LinX 2.0

0542407 - MBÚ 2022 RIV CZ eng L4 - Software
Kukačka, Zdeněk - Rosůlek, Michal - Jelínek, Jan - Slavata, Lukáš - Kavan, Daniel - Novák, Petr
LinX 2.0.
Internal code: 2.0 N14/N15 ; 2021
Technical parameters: softwarový nástroj v jazyce java
Economic parameters: Vylepšený nástroj pro vyhodnocení CXMS dat izotopově značených proteinů N14/N15
EU Projects: European Commission(XE) 731077 - EU_FT-ICR_MS
Institutional support: RVO:61388971
Keywords : chemical cross-linking * mass spectrometry * proteins * structural proteomics
OECD category: Biochemistry and molecular biology
http://peterslab.org/downloads.php

Chemical cross-linking mass spectrometry has become a popular tool in structural biology. Although several algorithms exist that analyze data-dependent mass spectrometric data efficiently, the algorithm to identify intermolecular cross-links located at the interaction interface of homodimer molecules was missing. The algorithm in LinX utilizes high mass accuracy for ion identification. In contrast to standard data-dependent analysis, LinX enables the elucidation of cross-linked peptides originating from the interaction interface of homodimers labeled by 14N/15N, including their ratio or cross-links from protein–nucleic acid complexes. The software is written in Java language, its source code and a detailed user’s guide are freely available at https://github.com/KukackaZ/LinX. Data are accessible via the ProteomeXchange server with the dataset identifier PXD023522.
Permanent Link: http://hdl.handle.net/11104/0319821