Contextualization of protein-protein interaction databases by cell line
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Updated
Mar 3, 2021 - Python
Contextualization of protein-protein interaction databases by cell line
pytrapment - making entrapment databases great again!
These are a couple of simple python scripts to help you navigate through PRIDE (The Proteomics Identifications Database).
Collisional cross-section prediction for modified peptides
Map the peptides to its corresponding protein sequence and locate the modification sites
Python program which is able to analyse dssp files in order to estimate the interacting area and interacting residues between monomers of a complex protein
QC scripts for LC-MS proteomic equipment based on Proteome Discoverer 2.4 output
Introduction to QFeatures, Bioconductor data object for proteomics
Suite-packages for visualizing and analyzing omics data
A python standalone program that predicts ligand binding sites on proteins.
Metabolic Drug Repurposing Pipeline
Bioactive endogenous peptides identification pipeline
Pipeline for automatic processing and quality control of mass spectrometry data
🪆🦖 A snakemake wrapper around Nesvilab's FragPipe-CLI. In a perfect world, this pipeline was based on Sage.
METATRYP v 1.1: Proteomics Analysis Toolkit
Scrape UniProt for functional summaries and append to table
Different python tools to validate and convert SDRF files
Peptide-based linear mixed models to assess differential gene expression in shotgun proteomics experiments
Repositoy with all code from my PhD thesis, about the proteomics analysis of the extracellular vesicles (EVs) produced by the probiotic bacterium Propionibacterium freudenreichii.
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