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Results: 7

1.

Tracing the evolution of lineage-specific transcription factor binding sites in a birth-death framework.

Yokoyama KD, Zhang Y, Ma J.

PLoS Comput Biol. 2014 Aug 21;10(8):e1003771. doi: 10.1371/journal.pcbi.1003771. eCollection 2014 Aug.

2.

Report from the first snake genomics and integrative biology meeting.

Castoe TA, Braun EL, Bronikowski AM, Cox CL, Rabosky AR, Jason de Koning AP, Dobry J, Fujita MK, Giorgianni MW, Hargreaves A, Henkel CV, Mackessy SP, O'Meally D, Rokyta DR, Secor SM, Streicher JW, Wray KP, Yokoyama KD, Pollock DD.

Stand Genomic Sci. 2012 Oct 10;7(1):150-2. doi: 10.4056/sigs.3106480. Epub 2012 Sep 24.

3.

SP transcription factor paralogs and DNA-binding sites coevolve and adaptively converge in mammals and birds.

Yokoyama KD, Pollock DD.

Genome Biol Evol. 2012;4(11):1102-17. doi: 10.1093/gbe/evs085.

4.

Sequencing the genome of the Burmese python (Python molurus bivittatus) as a model for studying extreme adaptations in snakes.

Castoe TA, de Koning JA, Hall KT, Yokoyama KD, Gu W, Smith EN, Feschotte C, Uetz P, Ray DA, Dobry J, Bogden R, Mackessy SP, Bronikowski AM, Warren WC, Secor SM, Pollock DD.

Genome Biol. 2011 Jul 28;12(7):406. doi: 10.1186/gb-2011-12-7-406.

5.

Coordinated genome-wide modifications within proximal promoter cis-regulatory elements during vertebrate evolution.

Yokoyama KD, Thorne JL, Wray GA.

Genome Biol Evol. 2011;3:66-74. doi: 10.1093/gbe/evq078. Epub 2010 Nov 30.

6.

Measuring spatial preferences at fine-scale resolution identifies known and novel cis-regulatory element candidates and functional motif-pair relationships.

Yokoyama KD, Ohler U, Wray GA.

Nucleic Acids Res. 2009 Jul;37(13):e92. doi: 10.1093/nar/gkp423. Epub 2009 May 29.

7.

Promoter regions of many neural- and nutrition-related genes have experienced positive selection during human evolution.

Haygood R, Fedrigo O, Hanson B, Yokoyama KD, Wray GA.

Nat Genet. 2007 Sep;39(9):1140-4. Epub 2007 Aug 12.

PMID:
17694055
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