iq

CRANiqMaRDI QIDQ60348

Protein Quantification in Mass Spectrometry-Based Proteomics

Thang Pham

Last update: 6 December 2023

Copyright license: 3-clause BSD License, File License

Software version identifier: 1.9.10, 1.0, 1.1, 1.3, 1.4, 1.5, 1.7, 1.8, 1.9.1, 1.9.3, 1.9.6, 1.9.7, 1.9.9, 1.9, 1.9.12

Description

An implementation of the MaxLFQ algorithm by Cox et al. (2014) <doi:10.1074/mcp.M113.031591> in a comprehensive pipeline for processing proteomics data in data-independent acquisition mode (Pham et al. 2020 <doi:10.1093/bioinformatics/btz961>). It offers additional options for protein quantification using the N most intense fragment ions, using all fragment ions, and a wrapper for the median polish algorithm by Tukey (1977, ISBN:0201076160). In general, the tool can be used to integrate multiple proportional observations into a single quantitative value.

Cites work

• Accurate Proteome-wide Label-free Quantification by Delayed Normalization and Maximal Peptide Ratio Extraction, Termed MaxLFQ
• iq: an R package to estimate relative protein abundances from ion quantification in DIA-MS-based proteomics

This page was built for software: iq