Showing : GeneExpression • reset
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Reading gene expression data in GPR format and converting it to xlsx format
BiocWorkflowTools BiomedicalInformatics GeneExpression
updated 11 months ago by 68k • written 11 months ago by • 0
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1
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727
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WGCNA sample-data preprocessing order
Microarray WGCNA GeneExpression
updated 12 months ago by ★ 5.0k • written 12 months ago by • 0
2
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1
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600
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Using Affymetrix Custom Array
ArrayExpress makecdfenv AffymetrixChip gcrma GeneExpression
updated 14 months ago by 68k • written 14 months ago by • 0
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1
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579
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Is my time course analysis with DESeq2 valid?
GeneExpression DESeq2 TimeCourse
updated 14 months ago by 43k • written 14 months ago by • 0
4
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9
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1.5k
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Can DESeq2 rlog normalized matrix reflects time course result directly?
DESeq2 timecoursedata GeneExpression
updated 21 months ago by ★ 5.0k • written 21 months ago by • 0
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3
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1.1k
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"could not find function "readTSGE" in package ctsGE" Error occurs when trying to follow ctsGE package instructions.
GeneExpression Clustering ctsGE
23 months ago jbgnielson • 0
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1.1k
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DESeq2: Comparison of single clinical sample to 4 normals using tumour cohort to infer dispersion of single sample
GeneExpression DESeq2 RNASeqData RNASeq StatisticalMethod
2.2 years ago Manthos • 0
2
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3
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5.4k
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TPM from STAR mapped counts
GeneExpression GenomicFeatures RNA-Seq TPM
updated 2.4 years ago by 53k • written 2.4 years ago by • 0
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1
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1.4k
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Read methylation data from tar files on GEO (GSE73303)
GeneExpression Bioconductor GEOquery MethylationArrayData
2.5 years ago Arianna • 0
2
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2
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4.3k
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FeatureCounts Output Counts at Exon Level Using Default Settings, want gene level
GeneExpression
2.8 years ago CDSPARKS ▴ 30
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1
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1.2k
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Heatmap of two conditions from the normalized gene count data
GeneExpression heatmaps
updated 2.9 years ago by ★ 5.0k • written 2.9 years ago by • 0
0
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1
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5.4k
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DESeq2 after Seurat analysis on integrated datasets
DESeq2 SingleCell GeneExpression Seurat
updated 3.0 years ago by ★ 5.0k • written 3.0 years ago by • 0
3
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4
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3.3k
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Comparing different method for DESEQ2
DESeq2 GeneExpression
updated 3.4 years ago by 43k • written 3.4 years ago by • 0
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3
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1.7k
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CountOverlap
GeneExpression ChIPSeqData
updated 3.4 years ago by 68k • written 3.4 years ago by ▴ 20
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818
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Free Gibbson energy RNA doublex
GeneExpression RNAinteract
3.5 years ago Tamina • 0
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1.0k
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Error while running Case study n. 3: Integration of methylation and expression for ACC
geneexpression methylation
3.6 years ago hlee ▴ 10
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2
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1.5k
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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 3.6 years ago by ★ 1.4k • written 3.6 years ago by • 0
0
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1
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1.0k
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Error "DESeqDataSetFromMatrix" function not found
GeneExpression
updated 3.6 years ago by ▴ 780 • written 3.6 years ago by • 0
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1
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1.1k
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Aggregate differentially expressed genes across all contrast results using DEVis
DifferentialExpression NanoporeRNASeq DESeq2 GeneExpression DEVis
updated 3.7 years ago by 68k • written 3.7 years ago by • 0
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1
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1.2k
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Error while using champ.SVD function
GeneExpression
updated 3.8 years ago by ▴ 780 • written 3.8 years ago by • 0
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1
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2.6k
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GDCprepare of STAR - counts
GeneExpression TCGAbiolinks
updated 3.4 years ago by • 0 • written 3.8 years ago by • 0
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0
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1.4k
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Volcano plot: Putting calculated values in legend
GeneExpression
updated 3.8 years ago by ★ 4.0k • written 3.8 years ago by • 0
2
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2
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1.3k
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Could use some advice on analyzing ranks of expressed genes in two conditions,
GeneExpression DESeq2 ExpressionData
updated 3.9 years ago by • 0 • written 3.9 years ago by ▴ 10
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2
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3.0k
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Using DESeq2 for Differential Expression Analysis with Interaction Term
DifferentialExpression GeneExpression DESeq2 Design()
4.3 years ago p.l.chen • 0
2
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2
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10k
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Deseq2 and log2foldchange cutoffs- How to get differentially expressed genes?
DifferentialExpression GeneExpression DESeq2 R
updated 4.3 years ago by ★ 5.0k • written 4.3 years ago by ▴ 10
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2
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1.6k
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Gene expression in R
limma edgeR Biobase GeneExpression
4.4 years ago sogol.bouyeh • 0
2
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2
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2.5k
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DESeq2 - one groups with no replicates
DESeq2 rnaseqGene DifferentialExpression GeneExpression
4.6 years ago SUMIT • 0
5
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18
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4.4k
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DESeq2 comparison two cell types and two genotypes
GeneExpressionWorkflow DESeq2 GeneExpression
updated 4.7 years ago by 43k • written 4.8 years ago by • 0
1
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3
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1.5k
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DESeq analysis with Biological replicate.
DESeq2 ExpressionData GeneExpression
updated 5.0 years ago by 43k • written 5.0 years ago by • 0
1
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1
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1.1k
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Accounting for fish body mass in DE?
GeneExpression edgeR
updated 5.1 years ago by 68k • written 5.1 years ago by • 0
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1
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1.2k
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Find significant genes related to a specific disease
GeneExpression RNASeqR limma
updated 5.2 years ago by ▴ 510 • written 5.2 years ago by • 0
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3
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1.5k
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Troubles implementing LIMMA for paired samples (before/after treatment) comparaisons
GeneExpression R limma MultipleComparison
updated 5.2 years ago by 68k • written 5.2 years ago by • 0
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972
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Diffrential Gene expression in a group of specific methylated prometor patience
GeneExpression methyAnalysis MethylationArray
5.2 years ago coobzie • 0
2
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5
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14k
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Calculating FPKM from raw counts data using fpkm() in deseq2
deseq2 r fpkm() geneexpression
updated 7.3 years ago by 43k • written 7.3 years ago by ▴ 60
1
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4
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3.3k
views
Need help loading gene expression data into R using either ArrayExpress or GEOquery R packages
arrayexpress geoquery geneexpression
updated 7.8 years ago by 21k • written 7.8 years ago by ▴ 10
3
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1
reply
2.8k
views
Processing several GSM from GEO database using Barcode and fRMA
frma barcode geneexpression gsm ncbi geo
updated 8.2 years ago by ▴ 830 • written 8.2 years ago by • 0
1
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4
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2.4k
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ddCT Package for StepOnePlus qPCR output
qPCR ddCt geneexpression
updated 8.5 years ago by ▴ 120 • written 8.5 years ago by ▴ 60
1
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3
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1.7k
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General suggestions regarding gene expression
geneexpression
updated 9.0 years ago by 53k • written 9.0 years ago by • 0
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0
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1.3k
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Where or how to find the gene interaction with itself?
microarray gene interaction geneexpression
9.1 years ago shaheryar • 0
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0
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1.5k
views
Error in SAMseq analysis with R
r samseq microarray rnaseq geneexpression
9.5 years ago namilio • 0
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0
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1.6k
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Methylation and gene expression
methylation geneexpression
9.5 years ago Asma rabe ▴ 290
0
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2
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1.5k
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Methylation and gene expression data
methylation geneexpression
updated 9.7 years ago by ▴ 130 • written 9.7 years ago by ▴ 290
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3
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2.1k
views
error in drawing MDS plot for eset
MDSplot geneexpression insilicomerging
updated 9.9 years ago by 68k • written 9.9 years ago by ▴ 20
1
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6
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2.5k
views
how to deal the effect of enormous gene expression?
deseq2 rnaseq tomato geneexpression
updated 10.0 years ago by 43k • written 10.0 years ago by • 0
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1
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1.6k
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Error in MetaQC R package.
r metaqc microarray geneexpression
10.1 years ago Agaz Hussain Wani ▴ 260
0
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3
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2.7k
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problem with WGCNA
geneexpression
updated 10.2 years ago by ★ 3.0k • written 10.2 years ago by • 0
2
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5
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2.3k
views
heatmap in R
r language microarray geneexpression
updated 10.5 years ago by ★ 1.1k • written 10.5 years ago by • 0
1
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1
reply
1.6k
views
gene expression data analysis
microarray geneexpression
updated 10.5 years ago by 68k • written 10.5 years ago by • 0
1
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1
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6.0k
views
NA p and p adjusted value
geneexpression
updated 10.5 years ago by ★ 3.0k • written 10.5 years ago by • 0
1
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2
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7.4k
views
explanation of makeContrasts function of limma package
limma microarray R geneexpression
updated 10.5 years ago by ★ 29k • written 10.5 years ago by ▴ 10
56 results • Page 1 of 2
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Comment: Chip Seq Analysis of RNA Polymerase 2 by Tikaaaq2c • 0
Without proper scaling or an enrichment check , Pol 2 peaks can appear flat against the background. If the data remains noisy, you might w…
Comment: Changing multiple display parameters of a specific exon in GeneRegionTrack by Tikaaaq2c • 0
Organizing complex transcripts requires the same discipline as managing a digital library on a learning platform. Many researchers use a [S…
Comment: soGGi error by shepherl 4.3k
We have tried to contact the soGGi maintainer to have them update the package to the newer version of gglot2 but they have so far been unre…
Comment: using limma trend workflow in CAMERA by Gordon Smyth 53k
No, `trend.var=TRUE` and `trend=TRUE` are not needed in any voom pipeline, because the trend is already incorporated into the voom weights.
Comment: Questions about bacon QC and correction on EWAS results by Tikaaa2sahaaaq2c • 0
In the world of mobile games, the 88ef game download has gained traction for its performance driven design [free download][1], similar to …
Votes
Answer: Limma-voom sample weights and impact on DEG numbers
C: Why limma, edgeR, and DESeq did not implement fold change moderation first?
Comment: using limma trend workflow in CAMERA
C: z-score with DESeq2?
Answer: What happens to genes with low dispersion during dispersion shrinkage in DESeq2
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