ArticlePloS one2011
Integrative identification of Arabidopsis mitochondrial proteome and its function exploitation through protein interaction network.
Article in PloS one, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
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Who cites it
11 citing papers in PubMed, 33 citations in OpenAlex.
- Cold and Heat Stress Diversely Alter Both Cauliflower Respiration and Distinct Mitochondrial Proteins Including OXPHOS Components and Matrix Enzymes.International journal of molecular sciences · 2018Article
- MU-LOC: A Machine-Learning Method for Predicting Mitochondrially Localized Proteins in Plants.Frontiers in plant science · 2018Article
- Pathway and network approaches for identification of cancer signature markers from omics data.Journal of Cancer · 2015Review
- The potato tuber mitochondrial proteome.Plant physiology · 2014Article
- Using the SUBcellular database for Arabidopsis proteins to localize the Deg protease family.Frontiers in plant science · 2014Article
- A network integration approach to predict conserved regulators related to pathogenicity of influenza and SARS-CoV respiratory viruses.PloS one · 2013Article
- Recent advances in the composition and heterogeneity of the Arabidopsis mitochondrial proteome.Frontiers in plant science · 2013Article
- The rice mitochondria proteome and its response during development and to the environment.Frontiers in plant science · 2013Article
- Biochemistry, proteomics, and phosphoproteomics of plant mitochondria from non-photosynthetic cells.Frontiers in plant science · 2013Article
- Plant mitochondrial retrograde signaling: post-translational modifications enter the stage.Frontiers in plant science · 2012Article
- SLocX: Predicting Subcellular Localization of Arabidopsis Proteins Leveraging Gene Expression Data.Frontiers in plant science · 2011Article
Corrections and comments
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Authors and funding
4 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Mitochondria are major players on the production of energy, and host several key reactions involved in basic metabolism and biosynthesis of essential molecules. Currently, the majority of nucleus-encoded mitochondrial proteins are unknown even for model plant Arabidopsis. We reported a computational framework for predicting Arabidopsis mitochondrial proteins based on a probabilistic model, called Naive Bayesian Network, which integrates disparate genomic data generated from eight bioinformatics tools, multiple orthologous mappings, protein domain properties and co-expression patterns using 1,027 microarray profiles. Through this approach, we predicted 2,311 candidate mitochondrial proteins with 84.67% accuracy and 2.53% FPR performances. Together with those experimental confirmed proteins, 2,585 mitochondria proteins (named CoreMitoP) were identified, we explored those proteins with unknown functions based on protein-protein interaction network (PIN) and annotated novel functions for 26.65% CoreMitoP proteins. Moreover, we found newly predicted mitochondrial proteins embedded in particular subnetworks of the PIN, mainly functioning in response to diverse environmental stresses, like salt, draught, cold, and wound etc. Candidate mitochondrial proteins involved in those physiological acitivites provide useful targets for further investigation. Assigned functions also provide comprehensive information for Arabidopsis mitochondrial proteome.
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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.