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Crosslinking mass spectrometry dataset for mzIdentML 1.3 validation with MeroX 2.0.2.5

This dataset was generated to support the validation of mzIdentML 1.3 files, including the crosslinking extension. The dataset contains LC-MS/MS data and crosslinking search results for DSBU-crosslinked peptides, together with mzIdentML 1.3 files containing crosslinking-specific annotations and cont...

ORGANISM(S): Homo sapiens (Human)

2026-06-03 | PXD077188 | Pride

Xl-ms Mzidentml

The mzIdentML Data Standard Version 1.2, Supporting Advances in Proteome Informatics.

Not available

S-EPMC5500760 | biostudies-literature

psims - A Declarative Writer for mzML and mzIdentML for Python.

Not available

S-EPMC6398200 | biostudies-literature

jmzIdentML API: A Java interface to the mzIdentML standard for peptide and protein identification data.

Not available

S-EPMC3933944 | biostudies-literature

ProteomeDiscover Crosslinking Complete Submission - HEK 293 XL fractions analysis

The following dataset is an example and gold-standard dataset of a Crosslinking (XL) Complete submission to PRIDE Archive using mzIdentML and the guidelines for XL submissions. The dataset is a HEK 293 sample analyzed with multiple fractions.

ORGANISM(S): Homo sapiens (Human)

2025-01-16 | PXD059766 | Pride

Benchmark Crosslinking

ABRF iPRG 2023 crosslinking study - Kojak COMPLETE results

The three proteomics research groups, Proteomics (PRG), Proteome Informatics (iPRG) and Proteomics Standards (sPRG), have all held interesting studies over the years. This year (2023) the iPRG group has put together a crosslinking study. The goal is to teach people how to analyze crosslinked samples...

ORGANISM(S): Escherichia coli

2024-10-17 | PXD056910 | Pride

Iprg2023 Benchmark Crosslinking

jmzReader: A Java parser library to process and visualize multiple text and XML-based mass spectrometry data formats.

Not available

S-EPMC3472022 | biostudies-literature

Rational engineering of a virulence gene from Mycobacterium tuberculosis facilitates proteomic analysis of a natural protein N-terminus

Complete mzidentml FDR and mgf files accompanying manuscript associated with submission.

ORGANISM(S): Mycobacterium Marinum (ncbitaxon:1781) Mycobacterium Tuberculosis H37rv (ncbitaxon:83332)

2016-08-26 | MSV000080101 | MassIVE

PAnalyzer: a software tool for protein inference in shotgun proteomics.

Not available