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Projects in Awesome Lists tagged with tmt
A curated list of projects in awesome lists tagged with tmt .
https://github.com/pwilmart/paw_pipeline
A Comet-based, best practices proteomics pipeline.
comet protein-identification protein-inference proteomics python3 tmt
Last synced: 28 Oct 2024
https://github.com/pwilmart/PAW_pipeline
A Comet-based, best practices proteomics pipeline.
comet protein-identification protein-inference proteomics python3 tmt
Last synced: 02 Aug 2024
https://github.com/Vitek-Lab/MSstatsTMT
R-based package for detecting differentially abundant proteins in shotgun mass spectrometry-based proteomic experiments with tandem mass tag (TMT) labeling
labeling mass-spectrometry msstats proteomics tmt tmt-data-analysis
Last synced: 02 Aug 2024
https://github.com/pwilmart/tmt_analysis_examples
Examples of TMT data analyses using R. Links to notebooks and repositories. Also a few spectral counting analyses.
ipynb jupyter-notebook mass-spectrometry proteomics proteomics-data r tmt tmt-data-analyses
Last synced: 11 Oct 2024
https://github.com/pwilmart/irs_normalization
An exploration of internal reference scaling (IRS) normalization in isobaric tagging proteomics experiments.
ipynb irs-normalization jupyter-notebook mass-spectrometry normalization proteomics proteomics-data r tmt
Last synced: 11 Oct 2024
https://github.com/pwilmart/irs_validation
Analysis of technical replicate channels to more fully validate the internal reference scaling (IRS) method.
ipynb irs irs-normalization jupyter-notebook normalization proteomics r tmt tmt-data-analyses
Last synced: 11 Oct 2024
https://github.com/pwilmart/maxquant_and_paw
Compares PAW and MQ for a 7-channel TMT experiment; compares edgeR to two-sample t-test
comet jupyter-notebook maxquant paw-pipeline proteomics r tmt tmt-data-analysis
Last synced: 11 Oct 2024
https://github.com/pwilmart/yeast_carbonsources
Yeast TMT data - 3 different carbon sources (from Gygi lab) analyzed with PAW pipeline and MaxQuant
jupyter-notebook paw-pipeline proteomics r statistical-testing tmt tmt-data-analyses
Last synced: 11 Oct 2024
https://github.com/pwilmart/multiple_tmt_mq
Developing mouse lens done with MQ
irs-normalization jupyter-notebook maxquant proteomics r tmt tmt-data-analysis
Last synced: 11 Oct 2024
https://github.com/pwilmart/plubell_2017_paw
Data from Plubell et al., 2017 processed with the PAW pipeline.
irs-normalization jupyter-notebook paw-pipeline proteomics r tmt tmt-data-analysis
Last synced: 11 Oct 2024
https://github.com/pwilmart/bcp-all_qe-tmt_nat-comm-2019
Re-analysis of data from childhood acute lymphoblastic leukemia study in Nat. Comm. April 2019
irs-normalization jupyter-notebook paw-pipeline proteomics r tmt tmt-data-analyses
Last synced: 11 Oct 2024
https://github.com/pwilmart/sps-ms3_vs_ms2_tmt
Comparison of SPS MS3 TMT data to MS2 TMT data
jupyter-notebook proteomics r tmt tmt-data-analysis
Last synced: 11 Oct 2024
https://github.com/pwilmart/yeast_triple_ko_tmt
R analysis of TMT data from Yeast triple knockout strains (Paulo et al., 2016, JASMS, v27, p1620-25)
irs-normalization jupyter-notebook paw-pipeline proteomics r tmt tmt-data-analysis
Last synced: 11 Oct 2024
https://github.com/pwilmart/dilution_series
Tandem Mass Tag (TMT) dilution series analysis
jupyter-notebook paw-pipeline proteomics r tmt tmt-data-analyses
Last synced: 11 Oct 2024
https://github.com/pwilmart/jpr-201712_ms2-ms3
Public TMT data comparing MS2 to MS3 methods
jupyter-notebook paw-pipeline proteomics r tmt tmt-data-analysis
Last synced: 11 Oct 2024