Literature DB >> 29275361

Applications of Support Vector Machine (SVM) Learning in Cancer Genomics.

Shujun Huang1,2, Nianguang Cai2, Pedro Penzuti Pacheco2, Shavira Narrandes2,3, Yang Wang4, Wayne Xu2,3,5.   

Abstract

Machine learning with maximization (support) of separating margin (vector), called support vector machine (SVM) learning, is a powerful classification tool that has been used for cancer genomic classification or subtyping. Today, as advancements in high-throughput technologies lead to production of large amounts of genomic and epigenomic data, the classification feature of SVMs is expanding its use in cancer genomics, leading to the discovery of new biomarkers, new drug targets, and a better understanding of cancer driver genes. Herein we reviewed the recent progress of SVMs in cancer genomic studies. We intend to comprehend the strength of the SVM learning and its future perspective in cancer genomic applications. Copyright
© 2018, International Institute of Anticancer Research (Dr. George J. Delinasios), All rights reserved.

Entities:  

Keywords:  Machine learning (ML); biomarker discovery; cancer classification; classifier; driver gene; drug discovery; gene expression; gene selection; gene-gene interaction; genomics; kernel function; review; support vector machine (SVM)

Mesh:

Substances:

Year:  2018        PMID: 29275361      PMCID: PMC5822181          DOI: 10.21873/cgp.20063

Source DB:  PubMed          Journal:  Cancer Genomics Proteomics        ISSN: 1109-6535            Impact factor:   4.069


  57 in total

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2.  A support vector machine approach for detecting gene-gene interaction.

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Review 3.  Biomarkers in Colorectal Cancer.

Authors:  Andrew J Yiu; Chu Y Yiu
Journal:  Anticancer Res       Date:  2016-03       Impact factor: 2.480

4.  Identifying cancer biomarkers by network-constrained support vector machines.

Authors:  Li Chen; Jianhua Xuan; Rebecca B Riggins; Robert Clarke; Yue Wang
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5.  Meta-analytic support vector machine for integrating multiple omics data.

Authors:  SungHwan Kim; Jae-Hwan Jhong; JungJun Lee; Ja-Yong Koo
Journal:  BioData Min       Date:  2017-01-26       Impact factor: 2.522

Review 6.  Machine learning and its applications to biology.

Authors:  Adi L Tarca; Vincent J Carey; Xue-wen Chen; Roberto Romero; Sorin Drăghici
Journal:  PLoS Comput Biol       Date:  2007-06       Impact factor: 4.475

7.  A systematic approach to identify novel cancer drug targets using machine learning, inhibitor design and high-throughput screening.

Authors:  Jouhyun Jeon; Satra Nim; Joan Teyra; Alessandro Datti; Jeffrey L Wrana; Sachdev S Sidhu; Jason Moffat; Philip M Kim
Journal:  Genome Med       Date:  2014-07-30       Impact factor: 11.117

8.  Improving Drug Sensitivity Prediction Using Different Types of Data.

Authors:  H A Hejase; C Chan
Journal:  CPT Pharmacometrics Syst Pharmacol       Date:  2015-02-18

9.  Prioritization of anticancer drugs against a cancer using genomic features of cancer cells: A step towards personalized medicine.

Authors:  Sudheer Gupta; Kumardeep Chaudhary; Rahul Kumar; Ankur Gautam; Jagpreet Singh Nanda; Sandeep Kumar Dhanda; Samir Kumar Brahmachari; Gajendra P S Raghava
Journal:  Sci Rep       Date:  2016-03-31       Impact factor: 4.379

10.  Weighted K-means support vector machine for cancer prediction.

Authors:  SungHwan Kim
Journal:  Springerplus       Date:  2016-07-25
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  171 in total

1.  Clinico-radiological characteristic-based machine learning in reducing unnecessary prostate biopsies of PI-RADS 3 lesions with dual validation.

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Journal:  Eur Radiol       Date:  2020-06-10       Impact factor: 5.315

2.  Impaired Parahippocampal Gyrus-Orbitofrontal Cortex Circuit Associated with Visuospatial Memory Deficit as a Potential Biomarker and Interventional Approach for Alzheimer Disease.

Authors:  Lin Zhu; Zan Wang; Zhanhong Du; Xinyang Qi; Hao Shu; Duan Liu; Fan Su; Qing Ye; Xuemei Liu; Zheng Zhou; Yongqiang Tang; Ru Song; Xiaobin Wang; Li Lin; Shijiang Li; Ying Han; Liping Wang; Zhijun Zhang
Journal:  Neurosci Bull       Date:  2020-04-29       Impact factor: 5.203

3.  A single nucleotide polymorphism panel for individual identification and ancestry assignment in Caucasians and four East and Southeast Asian populations using a machine learning classifier.

Authors:  Hsiao-Lin Hwa; Ming-Yih Wu; Chih-Peng Lin; Wei Hsin Hsieh; Hsiang-I Yin; Tsui-Ting Lee; James Chun-I Lee
Journal:  Forensic Sci Med Pathol       Date:  2019-01-16       Impact factor: 2.007

4.  Artificial intelligence, physiological genomics, and precision medicine.

Authors:  Anna Marie Williams; Yong Liu; Kevin R Regner; Fabrice Jotterand; Pengyuan Liu; Mingyu Liang
Journal:  Physiol Genomics       Date:  2018-01-26       Impact factor: 3.107

Review 5.  Application of machine learning in the management of acute myeloid leukemia: current practice and future prospects.

Authors:  Jan-Niklas Eckardt; Martin Bornhäuser; Karsten Wendt; Jan Moritz Middeke
Journal:  Blood Adv       Date:  2020-12-08

6.  Machine learning-based differentiation between multiple sclerosis and glioma WHO II°-IV° using O-(2-[18F] fluoroethyl)-L-tyrosine positron emission tomography.

Authors:  Sied Kebir; Laurèl Rauschenbach; Martin Glas; Manuel Weber; Lazaros Lazaridis; Teresa Schmidt; Kathy Keyvani; Niklas Schäfer; Asma Milia; Lale Umutlu; Daniela Pierscianek; Martin Stuschke; Michael Forsting; Ulrich Sure; Christoph Kleinschnitz; Gerald Antoch; Patrick M Colletti; Domenico Rubello; Ken Herrmann; Ulrich Herrlinger; Björn Scheffler; Ralph A Bundschuh
Journal:  J Neurooncol       Date:  2021-01-27       Impact factor: 4.130

7.  A mechanism-aware and multiomic machine-learning pipeline characterizes yeast cell growth.

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Journal:  Proc Natl Acad Sci U S A       Date:  2020-07-16       Impact factor: 11.205

Review 8.  Big Data in Head and Neck Cancer.

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Journal:  Curr Treat Options Oncol       Date:  2018-10-25

9.  Screening and diagnosis of colorectal cancer and advanced adenoma by Bionic Glycome method and machine learning.

Authors:  Yiqing Pan; Lei Zhang; Rongrong Zhang; Jing Han; Wenjun Qin; Yong Gu; Jichen Sha; Xiaoyan Xu; Yi Feng; Zhipeng Ren; Jiawen Dai; Ben Huang; Shifang Ren; Jianxin Gu
Journal:  Am J Cancer Res       Date:  2021-06-15       Impact factor: 6.166

10.  Machine learning for the prediction of severe pneumonia during posttransplant hospitalization in recipients of a deceased-donor kidney transplant.

Authors:  You Luo; Zuofu Tang; Xiao Hu; Shuo Lu; Bin Miao; Songlin Hong; Haiyun Bai; Chen Sun; Jiang Qiu; Huiying Liang; Ning Na
Journal:  Ann Transl Med       Date:  2020-02
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