.1k
4
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1
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3.4k
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Answer: Answer: Are there certain mutations ubiquitous in ALL cancers?
updated 3.2 years ago by 45k • written 9.9 years ago by 6.1k
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0
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3.2k
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Comment: C: Finding heterozygous sites in a BAM file
9.9 years ago by Cyriac Kandoth 6.1k
7
votes
1
reply
60k
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Comment: Comment: Working with MAF files (Mutation Annotation Format) from the TCGA (The Cancer Ge
updated 3.8 years ago by 45k • written 11.9 years ago by 6.1k
0
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0
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3.9k
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Comment: C: dn/ds ratio for somatic mutation
10.0 years ago by Cyriac Kandoth 6.1k
280 results • Page 2 of 6
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