pLoc_bal-mAnimal: predict subcellular localization of animal proteins by balancing training dataset and PseAAC

Bioinformatics
Xiang ChengKuo-Chen Chou

Abstract

A cell contains numerous protein molecules. One of the fundamental goals in cell biology is to determine their subcellular locations, which can provide useful clues about their functions. Knowledge of protein subcellular localization is also indispensable for prioritizing and selecting the right targets for drug development. With the avalanche of protein sequences emerging in the post-genomic age, it is highly desired to develop computational tools for timely and effectively identifying their subcellular localization based on the sequence information alone. Recently, a predictor called 'pLoc-mAnimal' was developed for identifying the subcellular localization of animal proteins. Its performance is overwhelmingly better than that of the other predictors for the same purpose, particularly in dealing with the multi-label systems in which some proteins, called 'multiplex proteins', may simultaneously occur in two or more subcellular locations. Although it is indeed a very powerful predictor, more efforts are definitely needed to further improve it. This is because pLoc-mAnimal was trained by an extremely skewed dataset in which some subset (subcellular location) was about 128 times the size of the other subsets. Accordingly, such an...Continue Reading

References

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Apr 29, 2003·Journal of Proteome Research·Kuo-Chen Chou, David W Elrod
Nov 19, 2003·Biochemical and Biophysical Research Communications·Kuo-Chen Chou, Yu-Dong Cai
Jul 14, 2004·Biochemical and Biophysical Research Communications·Kuo-Chen Chou, Yu-Dong Cai
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Jun 26, 2007·Biochemical and Biophysical Research Communications·Kuo-Chen Chou, Hong-Bin Shen
Aug 19, 2007·Analytical Biochemistry·Kuo-Chen Chou, Hong-Bin Shen
Dec 8, 2009·Journal of Theoretical Biology·Maryam EsmaeiliSasan Mohsenzadeh
Dec 21, 2010·Journal of Theoretical Biology·Kuo-Chen Chou
Jan 11, 2013·Nucleic Acids Research·Wei ChenKuo-Chen Chou
Mar 29, 2013·Molecular BioSystems·Kuo-Chen Chou
Jul 19, 2013·IEEE Transactions on Nanobioscience·Eakasit Pacharawongsakda, Thanaruk Theeramunkong
Dec 31, 2014·Medicinal Chemistry·Kuo-Chen Chou
Jan 18, 2015·Analytical Biochemistry·Zi LiuKuo-Chen Chou

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Citations

May 7, 2019·Current Medicinal Chemistry·Mark A Messerli, Anyesha Sarkar
Oct 12, 2019·Proteins·Rosalin Bonetta, Gianluca Valentino
Oct 28, 2019·Current Topics in Medicinal Chemistry·Kuo-Chen Chou
Nov 30, 2019·Current Pharmaceutical Design·Kuo-Chen Chou
Oct 30, 2019·Applied Biochemistry and Biotechnology·Mandana BehbahaniHassan Mohabatkar
Dec 13, 2018·Current Drug Targets·Meysam GachpazanAmir Avan
Jan 3, 2020·Molecular Genetics and Genomics : MGG·Kuo-Chen Chou
Dec 6, 2019·Database : the Journal of Biological Databases and Curation·Lei ZhengYongchun Zuo
Mar 15, 2020·Interdisciplinary Sciences, Computational Life Sciences·Yashuang MuXiaodong Liu
Oct 21, 2019·Current Topics in Medicinal Chemistry·Jianqiang LanJianyong Li
Apr 6, 2019·Current Medicinal Chemistry·Qingjun PanHua-Feng Liu
Oct 20, 2020·Current Genomics·Md Mamunur RashidHiroyuki Kurata
Feb 24, 2021·PloS One·Abu Zahid Bin AzizJungpil Shin

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