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Showing :
Proteomics
•
reset
0
votes
0
replies
37
views
analysis of overexpressed proteins in metaproteomes
Proteomics
ProteoMM
ProteomicsWorkflow
Proteome
3 days ago
ary.lech
▴ 10
0
votes
0
replies
60
views
Normalising processed Proteomics data in R
Bioconductor
Proteomics
10 days ago
Joshua
• 0
1
vote
4
replies
442
views
How to find differentially expressed proteins from multiple conditions (>2) using proDA?
Proteomics
proDA
MultipleComparison
3 months ago
t.b.n.nguyen-9
• 0
1
vote
0
replies
322
views
Differential abundance analysis of phosphoproteomics data with multiple time points and conditions
Proteomics
DifferentialRegulation
limma
3 months ago
svlachavas
▴ 820
3
votes
4
replies
2.5k
views
Protein differential Expression analysis
differential expression
proteomics
updated 3 months ago by
ATpoint
★ 3.6k • written 5.9 years ago by
cardin.julie
• 0
0
votes
1
reply
301
views
R for Mass Spectrometry: Precursor Scan Number lost when converting .wiff to .mzML?
Proteomics
RforProteomics
ProteomicsWorkflow
Spectra
MassSpectrometryData
updated 4 months ago by
Laurent Gatto
1.6k • written 4 months ago by
mmvar
• 0
0
votes
5
replies
448
views
R for Mass Spectrometry: PSMatch package won't read .mzid file exported from ProteinPilot?
RforProteomics
Proteomics
ProteomicsWorkflow
updated 4 months ago by
Laurent Gatto
1.6k • written 4 months ago by
mmvar
• 0
0
votes
2
replies
462
views
Proteomics data with NA values
Proteomics
ProteoMM
ProteomicsWorkflow
updated 4 months ago by
mmvar
• 0 • written 6 months ago by
nkvnambiar
• 0
0
votes
2
replies
684
views
biomaRt to match UniProt protein IDs with protein names
Proteomics
UniProtKeywords
updated 8 months ago by
James W. MacDonald
64k • written 8 months ago by
a.a.houfani
• 0
0
votes
0
replies
402
views
Job:
Open position in the CBIO lab: single-cell proteomics
Proteomics
SingleCell
JobPosting
MassSpectrometry
9 months ago
Laurent Gatto
1.6k
0
votes
0
replies
393
views
Job:
Open position in the CBIO lab: spatial proteomics and PTMs
pRoloc
proteomics
Spatial
Proteomics
MassSpectrometry
9 months ago
Laurent Gatto
1.6k
0
votes
0
replies
349
views
News:
Course - R/BIOCONDUCTOR FOR MASS SPECTROMETRY AND PROTEOMICS
Proteomics
R
Bioconductor
MassSpectrometry
9 months ago
info
▴ 10
0
votes
1
reply
659
views
Which software can work withThermo ProteomeDiscover software output?
ProteomicsWorkflow
proteomics
proteinProfiles
updated 9 months ago by
Laurent Gatto
1.6k • written 3.0 years ago by
yueli7
▴ 20
1
vote
3
replies
839
views
Adding ellipse in PCAtools biplot
Biplot
FactoMineR
proteomics
PCAtools
ellipse
updated 10 months ago by
Kevin Blighe
3.9k • written 10 months ago by
M Tuhin
• 0
1
vote
0
replies
396
views
Problem with VSN: Error in vsnML(sv) : L-BFGS-B needs finite values of 'fn'
justvsn
vsn
Normalization
vsn2
Proteomics
10 months ago
Arend
▴ 10
3
votes
3
replies
919
views
Limma repeated-measures model: Partial NA coefficients
Proteomics
limma
repeated-measures
updated 11 months ago by
Gordon Smyth
48k • written 11 months ago by
Luís C.
• 0
0
votes
0
replies
368
views
A question about GWENA R/Bioconductor package
proteomics
GWENA
Proteomics
WGCNA
12 months ago
Abdullah
• 0
0
votes
0
replies
502
views
Job:
PhD Positions in Computational Research, Data Science and Artificial Intelligence at the German Cancer Research Center (DKFZ)
cancer
bioinformatics
proteomics
genomics
phd
12 months ago
DKFZ International PhD Program
▴ 10
1
vote
3
replies
706
views
Proteomics-time series with repeated measures
Proteomics
limma
repeatedmeasures
TimeSeriesExperiment
13 months ago
proteome_AO
• 0
0
votes
5
replies
769
views
Inquiry about suitable package for proteomics study design
Proteomics
design
updated 13 months ago by
evocanres
• 0 • written 13 months ago by
proteome_AO
• 0
0
votes
0
replies
403
views
Outliers
Proteomics
Proteome
updated 14 months ago by
ATpoint
★ 3.6k • written 14 months ago by
bansalheena10
• 0
0
votes
0
replies
341
views
Finding DEGs between two different datasets using limma
Proteomics
limma
proteomi
15 months ago
mfaleevs
• 0
0
votes
3
replies
743
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 15 months ago by
Gordon Smyth
48k • written 15 months ago by
samantha.v.goncalves
• 0
1
vote
0
replies
531
views
Job:
Research Fellow in Prostate Cancer Proteomics (Bioinformatics/Stats/Data Analysis) - University of St Andrews
Multiomics
Proteomics
Cancer
Statistics
Bioinformatics
16 months ago
Andy Lynch
▴ 120
0
votes
0
replies
531
views
About normalization of the datasets from Harmonized TCGA data
TCGAbiolinks
Proteomics
GENOMICS
bioinformatics
16 months ago
qiz218591
• 0
2
votes
5
replies
1.3k
views
proteomics analysis
Proteomics
analysis
updated 17 months ago by
jeroen.gilis
▴ 90 • written 17 months ago by
Shakiba
• 0
1
vote
2
replies
742
views
Questions about msqrob2: raw vs LFQ intensities, model design with blocking
msqrob2
ProteomicsWorkflow
proteomics
updated 18 months ago by
Gordon Smyth
48k • written 19 months ago by
Jane
• 0
2
votes
1
reply
756
views
Extremely low P-values when using Limma on high sample size proteomics data
limma
Proteomics
updated 19 months ago by
James W. MacDonald
64k • written 19 months ago by
roger.moreno.justicia
• 0
1
vote
0
replies
589
views
Job:
PhD Positions in Computational Research, Data Science and Artificial Intelligence at the German Cancer Research Center (DKFZ)
phd
cancer
genomics
proteomics
bioinformatics
19 months ago
DKFZ International PhD Program
▴ 10
0
votes
0
replies
613
views
ProteoMM analysis with two replicates
shotgunproteomics
Proteome
proteomics
Proteomics
ProteoMM
21 months ago
ary.lech
▴ 10
0
votes
2
replies
1.5k
views
Limma Differential Analysis on Proteomics data
Proteomics
limma
Limma
DifferentialExpression
updated 22 months ago by
Gordon Smyth
48k • written 22 months ago by
Mrinal.singh06
• 0
0
votes
0
replies
621
views
Job:
Tenure-track Group Leader Positions in Computational Biology and Biological Chemistry
bioinformatics
genomics
proteomics
biologicalchemistry
sequencing
22 months ago
Robert Castelo
★ 3.0k
0
votes
1
reply
1.4k
views
limma/voom for protein intensity data
limma
proteomics
voom
updated 2.2 years ago by
ATpoint
★ 3.6k • written 2.2 years ago by
Endre Sebestyén
▴ 70
0
votes
1
reply
633
views
How to pull-down gene/protein names from the database search, using R ?
proteinProfiles
ProteomicsWorkflow
ProteomicsAnnotationHubData
Proteomics
updated 2.3 years ago by
Gordon Smyth
48k • written 2.3 years ago by
ALOK
• 0
0
votes
5
replies
936
views
In need of linear modeling help for differential expression (proteomics)
Proteomics
limma
vsn
updated 2.3 years ago by
Gordon Smyth
48k • written 2.3 years ago by
Chris
• 0
0
votes
0
replies
714
views
How to handle the imputation and normalisation?
Proteomics
DEP
limma
2.3 years ago
barrypraveen
• 0
0
votes
1
reply
920
views
How to remove batch effect on DEP protemics package?
Proteomics
DEP
MassSpectrometryData
updated 2.4 years ago by
bigomics.team
• 0 • written 2.4 years ago by
barrypraveen
• 0
0
votes
0
replies
1.5k
views
what is the difference between iBAQ or LFQ?
Proteomics
DEP
limma
written 2.4 years ago by
barrypraveen
• 0
0
votes
4
replies
1.0k
views
How to analyse RNA-based protein pulldown mass spectrometry data
Proteomics
limma
MassSpectrometry
updated 7 months ago by
Gordon Smyth
48k • written 2.4 years ago by
barrypraveen
• 0
4
votes
3
replies
3.0k
views
Differential protein/biomarker expression using limma: is that possible?
Proteomics
NPX
limma
updated 2.7 years ago by
Gordon Smyth
48k • written 2.7 years ago by
r.i.s.alnuwaysir
▴ 10
6
votes
6
replies
1.4k
views
limma:arrayWeights() and the "prior.n" parameter for biological replicates? (PROTEOMICS)
Proteomics
limma
StatisticalMethod
updated 2.7 years ago by
Gordon Smyth
48k • written 2.7 years ago by
Steve
▴ 10
0
votes
0
replies
827
views
Limma design multi-level experiment with 3 time points
R
proteomics
limma
2.7 years ago
ellen2270
• 0
0
votes
4
replies
935
views
DEP - Run filter_missval() with a threshold ranging from 0 to 3
proteomics
DEP
2.7 years ago
rina
▴ 30
0
votes
0
replies
824
views
Job:
Tenure-track Group Leader Position in Computational Biology
bioinformatics
sequencing
barcelona
proteomics
2.8 years ago
Robert Castelo
★ 3.0k
2
votes
1
reply
2.7k
views
Convert UniProt Entry Names into Gene Symbols
Proteomics
ProteomicsWorkflow
UniProt.ws
updated 2.8 years ago by
James W. MacDonald
64k • written 2.8 years ago by
Dario Strbenac
★ 1.5k
0
votes
0
replies
920
views
Job:
Proteomics Bioinformatician
JobPosting
Proteomics
Statistics
Job
2.9 years ago
Laura
• 0
1
vote
2
replies
980
views
calculate theoretical isotope distribution give the AA sequence
Metabolomics
proteomics
MassSpectrometry
3.0 years ago
Oliver
• 0
0
votes
3
replies
934
views
Why I can not install rTANDEM?
MassSpectrometry
Proteomics
mzR
3.0 years ago
Gilad
• 0
1
vote
2
replies
930
views
error in installation of 'org.Hs.eg.db'
proteomics
GenomicSequence
updated 3.0 years ago by
tcalvo
▴ 90 • written 3.0 years ago by
Eliza
• 0
5
votes
6
replies
1.3k
views
possible package naming conflict
proteomics
3.0 years ago
Tobias
▴ 40
50 results • Page
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Comment: NCBI protein conversion to CDNA and NCBI gene (in R)
by
Gordon Smyth
48k
Continuation of https://support.bioconductor.org/p/9155428/
Comment: Why is DMRcate not available for Bioconductor version 3.18?
by
Tim Peters
▴ 150
Thanks Daniel, Gordon and Lori for flagging this. DSS is only needed for the vignette so I'll remove that section, plus the dependency, som…
Comment: NCBI protein to NCBI cDNA (Ensembl conversions would be great as well) in R
by
R_Page
• 0
Thank you, this works well. As for CDNA, I figured out what I need to find, and have made a new post regarding it.
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Poonam
• 0
Hello Michael, I am continuing here and need your expert answer on this again I have performed small rna loci and DNA methylation mappin…
Comment: GOslim missing GO term
by
amanda
• 0
Thank you for the advice and many thanks! It is WGCNA analysis. I will try your method today and see if there are some consistencies.
Votes
Answer: Differential gene expression analysis
Comment: Why is DMRcate not available for Bioconductor version 3.18?
Comment: Why is DMRcate not available for Bioconductor version 3.18?
Comment: Why is DMRcate not available for Bioconductor version 3.18?
Why is DMRcate not available for Bioconductor version 3.18?
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★ 1.5k
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48k
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