Showing : Transcriptomics • reset
5
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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
4
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5
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1.6k
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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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6
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How to best visualize multi-level transcriptomics experiment data?
ggplot2 Transcriptomics Visualization R limma
23 months ago mohammedtoufiq91 ▴ 10
4
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8
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DESEQ2 - What is the recommended workflow in terms of pre-filtering and counts normalization?
DESeq2 Transcriptomics
updated 12 months ago by ★ 13k • written 12 months ago by ▴ 20
3
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5
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DESeq2, time-course interpretation
Transcriptomics TimeCourse DESeq2
updated 9 months ago by 41k • written 9 months ago by • 0
3
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4
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1.3k
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Writing a loop to clean up protein names
Proteomics Transcriptomics Loops batch-processing R
updated 5.5 years ago by ▴ 80 • written 5.5 years ago by • 0
3
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2
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196
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How to extract counts from a DESeq dataset ordered by a specific sample?
DESeq2 Transcriptomics
4 weeks ago Anita ▴ 10
2
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2
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2.8k
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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
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2
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806
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Deseq2 Resul variation by LFC variation
rnaseqGene DESeq2 Transcriptomics
2.5 years ago • updated 11 months ago diangomaiga • 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 ★ 4.0k • written 19 months ago by ▴ 10
2
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5
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1.4k
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DESeq2 with baseline correction for gene expression differences
DESeq2 edgeR Transcriptomics
updated 2.1 years ago by 41k • written 2.1 years ago by • 0
2
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0
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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
913
views
cpm filtering parameter
cpm filtering transcriptomics rnaseq edgeR metatranscriptomics
updated 4.6 years ago by 50k • written 4.6 years ago by ▴ 10
1
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1
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1.4k
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News: Bioinformatics Summer School - July 2019 - UCLouvain (Belgium)
RNAseq deseq2 proteomics transcriptomics workshop News
written 5.2 years ago by 1.6k
1
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0
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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
1
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0
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856
views
Job: Bioinformatics PhD: The circadian clock in the ageing plant, University of York, UK
transcriptomics gene expression time series plant biology circadian Job
4.5 years ago dezer ▴ 10
1
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0
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951
views
News: News: Bioinformatics Summer School - July 2020 - UCLouvain (Belgium)
rnaseq course proteomics transcriptomics scrnaseq News
4.2 years ago Laurent Gatto 1.6k
1
vote
1
reply
892
views
NanoStringDiff Not Recognized as Numeric
Bioconductor Transcriptomics NanoStringDiff
updated 3.5 years ago by 1.6k • written 3.5 years ago by ▴ 10
1
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2
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1.3k
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Not many DE genes using glmTreat
EdgeR Bioinformatics Transcriptomics Quantseq
2.7 years ago Barista • 0
1
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3
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1.0k
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Identifying DEG between development stages
plant Transcriptomics DESeq2 r
updated 2.1 years ago by ▴ 780 • written 2.1 years ago by • 0
0
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3
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731
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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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4
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730
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problem while retriving the genes by using p value and log2fc as conditions
Bioconductor Transcriptomics DifferentialExpression DESeq2
11 months ago sreeshmaraj72 • 0
0
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0
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934
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Job: Bioinformatician at MiroBio, Oxford, UK
Transcriptomics Bioconductor Statistics Job Biocon
3.1 years ago m.jackson • 0
0
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1
reply
341
views
Time change in expression vs time change in phenotype
Transcriptomics ExpressionData DESeq2
updated 12 months ago by 41k • written 12 months ago by • 0
0
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0
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925
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Job: Computational Biologist at Denali Therapeutics
Transcriptomics SingleCell JobPosting
3.3 years ago Steve Lianoglou ★ 13k
0
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0
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689
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Problems with cummeRbund
plot transcriptomics differential expression cummeRbund
4.1 years ago raquelponti • 0
0
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0
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814
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Job: [apply by 8/15] PhD scholarship on functional and evolutionary genomics
JobPosting Transcriptomics GenomicVariation
2.8 years ago marie • 0
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 15 months ago by • 0
0
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3
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959
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DESeq2 - transcript length correction necessary when quantifying reads from ends of transcripts?
Transcriptomics DESeq2
21 months ago marius.wenzel • 0
0
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0
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521
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EdgeR without replication
Transcriptomics
16 months ago kuttibiotech2009 • 0
0
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4
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1.0k
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GOexpress - Error when plotting expression data
RNA-seq transcriptomics gene ontology gene expression GOexpress
updated 4.2 years ago by ▴ 350 • written 4.2 years ago by • 0
0
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0
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864
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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
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2
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942
views
Downloading org.Mm.eg.db after R reinstall
org.Mmu.eg.db Transcriptomics
3.0 years ago Kate • 0
0
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2
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682
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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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898
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Job: Senior Bioinformatician - University of Alabama at Birmingham
JobPosting Transcriptomics SingleCell RNA-seq
2.7 years ago lianov • 0
0
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0
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589
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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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0
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763
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Job: Bionformatician in personalized oncotherapy (BEL)
job bioinformatician immunotherapy genomics transcriptomics Job
4.4 years ago cedric • 0
0
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0
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542
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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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773
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How to integrate and visualize RNASeq / Proteomics data for metabolomics pathways?
r metabolomics KEGG Proteomics Transcriptomics
5.1 years ago Wuschel ▴ 10
0
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0
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921
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Job: Bionformatician Position / Heidelberg
neuroscience data integration transcriptomics Job
5.1 years ago • updated 5.0 years ago slezak • 0
0
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0
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514
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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
0
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1
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711
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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
reply
753
views
Metatranscriptomics DESeq2 multifactorial sampling
Transcriptomics DESeq2
updated 3.1 years ago by 41k • written 3.1 years ago by • 0
0
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0
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922
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Consensus wgcna soft threshold for each data
Transcriptomics WGCNA wgcna
3.1 years ago 2323982403 ▴ 60
44 results • Page 1 of 1
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Answer: DESEQ2 IHW and Apelgm method for Shrinkage (adding s values to FDR) by marka • 0
As a single dad in Australia, finding time to unwind is rare, but [Lincoln Casino][1] has become my go-to escape after putting the kids to …
Comment: DESeq2 output used for PCA plot on R studio by swbarnes2 ★ 1.3k
You didn't generate it with an experiment, you made it up: Your PCA doesn't look like a good RNASeq experiment, because it's not.
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2) by swbarnes2 ★ 1.3k
Your contrast is comparing LGR5 to Homeostasis. The bottom 2 are fine, it's the top one that is wrong. Are you sure this step isn't misla…
Comment: get BM error by James W. MacDonald 65k
I believe you need NCBI Gene IDs for KEGG, in which case you may need to map. The three genes you have shown here don't map, and of those t…
Comment: get BM error by Fara • 0
Thank you for your response. The primary reason for translating Ensembl IDs into Entrez Gene IDs is to perform KEGG (Kyoto Encyclopedia of…
Votes
Answer: get BM error
Answer: Use of negative binomial model for exponential decay rate estimation using DESeq
Comment: Different Shrunk Log2FC according with reference
Reproducibility issue with scran together with lapply and BiocParallel
C: SGSeq: moving toward diffex from SGSeq analysis
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