ReviewJournal of proteomics2010
Proteomics data repositories: providing a safe haven for your data and acting as a springboard for further research.
Review in Journal of proteomics, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers, 1 of them a synthesis that pooled it.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
22 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Current uses of artificial intelligence in the analysis of biofluid markers involved in corneal and ocular surface diseases: a systematic review.Eye (London, England) · 2023Pooled it
- Adaptive Modeling of Tandem Mass Spectrometry Data: Creation of the METLIN 960K MRM Database.Analytical chemistry · 2025Article
- An Update on MRMAssayDB: A Comprehensive Resource for Targeted Proteomics Assays in the Community.Journal of proteome research · 2021Article
- Public proteomics data: How the field has evolved from sceptical inquiry to the promise ofEuPA open proteomics · 2016Article
- The Pig PeptideAtlas: A resource for systems biology in animal production and biomedicine.Proteomics · 2016Article
- α-Mangostin Extraction from the Native Mangosteen (Garcinia mangostana L.) and the Binding Mechanisms of α-Mangostin to HSA or TRF.PloS one · 2016Article
- Identifying novel biomarkers through data mining-a realistic scenario?Proteomics. Clinical applications · 2015Review
- Making proteomics data accessible and reusable: current state of proteomics databases and repositories.Proteomics · 2015Review
- YPED: an integrated bioinformatics suite and database for mass spectrometry-based proteomics research.Genomics, proteomics & bioinformatics · 2015Article
- Article
- The mzQuantML data standard for mass spectrometry-based quantitative studies in proteomics.Molecular & cellular proteomics : MCP · 2013Article
- Extensive mass spectrometry-based analysis of the fission yeast proteome: the Schizosaccharomyces pombe PeptideAtlas.Molecular & cellular proteomics : MCP · 2013Article
- The PRoteomics IDEntifications (PRIDE) database and associated tools: status in 2013.Nucleic acids research · 2013Article
- Online tools for bioinformatics analyses in nutrition sciences.Advances in nutrition (Bethesda, Md.) · 2012Review
- A Bovine PeptideAtlas of milk and mammary gland proteomes.Proteomics · 2012Article
- PaxDb, a database of protein abundance averages across all three domains of life.Molecular & cellular proteomics : MCP · 2012Article
- ExoCarta as a resource for exosomal research.Journal of extracellular vesicles · 2012Article
- The genome of the obligate intracellular parasite Trachipleistophora hominis: new insights into microsporidian genome dynamics and reductive evolution.PLoS pathogens · 2012Article
- Vesiclepedia: a compendium for extracellular vesicles with continuous community annotation.PLoS biology · 2012Article
- jTraML: an open source Java API for TraML, the PSI standard for sharing SRM transitions.Journal of proteome research · 2011Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors.
Funding
Abstract
Despite the fact that data deposition is not a generalised fact yet in the field of proteomics, several mass spectrometry (MS) based proteomics repositories are publicly available for the scientific community. The main existing resources are: the Global Proteome Machine Database (GPMDB), PeptideAtlas, the PRoteomics IDEntifications database (PRIDE), Tranche, and NCBI Peptidome. In this review the capabilities of each of these will be described, paying special attention to four key properties: data types stored, applicable data submission strategies, supported formats, and available data mining and visualization tools. Additionally, the data contents from model organisms will be enumerated for each resource. There are other valuable smaller and/or more specialized repositories but they will not be covered in this review. Finally, the concept behind the ProteomeXchange consortium, a collaborative effort among the main resources in the field, will be introduced.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.