Analysis of mass spectrometry data and other omics datasets

Описание: An introduction to data analysis with focus on mass spectrometry proteomics. Topics include data normalization, quality control, bias correction, clustering, and gene set enrichment analysis. Learn more about this class https://slavovlab.net/teaching/index....

This introduction uses figures from the following review articles:

Yaoyang Zhang, Bryan R. Fonslow, Bing Shan, Moon-Chang Baek, and John R. Yates, III
Protein Analysis by Shotgun/Bottom-up Proteomics
https://pubs.acs.org/doi/10.1021/cr30...

Jimmy K. Eng, Ashley L. McCormack, and John R. Yates
An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database
https://pubs.acs.org/doi/abs/10.1021/...

R. Gray Huffman, Albert Chen, Harrison Specht, and Nikolai Slavov
DO-MS: Data-Driven Optimization of Mass Spectrometry Methods
https://pubs.acs.org/doi/10.1021/acs....

Nikolai Slavov, and David Botstein
Decoupling nutrient signaling from growth rate causes aerobic glycolysis and deregulation of cell size and gene expression
https://www.molbiolcell.org/doi/full/...

Alexander Franks, Edoardo Airoldi, and Nikolai Slavov
Post-transcriptional regulation across human tissues
https://journals.plos.org/ploscompbio...

Albert Chen, Alexander Franks and Nikolai Slavov
DART-ID increases single-cell proteome coverage
https://journals.plos.org/ploscompbio...

Ruedi Aebersold & Matthias Mann
Mass-spectrometric exploration of
proteome structure and function
https://www.nature.com/articles/natur...