Showing : RNA-Seq • reset
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Job: Senior Bioinformatician - University of Alabama at Birmingham
JobPosting Transcriptomics SingleCell RNA-seq
2 days ago lianov • 0
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1
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54
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Interaction using a single factor model DESeq2
DESeq2 RNA-seq synergy contrast
updated 3 days ago by 33k • written 6 days ago by • 0
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5
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156
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Negative binomial fitting DESeq2
DESeq2 RNA-seq
updated 6 weeks ago by 33k • written 6 weeks ago by ▴ 20
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1
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94
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Doing differential expression using FPKM , samples don't have replication
dge fpkm rna-seq
updated 8 weeks ago by 3.2k • written 8 weeks ago by • 0
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3
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158
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Differential expression error in edgeR - maybe from design matrix?
design edgeR matrix RNA-seq MDplot
updated 8 weeks ago by 43k • written 8 weeks ago by • 0
4
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2
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6.1k
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DESeq2: thousands of NA for pvalues?
deseq2 rna-seq DEGs cooks cutoff
written 2.5 years ago by ▴ 20
1
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1
reply
138
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Correlation analyses on TCGA data
RNA-seq Normalization edgeR recount3
updated 8 weeks ago by ▴ 890 • written 9 weeks ago by ▴ 10
3
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4
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167
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need help regarding differential expression analysis
rna-seq
updated 9 weeks ago by 3.2k • written 9 weeks ago by ▴ 20
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79
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Job: Computational Biologist, Blood Research Institute, Versiti, Wauwatosa, Wisconsin, USA
RNA-seq Job Single-Cell
10 weeks ago rbrns • 0
1
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4
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1.3k
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NA values of count matrix in class DESeqDataSet
rna-seq recount
updated 3 months ago by ▴ 890 • written 3.8 years ago by • 0
3
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4
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267
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Pipeline for an Anova-like analysis in edgeR
edgeR anova rna-seq
3 months ago Antonio M. • 0
1
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2
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244
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multifactorial design matrix
designmatrix RNA-seq limma
updated 3 months ago by 43k • written 4 months ago by ▴ 10
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2
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242
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How to remove batch effect from RNA-seq without count data?
RUVSeq FPKM removeBatchEffect RNA-seq sva
4 months ago Xiaojie Cheng • 0
1
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7
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378
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how to make a contrast of uniquely DE genes
edgeR limma RNA-seq DEGseq
4 months ago decppced • 0
1
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3
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182
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Questions regarding DESeq2 experimental setup and lfcShrink
DESeq2 RNA-seq
updated 4 months ago by 33k • written 4 months ago by • 0
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138
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Normalization for WGCNA on two organisms (virus-host)
RNA-Seq DESeq2 WGCNA Normalization
6 months ago wrzl • 0
3
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9
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473
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summarizeToGene from tximeta: not all 'rnames' found or unique.
RNA-seq tximeta
7 months ago Pufall, Miles A ▴ 30
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1
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185
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Limma/Voom Normalized Counts
limma RNA-seq
updated 7 months ago by 43k • written 7 months ago by • 0
0
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2
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206
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RNA-seq read simulation for benchmarking differential expression/splicing variance
polyester simulation RNA-seq syntheticdata
updated 8 months ago by 43k • written 8 months ago by ▴ 60
0
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1
reply
166
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Pathway analysis using GAGE returns all NA values
gage rna-seq pathwayanalysis
updated 8 months ago by 3.2k • written 8 months ago by • 0
2
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6
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413
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DESeq2: When to split multiple group samples for 'more' accurate sizefactors, dispersions etc.
Dispersion RNA-seq DESeq2 Multiple-group
updated 5 months ago by 33k • written 9 months ago by • 0
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3
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289
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GSVA on gene sets with 2 genes
GSVA gene sets RNA-seq
updated 9 months ago by ★ 2.7k • written 9 months ago by ▴ 60
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3
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239
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Weird set of samples in plant gene atlas study that appear over-corrected after DESeq2 normalization
RNA-Seq DESeq2
updated 9 months ago by 33k • written 9 months ago by • 0
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267
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how to find consensus modules between 2 datasets by different platform through WGCNA
consensusmodule microarray RNA-seq WGCNA
9 months ago modarzi ▴ 10
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213
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Job: Bioinformatics Developer / Computational Biologist
bioinformatics rna-seq shiny apps R algorithm development Job
9 months ago mmartin ▴ 20
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153
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circRNAprofiler - miRNA binding sites
circRNA RNA-seq circRNAprofiler
9 months ago Terra • 0
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225
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HISAT2/StringTie/Ballgown for Novel Transcript Isoform Differential Expression
isoform RNA-seq hisat2 stringtie ballgown
9 months ago ra711 • 0
3
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3
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344
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Problem to understand Interactions at any time
RNA-seq edgeR interactions
updated 9 months ago by 43k • written 9 months ago by ▴ 10
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3
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247
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Pathway analysis of bacterial RNA-seq data
annotation rna-seq pathway analysis
10 months ago microPhD • 0
5
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6
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402
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RUVseq to remove a library size artefact in a zebrafish brain RNA-seq dataset
RUVSeq RUV RNA-seq
updated 10 months ago by 57k • written 10 months ago by ▴ 20
3
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1
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188
views
How do you create a targets dataframe in edgeR?
edgeR RNA-SEQ
updated 10 months ago by 57k • written 10 months ago by • 0
1
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1
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213
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Having issues mapping gene Ids during ReportingTools::publish() from Bioconductor.
ReportingTools RNA-Seq RMarkdown
updated 10 months ago by 57k • written 10 months ago by ▴ 20
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4
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216
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Issues with DESeq2 LRT for time-course experiment
rna-seq R DESeq2 LRT
updated 11 months ago by 3.2k • written 11 months ago by ▴ 10
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1
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170
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dupRadar: low % of duplicates for 150bp PE RNAseq
dupRadar 150bp RNA-seq
updated 11 months ago by ▴ 60 • written 11 months ago by • 0
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4
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344
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Using different LFC shrinkage estimators for spike-in normalised RNA-seq data
deseq2 apeglm rna-seq spike-in
updated 11 months ago by 33k • written 11 months ago by • 0
2
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1
reply
710
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Calculation of module membership in WGCNA
WGCNA RNA-seq ModuleMembership Network Hub gene
updated 11 months ago by ★ 2.6k • written 11 months ago by ▴ 50
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209
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Job: Scientist 1, Bioinformatics (Research | Berkeley, CA | Full Time)
Bioinformatics drug-discovery RNA-seq CRISPR Job
11 months ago yzhang • 0
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317
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Job: Postdoctoral Fellow in Sars-CoV-2 genomics and transcriptomics @ Paul-Ehrlich-Institute, Germany
rna-seq phylogenetics protein modelling single-cell sequencing Job
12 months ago liam.childs • 0
0
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1
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429
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Dealing with multi-overlapping and multi-mapping reads
RNA-seq featureCounts ht-seq
updated 12 months ago by ▴ 800 • written 12 months ago by ▴ 50
1
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2
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232
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DESeq2 design formula with multiple factors
deseq2 RNA-Seq
updated 12 months ago by 33k • written 12 months ago by • 0
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2
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548
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cmdscale() error: NA values not allowed in 'd', ask for help.
cmdscale zinbwave scRNA-seq single cell sequencing RNA-seq
updated 12 months ago by ▴ 870 • written 13 months ago by ▴ 10
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6
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201
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Odd DESeq2 results - high significance in genes with too many zeros
deseq2 rna-seq
updated 12 months ago by 33k • written 12 months ago by • 0
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0
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184
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create S-plots with ropls package
s-plot ropls opls-da rna-seq
13 months ago andreia • 0
1
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2
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143
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EdgeR blocking factor - missing paired sample
EdgeR edgeR RNA-seq differential expression analysis blocking factors
updated 13 months ago by 43k • written 13 months ago by ▴ 20
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2
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349
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DESeq2 doubts about transformations + nbinomWaldtest warning
rna-seq deseq2 warnings nbinomWaldTest transformation
updated 13 months ago by 33k • written 13 months ago by • 0
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126
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Pathview : why are some genes not colored?
pathview rna-seq
13 months ago okna0215 • 0
1
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230
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Job: Bioinformatics Data Analyst
R RNA-seq job Job
13 months ago António Miguel de Jesus Domingues ▴ 480
1
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4
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204
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How to compare a single RNA-Seq sample with microarray samples?
voom rna-seq microarray
updated 13 months ago by 57k • written 13 months ago by ▴ 10
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5
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331
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Don't let TopGo to trimm long GO names
go software error topgo rna-seq
14 months ago morteza.aslanzadeh ▴ 20
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2
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217
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Normalisation of rlog and VSD transformation
deseq2 rna-seq R
updated 14 months ago by 3.2k • written 14 months ago by ▴ 10
50 results • Page 1 of 1
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Answer: How to extract DEG from limmarResults object after beadarray analysis by Gordon Smyth 43k
I am the limma package author, but I don't know how to help you. The beadarray package has done a standard limma analysis but, instead of s…
Comment: An error using Diffbind plotprofile by doug.barrows • 0
Hi there, it's hard to tell how to debug without having the data. Could you potentially send me the object you are attempting to use for th…
Comment: DESeq2 Shrinkage methods for scRNA-Seq by Pedro Tan • 0
Thanks Michael! I will stick to apeglm and incorporate alternate size factors for single cell data. All the best, Pedro
Answer: Macbook M1 install genefilter failed by soda ▴ 10
i have solved this problem by myself. share with you. you need to download gfortran in path /opt/R/arm64/bin this website helped me: **h…
Comment: Best practice for quantifying sncRNA by James W. MacDonald 57k
If you used the QIASeq miRNA library, then you are wasting your time. That library adds the UMI barcodes and is intended for you to then up…
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Answer: Macbook M1 install genefilter failed
BioCAsia Virtual Meeting, 15-18 October 2020
Answer: Selecting pairs of exons from differentially spliced genes
Comment: Idea: Using DESeq2 to test a change in ratio of two genes
Time Series Analysis
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