ArticleMolecular & cellular proteomics : MCP2012
A mass spectrometry proteomics data management platform.
Article in Molecular & cellular proteomics : MCP, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
What it found
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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.
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Who cites it
24 citing papers in PubMed.
- A quantitative proteomics dataset for assessment and prediction of low dose X-ray radiation exposure in mice.bioRxiv : the preprint server for biology · 2026Article
- Proteomic profiling of human omental and subcutaneous adipose tissue in individuals with a broad range of BMI.Scientific data · 2026Article
- Proteomic Profiling of Human Omental and Subcutaneous Adipose Tissue in Individuals with a Broad Range of BMI.bioRxiv : the preprint server for biology · 2026Article
- Limelight: An Open, Web-Based Tool for Visualizing, Sharing, and Analyzing Mass Spectrometry Data from DDA Pipelines.Journal of proteome research · 2025Article
- MSConnect: Open-Source, End-to-End Platform for Automated Mass Spectrometry Data Management, Analysis, and Visualization.Journal of proteome research · 2025Article
- Pathways that affect anterior morphogenesis inbioRxiv : the preprint server for biology · 2023Article
- A peptide-centric quantitative proteomics dataset for the phenotypic assessment of Alzheimer's disease.Scientific data · 2023Article
- Discovery and Visualization of Uncharacterized Drug-Protein Adducts Using Mass Spectrometry.Analytical chemistry · 2022Article
- Molecular Surgery: Proteomics of a Rare Genetic Disease Gives Insight into Common Causes of Blindness.iScience · 2020Review
- Interactive Peptide Spectral Annotator: A Versatile Web-based Tool for Proteomic Applications.Molecular & cellular proteomics : MCP · 2019Article
- Proxl (Protein Cross-Linking Database): A Public Server, QC Tools, and Other Major Updates.Journal of proteome research · 2019Article
- Novel phosphorylation states of the yeast spindle pole body.Biology open · 2018Article
- DnaJ Homolog Subfamily B Member 9 Is a Putative Autoantigen in Fibrillary GN.Journal of the American Society of Nephrology : JASN · 2018Article
- Proteomic analyses of nucleus laminaris identified candidate targets of the fragile X mental retardation protein.The Journal of comparative neurology · 2017Article
- The arc of Mass Spectrometry Exchange Formats is long, but it bends toward HDF5.Mass spectrometry reviews · 2017Review
- A mass spectrometry-based proteomic analysis of Homer2-interacting proteins in the mouse brain.Journal of proteomics · 2017Article
- Proteomics Analysis Identifies Orthologs of Human Chitinase-Like Proteins as Inducers of Tube Morphogenesis Defects inGenetics · 2017Article
- ProXL (Protein Cross-Linking Database): A Platform for Analysis, Visualization, and Sharing of Protein Cross-Linking Mass Spectrometry Data.Journal of proteome research · 2016Article
- The molecular architecture of the Dam1 kinetochore complex is defined by cross-linking based structural modelling.Nature communications · 2015Article
- Comparison of data acquisition strategies on quadrupole ion trap instrumentation for shotgun proteomics.Journal of the American Society for Mass Spectrometry · 2014Article
Corrections and comments
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Authors and funding
4 authors.
Funding
Abstract
Mass spectrometry-based proteomics is increasingly being used in biomedical research. These experiments typically generate a large volume of highly complex data, and the volume and complexity are only increasing with time. There exist many software pipelines for analyzing these data (each typically with its own file formats), and as technology improves, these file formats change and new formats are developed. Files produced from these myriad software programs may accumulate on hard disks or tape drives over time, with older files being rendered progressively more obsolete and unusable with each successive technical advancement and data format change. Although initiatives exist to standardize the file formats used in proteomics, they do not address the core failings of a file-based data management system: (1) files are typically poorly annotated experimentally, (2) files are "organically" distributed across laboratory file systems in an ad hoc manner, (3) files formats become obsolete, and (4) searching the data and comparing and contrasting results across separate experiments is very inefficient (if possible at all). Here we present a relational database architecture and accompanying web application dubbed Mass Spectrometry Data Platform that is designed to address the failings of the file-based mass spectrometry data management approach. The database is designed such that the output of disparate software pipelines may be imported into a core set of unified tables, with these core tables being extended to support data generated by specific pipelines. Because the data are unified, they may be queried, viewed, and compared across multiple experiments using a common web interface. Mass Spectrometry Data Platform is open source and freely available at http://code.google.com/p/msdapl/.
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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.