Showing : Rna • reset
5
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4
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925
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Experiment design contrasts any time edgeR
DGE rnaseq RNA edger
updated 5.7 years ago by • 0 • written 5.7 years ago by ▴ 40
0
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2
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969
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Normalizzation indipentent data from RNAAeq experiment
rna normalization
8.3 years ago aristotele_m ▴ 30
3
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6
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329
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Limma: log2 of TMM values for RNA-Seq Analysis and PlotMDS()?
Log2 edgeR RNA limma Normalization
10 weeks ago • updated 9 weeks ago Sara • 0
6
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5
replies
2.8k
views
Clustering differential expression results from voomWithQualityWeights
RNA limma rsem edgeR
updated 5.8 years ago by 47k • written 5.8 years ago by ▴ 20
3
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6
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1.4k
views
Regressing effect of treatment on RNA-seq expected count from rsem.
RNA rna-seq science bioinformatics
updated 5.8 years ago by 62k • written 5.8 years ago by ▴ 20
1
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1
reply
847
views
Outliers - to remove or to not remove that is the question
outliers rna microarray
updated 5.7 years ago by ▴ 400 • written 5.7 years ago by ▴ 30
0
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1
reply
1.1k
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RNA sequencing analysis for time point experiment using DeSeq2
deseq2 RNA rnaseq
updated 5.5 years ago by 39k • written 5.5 years ago by ▴ 20
0
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1
reply
653
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Time series comparison with DESEQ2
RNA rnaseq deseq2
updated 5.5 years ago by 39k • written 5.5 years ago by ▴ 20
0
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1
reply
375
views
Ensembl dataset version
tximport rna rnaseqGene biomaRt
updated 12 months ago by ★ 2.1k • written 12 months ago by • 0
0
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4
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4.4k
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RNAseq Adjusting for Covariates?
RNA rnaseq Covariate adjustment deseq
updated 6.9 years ago by 39k • written 6.9 years ago by • 0
3
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1
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1.3k
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Targeted RNASeq/CaptureSeq DE Analysis
EdgeR deseq2 RNA differential expression
updated 6.4 years ago by ★ 28k • written 6.4 years ago by • 0
0
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2
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548
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DESeq and checkFullRank(modelMatrix)
RNA DESeq2
updated 3.8 years ago by 39k • written 3.8 years ago by ▴ 10
0
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6
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570
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Bizarre Dispersion Plots
deseq2 RNA RNASeq
updated 2.9 years ago by 39k • written 2.9 years ago by • 0
1
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1
reply
380
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How to interpret coefficients of time course modeled data with DESeq2?
deseq2 RNA
updated 2.8 years ago by 39k • written 2.8 years ago by • 0
2
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7
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643
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Affycoretools package, HTA 2.0 annotation for non-coding RNA
affy rna hta2.0 r
updated 2.7 years ago by 62k • written 2.7 years ago by • 0
4
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3
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940
views
How to resolve NAs when annotating a diff gene list with org.Hs.eg.db terms?
annotation rna
updated 2.3 years ago by 62k • written 2.3 years ago by ▴ 20
0
votes
3
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1.1k
views
Pearson correlation between gene expression and phenotype
edgeR RNASeq
updated 2.2 years ago by 47k • written 2.2 years ago by • 0
2
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1
reply
296
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Error in RNAseq123 analysis, unexpected symbol.
RNAseq123 Rna
updated 7 months ago by 47k • written 7 months ago by • 0
0
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4
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682
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Fitting a continuous variable with batch effect using Limma. Also a question about normalization.
limma edgeR rna
21 months ago Nirad • 0
1
vote
1
reply
310
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Description of the headers obtained from the Eligos2 output
methylation RNA native epitranscriptomics
updated 10 months ago by ▴ 80 • written 10 months ago by ▴ 10
1
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2
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471
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Is it necessary to standardize Combat in R?
RNA Combat sva R
8 months ago takemoto • 0
2
votes
3
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701
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Number and percent of mapped reads from RNA seq analysis.
rna-seq rna
updated 3.8 years ago by 13k • written 3.8 years ago by ▴ 20
5
votes
5
replies
821
views
Association analysis between gene expression and Phenotype
rna singlecell limma
updated 3.8 years ago by ★ 28k • written 3.8 years ago by ▴ 20
2
votes
1
reply
454
views
DESeq2 statistic and design
deseq2 RNA
updated 3.8 years ago by 39k • written 3.8 years ago by ▴ 10
1
vote
0
replies
594
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Job: 1 Computational Biologist and 1 Molecular Biologist
computational biology molecular biology RNA r-loop ncRNA Job
4.3 years ago l.brown ▴ 10
0
votes
0
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94
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Correct GFF3 translation for FeatureCounts
RNASeq FeatureCounts Rna
3 months ago rridley3 • 0
0
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0
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1.0k
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Finding candidate binding sites for RNA binding proteins in R
R bioconductor RNA mRNA RNA binding proteins
5.9 years ago Walter F. Baumann ▴ 10
0
votes
1
reply
168
views
Confused about design for RNA seq experiment
RNAseq ExperimentData RNAseq123 RNA ExperimentalDesign
updated 4 months ago by ★ 2.1k • written 4 months ago by • 0
0
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2
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286
views
Rsubread align --R session aborts
RNA Alignment Rsubread
5 months ago sreekalasn • 0
1
vote
1
reply
725
views
how to filter genes in significant module?
RNA WGCNA filter
3.6 years ago modarzi ▴ 10
0
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0
replies
505
views
Job: Post-doctoral Fellowship at BC Cancer Research Center, Vancouver BC
single cell RNA Data analysis Bioinformatics Job
3.6 years ago jmaanaki • 0
0
votes
0
replies
244
views
Job: Scientist/Senior Scientist – Bioinformatics / Computational Biology
MassSpectrometryData RNA DifferentialExpression
5 months ago António Miguel de Jesus Domingues ▴ 490
0
votes
0
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308
views
Cross-cultivar RNA-seq analysis
RNA Normalization
21 months ago nancy • 0
0
votes
0
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576
views
R code for finding wobble/redundant positions in an RNA string
r code rna wobble
5.0 years ago fawazfebin ▴ 50
34 results • Page 1 of 1
Recent ...
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Comment: Ascona Workshop “Biological systems: from first principles to data-​driven model by Wolfgang Huber 13k
Dear Liam, it's bi-annual, we just submitted a proposal. If it works out, it'll be in 2024, and as it looks now, in early September. Theme:…
Comment: IHW for multiple regression by Wolfgang Huber 13k
Indeed, for the two-sided t-test (and similar), the sign of the test statistic is independent of the p-value under the null hypothesis, and…
Comment: edgeR supports continuous covariates? by Jeffcgen2000 • 0
Hi Yunshun Chen and Gordon Smyth, does edgeR support mixed model? (https://en.wikipedia.org/wiki/Mixed_model)
Comment: find tandem repeats in DNA by me-nobody • 0
OK. Thank you very much!
Comment: How to normalize long-read RNA-seq data for comparison with short-reads by Bernardo • 0
Discussion for this question continuing on Biostars: https://www.biostars.org/p/9552419/
Votes
A: edgeR: exactTest, glmFIt or glmQLFit approach?
Answer: on which data type limma::removeBatchEffect can be applyed?
C: WGCNA: Understanding module-trait correlations
A: WGCNA: Understanding module-trait correlations
A: Differential expression analysis starting from TPM data
Awards • All
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Scholar to Gordon Smyth 47k
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