Showing : Proteomics • reset
3
votes
10
replies
279
views
Extremely small p-values using Limma for proteomic data
Proteomics limma
updated 12 hours ago by 65k • written 3 days ago by • 0
0
votes
3
replies
173
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Differences in differential analysis methods for RNA-Seq
DESeq2 StatisticalMethod Proteomics DifferentialExpression RNASeq
updated 8 days ago by ★ 4.1k • written 9 days ago by • 0
0
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0
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234
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Job: Bioinformatics Spatial Omics and Proteomics Postdoc (Research Officer / Senior Research Officer) at WEHI (Melbourne, Australia)
Proteomics JobPosting SingleCell Spatial SpatialExperiment
9 weeks ago Peter Hickey ▴ 740
5
votes
6
replies
3.8k
views
Differential protein/biomarker expression using limma: is that possible?
Proteomics NPX limma
updated 3 months ago by • 0 • written 3.2 years ago by ▴ 10
3
votes
1
reply
2.2k
views
Tutorial: Mass Spectrometry Data Analysis with the Spectra Package
mass spectrometry proteomics metabolomics Tutorial
written 3.6 years ago by ★ 2.0k
0
votes
1
reply
208
views
analysis of overexpressed proteins in metaproteomes
Proteomics ProteoMM ProteomicsWorkflow Proteome
written 5 months ago by ▴ 10
0
votes
0
replies
251
views
Normalising processed Proteomics data in R
Bioconductor Proteomics
5 months ago Joshua • 0
1
vote
1
reply
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
1
vote
4
replies
762
views
How to find differentially expressed proteins from multiple conditions (>2) using proDA?
Proteomics proDA MultipleComparison
8 months ago t.b.n.nguyen-9 • 0
1
vote
0
replies
456
views
Differential abundance analysis of phosphoproteomics data with multiple time points and conditions
Proteomics DifferentialRegulation limma
8 months ago svlachavas ▴ 830
3
votes
4
replies
2.9k
views
Protein differential Expression analysis
differential expression proteomics
updated 8 months ago by ★ 4.1k • written 6.3 years ago by • 0
0
votes
5
replies
750
views
R for Mass Spectrometry: PSMatch package won't read .mzid file exported from ProteinPilot?
RforProteomics Proteomics ProteomicsWorkflow
updated 9 months ago by 1.6k • written 9 months ago by • 0
0
votes
1
reply
620
views
R for Mass Spectrometry: Precursor Scan Number lost when converting .wiff to .mzML?
Proteomics RforProteomics ProteomicsWorkflow Spectra MassSpectrometryData
updated 9 months ago by 1.6k • written 9 months ago by • 0
0
votes
2
replies
812
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Proteomics data with NA values
Proteomics ProteoMM ProteomicsWorkflow
updated 9 months ago by • 0 • written 11 months ago by • 0
0
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0
replies
1.8k
views
what is the difference between iBAQ or LFQ?
Proteomics DEP limma
written 2.8 years ago by • 0
0
votes
4
replies
1.3k
views
How to analyse RNA-based protein pulldown mass spectrometry data
Proteomics limma MassSpectrometry
updated 13 months ago by 50k • written 2.9 years ago by • 0
0
votes
2
replies
1.4k
views
biomaRt to match UniProt protein IDs with protein names
Proteomics UniProtKeywords
updated 14 months ago by 65k • written 14 months ago by • 0
0
votes
0
replies
656
views
Job: Open position in the CBIO lab: single-cell proteomics
Proteomics SingleCell JobPosting MassSpectrometry
14 months ago Laurent Gatto 1.6k
0
votes
0
replies
648
views
Job: Open position in the CBIO lab: spatial proteomics and PTMs
pRoloc proteomics Spatial Proteomics MassSpectrometry
14 months ago Laurent Gatto 1.6k
0
votes
0
replies
522
views
News: Course - R/BIOCONDUCTOR FOR MASS SPECTROMETRY AND PROTEOMICS
Proteomics R Bioconductor MassSpectrometry
14 months ago info ▴ 10
0
votes
1
reply
836
views
Which software can work withThermo ProteomeDiscover software output?
ProteomicsWorkflow proteomics proteinProfiles
updated 14 months ago by 1.6k • written 3.4 years ago by ▴ 20
1
vote
3
replies
1.2k
views
Adding ellipse in PCAtools biplot
Biplot FactoMineR proteomics PCAtools ellipse
updated 15 months ago by ★ 3.9k • written 15 months ago by • 0
1
vote
0
replies
580
views
Problem with VSN: Error in vsnML(sv) : L-BFGS-B needs finite values of 'fn'
justvsn vsn Normalization vsn2 Proteomics
16 months ago Arend ▴ 10
3
votes
3
replies
1.3k
views
Limma repeated-measures model: Partial NA coefficients
Proteomics limma repeated-measures
updated 16 months ago by 50k • written 16 months ago by • 0
0
votes
0
replies
514
views
A question about GWENA R/Bioconductor package
proteomics GWENA Proteomics WGCNA
17 months ago Abdullah • 0
0
votes
0
replies
718
views
Job: PhD Positions in Computational Research, Data Science and Artificial Intelligence at the German Cancer Research Center (DKFZ)
cancer bioinformatics proteomics genomics phd
17 months ago DKFZ International PhD Program ▴ 10
1
vote
3
replies
921
views
Proteomics-time series with repeated measures
Proteomics limma repeatedmeasures TimeSeriesExperiment
18 months ago proteome_AO • 0
0
votes
5
replies
1.0k
views
Inquiry about suitable package for proteomics study design
Proteomics design
updated 18 months ago by • 0 • written 18 months ago by • 0
1
vote
3
replies
4.8k
views
EdgeR for proteomics data
Proteomics Normalization edgeR Proteomics Normalization edgeR
updated 19 months ago by • 0 • written 10.3 years ago by ▴ 10
0
votes
0
replies
567
views
Outliers
Proteomics Proteome
updated 19 months ago by ★ 4.1k • written 19 months ago by • 0
0
votes
0
replies
483
views
Finding DEGs between two different datasets using limma
Proteomics limma proteomi
20 months ago mfaleevs • 0
0
votes
3
replies
937
views
Design and contrast matrices for analyzing the effect of two factors of interest on protein expression, controlling for factors and covariates not of…
limma Proteomics ProteomicsWorkflow
updated 21 months ago by 50k • written 21 months ago by • 0
1
vote
0
replies
769
views
Job: Research Fellow in Prostate Cancer Proteomics (Bioinformatics/Stats/Data Analysis) - University of St Andrews
Multiomics Proteomics Cancer Statistics Bioinformatics
21 months ago Andy Lynch ▴ 120
0
votes
0
replies
738
views
About normalization of the datasets from Harmonized TCGA data
TCGAbiolinks Proteomics GENOMICS bioinformatics
21 months ago qiz218591 • 0
2
votes
5
replies
1.8k
views
proteomics analysis
Proteomics analysis
updated 22 months ago by ▴ 90 • written 22 months ago by • 0
1
vote
2
replies
940
views
Questions about msqrob2: raw vs LFQ intensities, model design with blocking
msqrob2 ProteomicsWorkflow proteomics
updated 23 months ago by 50k • written 2.0 years ago by ▴ 10
2
votes
1
reply
1.0k
views
Extremely low P-values when using Limma on high sample size proteomics data
limma Proteomics
updated 2.0 years ago by 65k • written 2.0 years ago by • 0
1
vote
0
replies
744
views
Job: PhD Positions in Computational Research, Data Science and Artificial Intelligence at the German Cancer Research Center (DKFZ)
phd cancer genomics proteomics bioinformatics
2.1 years ago DKFZ International PhD Program ▴ 10
0
votes
0
replies
755
views
ProteoMM analysis with two replicates
shotgunproteomics Proteome proteomics Proteomics ProteoMM
2.2 years ago ary.lech ▴ 10
0
votes
2
replies
1.8k
views
Limma Differential Analysis on Proteomics data
Proteomics limma Limma DifferentialExpression
updated 2.2 years ago by 50k • written 2.2 years ago by • 0
0
votes
0
replies
767
views
Job: Tenure-track Group Leader Positions in Computational Biology and Biological Chemistry
bioinformatics genomics proteomics biologicalchemistry sequencing
2.3 years ago Robert Castelo ★ 3.3k
0
votes
1
reply
1.8k
views
limma/voom for protein intensity data
limma proteomics voom
updated 2.7 years ago by ★ 4.1k • written 2.7 years ago by ▴ 70
0
votes
1
reply
754
views
How to pull-down gene/protein names from the database search, using R ?
proteinProfiles ProteomicsWorkflow ProteomicsAnnotationHubData Proteomics
updated 2.7 years ago by 50k • written 2.7 years ago by • 0
0
votes
5
replies
1.1k
views
In need of linear modeling help for differential expression (proteomics)
Proteomics limma vsn
updated 2.7 years ago by 50k • written 2.7 years ago by • 0
0
votes
0
replies
909
views
How to handle the imputation and normalisation?
Proteomics DEP limma
2.7 years ago barrypraveen • 0
0
votes
1
reply
1.2k
views
How to remove batch effect on DEP protemics package?
Proteomics DEP MassSpectrometryData
updated 2.8 years ago by • 0 • written 2.8 years ago by • 0
6
votes
6
replies
1.7k
views
limma:arrayWeights() and the "prior.n" parameter for biological replicates? (PROTEOMICS)
Proteomics limma StatisticalMethod
updated 3.2 years ago by 50k • written 3.2 years ago by ▴ 10
0
votes
0
replies
947
views
Limma design multi-level experiment with 3 time points
R proteomics limma
3.2 years ago ellen2270 • 0
0
votes
4
replies
1.1k
views
DEP - Run filter_missval() with a threshold ranging from 0 to 3
proteomics DEP
3.2 years ago rina ▴ 30
0
votes
0
replies
963
views
Job: Tenure-track Group Leader Position in Computational Biology
bioinformatics sequencing barcelona proteomics
3.2 years ago Robert Castelo ★ 3.3k
50 results • Page 1 of 1
Recent ...
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Comment: deseq2 results by swbarnes2 ★ 1.4k
Ask the people who made the libraires if there was anything unusual in the QC of the outlier sample. Try to figure out what biologically …
Comment: Can't post a question containing code? by NATASHA • 0
did you find a solution? I´m having the same problem
Comment: error by NATASHA • 0
Please ignore, i didnt copy all the scrip
Comment: Extremely small p-values using Limma for proteomic data by James W. MacDonald 65k
If you ever find yourself using the `@` function, you should reconsider what you are doing. There are vanishingly small instances when an e…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Michael Love 42k
Here is some example code <https://gist.github.com/mikelove/cbbc84634b6854c865cb5eb08ad9b245>
Votes
A: AIC-like measure for DESeq2
Comment: Extremely small p-values using Limma for proteomic data
Comment: Log-cpm values from limma
Comment: Log-cpm values from limma
Comment: deseq2 results
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