Literature DB >> 35966173

Machine learning in postgenomic biology and personalized medicine.

Animesh Ray1,2.   

Abstract

In recent years Artificial Intelligence in the form of machine learning has been revolutionizing biology, biomedical sciences, and gene-based agricultural technology capabilities. Massive data generated in biological sciences by rapid and deep gene sequencing and protein or other molecular structure determination, on the one hand, requires data analysis capabilities using machine learning that are distinctly different from classical statistical methods; on the other, these large datasets are enabling the adoption of novel data-intensive machine learning algorithms for the solution of biological problems that until recently had relied on mechanistic model-based approaches that are computationally expensive. This review provides a bird's eye view of the applications of machine learning in post-genomic biology. Attempt is also made to indicate as far as possible the areas of research that are poised to make further impacts in these areas, including the importance of explainable artificial intelligence (XAI) in human health. Further contributions of machine learning are expected to transform medicine, public health, agricultural technology, as well as to provide invaluable gene-based guidance for the management of complex environments in this age of global warming.

Entities:  

Year:  2022        PMID: 35966173      PMCID: PMC9371441          DOI: 10.1002/widm.1451

Source DB:  PubMed          Journal:  Wiley Interdiscip Rev Data Min Knowl Discov        ISSN: 1942-4795


  106 in total

Review 1.  The protein folding problem.

Authors:  Ken A Dill; S Banu Ozkan; M Scott Shell; Thomas R Weikl
Journal:  Annu Rev Biophys       Date:  2008       Impact factor: 12.981

2.  'It will change everything': DeepMind's AI makes gigantic leap in solving protein structures.

Authors:  Ewen Callaway
Journal:  Nature       Date:  2020-12       Impact factor: 49.962

3.  The gradient boosting algorithm and random boosting for genome-assisted evaluation in large data sets.

Authors:  O González-Recio; J A Jiménez-Montero; R Alenda
Journal:  J Dairy Sci       Date:  2012-10-24       Impact factor: 4.034

4.  Gut Microbiome-Based Metagenomic Signature for Non-invasive Detection of Advanced Fibrosis in Human Nonalcoholic Fatty Liver Disease.

Authors:  Rohit Loomba; Victor Seguritan; Weizhong Li; Tao Long; Niels Klitgord; Archana Bhatt; Parambir Singh Dulai; Cyrielle Caussy; Richele Bettencourt; Sarah K Highlander; Marcus B Jones; Claude B Sirlin; Bernd Schnabl; Lauren Brinkac; Nicholas Schork; Chi-Hua Chen; David A Brenner; William Biggs; Shibu Yooseph; J Craig Venter; Karen E Nelson
Journal:  Cell Metab       Date:  2017-05-02       Impact factor: 27.287

5.  A Machine Learning Approach to Predict Gene Regulatory Networks in Seed Development in Arabidopsis.

Authors:  Ying Ni; Delasa Aghamirzaie; Haitham Elmarakeby; Eva Collakova; Song Li; Ruth Grene; Lenwood S Heath
Journal:  Front Plant Sci       Date:  2016-12-23       Impact factor: 5.753

6.  Connections between the human gut microbiome and gestational diabetes mellitus.

Authors:  Ya-Shu Kuang; Jin-Hua Lu; Sheng-Hui Li; Jun-Hua Li; Ming-Yang Yuan; Jian-Rong He; Nian-Nian Chen; Wan-Qing Xiao; Song-Ying Shen; Lan Qiu; Ying-Fang Wu; Cui-Yue Hu; Yan-Yan Wu; Wei-Dong Li; Qiao-Zhu Chen; Hong-Wen Deng; Christopher J Papasian; Hui-Min Xia; Xiu Qiu
Journal:  Gigascience       Date:  2017-08-01       Impact factor: 6.524

7.  Evaluation of the lasso and the elastic net in genome-wide association studies.

Authors:  Patrik Waldmann; Gábor Mészáros; Birgit Gredler; Christian Fuerst; Johann Sölkner
Journal:  Front Genet       Date:  2013-12-04       Impact factor: 4.599

8.  Development and evaluation of a deep learning model for protein-ligand binding affinity prediction.

Authors:  Marta M Stepniewska-Dziubinska; Piotr Zielenkiewicz; Pawel Siedlecki
Journal:  Bioinformatics       Date:  2018-11-01       Impact factor: 6.937

9.  Time-lagged Ordered Lasso for network inference.

Authors:  Phan Nguyen; Rosemary Braun
Journal:  BMC Bioinformatics       Date:  2018-12-29       Impact factor: 3.169

10.  Deep learning approach for predicting functional Z-DNA regions using omics data.

Authors:  Nazar Beknazarov; Seungmin Jin; Maria Poptsova
Journal:  Sci Rep       Date:  2020-11-05       Impact factor: 4.379

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