Showing : Transcriptomics • reset
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problem while retriving the genes by using p value and log2fc as conditions
Bioconductor Transcriptomics DifferentialExpression DESeq2
4 days ago • updated 3 days ago sreeshmaraj72 • 0
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1
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93
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Time change in expression vs time change in phenotype
Transcriptomics ExpressionData DESeq2
updated 5 weeks ago by 40k • written 5 weeks ago by • 0
3
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5
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219
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EnhancedVolcano - Unable to customize the length of Connectors to Gene Labels
Transcriptomics EnhancedVolcano
updated 6 weeks ago by 3.8k • written 6 weeks ago by ▴ 10
4
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8
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377
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DESEQ2 - What is the recommended workflow in terms of pre-filtering and counts normalization?
DESeq2 Transcriptomics
updated 6 weeks ago by 13k • written 7 weeks ago by ▴ 10
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3
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258
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Understanding edgeR differential expression results
Transcriptomics edgeR DifferentialExpression RNASeqData RNASeq
updated 3 months ago by 47k • written 3 months ago by • 0
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1
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235
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Is it possible to convert transcript-level to gene-level dataset to use it in DESeq2 ?
DESeq2 Transcriptomics tximport deseq txi
updated 4 months ago by ★ 1.5k • written 4 months ago by • 0
0
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1
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287
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Variance stabilization transformation (VST), blind=TRUE
DESeq2 Transcriptomics RNASeq
updated 4 months ago by 40k • written 4 months ago by • 0
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211
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EdgeR without replication
Transcriptomics
5 months ago kuttibiotech2009 • 0
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232
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Analysis of TIF-seq data to generate transcription start sites (TSS) and poly(A) site (PAS) clusters
Transcriptomics SequencingData
6 months ago Rom • 0
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216
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Job: EPA Postdoctoral Fellowship in Bioinformatics and Computational Toxicology
MethylSeq Transcriptomics Pathways Epigenetics RNASeq
6 months ago whduke • 0
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Questions about `collapseReplicates` function in DESeq2
DESeq2 Transcriptomics
7 months ago Yijing • 0
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0
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201
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WCGNA: Using Eigengenes when correlating modules to external features? What about PC2, PC3???
Network Transcriptomics MicrobiomeData RNASEQ WCGNA
8 months ago Julieta • 0
2
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1
reply
563
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Understanding tximport working with salmon outputs
Transcriptomics tximport
updated 8 months ago by ★ 2.8k • written 8 months ago by ▴ 10
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3
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535
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DESeq2 - transcript length correction necessary when quantifying reads from ends of transcripts?
Transcriptomics DESeq2
10 months ago marius.wenzel • 0
4
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6
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780
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How to best visualize multi-level transcriptomics experiment data?
ggplot2 Transcriptomics Visualization R limma
12 months ago mohammedtoufiq91 ▴ 10
1
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3
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563
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Identifying DEG between development stages
plant Transcriptomics DESeq2 r
updated 14 months ago by ▴ 720 • written 14 months ago by • 0
2
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5
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818
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DESeq2 with baseline correction for gene expression differences
DESeq2 edgeR Transcriptomics
updated 15 months ago by 40k • written 15 months ago by • 0
2
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2
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457
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Deseq2 Resul variation by LFC variation
rnaseqGene DESeq2 Transcriptomics
19 months ago • updated 7 days ago diangomaiga • 0
1
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2
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786
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Not many DE genes using glmTreat
EdgeR Bioinformatics Transcriptomics Quantseq
21 months ago Barista • 0
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489
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Job: Senior Bioinformatician - University of Alabama at Birmingham
JobPosting Transcriptomics SingleCell RNA-seq
22 months ago lianov • 0
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484
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Job: [apply by 8/15] PhD scholarship on functional and evolutionary genomics
JobPosting Transcriptomics GenomicVariation
22 months ago marie • 0
0
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2
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615
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Downloading org.Mm.eg.db after R reinstall
org.Mmu.eg.db Transcriptomics
2.1 years ago Kate • 0
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566
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Consensus wgcna soft threshold for each data
Transcriptomics WGCNA wgcna
2.2 years ago 2323982403 ▴ 50
0
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1
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468
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Metatranscriptomics DESeq2 multifactorial sampling
Transcriptomics DESeq2
updated 2.2 years ago by 40k • written 2.2 years ago by • 0
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634
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Job: Bioinformatician at MiroBio, Oxford, UK
Transcriptomics Bioconductor Statistics Job Biocon
2.2 years ago m.jackson • 0
5
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5
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1.7k
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analyzing RNA-Seq transcriptomic data (GEO accession: GSE96058)
GEO RNASeqR Transcriptomics
updated 2.3 years ago by 62k • written 2.3 years ago by • 0
0
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0
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623
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Job: Computational Biologist at Denali Therapeutics
Transcriptomics SingleCell JobPosting
2.4 years ago Steve Lianoglou 13k
1
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1
reply
615
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NanoStringDiff Not Recognized as Numeric
Bioconductor Transcriptomics NanoStringDiff
updated 2.6 years ago by 1.6k • written 2.6 years ago by ▴ 10
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423
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Problems with cummeRbund
plot transcriptomics differential expression cummeRbund
3.2 years ago raquelponti • 0
1
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0
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683
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News: News: Bioinformatics Summer School - July 2020 - UCLouvain (Belgium)
rnaseq course proteomics transcriptomics scrnaseq News
3.3 years ago Laurent Gatto 1.6k
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4
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647
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GOexpress - Error when plotting expression data
RNA-seq transcriptomics gene ontology gene expression GOexpress
updated 3.3 years ago by ▴ 320 • written 3.3 years ago by • 0
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532
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Job: Bioinformatics Scientist, CNS Transcriptomics at Alnylam Pharmaceuticals, Cambridge MA, USA
scRNA-seq CNS transcriptomics RNAi Job
3.4 years ago Joseph Barry ▴ 10
0
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0
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520
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Job: Bionformatician in personalized oncotherapy (BEL)
job bioinformatician immunotherapy genomics transcriptomics Job
3.5 years ago cedric • 0
1
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0
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590
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Job: Bioinformatics PhD: The circadian clock in the ageing plant, University of York, UK
transcriptomics gene expression time series plant biology circadian Job
3.6 years ago dezer ▴ 10
2
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2
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1.7k
views
How adjusted p-values are calculated in limma
limma r transcriptomics FDR statistics
updated 3.7 years ago by 47k • written 3.7 years ago by ▴ 10
2
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0
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2.0k
views
Job: Bioconductor infrastructure for the integration of genomics, transcriptomics and proteomics data
proteomics genomics transcriptomics software Job
3.7 years ago Laurent Gatto 1.6k
1
vote
1
reply
574
views
cpm filtering parameter
cpm filtering transcriptomics rnaseq edgeR metatranscriptomics
updated 3.7 years ago by 47k • written 3.7 years ago by ▴ 10
0
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0
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683
views
Job: Bionformatician Position / Heidelberg
neuroscience data integration transcriptomics Job
4.2 years ago • updated 4.1 years ago slezak • 0
0
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0
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536
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How to integrate and visualize RNASeq / Proteomics data for metabolomics pathways?
r metabolomics KEGG Proteomics Transcriptomics
4.2 years ago Wuschel ▴ 10
1
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1.3k
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Job: Full time and permanent research logistician in Bioinformatics
transcriptomics proteomics job bioinformatician Job
4.2 years ago Laurent Gatto 1.6k
1
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1.1k
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News: Bioinformatics Summer School - July 2019 - UCLouvain (Belgium)
RNAseq deseq2 proteomics transcriptomics workshop News
4.3 years ago Laurent Gatto 1.6k
3
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4
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993
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Writing a loop to clean up protein names
Proteomics Transcriptomics Loops batch-processing R
updated 4.6 years ago by ▴ 80 • written 4.6 years ago by • 0
42 results • Page 1 of 1
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Comment: Visualization of negative log CPM values by Gordon Smyth 47k
Sorry, but some of the things you say are not correct. > compound B has 2 statistically significant genes that are up-regulated No, there…
Comment: Visualization of negative log CPM values by ATpoint ★ 2.8k
Applies to both.
Comment: Visualization of negative log CPM values by Sabiha ▴ 10
@atpoint OK, are you referring to the `log2(cpm+1)` or `log2(tpm+1)`
Comment: Visualization of negative log CPM values by Sabiha ▴ 10
@gordonsmyth noted. Related to the graphs above, the table below is the output from `limma`, and compound B has 2 statistically significant…
Comment: Visualization of negative log CPM values by Gordon Smyth 47k
> negative scale might perhaps indicate gene is too low to be really expressed. Yes, negative logCPMs do mean that the gene is expressed a…
Votes
Comment: Visualization of negative log CPM values
Any efficient workaround to identify highly variable genes in Affymetrix microarray expression data?
Filtering low intensity probes in microarray data
Comment: Visualization of negative log CPM values
Adjusting for baseline when having longitudinal data, mixed model and no treatment
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