A reference database enabling in-depth proteome and PTM analysis of mouse immune cells

Area of Science:

• Proteomics
• Immunology
• Bioinformatics

Background:

• Spectral libraries are crucial for protein and pathway analysis in biological research.
• Existing spectral libraries are limited in scope and data coverage.
• There is a need for comprehensive resources for immune cell proteomic profiling.

Purpose of the Study:

• To introduce the Spectral Library of Immune Cells (SpLICe) as a novel reference database.
• To provide extensive proteomic data for key immune cell populations.
• To support the quantification and analysis of proteins and post-translational modifications in immune cells.

Main Methods:

• Development of the SpLICe database integrating proteomic data.
• Inclusion of protein groups, proteotypic peptides, and post-translationally modified peptides.
• Annotation and quantification of murine proteins against UniProtKB/Swiss-Prot, Reactome, and Gene Ontology.

Main Results:

• SpLICe contains nearly 9,000 protein groups and over 110,000 proteotypic peptides.
• The database includes data for >20,000 post-translationally modified proteotypic peptides.
• SpLICe enables quantification of over half of total murine proteins and supports targeted mass spectrometry assay generation.

Conclusions:

• SpLICe is a valuable resource for immune cell proteomic research.
• The database facilitates in-depth analysis of protein abundance and modifications in immune cells.
• SpLICe advances the study of immune cell biology and disease by providing a comprehensive proteomic dataset.