ArticleBMC research notes2012
ngLOC: software and web server for predicting protein subcellular localization in prokaryotes and eukaryotes.
Article in BMC research notes, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
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Who cites it
23 citing papers in PubMed, 47 citations in OpenAlex.
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- A Review for Artificial Intelligence Based Protein Subcellular Localization.Biomolecules · 2024Review
- Proteome Exploration ofMicrobiology spectrum · 2022Article
- Evolutionarily stable gene clusters shed light on the common grounds of pathogenicity in the Acinetobacter calcoaceticus-baumannii complex.PLoS genetics · 2022Article
- Membrane Proteins and Proteomics of Cronobacter sakazakii Cells: Reliable Method for Identification and Subcellular Localization.Applied and environmental microbiology · 2022Article
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- Ensemble of Multiple Classifiers for Multilabel Classification of Plant Protein Subcellular Localization.Life (Basel, Switzerland) · 2021Article
- Tip60 Phosphorylation at Ser 99 Is Essential for Autophagy Induction inInternational journal of molecular sciences · 2020Article
- A Genome-Scale Metabolic Model ofMicroorganisms · 2020Article
- Use of Chou's 5-steps rule to predict the subcellular localization of gram-negative and gram-positive bacterial proteins by multi-label learning based on gene ontology annotation and profile alignment.Journal of integrative bioinformatics · 2020Article
- SilkDB 3.0: visualizing and exploring multiple levels of data for silkworm.Nucleic acids research · 2020Article
- Proteome Map of Pea (International journal of molecular sciences · 2018Article
- Prediction of subcellular location of apoptosis proteins by incorporating PsePSSM and DCCA coefficient based on LFDA dimensionality reduction.BMC genomics · 2018Article
- Molecular characterization and differential expression suggested diverse functions of P-type II CaBMC genomics · 2018Article
- Acetylome Profiling Reveals Extensive Lysine Acetylation of the Fatty Acid Metabolism Pathway in the DiatomMolecular & cellular proteomics : MCP · 2018Article
- Accurate prediction of subcellular location of apoptosis proteins combining Chou's PseAAC and PsePSSM based on wavelet denoising.Oncotarget · 2017Article
- GLUT10-Lacking in Arterial Tortuosity Syndrome-Is Localized to the Endoplasmic Reticulum of Human Fibroblasts.International journal of molecular sciences · 2017Article
- Proteomic analysis of lung metastases in a murine breast cancer model reveals divergent influence of CTSB and CTSL overexpression.Journal of Cancer · 2017Article
- CaFrontiers in plant science · 2016Article
Corrections and comments
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Authors and funding
5 authors at 2 institutions in 1 country.
Funding
Abstract
backgroundUnderstanding protein subcellular localization is a necessary component toward understanding the overall function of a protein. Numerous computational methods have been published over the past decade, with varying degrees of success. Despite the large number of published methods in this area, only a small fraction of them are available for researchers to use in their own studies. Of those that are available, many are limited by predicting only a small number of organelles in the cell. Additionally, the majority of methods predict only a single location for a sequence, even though it is known that a large fraction of the proteins in eukaryotic species shuttle between locations to carry out their function.
findingsWe present a software package and a web server for predicting the subcellular localization of protein sequences based on the ngLOC method. ngLOC is an n-gram-based Bayesian classifier that predicts subcellular localization of proteins both in prokaryotes and eukaryotes. The overall prediction accuracy varies from 89.8% to 91.4% across species. This program can predict 11 distinct locations each in plant and animal species. ngLOC also predicts 4 and 5 distinct locations on gram-positive and gram-negative bacterial datasets, respectively.
conclusionsngLOC is a generic method that can be trained by data from a variety of species or classes for predicting protein subcellular localization. The standalone software is freely available for academic use under GNU GPL, and the ngLOC web server is also accessible at http://ngloc.unmc.edu.
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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.