Showing : DifferentialExpression • reset
12
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13
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10k
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GSEA many significant gene sets despite no differentially expressed genes
GSEA GeneSetEnrichment DifferentialExpression
updated 11 months ago by ★ 4.6k • written 2.9 years ago by ▴ 70
6
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11
replies
1.9k
views
Error in running Dispersion estimation analysis in EdgeR
edgeR DifferentialExpression limma design RNASeq
23 months ago mohammedtoufiq91 ▴ 10
4
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10
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1.7k
views
Paired Time course Experiment Design on edgeR between and within groups
edgeR diffcyt limma DifferentialExpression
4.2 years ago Hajar • 0
5
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9
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2.0k
views
Time series DE gene analysis with edgeR where specific timepoints have NA levels across different patients
edgeR RNASeq DifferentialExpression TimeCourse
updated 3.5 years ago by 67k • written 3.5 years ago by ▴ 840
0
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9
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921
views
Differential Expression Genes as Independent Variables
limma DifferentialExpression variancePartition dream
updated 7 weeks ago by 67k • written 7 weeks ago by • 0
2
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8
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2.6k
views
Whether to build DESeq2 model with all data and then contrast groups or subset groups first, build model and then contrast?
DifferentialExpression DESeq2
written 19 months ago by ▴ 10
0
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8
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1.2k
views
Quickly calculating adjusted Fold Change with DESeq2
DifferentialExpression DESeq2
15 months ago • updated 14 months ago Luca • 0
0
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8
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1.7k
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Swish log2FC NA output
swish fishpond DifferentialExpression
2.5 years ago jvandinter • 0
2
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8
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2.6k
views
DESeq2 numbers of DEGs not consistent with PCA plot
DifferentialExpression DESeq2 contrasts
3.7 years ago Jane ▴ 10
3
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8
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4.5k
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DESeq2 how to specify contrast to test difference of differences
DifferentialExpression contrasts interaction DESeq2
written 2.7 years ago by ▴ 10
1
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8
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2.3k
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DESeq2 analysis for targeted RNA-seq
DifferentialExpression DESeq2
3.0 years ago dadca596 • 0
0
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8
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1.9k
views
Three conditions and two time points
DifferentialExpression DESeq2 time
3.3 years ago • updated 3.2 years ago AZ ▴ 30
1
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8
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2.0k
views
edgeR design matrix with multiple cell types and combination treatments
DifferentialExpression celltype treatment edgeR limma
2.6 years ago giBio • 0
0
votes
7
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3.3k
views
topGO: GO term enrichment analysis of differentially expressed genes (!) including fold-change (!)
foldchange topGO DifferentialExpression enrichment
updated 4.2 years ago by 52k • written 4.2 years ago by ▴ 20
0
votes
7
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1.6k
views
Help with differential gene expression using Agilent Microarray data (from GEO database)
limma Paireddata DifferentialExpression
updated 2.2 years ago by 67k • written 2.3 years ago by • 0
3
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7
replies
1.7k
views
Getting differentially expressed genes for time points
edgeR DifferentialExpression limma
updated 3.9 years ago by 52k • written 3.9 years ago by ▴ 30
2
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7
replies
4.2k
views
EdgeR glmLRT vs glmQLFTest
edgeR DifferentialExpression
updated 17 months ago by • 0 • written 3.8 years ago by ▴ 20
0
votes
7
replies
1.5k
views
Which Limma guide is recommended ?
limma R DifferentialExpression
2.8 years ago • updated 2.7 years ago JAcky • 0
2
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7
replies
1.2k
views
deseq2 results
DESeq2 DifferentialExpression rnaseqGene DifferentialRegulation
8 months ago sajadahmad41454 • 0
3
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7
replies
2.3k
views
How to visaulize RNAseq data with edgeR, limma, ...?
r rnaseq DifferentialExpression limma edger
updated 2.2 years ago by 52k • written 2.2 years ago by • 0
0
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7
replies
1.7k
views
DESeq2 on allelic reads
RNASeq DifferentialExpression DESeq2
updated 2.8 years ago by 43k • written 2.8 years ago by • 0
3
votes
6
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2.6k
views
Repeated measures per individual and unbalanced number of measures per individual: DE between groups still an ordinary two-group comparison?
differentialexpression deseq2 limma edger repeatedmeasures
5.3 years ago • updated 3.0 years ago hermidalc ▴ 20
1
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6
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1.6k
views
Error while running DESeq2
DifferentialExpression
2.6 years ago srikar • 0
0
votes
6
replies
1.1k
views
Questionable limma results for differential expression on RNA-seq
RNASeqData DifferentialExpression limma
updated 18 months ago by 52k • written 18 months ago by • 0
4
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6
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1.2k
views
filtering lowly expressed reads
RNASeq limma DifferentialExpression Preprocessing
updated 11 months ago by 52k • written 12 months ago by • 0
3
votes
6
replies
1.9k
views
do I have to do this step in creating DGEList ?
DifferentialExpression
updated 23 months ago by 52k • written 23 months ago by • 0
5
votes
6
replies
1.1k
views
Monotonic genes in results of differential gene expression analysis
DifferentialExpression rnaseqGene RNASeqData
12 months ago Shaimaa Gamal • 0
5
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6
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953
views
Not fully paired differential gene expression analysis
edgeR DifferentialExpression
updated 9 months ago by ★ 4.6k • written 9 months ago by ▴ 70
3
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6
replies
1.8k
views
One-tailed test edgeR possible?
one-tailed edgeR DifferentialExpression test
written 2.2 years ago by • 0
0
votes
6
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895
views
[DESeq2] Introduce a bias in DESeq2
DifferentialExpression DESeq2 BatchEffect
updated 12 weeks ago by 43k • written 3 months ago by • 0
5
votes
6
replies
2.2k
views
DE Analysis on Scran-Normalized Counts
DifferentialExpression scRNAseq scran
updated 3.9 years ago by ★ 28k • written 4.0 years ago by • 0
3
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6
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1.6k
views
Different contrast coding strategies in DESeq2 produce slightly different output?
DESeq2 RNASeqData DifferentialExpression
updated 4.2 years ago by 43k • written 4.2 years ago by ▴ 50
0
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6
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1.1k
views
DESeq2 time course confusion
DESeq2 DifferentialExpression
3.6 years ago rajpal22288 ▴ 10
2
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6
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1.2k
views
Biostrings error at retrieving protein sequences
SequenceMatching Biostrings DifferentialExpression Proteome
updated 15 months ago by 16k • written 15 months ago by • 0
2
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6
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1.4k
views
How to update a package at Bioconductor
diffGeneAnalysis DifferentialExpression
updated 19 months ago by 4.1k • written 20 months ago by • 0
6
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5
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1.9k
views
What benchmark should I use for setting the EdgeR filterByExpr min.count parameter?
edgeR DifferentialExpression
updated 12 weeks ago by 52k • written 10 months ago by ▴ 50
4
votes
5
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2.1k
views
What to do if covariates in design matrix of limma are confounded
limma DifferentialExpression
updated 2.7 years ago by • 0 • written 2.9 years ago by ▴ 70
0
votes
5
replies
1.1k
views
Help with model for differential expression analysis
DifferentialExpression edgeR
13 months ago • updated 12 months ago Lucy ▴ 60
0
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5
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687
views
Merge Replicates vs Mixed Model
limma DifferentialExpression variancePartition dream
10 weeks ago • updated 7 weeks ago abadgerw • 0
3
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5
replies
1.9k
views
Right way to pseudobulk donors across replicates in edgeR
pseudobulk edgeR DifferentialExpression
updated 7 months ago by • 0 • written 10 months ago by ▴ 50
2
votes
5
replies
685
views
Limma - 0 downreg and upreg values
GeoMx limma DifferentialExpression
updated 6 months ago by 67k • written 6 months ago by • 0
3
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5
replies
6.4k
views
How does edgeR calculate fold change?
DifferentialExpression DEA FC FoldChange edgeR
3.4 years ago zhxiaokang ▴ 20
0
votes
5
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1.5k
views
DESeq2 shows comparison nonsignificant, unclear why
DESeq2 RNASeq DifferentialExpression
updated 2.4 years ago by 43k • written 3.4 years ago by • 0
0
votes
5
replies
2.1k
views
Weird output of DESeq2 when using single sample from one group agains the other group (6 samples), really need some help
DifferentialExpression DESeq2
updated 3.0 years ago by 43k • written 3.0 years ago by ▴ 10
3
votes
5
replies
1.2k
views
DESeq2: How to Compare the Condition Effects of Two Different Treatments?
DESeq2 RNAseq DifferentialExpression
updated 5 months ago by ★ 1.4k • written 5 months ago by • 0
5
votes
4
replies
9.7k
views
DESeq2: LRT or WALD guidance
DESeq2 RNASeq DifferentialExpression
updated 2.8 years ago by • 0 • written 3.4 years ago by ▴ 10
0
votes
4
replies
1.7k
views
enhanced volcano , different -log10pvalue of the same gene
EnhancedVolcano RNASeqData DifferentialExpression
20 months ago ruba-mahmoud • 0
0
votes
4
replies
1.3k
views
Thoughts on how to model gene expression data from two groups in a clinical trial
Microarray DifferentialExpression
2.6 years ago S • 0
0
votes
4
replies
662
views
Single Cell Experiment : Differential Expression "List of length 0" - Help!
DifferentialExpression scran scater SingleCellExperiment edgeR
7 months ago vohara4 • 0
0
votes
4
replies
1.0k
views
problem while retriving the genes by using p value and log2fc as conditions
Bioconductor Transcriptomics DifferentialExpression DESeq2
20 months ago sreeshmaraj72 • 0
50 results • Page 1 of 1
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