Showing : transcriptomics • reset
3
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215
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How to extract counts from a DESeq dataset ordered by a specific sample?
DESeq2 Transcriptomics
5 weeks ago Anita ▴ 10
1
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1
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1.4k
views
News: Bioinformatics Summer School - July 2019 - UCLouvain (Belgium)
RNAseq deseq2 proteomics transcriptomics workshop News
written 5.2 years ago by 1.6k
3
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5
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1.3k
views
DESeq2, time-course interpretation
Transcriptomics TimeCourse DESeq2
updated 9 months ago by 41k • written 10 months ago by • 0
0
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4
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743
views
problem while retriving the genes by using p value and log2fc as conditions
Bioconductor Transcriptomics DifferentialExpression DESeq2
11 months ago sreeshmaraj72 • 0
2
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2
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824
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Deseq2 Resul variation by LFC variation
rnaseqGene DESeq2 Transcriptomics
2.6 years ago • updated 11 months ago diangomaiga • 0
0
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1
reply
358
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Time change in expression vs time change in phenotype
Transcriptomics ExpressionData DESeq2
updated 12 months ago by 41k • written 12 months ago by • 0
4
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5
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1.7k
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EnhancedVolcano - Unable to customize the length of Connectors to Gene Labels
Transcriptomics EnhancedVolcano
updated 12 months ago by ★ 3.9k • written 12 months ago by ▴ 20
4
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8
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1.3k
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DESEQ2 - What is the recommended workflow in terms of pre-filtering and counts normalization?
DESeq2 Transcriptomics
updated 13 months ago by ★ 13k • written 13 months ago by ▴ 20
0
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3
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752
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Understanding edgeR differential expression results
Transcriptomics edgeR DifferentialExpression RNASeqData RNASeq
updated 14 months ago by 50k • written 14 months ago by • 0
0
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1
reply
730
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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 15 months ago by ★ 1.5k • written 15 months ago by ▴ 10
0
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1
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1.2k
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Variance stabilization transformation (VST), blind=TRUE
DESeq2 Transcriptomics RNASeq
updated 15 months ago by 41k • written 16 months ago by • 0
0
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0
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535
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EdgeR without replication
Transcriptomics
17 months ago kuttibiotech2009 • 0
0
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0
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551
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Analysis of TIF-seq data to generate transcription start sites (TSS) and poly(A) site (PAS) clusters
Transcriptomics SequencingData
17 months ago Rom • 0
0
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0
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607
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Job: EPA Postdoctoral Fellowship in Bioinformatics and Computational Toxicology
MethylSeq Transcriptomics Pathways Epigenetics RNASeq
17 months ago whduke • 0
0
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2
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687
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Questions about `collapseReplicates` function in DESeq2
DESeq2 Transcriptomics
18 months ago Yijing • 0
0
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0
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522
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WCGNA: Using Eigengenes when correlating modules to external features? What about PC2, PC3???
Network Transcriptomics MicrobiomeData RNASEQ WCGNA
19 months ago Julieta • 0
2
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1
reply
1.5k
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Understanding tximport working with salmon outputs
Transcriptomics tximport
updated 19 months ago by ★ 4.1k • written 19 months ago by ▴ 10
0
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3
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978
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DESeq2 - transcript length correction necessary when quantifying reads from ends of transcripts?
Transcriptomics DESeq2
21 months ago marius.wenzel • 0
4
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6
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1.4k
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How to best visualize multi-level transcriptomics experiment data?
ggplot2 Transcriptomics Visualization R limma
23 months ago mohammedtoufiq91 ▴ 10
1
vote
3
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1.1k
views
Identifying DEG between development stages
plant Transcriptomics DESeq2 r
updated 2.1 years ago by ▴ 780 • written 2.1 years ago by • 0
2
votes
5
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1.4k
views
DESeq2 with baseline correction for gene expression differences
DESeq2 edgeR Transcriptomics
updated 2.2 years ago by 41k • written 2.2 years ago by • 0
1
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2
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1.3k
views
Not many DE genes using glmTreat
EdgeR Bioinformatics Transcriptomics Quantseq
2.7 years ago Barista • 0
0
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0
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911
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Job: Senior Bioinformatician - University of Alabama at Birmingham
JobPosting Transcriptomics SingleCell RNA-seq
2.8 years ago lianov • 0
0
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0
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829
views
Job: [apply by 8/15] PhD scholarship on functional and evolutionary genomics
JobPosting Transcriptomics GenomicVariation
2.8 years ago marie • 0
0
votes
2
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957
views
Downloading org.Mm.eg.db after R reinstall
org.Mmu.eg.db Transcriptomics
3.1 years ago Kate • 0
0
votes
0
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933
views
Consensus wgcna soft threshold for each data
Transcriptomics WGCNA wgcna
3.1 years ago 2323982403 ▴ 60
0
votes
1
reply
768
views
Metatranscriptomics DESeq2 multifactorial sampling
Transcriptomics DESeq2
updated 3.1 years ago by 41k • written 3.2 years ago by • 0
0
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0
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942
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Job: Bioinformatician at MiroBio, Oxford, UK
Transcriptomics Bioconductor Statistics Job Biocon
3.2 years ago m.jackson • 0
5
votes
5
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2.5k
views
analyzing RNA-Seq transcriptomic data (GEO accession: GSE96058)
GEO RNASeqR Transcriptomics
updated 3.2 years ago by 65k • written 3.2 years ago by ▴ 10
0
votes
0
replies
936
views
Job: Computational Biologist at Denali Therapeutics
Transcriptomics SingleCell JobPosting
3.4 years ago Steve Lianoglou ★ 13k
1
vote
1
reply
906
views
NanoStringDiff Not Recognized as Numeric
Bioconductor Transcriptomics NanoStringDiff
updated 3.5 years ago by 1.6k • written 3.5 years ago by ▴ 10
0
votes
0
replies
696
views
Problems with cummeRbund
plot transcriptomics differential expression cummeRbund
4.1 years ago raquelponti • 0
1
vote
0
replies
968
views
News: News: Bioinformatics Summer School - July 2020 - UCLouvain (Belgium)
rnaseq course proteomics transcriptomics scrnaseq News
4.2 years ago Laurent Gatto 1.6k
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
0
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877
views
Job: Bioinformatics Scientist, CNS Transcriptomics at Alnylam Pharmaceuticals, Cambridge MA, USA
scRNA-seq CNS transcriptomics RNAi Job
4.3 years ago Joseph Barry ▴ 10
0
votes
0
replies
769
views
Job: Bionformatician in personalized oncotherapy (BEL)
job bioinformatician immunotherapy genomics transcriptomics Job
4.4 years ago cedric • 0
1
vote
0
replies
867
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
2
votes
2
replies
2.9k
views
How adjusted p-values are calculated in limma
limma r transcriptomics FDR statistics
updated 4.6 years ago by 50k • written 4.6 years ago by ▴ 10
2
votes
0
replies
2.3k
views
Job: Bioconductor infrastructure for the integration of genomics, transcriptomics and proteomics data
proteomics genomics transcriptomics software Job
4.6 years ago Laurent Gatto 1.6k
1
vote
1
reply
929
views
cpm filtering parameter
cpm filtering transcriptomics rnaseq edgeR metatranscriptomics
updated 4.6 years ago by 50k • written 4.6 years ago by ▴ 10
0
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0
replies
930
views
Job: Bionformatician Position / Heidelberg
neuroscience data integration transcriptomics Job
5.1 years ago slezak • 0
0
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0
replies
782
views
How to integrate and visualize RNASeq / Proteomics data for metabolomics pathways?
r metabolomics KEGG Proteomics Transcriptomics
5.1 years ago Wuschel ▴ 10
1
vote
0
replies
1.6k
views
Job: Full time and permanent research logistician in Bioinformatics
transcriptomics proteomics job bioinformatician Job
5.2 years ago • updated 5.1 years ago Laurent Gatto 1.6k
3
votes
4
replies
1.3k
views
Writing a loop to clean up protein names
Proteomics Transcriptomics Loops batch-processing R
updated 5.6 years ago by ▴ 80 • written 5.6 years ago by • 0
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Comment: DNAString: Standard checksum function? by Henrik Bengtsson ★ 2.4k
For completeness: SEGUID v2 (https://www.seguid.org/), implemented in CRAN package **[seguid](https://cran.r-project.org/package=seguid)*…
Comment: fgsea significant result by Chris • 0
Thanks ATpoint! Setting a fixed seed can reproduce the same result. However, if someone else analyze the same data with different seed, the…
Comment: SGSeq: moving toward diffex from SGSeq analysis by Sara • 0
Thank you for your response. I have another question about saving the sgvc result as a CSV file. I would appreciate your help, please. ``` …
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Poonam • 0
I tried different block lengths first and considered 100000 to be ideal because of the almost similar inter-range distance. S1= bootRange…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Michael Love 41k
The segmentation and block length are key parameters. We recommend for example blocks of length ~500kb. It would help if you would post yo…
Votes
Handling multiple differential expression comparisons
Answer: fgsea significant result
Answer: fgsea significant result
package goseq seems to be not available on the latest version of R
package goseq seems to be not available on the latest version of R
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