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Comment: Comment: How does one access TCGA controlled data in AWS S3?
7 months ago by Zhenyu Zhang ★ 1.2k
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1.1k
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Comment: Comment: How does one access TCGA controlled data in AWS S3?
7 months ago by Zhenyu Zhang ★ 1.2k
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891
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Answer: Answer: different sample size between TCGA portal and TCGAbiolinks package
7 months ago by Zhenyu Zhang ★ 1.2k
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2
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1.1k
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Comment: Comment: How does one access TCGA controlled data in AWS S3?
7 months ago by Zhenyu Zhang ★ 1.2k
2
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1
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6.1k
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Answer: Answer: Macbook M1 pro/M2 pro or Dell (with Ubuntu/other linux distribution) for bioinfo
7 months ago by Zhenyu Zhang ★ 1.2k
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553
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Answer: Answer: Problems encountered during the survival analysis with TCGA data
7 months ago by Zhenyu Zhang ★ 1.2k
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0
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665
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Comment: Comment: TPM RNA-seq data for differential expression analysis
7 months ago by Zhenyu Zhang ★ 1.2k
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466
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Comment: Comment: Comparing multiple RNASeq studies
7 months ago by Zhenyu Zhang ★ 1.2k
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1.2k
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Comment: Comment: Calculation of TMB on gene level
7 months ago by Zhenyu Zhang ★ 1.2k
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528
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Comment: Comment: Understanding TCGA barcodes with dot in the fieldname
7 months ago by Zhenyu Zhang ★ 1.2k
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753
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Answer: Answer: How to DESeq2 using miRNA data obtained using TCGAbiolinks
8 months ago by Zhenyu Zhang ★ 1.2k
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795
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Comment: Comment: CNV calling
8 months ago by Zhenyu Zhang ★ 1.2k
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2.2k
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Answer: Answer: What is the amount of sequencing data produced annually?
8 months ago by Zhenyu Zhang ★ 1.2k
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760
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Comment: Comment: Is a PON necessary for tumor-normal matched Mutect2?
8 months ago by Zhenyu Zhang ★ 1.2k
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560
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Comment: Comment: TCGA gene expression quantitation batch information
8 months ago by Zhenyu Zhang ★ 1.2k
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559
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Answer: Answer: What gene annotation was used for PanCanAtlas EBPlusPlus-corrected RNA-seq TCGA
8 months ago by Zhenyu Zhang ★ 1.2k
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1
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760
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Comment: Comment: Is a PON necessary for tumor-normal matched Mutect2?
8 months ago by Zhenyu Zhang ★ 1.2k
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0
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944
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Answer: Answer: Grouping TCGA samples by tumor_tissue_site: Can some groups be merged to decreas
9 months ago by Zhenyu Zhang ★ 1.2k
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0
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541
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Comment: Comment: Differential gene expression with specif genes of interest
9 months ago by Zhenyu Zhang ★ 1.2k
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1.1k
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Comment: Comment: What database would have a list of gene names and aliases for yeast?
9 months ago by Zhenyu Zhang ★ 1.2k
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0
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735
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Answer: Answer: Batch correction of TCGA data from TCGAbiolinks and cBioPortal
9 months ago by Zhenyu Zhang ★ 1.2k
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1
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1.6k
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Comment: Comment: Merge BAM files from (totally) different references
9 months ago by Zhenyu Zhang ★ 1.2k
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0
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971
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Answer: Answer: QC Illumina EPIC array: Removing SNPs at CpG sites
9 months ago by Zhenyu Zhang ★ 1.2k
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1
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1.0k
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Answer: Answer: Number of genes covered in WES
9 months ago by Zhenyu Zhang ★ 1.2k
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1
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1.4k
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Answer: Answer: DNBseq vs Illumina
9 months ago by Zhenyu Zhang ★ 1.2k
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594
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Answer: Answer: Maf File Bar Code
9 months ago by Zhenyu Zhang ★ 1.2k
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1
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771
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Answer: Answer: Ensembl Ref/alt allele discrepancy
9 months ago by Zhenyu Zhang ★ 1.2k
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0
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682
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Comment: Comment: Is it possible to interpret HGVS without transcript version number?
9 months ago by Zhenyu Zhang ★ 1.2k
1
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1
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944
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Comment: Comment: Grouping TCGA samples by tumor_tissue_site: Can some groups be merged to decreas
9 months ago by Zhenyu Zhang ★ 1.2k
3
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1
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554
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Comment: Comment: Send BAM files from server to cluster
9 months ago by Zhenyu Zhang ★ 1.2k
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1.3k
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Answer: Answer: Convert files made for b37 into hg19 human reference?
9 months ago by Zhenyu Zhang ★ 1.2k
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0
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781
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Comment: Comment: PON and germline files for Mutect2 Tumor-only mode
9 months ago by Zhenyu Zhang ★ 1.2k
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0
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1.5k
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Comment: Comment: How can I generate a list of 100 genomic intervals from bam files?
9 months ago by Zhenyu Zhang ★ 1.2k
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0
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1000
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Answer: Answer: Methylation Analysis - Missing Chromosome and Position Information for some CpG
9 months ago by Zhenyu Zhang ★ 1.2k
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0
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497
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Comment: Comment: Is it ok to do Indel realignment after removing subsets of reads?
10 months ago by Zhenyu Zhang ★ 1.2k
0
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0
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1.1k
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Comment: Comment: Can I liftover hs37d5 to hg38 using hg19ToHg38 chain file?
10 months ago by Zhenyu Zhang ★ 1.2k
2
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1
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497
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Answer: Answer: Is it ok to do Indel realignment after removing subsets of reads?
10 months ago by Zhenyu Zhang ★ 1.2k
0
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1
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852
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Comment: Comment: cBioPortal data with negative log2(FPKM + 1) values
10 months ago by Zhenyu Zhang ★ 1.2k
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1
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3.6k
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Answer: Answer: RNA-Seq analysis with Python
10 months ago by Zhenyu Zhang ★ 1.2k
1
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1
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1.1k
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Answer: Answer: Can I liftover hs37d5 to hg38 using hg19ToHg38 chain file?
10 months ago by Zhenyu Zhang ★ 1.2k
1
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1
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1.3k
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Answer: Answer: laptop or PC for the bioinformatics jobs -- specification
10 months ago by Zhenyu Zhang ★ 1.2k
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1
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698
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Answer: Answer: Log-transformation of small values with good fold change and P values
10 months ago by Zhenyu Zhang ★ 1.2k
0
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1
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852
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Answer: Answer: cBioPortal data with negative log2(FPKM + 1) values
10 months ago by Zhenyu Zhang ★ 1.2k
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1
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484
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Answer: Answer: Multiple Tumor Count Files from a single Patient. How to merge or select?
10 months ago by Zhenyu Zhang ★ 1.2k
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0
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841
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Answer: Answer: TCGA methylation data analysis
11 months ago by Zhenyu Zhang ★ 1.2k
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0
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1.6k
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Comment: Comment: Where can I find a good RNA-seq dataset on cancer?
11 months ago by Zhenyu Zhang ★ 1.2k
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2
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1.6k
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Comment: Comment: Where can I find a good RNA-seq dataset on cancer?
11 months ago by Zhenyu Zhang ★ 1.2k
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0
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460
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Answer: Answer: Why sone miRNAs are not present in TCGA data
11 months ago by Zhenyu Zhang ★ 1.2k
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1
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1.6k
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Answer: Answer: Where can I find a good RNA-seq dataset on cancer?
11 months ago by Zhenyu Zhang ★ 1.2k
1
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0
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377
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Answer: Answer: transcript abundance, control and wgs
11 months ago by Zhenyu Zhang ★ 1.2k
251 results • Page 2 of 6
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