Showing : Enrichment • reset
5
votes
7
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709
views
Alternative tools to perform GO enrichment on DE genes
go de enrichment rnaseq goana
updated 2.3 years ago by 46k • written 2.3 years ago by ▴ 60
0
votes
7
replies
934
views
topGO: GO term enrichment analysis of differentially expressed genes (!) including fold-change (!)
foldchange topGO DifferentialExpression enrichment
updated 21 months ago by 46k • written 21 months ago by ▴ 20
4
votes
4
replies
644
views
Replicating GO website analysis with bioconductor packages (topGO?)
topGO Gene Ontology enrichment panther.db
updated 23 months ago by 46k • written 23 months ago by ▴ 120
3
votes
3
replies
553
views
Discrepancies between topGO output and input
go topGO gene ontology enrichment
updated 3.1 years ago by 60k • written 3.1 years ago by • 0
2
votes
3
replies
486
views
How to calculate overlap between transposable elements differentially expressed in one experiment, with those expressed in another set of samples?
gene expression enrichment RNA-seq DESeq2
updated 3.6 years ago by 37k • written 3.6 years ago by ▴ 30
1
vote
3
replies
648
views
GSVA and ssGSEA output differences
enrichment GSVA enrichplot ssGSEA
updated 4 months ago by ★ 2.9k • written 4 months ago by • 0
2
votes
2
replies
322
views
Hypergeometric (gene set enrichment) test using "Categories" package
enrichment hypergeometric Categories
15 months ago josmantorres ▴ 10
0
votes
2
replies
173
views
Seeking help in multifactor differential gene expression analysis using DESeq2. Can not get significance difference while comparing 3 time factor (…
DifferentialExpression GeneExpression R enrichment DEGseq
updated 5 weeks ago by ★ 1.1k • written 5 weeks ago by • 0
1
vote
2
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1.8k
views
Bias correction for enrichment analysis of 450k methylation data => feed bias adjusted genes into IPA
goseq 450k enrichment
updated 7.5 years ago by ▴ 10 • written 7.5 years ago by ▴ 10
1
vote
2
replies
3.6k
views
Interpreting TSS Enrichment Score Summary
atacseq atacseqqc tss enrichment
updated 24 months ago by ★ 1.3k • written 2.0 years ago by • 0
2
votes
1
reply
448
views
Multiple protein ids issue- which protein IDs should be selected for downstream analysis?
Proteomics enrichment Perseus
2.4 years ago harelarik ▴ 50
1
vote
1
reply
586
views
How to retreive topGO significant IDs of genes after enrichment test ?
topGO significant enrichment genes IDs
3.6 years ago David ROUX ▴ 10
2
votes
1
reply
1.5k
views
Genelist input for ClusterProfiler
R ClusterProfiler Enrichment Pathway
updated 2.3 years ago by 3.6k • written 2.3 years ago by • 0
0
votes
0
replies
122
views
enrichKEGG results for non-model organism
clusterProfiler enrichment KEGG
9 weeks ago AP • 0
0
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0
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787
views
Enrichment of GWAS SNPs in regulatory regions
genomicranges enrichment fisher
5.9 years ago enricoferrero ▴ 620
0
votes
0
replies
489
views
how to: enrichment (over representation) analysis of GWAS/QTL data distributed over a genome with GOSEQ
goseq enrichment GWAS
4.0 years ago zhu • 0
0
votes
0
replies
380
views
reactomePA error input file
r reactomePA enrichment
updated 2.2 years ago by 3.6k • written 2.2 years ago by ▴ 10
0
votes
0
replies
213
views
Over-enrichment of cytobands in INDUCE-Seq
enrichment INDUCE-Seq
10 months ago Mark Dunning ★ 1.1k
0
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0
replies
58
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Enrichment in genomic regions
Enrichment clusterPro WGCNA
5 weeks ago María José • 0
0
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0
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1.2k
views
DOSE: an R/Bioconductor package for Disease Ontology Semantic and Enrichment analysis
enrichment genesetenrichment dose gosemsim
7.7 years ago Guangchuang Yu ★ 1.2k
20 results • Page 1 of 1
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Comment: IsoformSwitchAnalyzeR package on mouse data by bpshtiwan ▴ 10
Hello Ryan, Also, I am not able to find esemble file that has haplotype info in it. Kindly, have you solved the problem? Best
Comment: Design and contrast matrices for analyzing the effect of two factors of interest by Gordon Smyth 46k
I understand that your mock dataset has expression data for just one protein instead of 8000, but is the phenoData complete? Does your real…
Comment: error running UniProt.ws by James W. MacDonald 60k
Or maybe it is a quick fix! Nicely done Marcel!
Answer: Error with TCGA package - TCGAbiolinks by Tiago C. Silva ▴ 220
It is working with the github version. Could you update please? BiocManager::install("BioinformaticsFMRP/TCGAbiolinksGUI.data") …
Comment: Error with TCGA package - TCGAbiolinks by Marcel Ramos 570
You can try the Genomic Data Commons Data Portal at [https://portal.gdc.cancer.gov/][1] or the `GenomicDataCommons` R/Bioconductor packag…
Votes
A: Importance of Order in Design Formula
remove microarray batch effects using Limma
On empirical Bayes of edgeR
Answer: CQN to DESeq2
Comment: package 'BiocInstaller' is not available (for R version 3.4.4)
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