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Enhancer Prediction in Proboscis Monkey Genome : A Comparative Study

Genome annotation is an essential task for understanding and analyzing the whole genome and its function. We have sequenced the complete proboscis Monkey (Nasalis larvatus) genome due to its important for medical and evolutionary studies. We have performed an initial annotation of the genes genome...

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Main Authors: Norshafarina, Omar, Lee, Nung Kion, Yu, Shiong Wong, Xi, Li, Chong, Yee Ling, Mohd Tajuddin, Abdullah
Format: Proceeding
Language:English
Published: 2017
Subjects:
H Social Sciences (General)
Online Access:http://ir.unimas.my/id/eprint/31042/1/Enhancer%20Prediction%20in%20Proboscis%20Monkey%20Genome%20-%20Copy.pdf
http://ir.unimas.my/id/eprint/31042/
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spelling my.unimas.ir.310422020-08-07T06:57:54Z http://ir.unimas.my/id/eprint/31042/ Enhancer Prediction in Proboscis Monkey Genome : A Comparative Study Norshafarina, Omar Lee, Nung Kion Yu, Shiong Wong Xi, Li Chong, Yee Ling Mohd Tajuddin, Abdullah H Social Sciences (General) Genome annotation is an essential task for understanding and analyzing the whole genome and its function. We have sequenced the complete proboscis Monkey (Nasalis larvatus) genome due to its important for medical and evolutionary studies. We have performed an initial annotation of the genes genome using the MAKER gene annotation pipeline. 3084 genes were predicted from chromosome 18 of the genome using six eukaryotic model species. Intergenic regions possibly enriched with enhancers are then predicted using five different tools: DeepBind, LS-GKM, GMFR-CNN, CSI-ANN and iEnhancer-2L. These tools find the enhancers of the complex intergenic regions based on epigenetic features, in which intergenic regions are seen as a potential region for enhancers with a certain epigenetic features bound to it. Empirical results demonstrate competitive performance using different prediction tools with multiple epigenetic features to predict the enhancers for chromosome 18 in proboscis monkey. Based on the finding of this study, predicted enhancers can be used for the purpose of scientific and genomic discoveries. 2017 Proceeding PeerReviewed text en http://ir.unimas.my/id/eprint/31042/1/Enhancer%20Prediction%20in%20Proboscis%20Monkey%20Genome%20-%20Copy.pdf Norshafarina, Omar and Lee, Nung Kion and Yu, Shiong Wong and Xi, Li and Chong, Yee Ling and Mohd Tajuddin, Abdullah (2017) Enhancer Prediction in Proboscis Monkey Genome : A Comparative Study. In: The 10th International Conference on Information Technology in Asia (CITA'2017), 23rd – 24th May 2017, Hilton Hotel Kuching, Sarawak.
institution Universiti Malaysia Sarawak
building Centre for Academic Information Services (CAIS)
collection Institutional Repository
continent Asia
country Malaysia
content_provider Universiti Malaysia Sarawak
content_source UNIMAS Institutional Repository
url_provider http://ir.unimas.my/
language English
topic H Social Sciences (General)
spellingShingle H Social Sciences (General)
Norshafarina, Omar
Lee, Nung Kion
Yu, Shiong Wong
Xi, Li
Chong, Yee Ling
Mohd Tajuddin, Abdullah
Enhancer Prediction in Proboscis Monkey Genome : A Comparative Study
description Genome annotation is an essential task for understanding and analyzing the whole genome and its function. We have sequenced the complete proboscis Monkey (Nasalis larvatus) genome due to its important for medical and evolutionary studies. We have performed an initial annotation of the genes genome using the MAKER gene annotation pipeline. 3084 genes were predicted from chromosome 18 of the genome using six eukaryotic model species. Intergenic regions possibly enriched with enhancers are then predicted using five different tools: DeepBind, LS-GKM, GMFR-CNN, CSI-ANN and iEnhancer-2L. These tools find the enhancers of the complex intergenic regions based on epigenetic features, in which intergenic regions are seen as a potential region for enhancers with a certain epigenetic features bound to it. Empirical results demonstrate competitive performance using different prediction tools with multiple epigenetic features to predict the enhancers for chromosome 18 in proboscis monkey. Based on the finding of this study, predicted enhancers can be used for the purpose of scientific and genomic discoveries.
format Proceeding
author Norshafarina, Omar
Lee, Nung Kion
Yu, Shiong Wong
Xi, Li
Chong, Yee Ling
Mohd Tajuddin, Abdullah
author_facet Norshafarina, Omar
Lee, Nung Kion
Yu, Shiong Wong
Xi, Li
Chong, Yee Ling
Mohd Tajuddin, Abdullah
author_sort Norshafarina, Omar
title Enhancer Prediction in Proboscis Monkey Genome : A Comparative Study
title_short Enhancer Prediction in Proboscis Monkey Genome : A Comparative Study
title_full Enhancer Prediction in Proboscis Monkey Genome : A Comparative Study
title_fullStr Enhancer Prediction in Proboscis Monkey Genome : A Comparative Study
title_full_unstemmed Enhancer Prediction in Proboscis Monkey Genome : A Comparative Study
title_sort enhancer prediction in proboscis monkey genome : a comparative study
publishDate 2017
url http://ir.unimas.my/id/eprint/31042/1/Enhancer%20Prediction%20in%20Proboscis%20Monkey%20Genome%20-%20Copy.pdf
http://ir.unimas.my/id/eprint/31042/
_version_ 1675331188545290240
score 13.211869

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