Showing : gene expression • reset
9
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6
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1.8k
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Representative gene expression value in one condition with several replicates
rnaseq gene expression edger
updated 6.4 years ago by 50k • written 6.4 years ago by • 0
7
votes
13
replies
2.3k
views
Test whether expression levels of two gene sets are significantly different
R DESeq2 gene set testing gene expression
7.5 years ago Jon Bråte ▴ 250
3
votes
11
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2.4k
views
Filtering Gene Symbols and Sample Description from GSE files of GEO
gene expression geoquery GSE bioconductor microarray
updated 5.7 years ago by 21k • written 5.7 years ago by ▴ 20
3
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4
replies
989
views
edgeR analysis of cells treated with either drug1, drug2, or a time matched control at two different time points, did I set this up correctly?
edger rnaseq gene expression bioinformatics
updated 5.7 years ago by 50k • written 5.7 years ago by • 0
3
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3
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1.9k
views
Differential Expression Analysis in edgeR using Anova
edger anova gene expression Dispersion
updated 4.9 years ago by • 0 • written 5.3 years ago by • 0
2
votes
4
replies
4.6k
views
WGCNA: intrepreting grey unassigned "module"?
WGCNA rnaseq gene expression co-expression network
updated 6.1 years ago by ★ 3.0k • written 6.1 years ago by ▴ 10
2
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2
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1.4k
views
SAM/siggenes: Differential gene expression analysis
SAM siggenes microarray gene expression sam
7.3 years ago Brian Smith ▴ 120
2
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3
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981
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 5.3 years ago by 42k • written 5.3 years ago by ▴ 30
2
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2
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841
views
Limma design matrix separate channel analysis with same control
limma design matrix gene expression
updated 5.3 years ago by 50k • written 5.3 years ago by • 0
2
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1
reply
1.0k
views
gene expression data analysis and batch effect methods
batch effect gene expression
updated 7.0 years ago by ▴ 420 • written 7.0 years ago by • 0
2
votes
1
reply
4.8k
views
Using DESeq2 to analyse TCGA data
deseq2 tcga tcgabiolinks gene expression differential expression
updated 6.3 years ago by 42k • written 6.3 years ago by • 0
1
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3
replies
1.7k
views
RPM data analysis with DESeq2
deseq2 RPM gene expression
5.1 years ago ruhollah.mb • 0
1
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2
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649
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Microarray Analysis of Sleep Deprivation Data Experimental Design
limma gene expression r diffeential expression microarray analysis
updated 5.2 years ago by 65k • written 5.2 years ago by • 0
1
vote
1
reply
6.3k
views
WGCNA: Different Detect Cut Heights Across Multiple Blocks
wgcna clustering gene expression
updated 7.1 years ago by ★ 3.0k • written 7.1 years ago by ▴ 10
1
vote
0
replies
873
views
Job: Bioinformatics PhD: The circadian clock in the ageing plant, University of York, UK
transcriptomics gene expression time series plant biology circadian Job
4.6 years ago dezer ▴ 10
1
vote
3
replies
2.4k
views
Reading Illumina HT12 V4.0 Data from GEO into Lumi
lumi geoquery geo illumina human ht-12 v4 gene expression
updated 6.6 years ago by 50k • written 6.6 years ago by • 0
0
votes
5
replies
2.0k
views
Getting opposite log2 fold change
deseq2 gene expression log2foldchange R
updated 5.2 years ago by 42k • written 5.2 years ago by • 0
0
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3
replies
1.2k
views
How to regress phenotype ~ gene + covars in limma?
limma gene expression microarray R
updated 5.1 years ago by 50k • written 5.1 years ago by • 0
0
votes
7
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1.3k
views
How to read Illumina data used in the MACQ project (GSE5350)
microarray normalization Illumina data MACQ project gene expression
updated 5.0 years ago by 50k • written 5.0 years ago by • 0
0
votes
2
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882
views
NanoStringDiff correction for variation between patient
NanoStringDiff GLM Gene expression
updated 4.7 years ago by 65k • written 4.7 years ago by • 0
0
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0
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872
views
Normalisation of Data before loading in TMixClust
rna-seq tmixclust k-means clustering gene expression genesis
4.4 years ago astridite • 0
0
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4
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1.1k
views
GOexpress - Error when plotting expression data
RNA-seq transcriptomics gene ontology gene expression GOexpress
updated 4.3 years ago by ▴ 350 • written 4.3 years ago by • 0
0
votes
3
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1.8k
views
Algorithm for between and within microarray normalisation (for meta-analysis).
microarray meta-analysis gene expression
updated 5.4 years ago by 0 • written 7.8 years ago by ▴ 70
0
votes
2
replies
1.1k
views
DESeq2 # of up-and down-regulated genes are approximately equal
deseq2 gene expression
updated 3.6 years ago by 42k • written 3.6 years ago by • 0
0
votes
2
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3.0k
views
barplot with ggplot2 for gene expression
ggplot2 barplot gene expression gene expression
updated 8.8 years ago by 65k • written 8.8 years ago by ▴ 130
0
votes
2
replies
1.2k
views
Help needed to identify common genes among datasets
datasets genes gene expression
updated 8.7 years ago by ★ 13k • written 8.7 years ago by • 0
0
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3
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1.4k
views
Anova test on gene expression data
Anova gene expression
updated 6.5 years ago by 65k • written 6.5 years ago by • 0
0
votes
2
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842
views
Is there any bioc tool to predict/quantify transcription factor activation using gene expression data?
transcription factor tf activation gene regulatory network gene expression
updated 7.4 years ago by • 0 • written 7.4 years ago by • 0
0
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0
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1.1k
views
Bach effect and PEER/RUV correction on large population
methylation gene expression sva batch effect ruv
7.4 years ago carleshf ▴ 10
0
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0
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995
views
gene expression data analysis and batch effect methods
batch effect gene expression
7.0 years ago tati6406 • 0
0
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4
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1.3k
views
Gene clusters based on gene expression across samples
kmeans gene expression clustering
6.6 years ago • updated 6.5 years ago Jane Merlevede ▴ 90
0
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4
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1.3k
views
limma. After running a differential expression analysis... Can you get the individual gene expression levels between individual contrasts for each of…
limma gene expression differential gene expression
6.5 years ago arfranco ▴ 130
0
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0
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1.1k
views
Interpreting Affymetrix Human Genome U133 Plus 2.0 samples
gene expression gene expression data cel affy affymatrix
6.3 years ago torgeirous • 0
0
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0
replies
1.3k
views
What is the recommended method for running WGCNA on large metatranscriptomic dataset?
wgcna transcriptome big data metagenomics gene expression
6.3 years ago jol.espinoz ▴ 40
0
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2
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1.0k
views
Question about Illuminaio
illuminaio illumina human ht-12 v4 gene expression micorarray
updated 6.2 years ago by ★ 6.5k • written 6.2 years ago by • 0
0
votes
1
reply
750
views
Obtaining gene expression value for a list of genes
gene expression
updated 5.8 years ago by 50k • written 5.8 years ago by ▴ 20
0
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0
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902
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Job: Postdoctoral Research Fellowship- reinforcement learning in biology- London
job bioinformatician job machine learning gene expression experimental design Job
5.6 years ago dezer ▴ 10
0
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0
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693
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problem with DeMAND, gene expression matrix input
DeMAND gene expression
5.5 years ago chipolino • 0
0
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2
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1.7k
views
How can I compare the expression of two genes within the same sample?
gene expression rnaseq deseq2
updated 5.4 years ago by ▴ 30 • written 5.4 years ago by • 0
39 results • Page 1 of 1
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Answer: Subsetting RNAseq data | voomaByGroup() by Gordon Smyth 50k
Judging from your MDS plot, cell types 1 and 2 look radically different, so it would make perfect sense to analyse them separately. There's…
Answer: Numerical differences in DESeq2 output depending on different design matrix cons by Michael Love 42k
Yes there can be small numerical differences in the estimated quantities because of how the algorithms decide to stop iterating.
Answer: DESeq2- Mysterious interaction suppresses DEGs by Michael Love 42k
Removing samples from one group nevertheless changes the variance estimation (dispersion) for all comparisons. So you could have pushed one…
Comment: Ensembl plants at annotationHub? by Daniele • 0
Hi, I'm using Ensembl Plants release 59 with the IWGSC RefSeq v1.1 gene annotation. Thanks a lot for replying so quickly!
Comment: Numerical differences in DESeq2 output depending on different design matrix cons by swbarnes2 ★ 1.4k
If you restrict yourself to, say, genes with a baseMean > 50, are the numerical differences between the two designs significant?
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Answer: Error while installing BiocManager::install("org.Vdahliae.eg.db")
Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Rsubread counting peaks ATACseq
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