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Answer: Answer: Is it representative to use the minimal matched data of RNA-Seq in TCGA?
3.6 years ago by Zhenyu Zhang ★ 1.3k
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2.5k
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Answer: Answer: Why does TCGA RNA-seq pipeline starts from a BAM file?
3.6 years ago by Zhenyu Zhang ★ 1.3k
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926
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Answer: Answer: When do we consider TCGA mRNA and miRNA data as matched samples?
3.6 years ago by Zhenyu Zhang ★ 1.3k
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0
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899
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Answer: Answer: How to download multiple .maf files for multiple cases from TCGA?
3.6 years ago by Zhenyu Zhang ★ 1.3k
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1.3k
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Answer: Answer: Matched tumor/normal RNASeq expression counts in TCGA
3.6 years ago by Zhenyu Zhang ★ 1.3k
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0
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1.6k
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Comment: Comment: TCGA GDC / ICGC alike Data Portal
3.6 years ago by Zhenyu Zhang ★ 1.3k
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0
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782
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Answer: Answer: Missing normal samples in transcriptomic data from GDC portal
3.6 years ago by Zhenyu Zhang ★ 1.3k
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0
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1.2k
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Answer: Answer: Ploidy in WGS samples
3.6 years ago by Zhenyu Zhang ★ 1.3k
4
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1
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1.8k
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Answer: Answer: RNA Seq HTSeq download GDC portal
3.6 years ago by Zhenyu Zhang ★ 1.3k
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1
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1.2k
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Comment: Comment: Efficient Operations on GDC/TCGA data
3.6 years ago by Zhenyu Zhang ★ 1.3k
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2.0k
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Answer: Answer: How to download Transcriptome data for differential gene expression analysis fro
3.8 years ago by Zhenyu Zhang ★ 1.3k
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0
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886
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Answer: Answer: Copy Number to Log2_ratio for autosomal
3.9 years ago by Zhenyu Zhang ★ 1.3k
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1
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2.1k
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Comment: Comment: Batch effect that is same as main factor
3.9 years ago by Zhenyu Zhang ★ 1.3k
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1.0k
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Answer: Answer: TCGA-COAD: Mutation prediction from WSI
3.9 years ago by Zhenyu Zhang ★ 1.3k
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0
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1.8k
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Answer: Answer: GDC RNA-seq pipeline: Original vs. Dr15plus?
4.1 years ago by Zhenyu Zhang ★ 1.3k
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0
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3.5k
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Comment: Comment: What are the pain points in genomic variant interpretation/annotation processes?
4.2 years ago by Zhenyu Zhang ★ 1.3k
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0
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1.2k
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Comment: Comment: strand-specific RNA-seq analysis
4.2 years ago by Zhenyu Zhang ★ 1.3k
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1
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1.2k
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Comment: Comment: strand-specific RNA-seq analysis
4.2 years ago by Zhenyu Zhang ★ 1.3k
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0
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7.5k
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Comment: Comment: Understanding TCGA's ASCAT copy number data
4.2 years ago by Zhenyu Zhang ★ 1.3k
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0
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1.6k
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Comment: Comment: TCGA germline and somatic snvs
4.2 years ago by Zhenyu Zhang ★ 1.3k
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0
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1.2k
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Comment: Comment: BWA aln, according to GDC DNA Seq Analysis Pipeline
4.2 years ago by Zhenyu Zhang ★ 1.3k
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0
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1.5k
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Answer: Answer: Are raw RNA-seq data available for samples of TCGA-LUAD (TCGA data set) ?
4.3 years ago by Zhenyu Zhang ★ 1.3k
3
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2
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3.5k
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Answer: Answer: What are the pain points in genomic variant interpretation/annotation processes?
4.3 years ago by Zhenyu Zhang ★ 1.3k
0
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0
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1.2k
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Comment: Comment: mutation analysis, tcga
4.3 years ago by Zhenyu Zhang ★ 1.3k
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0
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746
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Comment: Comment: Find Processing Date and Center for GDC RNA-Seq Data
4.3 years ago by Zhenyu Zhang ★ 1.3k
0
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1
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1.4k
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Tutorial: Add Customized Filters in GDC
gdc
updated 4.3 years ago by 21k • written 4.3 years ago by ★ 1.3k
1
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0
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1.5k
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Comment: Comment: Where is the most up-to date TCGA clinic data?
4.3 years ago by Zhenyu Zhang ★ 1.3k
1
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0
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3.5k
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Answer: Answer: TCGA library type information
4.3 years ago by Zhenyu Zhang ★ 1.3k
1
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0
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904
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Comment: Comment: Multiple Entity Id for same file in GDC
4.3 years ago by Zhenyu Zhang ★ 1.3k
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0
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1.0k
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Answer: Answer: how to find a threshold p value for eqtl analysis
4.3 years ago by Zhenyu Zhang ★ 1.3k
2
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0
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5.2k
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Comment: Comment: RNA Seq V2 RSEM Data
4.3 years ago by Zhenyu Zhang ★ 1.3k
1
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1
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1.9k
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Answer: Answer: Looking for both RNA-Seq and Single Cell RNA-Seq data collected from the the sam
4.3 years ago by Zhenyu Zhang ★ 1.3k
0
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1
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1.0k
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Answer: Answer: Which data recommends remaining or removing for backups of NGS (WES or WGS)?
4.3 years ago by Zhenyu Zhang ★ 1.3k
0
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0
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1.4k
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Comment: Comment: TCGA: How to detect normal and tumor samples in PRAD dataset?
4.3 years ago by Zhenyu Zhang ★ 1.3k
0
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1
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1.2k
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Answer: Answer: mutation analysis, tcga
4.3 years ago by Zhenyu Zhang ★ 1.3k
0
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0
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888
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Comment: Comment: Query TCGA projects for variant presence
4.3 years ago by Zhenyu Zhang ★ 1.3k
0
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1
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2.9k
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Comment: Comment: Why were all TCGA SVS slides redacted?
4.3 years ago by Zhenyu Zhang ★ 1.3k
1
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0
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7.5k
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Answer: Answer: Understanding TCGA's ASCAT copy number data
4.4 years ago by Zhenyu Zhang ★ 1.3k
0
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0
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992
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Answer: Answer: GDC Data Query
4.4 years ago by Zhenyu Zhang ★ 1.3k
1
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0
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3.1k
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Comment: Comment: Meaning letters in TCGA sample barcode field
4.4 years ago by Zhenyu Zhang ★ 1.3k
1
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0
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2.4k
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How To Query Snp Against Genomic Features In R
snp genomic
updated 4.5 years ago by 20 • written 11.4 years ago by ★ 1.3k
8
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9
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8.0k
views
6 follow
single sample somatic variant calling software
somatic variants tumor pipeline ffpe
updated 4.9 years ago by • 0 • written 9.1 years ago by ★ 1.3k
1
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2
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1.4k
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Looking for superfast heatmap algorithm
heatmap
5.4 years ago by Zhenyu Zhang ★ 1.3k
0
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1
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2.5k
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Comment: C: LiftOver with zero-based UCSC chain file
updated 5.7 years ago by 45k • written 9.6 years ago by ★ 1.3k
1
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1
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4.1k
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Answer: A: TARGET data identifier (The Therapeutically Applicable Research to Generate Effe
updated 5.7 years ago by 45k • written 11.3 years ago by ★ 1.3k
1
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0
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4.7k
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Comment: Comment: tools to download multiple files from SRA
updated 5.7 years ago by 45k • written 11.3 years ago by ★ 1.3k
0
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0
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2.9k
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Comment: C: how to find tissue specific eqtls?
updated 5.7 years ago by 45k • written 11.3 years ago by ★ 1.3k
2
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3
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1.5k
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Need recommendations of RNA-Seq somatic variant calling pipeline
RNA-Seq somatic variant
5.9 years ago by Zhenyu Zhang ★ 1.3k
0
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1
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4.8k
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Comment: C: Are there any GenomeStudio alternatives to process Illumina genotyping array?
6.1 years ago by Zhenyu Zhang ★ 1.3k
0
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1
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1.3k
views
Any adaptive permutation R packages?
R permutation adaptive permutation
6.1 years ago by Zhenyu Zhang ★ 1.3k
301 results • Page 5 of 7
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