Showing : geneexpression • reset
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GDCprepare of STAR - counts
GeneExpression TCGAbiolinks
updated 24 days ago by ▴ 210 • written 28 days ago by • 0
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63
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Error while using champ.SVD function
GeneExpression
updated 26 days ago by ▴ 280 • written 26 days ago by • 0
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Volcano plot: Putting calculated values in legend
GeneExpression
updated 5 weeks ago by 3.5k • written 5 weeks ago by • 0
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197
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Could use some advice on analyzing ranks of expressed genes in two conditions,
GeneExpression DESeq2 ExpressionData
updated 8 weeks ago by • 0 • written 10 weeks ago by ▴ 10
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Using DESeq2 for Differential Expression Analysis with Interaction Term
DifferentialExpression GeneExpression DESeq2 Design()
7 months ago p.l.chen • 0
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Deseq2 and log2foldchange cutoffs- How to get differentially expressed genes?
DifferentialExpression GeneExpression DESeq2 R
updated 7 months ago by ★ 1.2k • written 7 months ago by ▴ 10
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Gene expression in R
limma edgeR Biobase GeneExpression
8 months ago sogol.bouyeh • 0
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459
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DESeq2 - one groups with no replicates
DESeq2 rnaseqGene DifferentialExpression GeneExpression
11 months ago SUMIT • 0
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907
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DESeq2 comparison two cell types and two genotypes
GeneExpressionWorkflow DESeq2 GeneExpression
updated 12 months ago by 36k • written 12 months ago by • 0
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3
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383
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DESeq analysis with Biological replicate.
DESeq2 ExpressionData GeneExpression
updated 15 months ago by 36k • written 16 months ago by • 0
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342
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Accounting for fish body mass in DE?
GeneExpression edgeR
updated 16 months ago by 59k • written 16 months ago by • 0
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302
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Find significant genes related to a specific disease
GeneExpression RNASeqR limma
updated 17 months ago by ▴ 480 • written 17 months ago by • 0
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3
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371
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Troubles implementing LIMMA for paired samples (before/after treatment) comparaisons
GeneExpression R limma MultipleComparison
updated 17 months ago by 59k • written 17 months ago by • 0
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254
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Diffrential Gene expression in a group of specific methylated prometor patience
GeneExpression methyAnalysis MethylationArray
18 months ago coobzie • 0
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5
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5.5k
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Calculating FPKM from raw counts data using fpkm() in deseq2
deseq2 r fpkm() geneexpression
updated 3.6 years ago by 36k • written 3.6 years ago by ▴ 50
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4
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1.0k
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Need help loading gene expression data into R using either ArrayExpress or GEOquery R packages
arrayexpress geoquery geneexpression
updated 4.1 years ago by 21k • written 4.1 years ago by ▴ 10
3
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1
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865
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Processing several GSM from GEO database using Barcode and fRMA
frma barcode geneexpression gsm ncbi geo
updated 4.5 years ago by ▴ 830 • written 4.5 years ago by • 0
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4
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1.2k
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ddCT Package for StepOnePlus qPCR output
qPCR ddCt geneexpression
updated 4.8 years ago by ▴ 120 • written 4.8 years ago by ▴ 60
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3
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690
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General suggestions regarding gene expression
geneexpression
updated 5.3 years ago by 45k • written 5.3 years ago by • 0
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553
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Where or how to find the gene interaction with itself?
microarray gene interaction geneexpression
5.4 years ago shaheryar • 0
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756
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Error in SAMseq analysis with R
r samseq microarray rnaseq geneexpression
5.7 years ago namilio • 0
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778
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Methylation and gene expression
methylation geneexpression
5.8 years ago Asma rabe ▴ 290
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2
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680
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Methylation and gene expression data
methylation geneexpression
updated 6.0 years ago by ▴ 130 • written 6.0 years ago by ▴ 290
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3
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994
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error in drawing MDS plot for eset
MDSplot geneexpression insilicomerging
updated 6.2 years ago by 59k • written 6.2 years ago by ▴ 20
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6
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1.3k
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how to deal the effect of enormous gene expression?
deseq2 rnaseq tomato geneexpression
updated 6.2 years ago by 36k • written 6.2 years ago by • 0
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810
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Error in MetaQC R package.
r metaqc microarray geneexpression
6.4 years ago Agaz Hussain Wani ▴ 260
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3
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1.0k
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problem with WGCNA
geneexpression
updated 6.5 years ago by ★ 2.6k • written 6.5 years ago by • 0
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5
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1.0k
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heatmap in R
r language microarray geneexpression
updated 6.7 years ago by ▴ 990 • written 6.7 years ago by • 0
1
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1
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781
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gene expression data analysis
microarray geneexpression
updated 6.7 years ago by 59k • written 6.7 years ago by • 0
1
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1
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4.4k
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NA p and p adjusted value
geneexpression
updated 6.8 years ago by ★ 2.6k • written 6.8 years ago by • 0
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2
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4.4k
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explanation of makeContrasts function of limma package
limma microarray R geneexpression
updated 6.8 years ago by ★ 27k • written 6.8 years ago by ▴ 10
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3
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How to combine expression values of multiple probes for one gene
probe convert geneexpression onechannelgui
updated 6.8 years ago by ▴ 780 • written 6.8 years ago by ▴ 10
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707
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Using segAnglePo() for a set of genes
geneexpression genesetenrichment segAnglePo
7.4 years ago Peter.Wood • 0
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5
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6.3k
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limma voom accessing normalised counts tables
limma rnaseq geneexpression voom counts
updated 7.6 years ago by 13k • written 7.6 years ago by ▴ 10
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7.9k
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DESeq2 timecourse - How to set the experimental design
deseq2 geneexpression timecourse
updated 7.6 years ago by 13k • written 7.6 years ago by ▴ 10
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2
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3.2k
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Selecting genes based on expressional variance
geneexpression wgcna rnaseq
updated 7.7 years ago by 1.5k • written 7.7 years ago by ▴ 190
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easyRNASeq: Number of total counts
GeneExpression RNASeq Genetics Coverage Normalization BSgenome Biobase Biostrings biomaRt
8.1 years ago Guest User ★ 12k
37 results • Page 1 of 1
Recent ...
Replies
Answer: help understanding limma by Gordon Smyth 45k
It is obvious that you haven't exported and read the correct intensity data, as you admit yourself in your question. I don't know what the …
Answer: performing the differential binding in ChIP-seq by etiennedanis • 0
DiffBind https://bioconductor.org/packages/release/bioc/html/DiffBind.html
Comment: Transcript-level differential expression using DESeq2 by Michael Love 36k
Did you see the part of the vignette where we talk about this? https://bioconductor.org/packages/release/bioc/vignettes/fishpond/inst/doc/…
Comment: Transcript-level differential expression using DESeq2 by Ekta • 0
Hi Michael, thanks for your reply. One more question. If the qvalue (and pvalue) for all DTEs are the same, the Volcano plot will look lik…
Comment: R: problem with running time-series analysis software: Mfuzz by soda ▴ 80
I have solved this problem by myself. My data.frame is not suitable for Mfuzz.
Votes
Comment: Using vegan::betadisper for determing if I subset my design for DESeq2
Answer: How to best visualize multi-level transcriptomics experiment data?
A: Interpreting results of sample-to-sample PCA/clustering and changing assignment
C: DESeq2 - Differences between plotCounts and normalized counts
C: DESEq2 - Change reference level change "Contrasts" results
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