Please use this identifier to cite or link to this item: https://une.intersearch.com.au/unejspui/handle/1959.11/3011
Title: Using comparative genomics to reorder the human genome sequence into a virtual sheep genome
Contributor(s): Dalrymple, BP (author); Kirkness, EF (author); Nicholas, F (author); Crawford, A (author); Smith, T (author); de Jong, P (author); McEwan, J (author); Oddy, Hutton (author); Cockett, NE (author); Nefedov, M (author); McWilliam, S (author); Ratnakumar, A (author); Barris, W (author); Zhao, S (author); Shetty, J (author); Maddox, JF (author); O'Grady, M (author)
Publication Date: 2007
DOI: 10.1186/gb-2007-8-7-r152
Handle Link: https://hdl.handle.net/1959.11/3011
Abstract: A sheep BAC library, CHORI-243, was constructed and the BAC end sequences were determined and mapped with high sensitivity and low specificity onto the frameworks of the human, dog, and cow genomes. To maximize genome coverage, the coordinates of all BAC end sequence hits to the cow and dog genomes were also converted to the equivalent human genome coordinates. The 84,624 sheep BACs (about 5.4-fold genome coverage) with paired ends in the correct orientation (tail-to-tail) and spacing, combined with information from sheep BAC comparative genome contigs (CGCs) built separately on the dog and cow genomes, were used to construct 1,172 sheep BAC-CGCs, covering 91.2% of the human genome. Clustered non-tail-totail and outsize BACs located close to the ends of many BAC-CGCs linked BAC-CGCs covering about 70% of the genome to at least one other BAC-CGC on the same chromosome. Using the BAC-CGCs, the intrachromosomal and interchromosomal BAC-CGC linkage information, human/cow and vertebrate synteny, and the sheep marer map, a virtual sheep genome was constructed. To identify BACs potentially located in gaps between BAC-CGCs, an additional set of 55,668 sheep BACs were positioned on the sheep genome with lower confidence. A coordinate conversionprocess allowed us to transfer human genes and other genome features to the virtual sheep genome to display on a sheep genome browser.
Publication Type: Journal Article
Source of Publication: Genome Biology, v.8
Publisher: BioMed Central Ltd
Place of Publication: United Kingdom
ISSN: 1474-7596
Field of Research (FOR): 060407 Genome Structure and Regulation
Peer Reviewed: Yes
HERDC Category Description: C1 Refereed Article in a Scholarly Journal
Statistics to Oct 2018: Visitors: 665
Views: 672
Downloads: 0
Appears in Collections:Journal Article

Files in This Item:
2 files
File Description SizeFormat 
Show full item record

SCOPUSTM   
Citations

68
checked on Dec 3, 2018

Page view(s)

34
checked on Jan 12, 2019
Google Media

Google ScholarTM

Check

Altmetric

SCOPUSTM   
Citations

 

Items in Research UNE are protected by copyright, with all rights reserved, unless otherwise indicated.