Showing : Enrichment • reset
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topGO: how do I retrieve my genes contributing to the GO term enrichment
gene enrichment topGO GO retrieve
12 months ago Priya • 0
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4
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1.2k
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Questions about non-model organisms gene enrichment analysis
non-model enrichment organisms analysis
updated 16 months ago by ★ 3.9k • written 18 months ago by • 0
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506
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Enrichment in genomic regions
Enrichment clusterPro WGCNA
21 months ago María José • 0
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2
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914
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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 21 months ago by ★ 1.3k • written 21 months ago by • 0
1
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3
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1.8k
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enrichKEGG results for non-model organism
clusterProfiler enrichment KEGG
updated 8 weeks ago by • 0 • written 22 months ago by • 0
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3
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5.3k
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GSVA and ssGSEA output differences
enrichment GSVA enrichplot ssGSEA
updated 2.0 years ago by ★ 3.2k • written 2.0 years ago by • 0
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Over-enrichment of cytobands in INDUCE-Seq
enrichment INDUCE-Seq
2.5 years ago Mark Dunning ★ 1.1k
2
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2
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873
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Hypergeometric (gene set enrichment) test using "Categories" package
enrichment hypergeometric Categories
2.9 years ago josmantorres ▴ 10
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7
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2.3k
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topGO: GO term enrichment analysis of differentially expressed genes (!) including fold-change (!)
foldchange topGO DifferentialExpression enrichment
updated 3.4 years ago by 50k • written 3.4 years ago by ▴ 20
4
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4
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1.3k
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Replicating GO website analysis with bioconductor packages (topGO?)
topGO Gene Ontology enrichment panther.db
updated 3.6 years ago by 50k • written 3.6 years ago by ▴ 120
1
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2
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9.1k
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Interpreting TSS Enrichment Score Summary
atacseq atacseqqc tss enrichment
updated 3.7 years ago by ★ 1.3k • written 3.7 years ago by • 0
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0
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reactomePA error input file
r reactomePA enrichment
updated 3.9 years ago by ★ 3.9k • written 3.9 years ago by ▴ 10
3
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3
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4.6k
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Genelist input for ClusterProfiler
R ClusterProfiler Enrichment Pathway
updated 10 months ago by ★ 3.9k • written 4.0 years ago by • 0
5
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7
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2.1k
views
Alternative tools to perform GO enrichment on DE genes
go de enrichment rnaseq goana
updated 4.0 years ago by 50k • written 4.0 years ago by ▴ 60
2
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1
reply
1.2k
views
Multiple protein ids issue- which protein IDs should be selected for downstream analysis?
Proteomics enrichment Perseus
4.1 years ago harelarik ▴ 60
3
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3
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1.2k
views
Discrepancies between topGO output and input
go topGO gene ontology enrichment
updated 4.8 years ago by 65k • written 4.8 years ago by • 0
1
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1
reply
1.1k
views
How to retreive topGO significant IDs of genes after enrichment test ?
topGO significant enrichment genes IDs
5.2 years ago David ROUX ▴ 20
2
votes
3
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947
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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 5.2 years ago by 41k • written 5.2 years ago by ▴ 30
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863
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how to: enrichment (over representation) analysis of GWAS/QTL data distributed over a genome with GOSEQ
goseq enrichment GWAS
5.7 years ago zhu • 0
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1.2k
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Enrichment of GWAS SNPs in regulatory regions
genomicranges enrichment fisher
7.6 years ago enricoferrero ▴ 660
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2
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2.3k
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Bias correction for enrichment analysis of 450k methylation data => feed bias adjusted genes into IPA
goseq 450k enrichment
updated 9.2 years ago by ▴ 40 • written 9.2 years ago by ▴ 10
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1.7k
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DOSE: an R/Bioconductor package for Disease Ontology Semantic and Enrichment analysis
enrichment genesetenrichment dose gosemsim
9.4 years ago Guangchuang Yu ★ 1.2k
22 results • Page 1 of 1
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Comment: significant difference of p-values with dream() after updating VariancePartition by gabriel.hoffman ▴ 100
See variancePartition updates for [v1.33.11](https://diseaseneurogenomics.github.io/variancePartition/news/index.html#variancepartition-133…
Comment: A ComBat-seq issue: the covariates are confounded by W. Evan Johnson ▴ 850
This is only partially confounded because there is overlap between the batches -- they both have GFP controls that can be used to remove ba…
Answer: Different number of exons in reference genome affects DEXSeq analysis by Alejandro Reyes ★ 1.9k
Likely the new annotation that you are using has more annotated isoforms, and thus the exons are splitted into more disjoint exonic bins. I…
Answer: Adding columns to DEXSeqResults object by Alejandro Reyes ★ 1.9k
I'd have a look into the match function, that could give you a mapping between the ids in the dxr1 object and your data frame of gene symbo…
Answer: rlog transformation by Michael Love 41k
It is dependent on the other samples in the dataset.
Votes
Comment: DEXSeq DEXSeqDataSet count matrix duplication
Comment: Error in champ.load(): The following specified files do not exist
Answer: Error in read.metharray(basenames = files, extended = extended, verbose = verbos
Using GRanges and IRanges to simply get all chromosome data
A: Using GRanges and IRanges to simply get all chromosome data
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