ArticleBioEssays : news and reviews in molecular, cellular and developmental biology2019
Protein Topology Prediction Algorithms Systematically Investigated in the Yeast Saccharomyces cerevisiae.
Article in BioEssays : news and reviews in molecular, cellular and developmental biology, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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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.
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Who cites it
16 citing papers in PubMed, 31 citations in OpenAlex.
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- A proteome-wide yeast degron collection for the dynamic study of protein function.The Journal of cell biology · 2025Article
- The unfolded protein response of the endoplasmic reticulum supports mitochondrial biogenesis by buffering nonimported proteins.Molecular biology of the cell · 2023Article
- A toolbox for systematic discovery of stable and transient protein interactors in baker's yeast.Molecular systems biology · 2023Article
- Systematic multi-level analysis of an organelle proteome reveals new peroxisomal functions.Molecular systems biology · 2022Article
- Modeling Adsorption, Conformation, and Orientation of the Fis1 Tail Anchor at the Mitochondrial Outer Membrane.Membranes · 2022Article
- Regulated targeting of the monotopic hairpin membrane protein Erg1 requires the GET pathway.The Journal of cell biology · 2022Article
- Article
- A Similarity-Based Method for Predicting Enzymatic Functions in Yeast Uncovers a New AMP Hydrolase.Journal of molecular biology · 2022Article
- Peroxisome function relies on organelle-associated mRNA translation.Science advances · 2022Article
- Cnm1 mediates nucleus-mitochondria contact site formation in response to phospholipid levels.The Journal of cell biology · 2021Article
- The Sur7 cytoplasmic C terminus regulates morphogenesis and stress responses in Candida albicans.Molecular microbiology · 2021Article
- ER targeting of non-imported mitochondrial carrier proteins is dependent on the GET pathway.Life science alliance · 2021Article
- Oxidative Stress Responses and Nutrient Starvation in MCHM TreatedG3 (Bethesda, Md.) · 2020Article
Corrections and comments
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Authors and funding
5 authors at 1 institution in 1 country.
Funding
Abstract
Membrane proteins perform a variety of functions, all crucially dependent on their orientation in the membrane. However, neither the exact number of transmembrane domains (TMDs) nor the topology of most proteins have been experimentally determined. Due to this, most scientists rely primarily on prediction algorithms to determine topology and TMD assignments. Since these can give contradictory results, single-algorithm-based predictions are unreliable. To map the extent of potential misanalysis, the predictions of nine algorithms on the yeast proteome are compared and it is found that they have little agreement when predicting TMD number and termini orientation. To view all predictions in parallel, a webpage called TopologYeast: http://www.weizmann.ac.il/molgen/TopologYeast was created. Each algorithm is compared with experimental data and a poor agreement is found. The analysis suggests that more systematic data on protein topology are required to increase the training sets for prediction algorithms and to have accurate knowledge of membrane protein topology.
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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.