Showing : Proteomics • reset
1
vote
3
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118
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Adding ellipse in PCAtools biplot
Biplot FactoMineR proteomics PCAtools ellipse
updated 19 days ago by 3.7k • written 20 days ago by • 0
1
vote
0
replies
88
views
Problem with VSN: Error in vsnML(sv) : L-BFGS-B needs finite values of 'fn'
justvsn vsn Normalization vsn2 Proteomics
26 days ago • updated 24 days ago Arend ▴ 10
3
votes
3
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172
views
Limma repeated-measures model: Partial NA coefficients
Proteomics limma repeated-measures
updated 4 weeks ago by 47k • written 5 weeks ago by • 0
0
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0
replies
81
views
A question about GWENA R/Bioconductor package
proteomics GWENA Proteomics WGCNA
9 weeks ago Abdullah • 0
0
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0
replies
122
views
Job: PhD Positions in Computational Research, Data Science and Artificial Intelligence at the German Cancer Research Center (DKFZ)
cancer bioinformatics proteomics genomics phd
11 weeks ago DKFZ International PhD Program ▴ 10
1
vote
3
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305
views
Proteomics-time series with repeated measures
Proteomics limma repeatedmeasures TimeSeriesExperiment
3 months ago proteome_AO • 0
0
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5
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305
views
Inquiry about suitable package for proteomics study design
Proteomics design
updated 3 months ago by • 0 • written 3 months ago by • 0
0
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0
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120
views
Outliers
Proteomics Proteome
updated 4 months ago by ★ 2.1k • written 4 months ago by • 0
0
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0
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119
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Finding DEGs between two different datasets using limma
Proteomics limma proteomi
5 months ago mfaleevs • 0
0
votes
3
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391
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 5 months ago by 47k • written 5 months ago by • 0
1
vote
0
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218
views
Job: Research Fellow in Prostate Cancer Proteomics (Bioinformatics/Stats/Data Analysis) - University of St Andrews
Multiomics Proteomics Cancer Statistics Bioinformatics
6 months ago Andy Lynch ▴ 120
0
votes
0
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219
views
About normalization of the datasets from Harmonized TCGA data
TCGAbiolinks Proteomics GENOMICS bioinformatics
6 months ago qiz218591 • 0
2
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5
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545
views
proteomics analysis
Proteomics analysis
updated 7 months ago by ▴ 70 • written 7 months ago by • 0
1
vote
2
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345
views
Questions about msqrob2: raw vs LFQ intensities, model design with blocking
msqrob2 ProteomicsWorkflow proteomics
updated 8 months ago by 47k • written 9 months ago by • 0
2
votes
1
reply
317
views
Extremely low P-values when using Limma on high sample size proteomics data
limma Proteomics
updated 9 months ago by 62k • written 9 months ago by • 0
1
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0
replies
273
views
Job: PhD Positions in Computational Research, Data Science and Artificial Intelligence at the German Cancer Research Center (DKFZ)
phd cancer genomics proteomics bioinformatics
9 months ago DKFZ International PhD Program ▴ 10
0
votes
0
replies
249
views
ProteoMM analysis with two replicates
shotgunproteomics Proteome proteomics Proteomics ProteoMM
11 months ago ary.lech ▴ 10
0
votes
2
replies
769
views
Limma Differential Analysis on Proteomics data
Proteomics limma Limma DifferentialExpression
updated 12 months ago by 47k • written 12 months ago by • 0
0
votes
0
replies
352
views
Job: Tenure-track Group Leader Positions in Computational Biology and Biological Chemistry
bioinformatics genomics proteomics biologicalchemistry sequencing
12 months ago Robert Castelo ★ 3.0k
0
votes
1
reply
689
views
limma/voom for protein intensity data
limma proteomics voom
updated 17 months ago by ★ 2.1k • written 17 months ago by ▴ 60
0
votes
1
reply
347
views
How to pull-down gene/protein names from the database search, using R ?
proteinProfiles ProteomicsWorkflow ProteomicsAnnotationHubData Proteomics
updated 17 months ago by 47k • written 17 months ago by • 0
0
votes
5
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526
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In need of linear modeling help for differential expression (proteomics)
Proteomics limma vsn
updated 17 months ago by 47k • written 17 months ago by • 0
0
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0
replies
370
views
How to handle the imputation and normalisation?
Proteomics DEP limma
18 months ago barrypraveen • 0
0
votes
1
reply
511
views
How to remove batch effect on DEP protemics package?
Proteomics DEP MassSpectrometryData
updated 18 months ago by • 0 • written 18 months ago by • 0
0
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0
replies
791
views
what is the difference between iBAQ or LFQ?
Proteomics DEP limma
19 months ago • updated 18 months ago barrypraveen • 0
0
votes
4
replies
587
views
How to analyse RNA-based protein pulldown mass spectrometry data
Proteomics limma MassSpectrometry
19 months ago barrypraveen • 0
4
votes
3
replies
1.8k
views
Differential protein/biomarker expression using limma: is that possible?
Proteomics NPX limma
updated 22 months ago by 47k • written 23 months ago by ▴ 10
6
votes
6
replies
934
views
limma:arrayWeights() and the "prior.n" parameter for biological replicates? (PROTEOMICS)
Proteomics limma StatisticalMethod
updated 23 months ago by 47k • written 23 months ago by ▴ 10
0
votes
0
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539
views
Limma design multi-level experiment with 3 time points
R proteomics limma
23 months ago ellen2270 • 0
0
votes
4
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555
views
DEP - Run filter_missval() with a threshold ranging from 0 to 3
proteomics DEP
23 months ago rina ▴ 20
0
votes
0
replies
547
views
Job: Tenure-track Group Leader Position in Computational Biology
bioinformatics sequencing barcelona proteomics
23 months ago Robert Castelo ★ 3.0k
2
votes
1
reply
2.0k
views
Convert UniProt Entry Names into Gene Symbols
Proteomics ProteomicsWorkflow UniProt.ws
updated 2.0 years ago by 62k • written 2.0 years ago by ★ 1.5k
0
votes
0
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630
views
Job: Proteomics Bioinformatician
JobPosting Proteomics Statistics Job
2.1 years ago Laura • 0
1
vote
2
replies
598
views
calculate theoretical isotope distribution give the AA sequence
Metabolomics proteomics MassSpectrometry
2.1 years ago Oliver • 0
0
votes
3
replies
581
views
Why I can not install rTANDEM?
MassSpectrometry Proteomics mzR
2.1 years ago Gilad • 0
1
vote
2
replies
622
views
error in installation of 'org.Hs.eg.db'
proteomics GenomicSequence
updated 2.2 years ago by ▴ 80 • written 2.2 years ago by • 0
5
votes
6
replies
925
views
possible package naming conflict
proteomics
2.2 years ago Tobias ▴ 40
1
vote
0
replies
710
views
News: Online training - Proteomics in R and Bioconductor
ProteomicsWorkflow proteomics Proteome
2.2 years ago info ▴ 10
0
votes
0
replies
332
views
Which software can work withThermo ProteomeDiscover software output?
ProteomicsWorkflow proteomics proteinProfiles
2.2 years ago yueli7 ▴ 20
0
votes
1
reply
633
views
R package to change protein *.msf file to any readable file
Proteome ProteomicsWorkflow proteomics
updated 2.2 years ago by ★ 1.2k • written 2.2 years ago by ▴ 20
0
votes
0
replies
531
views
Job: Data Scientist Proteomics (100%), Biozentrum, University of Basel, Switzerland
Switzerland JobPosting Basel Proteomics
2.2 years ago Robert Ivanek ▴ 730
0
votes
3
replies
785
views
Find DEPs among TMT labeling proteom time course data by limma
limma proteomics TMTlabeling timecoursedata
updated 2.2 years ago by ▴ 290 • written 2.3 years ago by • 0
3
votes
0
replies
1.2k
views
Tutorial: Mass Spectrometry Data Analysis with the Spectra Package
mass spectrometry proteomics metabolomics Tutorial
2.3 years ago Johannes Rainer ★ 2.0k
2
votes
0
replies
527
views
Job: PostDoc position for the analysis of large scale metabolomics data
metabolomics proteomics Job
2.4 years ago Johannes Rainer ★ 2.0k
1
vote
6
replies
2.0k
views
DEP package: Problems installing on macOS
software error DEP proteomics
updated 2.5 years ago by 1.6k • written 2.5 years ago by • 0
0
votes
0
replies
799
views
Job: Research software engineer at the de Duve Institute, UCLouvain (Brussels, Belgium)
software engineer RNASeq proteomics Job visualisation
2.7 years ago Laurent Gatto 1.6k
0
votes
0
replies
334
views
How to generate custom MS database using CustomProDB?
r proteomics
2.8 years ago nattzy94 ▴ 20
2
votes
1
reply
548
views
Maximum parsimony protein assembly/inference
rforproteomics proteomics msnid msnbase
2.9 years ago daniel.magnus.bader ▴ 40
2
votes
1
reply
619
views
Multiple protein ids issue- which protein IDs should be selected for downstream analysis?
Proteomics enrichment Perseus
2.9 years ago harelarik ▴ 60
1
vote
0
replies
599
views
News: News: Bioinformatics Summer School - July 2020 - UCLouvain (Belgium)
rnaseq course proteomics transcriptomics scrnaseq News
3.0 years ago Laurent Gatto 1.6k
50 results • Page 1 of 1
Recent ...
Replies
Comment: TCGA: clinical data and expression data by sharifnstu1203002m • 0
Hello, I am in the same problem. I downloaded "transcriptome profiling" data of TCGA by using the Bioconductor package. I get my gene expr…
Comment: How to normalize long-read RNA-seq data for comparison with short-reads by Jonathan Göke ▴ 40
Great to hear that you are using Bambu. Yes, I think that part of your question does not have one correct answer, there are many ways in wh…
Answer: Library sizes of miRNA sequencing data and TMM normalization with Edge-R by Gordon Smyth 47k
Choosing which samples to normalize together is not dependent on library size but rather on (1) whether the tissue samples are comparable a…
Comment: Atena package - error (new user) by lalanis1 • 0
Thanks a lot, Calvo. Will run my files with revised version soon! Best regards, Lalani
Comment: Nested paired design with covariates in limma by Gordon Smyth 47k
Please post a new question with enough detail to answer your question. If you want bespoke advance, then you need to post the details of yo…
Votes
Comment: How to normalize long-read RNA-seq data for comparison with short-reads
Answer: Library sizes of miRNA sequencing data and TMM normalization with Edge-R
C: Can't install TopmedPipeline Package
Comment: Question about GWASTools gdsSubset
Comment: How to normalize long-read RNA-seq data for comparison with short-reads
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