Literature DB >> 33507983

HDG-select: A novel GUI based application for gene selection and classification in high dimensional datasets.

Shilan S Hameed1,2, Rohayanti Hassan3, Wan Haslina Hassan1, Fahmi F Muhammadsharif4, Liza Abdul Latiff5.   

Abstract

The selection and classification of genes is essential for the identification of related genes to a specific disease. Developing a user-friendly application with combined statistical rigor and machine learning functionality to help the biomedical researchers and end users is of great importance. In this work, a novel stand-alone application, which is based on graphical user interface (GUI), is developed to perform the full functionality of gene selection and classification in high dimensional datasets. The so-called HDG-select application is validated on eleven high dimensional datasets of the format CSV and GEO soft. The proposed tool uses the efficient algorithm of combined filter-GBPSO-SVM and it was made freely available to users. It was found that the proposed HDG-select outperformed other tools reported in literature and presented a competitive performance, accessibility, and functionality.

Entities:  

Year:  2021        PMID: 33507983      PMCID: PMC7842997          DOI: 10.1371/journal.pone.0246039

Source DB:  PubMed          Journal:  PLoS One        ISSN: 1932-6203            Impact factor:   3.240


  25 in total

1.  A survey on filter techniques for feature selection in gene expression microarray analysis.

Authors:  Cosmin Lazar; Jonatan Taminau; Stijn Meganck; David Steenhoff; Alain Coletta; Colin Molter; Virginie de Schaetzen; Robin Duque; Hugues Bersini; Ann Nowé
Journal:  IEEE/ACM Trans Comput Biol Bioinform       Date:  2012 Jul-Aug       Impact factor: 3.710

Review 2.  The genetics of autism: key issues, recent findings, and clinical implications.

Authors:  Paul El-Fishawy; Matthew W State
Journal:  Psychiatr Clin North Am       Date:  2010-03

3.  BacPaCS-Bacterial Pathogenicity Classification via Sparse-SVM.

Authors:  Eran Barash; Neta Sal-Man; Sivan Sabato; Michal Ziv-Ukelson
Journal:  Bioinformatics       Date:  2019-06-01       Impact factor: 6.937

4.  Broad patterns of gene expression revealed by clustering analysis of tumor and normal colon tissues probed by oligonucleotide arrays.

Authors:  U Alon; N Barkai; D A Notterman; K Gish; S Ybarra; D Mack; A J Levine
Journal:  Proc Natl Acad Sci U S A       Date:  1999-06-08       Impact factor: 11.205

5.  Autism and increased paternal age related changes in global levels of gene expression regulation.

Authors:  Mark D Alter; Rutwik Kharkar; Keri E Ramsey; David W Craig; Raun D Melmed; Theresa A Grebe; R Curtis Bay; Sharman Ober-Reynolds; Janet Kirwan; Josh J Jones; J Blake Turner; Rene Hen; Dietrich A Stephan
Journal:  PLoS One       Date:  2011-02-17       Impact factor: 3.240

6.  Feature selection and classification for microarray data analysis: evolutionary methods for identifying predictive genes.

Authors:  Thanyaluk Jirapech-Umpai; Stuart Aitken
Journal:  BMC Bioinformatics       Date:  2005-06-15       Impact factor: 3.169

7.  Gene selection and classification of microarray data using random forest.

Authors:  Ramón Díaz-Uriarte; Sara Alvarez de Andrés
Journal:  BMC Bioinformatics       Date:  2006-01-06       Impact factor: 3.169

Review 8.  A Review of Feature Selection and Feature Extraction Methods Applied on Microarray Data.

Authors:  Zena M Hira; Duncan F Gillies
Journal:  Adv Bioinformatics       Date:  2015-06-11

9.  Cancer microarray data feature selection using multi-objective binary particle swarm optimization algorithm.

Authors:  Chandra Sekhara Rao Annavarapu; Suresh Dara; Haider Banka
Journal:  EXCLI J       Date:  2016-08-01       Impact factor: 4.068

10.  GeneSrF and varSelRF: a web-based tool and R package for gene selection and classification using random forest.

Authors:  Ramón Diaz-Uriarte
Journal:  BMC Bioinformatics       Date:  2007-09-03       Impact factor: 3.169

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