Literature DB >> 11818143

Vertebrate genome sequencing: building a backbone for comparative genomics.

James W Thomas1, Jeffrey W Touchman.   

Abstract

The human genome sequence provides a reference point from which we can compare ourselves with other organisms. Interspecies comparison is a powerful tool for inferring function from genomic sequence and could ultimately lead to the discovery of what makes humans unique. To date, most comparative sequencing has focused on pair-wise comparisons between human and a limited number of other vertebrates, such as mouse. Targeted approaches now exist for mapping and sequencing vertebrate bacterial artificial chromosomes (BACs) from numerous species, allowing rapid and detailed molecular and phylogenetic investigation of multi-megabase loci. Such targeted sequencing is complementary to current whole-genome sequencing projects, and would benefit greatly from the creation of BAC libraries from a diverse range of vertebrates.

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Year:  2002        PMID: 11818143     DOI: 10.1016/s0168-9525(02)02599-4

Source DB:  PubMed          Journal:  Trends Genet        ISSN: 0168-9525            Impact factor:   11.639


  17 in total

1.  MultiPipMaker and supporting tools: Alignments and analysis of multiple genomic DNA sequences.

Authors:  Scott Schwartz; Laura Elnitski; Mei Li; Matt Weirauch; Cathy Riemer; Arian Smit; Eric D Green; Ross C Hardison; Webb Miller
Journal:  Nucleic Acids Res       Date:  2003-07-01       Impact factor: 16.971

Review 2.  Comparative genomics: methods and applications.

Authors:  Bernhard Haubold; Thomas Wiehe
Journal:  Naturwissenschaften       Date:  2004-06-25

3.  Annotation of cis-regulatory elements by identification, subclassification, and functional assessment of multispecies conserved sequences.

Authors:  Jim R Hughes; Jan-Fang Cheng; Nicki Ventress; Shyam Prabhakar; Kevin Clark; Eduardo Anguita; Marco De Gobbi; Pieter de Jong; Eddy Rubin; Douglas R Higgs
Journal:  Proc Natl Acad Sci U S A       Date:  2005-07-05       Impact factor: 11.205

4.  Comparative sequencing provides insights about the structure and conservation of marsupial and monotreme genomes.

Authors:  Elliott H Margulies; Valerie V B Maduro; Pamela J Thomas; Jeffery P Tomkins; Chris T Amemiya; Meizhong Luo; Eric D Green
Journal:  Proc Natl Acad Sci U S A       Date:  2005-02-17       Impact factor: 11.205

5.  Identification of neuronal enhancers of the proopiomelanocortin gene by transgenic mouse analysis and phylogenetic footprinting.

Authors:  Flávio S J de Souza; Andrea M Santangelo; Viviana Bumaschny; María Elena Avale; James L Smart; Malcolm J Low; Marcelo Rubinstein
Journal:  Mol Cell Biol       Date:  2005-04       Impact factor: 4.272

6.  Characterizing the chromosomes of the Australian model marsupial Macropus eugenii (tammar wallaby).

Authors:  Amber E Alsop; Pat Miethke; Ruth Rofe; Edda Koina; Natasha Sankovic; Janine E Deakin; Helen Haines; Robert W Rapkins; Jennifer A Marshall Graves
Journal:  Chromosome Res       Date:  2005-09-21       Impact factor: 5.239

7.  Changes of globin expression in the Japanese medaka (Oryzias latipes) in response to acute and chronic hypoxia.

Authors:  Agnes Wawrowski; Frank Gerlach; Thomas Hankeln; Thorsten Burmester
Journal:  J Comp Physiol B       Date:  2010-10-21       Impact factor: 2.200

8.  Chromosomal redistribution of male-biased genes in mammalian evolution with two bursts of gene gain on the X chromosome.

Authors:  Yong E Zhang; Maria D Vibranovski; Patrick Landback; Gabriel A B Marais; Manyuan Long
Journal:  PLoS Biol       Date:  2010-10-05       Impact factor: 8.029

9.  A 1463 gene cattle-human comparative map with anchor points defined by human genome sequence coordinates.

Authors:  Annelie Everts-van der Wind; Srinivas R Kata; Mark R Band; Mark Rebeiz; Denis M Larkin; Robin E Everts; Cheryl A Green; Lei Liu; Shreedhar Natarajan; Tom Goldammer; Jun Heon Lee; Stephanie McKay; James E Womack; Harris A Lewin
Journal:  Genome Res       Date:  2004-07       Impact factor: 9.043

10.  Projector: automatic contig mapping for gap closure purposes.

Authors:  Sacha A F T van Hijum; Aldert L Zomer; Oscar P Kuipers; Jan Kok
Journal:  Nucleic Acids Res       Date:  2003-11-15       Impact factor: 16.971

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