DbHiMo: A web-based epigenomics platform for histone-modifying enzymes

Jaeyoung Choi; Ki Tae Kim; Aram Huh; Seomun Kwon; Changyoung Hong; Fred O. Asiegbu; Junhyun Jeon; Yong Hwan Lee

doi:10.1093/database/bav052

DbHiMo: A web-based epigenomics platform for histone-modifying enzymes

Jaeyoung Choi, Ki Tae Kim, Aram Huh, Seomun Kwon, Changyoung Hong, Fred O. Asiegbu, Junhyun Jeon, Yong Hwan Lee

Research output: Contribution to journal › Article › peer-review

16 Citations (Scopus)

Abstract

Over the past two decades, epigenetics has evolved into a key concept for understanding regulation of gene expression. Among many epigenetic mechanisms, covalent modifications such as acetylation and methylation of lysine residues on core histones emerged as a major mechanism in epigenetic regulation. Here, we present the database for histone-modifying enzymes (dbHiMo; http://hme.riceblast.snu.ac.kr/) aimed at facilitating functional and comparative analysis of histone-modifying enzymes (HMEs). HMEs were identified by applying a search pipeline built upon profile hidden Markov model (HMM) to proteomes. The database incorporates 11 576 HMEs identified from 603 proteomes including 483 fungal, 32 plants and 51 metazoan species. The dbHiMo provides users with web-based personalized data browsing and analysis tools, supporting comparative and evolutionary genomics. With comprehensive data entries and associated web-based tools, our database will be a valuable resource for future epigenetics/epigenomics studies.

Original language	English
Article number	bav052
Journal	Database : the journal of biological databases and curation
Volume	2015
DOIs	https://doi.org/10.1093/database/bav052
Publication status	Published - 2015

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© The Author(s) 2015. Published by Oxford University Press.

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title = "DbHiMo: A web-based epigenomics platform for histone-modifying enzymes",

abstract = "Over the past two decades, epigenetics has evolved into a key concept for understanding regulation of gene expression. Among many epigenetic mechanisms, covalent modifications such as acetylation and methylation of lysine residues on core histones emerged as a major mechanism in epigenetic regulation. Here, we present the database for histone-modifying enzymes (dbHiMo; http://hme.riceblast.snu.ac.kr/) aimed at facilitating functional and comparative analysis of histone-modifying enzymes (HMEs). HMEs were identified by applying a search pipeline built upon profile hidden Markov model (HMM) to proteomes. The database incorporates 11 576 HMEs identified from 603 proteomes including 483 fungal, 32 plants and 51 metazoan species. The dbHiMo provides users with web-based personalized data browsing and analysis tools, supporting comparative and evolutionary genomics. With comprehensive data entries and associated web-based tools, our database will be a valuable resource for future epigenetics/epigenomics studies.",

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AU - Choi, Jaeyoung

AU - Kim, Ki Tae

AU - Huh, Aram

AU - Kwon, Seomun

AU - Hong, Changyoung

AU - Asiegbu, Fred O.

AU - Jeon, Junhyun

AU - Lee, Yong Hwan

PY - 2015

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DbHiMo: A web-based epigenomics platform for histone-modifying enzymes

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