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Proteomics

Proteomics

A proteome is the entire set of proteins that a cell type produces. We can study proteomes using the knowledge of genomes because genes code for mRNAs, and the mRNAs encode proteins. Although mRNA analysis is a step in the right direction, not all mRNAs are translated into proteins.
Proteomics is the study of proteomes' function. It involves the large-scale systematic study of the proteome to denote the protein complement expressed by a genome. Scientist Mark Wilkins coined the term...

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Updated: Jul 11, 2025

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SPDB: a comprehensive resource and knowledgebase for proteomic data at the single-cell resolution.

Fang Wang^1,2, Chunpu Liu¹, Jiawei Li³

¹School of Computer Science and Technology, Harbin Institute of Technology, Harbin 150001, China.

Nucleic Acids Research

|November 12, 2023

Summary

A new database, Single-cell Proteomic DataBase (SPDB), offers integrated single-cell proteomics data. This resource aims to advance research by providing accessible, unified datasets for exploring cellular phenotypes.

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Last Updated: Jul 11, 2025

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Published on: September 13, 2022

High Throughput, Absolute Determination of the Content of a Selected Protein at Tissue Levels Using Quantitative Dot Blot Analysis QDB

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Published on: August 21, 2018

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Area of Science:

Proteomics
Cell Biology
Bioinformatics

Background:

Single-cell proteomics offers insights into cellular phenotypes beyond transcriptomics.
Lack of large-scale integrated databases impedes single-cell proteomics research.

Purpose of the Study:

To introduce the Single-cell Proteomic DataBase (SPDB) as a comprehensive resource for single-cell proteomic data.
To facilitate access and exploration of single-cell proteomic datasets for the research community.

Main Methods:

Development of a user-friendly web interface for SPDB.
Standardization of data processing for antibody-based and mass spectrometry-based single-cell proteomics.
Implementation of dataset-level and protein-level search and visualization tools.

Main Results:

SPDB integrates 133 antibody-based datasets (300M+ cells, 800+ proteins) and 10 mass spectrometry-based datasets (4000+ cells, 7000+ proteins).
The database provides unified data formats and visualization modules for cell metadata and protein features.

Conclusions:

SPDB serves as a valuable resource to advance single-cell proteomics research.
The database aims to provide detailed insights into proteomics at the single-cell level, supporting broader scientific exploration.