ReviewBMC bioinformatics2012
Knowledge-based analysis of proteomics data.
Review in BMC bioinformatics, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 53 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.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
53 citing papers in PubMed.
- Exploratory proteomic characterization ofFrontiers in pharmacology · 2026Article
- Characterization of Cytokine Treatment on Human Pancreatic Islets by Top-Down Proteomics.Proteomics · 2025Article
- Combined miRNA transcriptome and proteome analysis of extracellular vesicles in urine and blood from the Pompe mouse model.Annals of medicine · 2024Article
- Fibroblast-Specific Protein-Protein Interactions for Myocardial Fibrosis from MetaCore Network.Biomolecules · 2024Article
- Mesocorticolimbic and Cardiometabolic Diseases-Two Faces of the Same Coin?International journal of molecular sciences · 2024Article
- Proteomics Analysis of the Polyomavirus DNA Replication Initiation Complex Reveals Novel Functional Phosphorylated Residues and Associated Proteins.International journal of molecular sciences · 2024Article
- Critical evaluation of the use of artificial data for machine learning basedComputational and structural biotechnology journal · 2023Article
- Role of mass spectrometry-based serum proteomics signatures in predicting clinical outcomes and toxicity in patients with cancer treated with immunotherapy.Journal for immunotherapy of cancer · 2022Review
- Nitrogen fertilizer rate but not form affects the severity of Fusarium wilt in banana.Frontiers in plant science · 2022Article
- Fibrosis Protein-Protein Interactions from Google Matrix Analysis of MetaCore Network.International journal of molecular sciences · 2021Article
- Proteomic analysis of hypopharyngeal and laryngeal squamous cell carcinoma sheds light on differences in survival.Scientific reports · 2020Article
- A proposal for score assignment to characterize biological processes from mass spectral analysis of serum.Clinical mass spectrometry (Del Mar, Calif.) · 2020Article
- Fifteen Years of Gene Set Analysis for High-Throughput Genomic Data: A Review of Statistical Approaches and Future Challenges.Entropy (Basel, Switzerland) · 2020Review
- IRF2 is a master regulator of human keratinocyte stem cell fate.Nature communications · 2019Article
- Systematic assessment of antibody selectivity in plasma based on a resource of enrichment profiles.Scientific reports · 2019Article
- Hepatitis C virus leaves an epigenetic signature post cure of infection by direct-acting antivirals.PLoS genetics · 2019Article
- Manganese-induced cellular disturbance in the baker's yeast, Saccharomyces cerevisiae with putative implications in neuronal dysfunction.Scientific reports · 2019Article
- Dysregulation of the cohesin subunit RAD21 by Hepatitis C virus mediates host-virus interactions.Nucleic acids research · 2019Article
- Cerebrospinal Fluid-Derived Microvesicles From Sleeping Sickness Patients Alter Protein Expression in Human Astrocytes.Frontiers in cellular and infection microbiology · 2019Article
- Proteome and allergenome of the European house dust mite Dermatophagoides pteronyssinus.PloS one · 2019Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
As it is the case with any OMICs technology, the value of proteomics data is defined by the degree of its functional interpretation in the context of phenotype. Functional analysis of proteomics profiles is inherently complex, as each of hundreds of detected proteins can belong to dozens of pathways, be connected in different context-specific groups by protein interactions and regulated by a variety of one-step and remote regulators. Knowledge-based approach deals with this complexity by creating a structured database of protein interactions, pathways and protein-disease associations from experimental literature and a set of statistical tools to compare the proteomics profiles with this rich source of accumulated knowledge. Here we describe the main methods of ontology enrichment, interactome topology and network analysis applied on a comprehensive, manually curated and semantically consistent knowledge source MetaBase and demonstrate several case studies in different disease areas.
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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.