ArticleEvolutionary bioinformatics online2018
NommPred: Prediction of Mitochondrial and Mitochondrion-Related Organelle Proteins of Nonmodel Organisms.
Article in Evolutionary bioinformatics online, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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Who cites it
15 citing papers in PubMed, 26 citations in OpenAlex.
- CoMR: an integrative scoring pipeline for comprehensive mitochondrial proteome reconstruction across eukaryotes.Briefings in bioinformatics · 2026Article
- Distribution and Functional Analysis of Isocitrate Dehydrogenases across Kinetoplastids.Genome biology and evolution · 2024Article
- Encyclopedia of Family A DNA Polymerases Localized in Organelles: Evolutionary Contribution of Bacteria Including the Proto-Mitochondrion.Molecular biology and evolution · 2024Article
- Comparative analysis of mitochondrion-related organelles in anaerobic amoebozoans.Microbial genomics · 2023Article
- A Novel Group of Dynamin-Related Proteins Shared by Eukaryotes and Giant Viruses Is Able to Remodel Mitochondria From Within the Matrix.Molecular biology and evolution · 2023Article
- Reduced mitochondria provide an essential function for the cytosolic methionine cycle.Current biology : CB · 2022Article
- The Pet127 protein is a mitochondrial 5'-to-3' exoribonuclease from the PD-(D/E)XK superfamily involved in RNA maturation and intron degradation in yeasts.RNA (New York, N.Y.) · 2022Article
- Genome evolution of a nonparasitic secondary heterotroph, the diatomScience advances · 2022Article
- Anaerobic derivates of mitochondria and peroxisomes in the free-living amoeba Pelomyxa schiedti revealed by single-cell genomics.BMC biology · 2022Article
- Evidence for an Independent Hydrogenosome-to-Mitosome Transition in the CL3 Lineage of Fornicates.Frontiers in microbiology · 2022Article
- Highly flexible metabolism of the marine euglenozoan protist Diplonema papillatum.BMC biology · 2021Article
- Retortamonads from vertebrate hosts share features of anaerobic metabolism and pre-adaptations to parasitism with diplomonads.Parasitology international · 2021Article
- Barthelonids represent a deep-branching metamonad clade with mitochondrion-related organelles predicted to generate no ATP.Proceedings. Biological sciences · 2020Article
- Catalase and Ascorbate Peroxidase in Euglenozoan Protists.Pathogens (Basel, Switzerland) · 2020Article
- Inventory and Evolution of Mitochondrion-localized Family A DNA Polymerases in Euglenozoa.Pathogens (Basel, Switzerland) · 2020Article
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Authors and funding
4 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
To estimate the functions of mitochondria of diverse eukaryotic nonmodel organisms in which the mitochondrial proteomes are not available, it is necessary to predict the protein sequence features of the mitochondrial proteins computationally. Various prediction methods that are trained using the proteins of model organisms belonging particularly to animals, plants, and fungi exist. However, such methods may not be suitable for predicting the proteins derived from nonmodel organisms because the sequence features of the mitochondrial proteins of diversified nonmodel organisms can differ from those of model organisms that are present only in restricted parts of the tree of eukaryotes. Here, we proposed NommPred, which predicts the mitochondrial proteins of nonmodel organisms that are widely distributed over eukaryotes. We used a gradient boosting machine to develop 2 predictors-one for predicting the proteins of mitochondria and the other for predicting the proteins of mitochondrion-related organelles that are highly reduced mitochondria. The performance of both predictors was found to be better than that of the best method available.
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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.