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Title: Enhancer Identification through Comparative Genomics

Abstract

With the availability of genomic sequence from numerousvertebrates, a paradigm shift has occurred in the identification ofdistant-acting gene regulatory elements. In contrast to traditionalgene-centric studies in which investigators randomly scanned genomicfragments that flank genes of interest in functional assays, the modernapproach begins electronically with publicly available comparativesequence datasets that provide investigators with prioritized lists ofputative functional sequences based on their evolutionary conservation.However, although a large number of tools and resources are nowavailable, application of comparative genomic approaches remains far fromtrivial. In particular, it requires users to dynamically consider thespecies and methods for comparison depending on the specific biologicalquestion under investigation. While there is currently no single generalrule to this end, it is clear that when applied appropriately,comparative genomic approaches exponentially increase our power ingenerating biological hypotheses for subsequent experimentaltesting.

Authors:
; ;
Publication Date:
Research Org.:
Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
Sponsoring Org.:
USDOE Director, Office of Science; National Institutes ofHealth
OSTI Identifier:
917543
Report Number(s):
LBNL-61825
R&D Project: GHPG6C; BnR: 400412000; TRN: US200817%%745
DOE Contract Number:  
DE-AC02-05CH11231; NIHHL066681
Resource Type:
Journal Article
Journal Name:
Seminars in Cell&Development Biology
Additional Journal Information:
Journal Volume: 18; Journal Issue: 1; Related Information: Journal Publication Date: 01/05/2007
Country of Publication:
United States
Language:
English
Subject:
60; AVAILABILITY; FUNCTIONALS; GENES; TESTING; VERTEBRATES; cis-regulatory comparative genomics enhancer reviewtransgenic

Citation Formats

Visel, Axel, Bristow, James, and Pennacchio, Len A. Enhancer Identification through Comparative Genomics. United States: N. p., 2006. Web.
Visel, Axel, Bristow, James, & Pennacchio, Len A. Enhancer Identification through Comparative Genomics. United States.
Visel, Axel, Bristow, James, and Pennacchio, Len A. 2006. "Enhancer Identification through Comparative Genomics". United States. https://www.osti.gov/servlets/purl/917543.
@article{osti_917543,
title = {Enhancer Identification through Comparative Genomics},
author = {Visel, Axel and Bristow, James and Pennacchio, Len A},
abstractNote = {With the availability of genomic sequence from numerousvertebrates, a paradigm shift has occurred in the identification ofdistant-acting gene regulatory elements. In contrast to traditionalgene-centric studies in which investigators randomly scanned genomicfragments that flank genes of interest in functional assays, the modernapproach begins electronically with publicly available comparativesequence datasets that provide investigators with prioritized lists ofputative functional sequences based on their evolutionary conservation.However, although a large number of tools and resources are nowavailable, application of comparative genomic approaches remains far fromtrivial. In particular, it requires users to dynamically consider thespecies and methods for comparison depending on the specific biologicalquestion under investigation. While there is currently no single generalrule to this end, it is clear that when applied appropriately,comparative genomic approaches exponentially increase our power ingenerating biological hypotheses for subsequent experimentaltesting.},
doi = {},
url = {https://www.osti.gov/biblio/917543}, journal = {Seminars in Cell&Development Biology},
number = 1,
volume = 18,
place = {United States},
year = {Sun Oct 01 00:00:00 EDT 2006},
month = {Sun Oct 01 00:00:00 EDT 2006}
}