Evaluation of Order Preserving Triclustering (OPTricluster) in 3 Dimensional Gene Expression Data Analysis Using Gene Ontology

Ghea Dwi Apriliana, Titin Siswantining, Setia Pramana, Prasnurzaki Anki

Research output: Chapter in Book/Report/Conference proceedingConference contributionpeer-review

1 Citation (Scopus)

Abstract

Breast cancer is the most common cancer in woman and very dangerous that caused 30% of all new female cancers for each year. Nowadays, bioinformatics can be usefull to analyze some disease, especially breast cancer. Triclustering is an improvement in bioinformatics and can be used for 3-dimensional (3D) data. Gene-sample-time is commonly used for 3-dimensional gene expression data. One of the Triclustering methods is Order Preserving Triclustering (OPTricluster). OPTricluster forms a tricluster by identifying genes that have a similar pattern of expression change across time points under several experimental conditions. In this study, OPtricluster was used to finding tricluster of breast cancer gene expression data, by observing changes in gene expression levels in several time conditions. After clustering, the genes which contained in each cluster were evaluated by Gene Ontology to find out which genes were affected by estrogen stimulation at each time point. The result is there were 77 triclusters with 3 triclusters of constant patterns, 52 triclusters of conserved patterns, and 18 triclusters of divergent patterns. For the constant, conserved, and divergent patterns, we found there are several genes that are most affected by estrogen stimulation i.e., NOP16, PTBP1, and ITGB4, respectively.

Original languageEnglish
Title of host publicationProceedings - IEIT 2022
Subtitle of host publication2022 International Conference on Electrical and Information Technology
PublisherInstitute of Electrical and Electronics Engineers Inc.
Pages126-131
Number of pages6
ISBN (Electronic)9781665453035
DOIs
Publication statusPublished - 2022
Event2022 International Conference on Electrical and Information Technology, IEIT 2022 - Malang, Indonesia
Duration: 15 Sept 202216 Sept 2022

Publication series

NameProceedings - IEIT 2022: 2022 International Conference on Electrical and Information Technology

Conference

Conference2022 International Conference on Electrical and Information Technology, IEIT 2022
Country/TerritoryIndonesia
CityMalang
Period15/09/2216/09/22

Keywords

  • 3D gene expression data
  • gene ontology
  • order preserving triclustering
  • triclustering

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