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Answer: A: RNASeq DE analysis starts from different DESeq2 normalized data, TMM normalized
6.3 years ago svlachavas ▴ 840
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3.3k
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Answer: A: Finding gene targets for a list of transcription factors
6.4 years ago svlachavas ▴ 840
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2.9k
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Comment: C: Perform correlation analysis between miRNA and mRNA gene expression data on the
6.8 years ago svlachavas ▴ 840
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2.9k
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Comment: C: Perform correlation analysis between miRNA and mRNA gene expression data on the
6.8 years ago svlachavas ▴ 840
5
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4
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2.9k
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Perform correlation analysis between miRNA and mRNA gene expression data on the same TCGA dataset based on the curatedTCGAData
curatedTCGAData MultiAssayExperiment multiomics TCGA
updated 6.8 years ago by ★ 1.1k • written 6.8 years ago by ▴ 840
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1.1k
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Paired DE analysis in edgeR with trios of samples while blocking for various confounders
edger rnaseq paired analysis design matrix
6.8 years ago svlachavas ▴ 840
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1.9k
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Comment: C: Correct annotation R package for human clariom array analysis
6.9 years ago svlachavas ▴ 840
0
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1
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1.9k
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Comment: C: Correct annotation R package for human clariom array analysis
6.9 years ago svlachavas ▴ 840
1
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5
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1.9k
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Correct annotation R package for human clariom array analysis
clariom oligo affycoretools pd.hugene.2.0.st
updated 6.9 years ago by 68k • written 6.9 years ago by ▴ 840
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0
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2.8k
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Comment: C: Taking into account strong batch effect in microarray differential expression an
7.0 years ago svlachavas ▴ 840
0
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1
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2.8k
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Comment: C: Taking into account strong batch effect in microarray differential expression an
7.0 years ago svlachavas ▴ 840
0
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2
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2.8k
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Comment: C: Taking into account strong batch effect in microarray differential expression an
7.0 years ago svlachavas ▴ 840
7
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13
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2.8k
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Taking into account strong batch effect in microarray differential expression analysis with limma
limma microarray hugeneST batch effect DE
updated 7.0 years ago by ★ 7.9k • written 7.0 years ago by ▴ 840
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1
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2.8k
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Comment: C: Taking into account strong batch effect in microarray differential expression an
7.0 years ago svlachavas ▴ 840
3
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3
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1.7k
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Apply different cutoffs with edgeR pipeline and glmTreat for RNA-Seq DEG analysis
edger differential gene expression glmtreat
updated 7.3 years ago by 53k • written 7.3 years ago by ▴ 840
0
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0
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2.0k
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Comment: C: Explanation of mroast results for specific biological processes and error with b
7.3 years ago svlachavas ▴ 840
1
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2
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2.0k
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Explanation of mroast results for specific biological processes and error with barcodeplot function with a microarray dataset
limma mroast agilent microarrays GO.BP barcodeplot
updated 7.3 years ago by 53k • written 7.3 years ago by ▴ 840
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0
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1.9k
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Comment: C: Perform limma based gene-set testing for a two-group comparison in a microarray
7.3 years ago svlachavas ▴ 840
0
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0
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1.9k
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Comment: C: Perform limma based gene-set testing for a two-group comparison in a microarray
7.3 years ago svlachavas ▴ 840
2
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3
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1.9k
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Perform limma based gene-set testing for a two-group comparison in a microarray dataset regarding specific biological processes
limma agilent microarrays mroast fry gene tests gene set testing
updated 7.3 years ago by 53k • written 7.3 years ago by ▴ 840
0
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1
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4.5k
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Comment: C: How to analyze correctly agilent two-colour microarray data from the ArrayExpres
7.4 years ago svlachavas ▴ 840
1
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1
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4.5k
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Comment: C: How to analyze correctly agilent two-colour microarray data from the ArrayExpres
7.4 years ago svlachavas ▴ 840
6
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5
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4.5k
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How to analyze correctly agilent two-colour microarray data from the ArrayExpress repository with the limma R package
agilent microarrays limma arrayexpress NChannelSet
updated 7.4 years ago by 53k • written 7.4 years ago by ▴ 840
0
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1
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3.0k
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Comment: C: Help for Affymetrix HTA 2.0 [transcript (gene) version] annotation
7.4 years ago svlachavas ▴ 840
0
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2
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3.0k
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Answer: A: Help for Affymetrix HTA 2.0 [transcript (gene) version] annotation
7.4 years ago svlachavas ▴ 840
0
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1
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2.7k
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Comment: C: Include and implement a new reference genome option in the R package BSgenome fo
7.4 years ago svlachavas ▴ 840
0
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1
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2.7k
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Comment: C: Include and implement a new reference genome option in the R package BSgenome fo
7.4 years ago svlachavas ▴ 840
3
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5
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2.7k
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Include and implement a new reference genome option in the R package BSgenome for downstream variant calling analysis
bsgenome variant calling whole exome sequence gencode reference genome
updated 7.4 years ago by 16k • written 7.4 years ago by ▴ 840
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0
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2.1k
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Comment: C: Implementation of specific cpm filtering in RNA-Seq data described in a previous
7.6 years ago svlachavas ▴ 840
2
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4
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2.1k
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Implementation of specific cpm filtering in RNA-Seq data described in a previously published edgeR pipeline
edger cpm non-specific filtering rnaseq
updated 7.6 years ago by 53k • written 7.6 years ago by ▴ 840
0
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0
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2.1k
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Comment: C: Implementation of specific cpm filtering in RNA-Seq data described in a previous
7.6 years ago svlachavas ▴ 840
0
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0
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4.3k
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Comment: C: Robust transformation of raw RNA-seq counts for exploratory data analysis and hi
7.6 years ago svlachavas ▴ 840
0
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1
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4.3k
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Comment: C: Robust transformation of raw RNA-seq counts for exploratory data analysis and hi
7.6 years ago svlachavas ▴ 840
0
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0
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3.4k
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Comment: C: Error with R package motifbreakR while trying to read a vcf file with snps.from.
7.6 years ago svlachavas ▴ 840
0
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1
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3.4k
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Comment: C: Error with R package motifbreakR while trying to read a vcf file with snps.from.
7.6 years ago svlachavas ▴ 840
1
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1
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3.4k
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Answer: A: MultiAssayExperiment: how to store data for multiple cancer lesions for each pat
7.6 years ago svlachavas ▴ 840
0
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1
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2.7k
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Comment: C: Querying specific TCGA datasets through the MultiAssayExperiment R package
7.6 years ago svlachavas ▴ 840
0
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1
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2.7k
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Comment: C: Querying specific TCGA datasets through the MultiAssayExperiment R package
7.6 years ago svlachavas ▴ 840
8
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5
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2.7k
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Querying specific TCGA datasets through the MultiAssayExperiment R package
MultiAssayExperiment curatedCRCdata multiomics TCGA
updated 7.6 years ago by 700 • written 7.6 years ago by ▴ 840
0
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0
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3.4k
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Comment: C: Error with R package motifbreakR while trying to read a vcf file with snps.from.
7.6 years ago svlachavas ▴ 840
2
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5
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3.4k
views
Error with R package motifbreakR while trying to read a vcf file with snps.from.file function
motifbreakR vcf snps motif analysis
updated 7.6 years ago by ★ 6.8k • written 7.6 years ago by ▴ 840
6
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14
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4.3k
views
Robust transformation of raw RNA-seq counts for exploratory data analysis and hierarchical clustering
rnaseq analysis variancestabilizingtransformation normalization cpm edger
updated 7.7 years ago by ★ 13k • written 7.7 years ago by ▴ 840
0
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0
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4.3k
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Comment: C: Robust transformation of raw RNA-seq counts for exploratory data analysis and hi
7.7 years ago svlachavas ▴ 840
0
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1
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4.3k
views
Comment: C: Robust transformation of raw RNA-seq counts for exploratory data analysis and hi
7.7 years ago svlachavas ▴ 840
0
votes
1
reply
4.3k
views
Comment: C: Robust transformation of raw RNA-seq counts for exploratory data analysis and hi
7.7 years ago svlachavas ▴ 840
0
votes
1
reply
4.3k
views
Comment: C: Robust transformation of raw RNA-seq counts for exploratory data analysis and hi
7.7 years ago svlachavas ▴ 840
0
votes
1
reply
4.3k
views
Comment: C: Robust transformation of raw RNA-seq counts for exploratory data analysis and hi
7.7 years ago svlachavas ▴ 840
0
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1
reply
4.2k
views
Comment: C: Difficulty in finding DEG using TCGA data from FireBrowse
7.8 years ago svlachavas ▴ 840
0
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1
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4.2k
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Comment: C: Difficulty in finding DEG using TCGA data from FireBrowse
7.8 years ago svlachavas ▴ 840
0
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2
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4.2k
views
Answer: A: Difficulty in finding DEG using TCGA data from FireBrowse
7.8 years ago svlachavas ▴ 840
536 results • Page 2 of 11
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