Alisha K. Holloway, Ph.D.

Affiliations: 
University of California, San Francisco, San Francisco, CA 
Area:
Molecular evolution, computational biology
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"Alisha Holloway"

Parents

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Michael F. Antolin grad student 1995-1997 Colorado State
James Bull grad student 2000-2004 UT Austin
 (Polyploid origins, experimental evolution of gene duplicates, and duplication and divergence of reproductive genes.)
David M. Hillis grad student 2000-2004 UT Austin
 (Polyploid origins, experimental evolution of gene duplicates, and duplication and divergence of reproductive genes.)
David Begun post-doc 2005-2008 UC Davis
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Publications

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Lind AL, Lai YYY, Mostovoy Y, et al. (2019) Genome of the Komodo dragon reveals adaptations in the cardiovascular and chemosensory systems of monitor lizards. Nature Ecology & Evolution. 3: 1241-1252
Kostka D, Holloway AK, Pollard KS. (2018) Developmental loci harbor clusters of accelerated regions that evolved independently in ape lineages. Molecular Biology and Evolution
Thomas R, Thomas S, Holloway AK, et al. (2016) Features that define the best ChIP-seq peak calling algorithms. Briefings in Bioinformatics
Luna-Zurita L, Stirnimann CU, Glatt S, et al. (2016) Complex Interdependence Regulates Heterotypic Transcription Factor Distribution and Coordinates Cardiogenesis. Cell
Holloway AK, Bruneau BG, Sukonnik T, et al. (2015) Accelerated evolution of enhancer hotspots in the mammal ancestor. Molecular Biology and Evolution
Kostka D, Friedrich T, Holloway AK, et al. (2015) motifDiverge: a model for assessing the statistical significance of gene regulatory motif divergence between two DNA sequences. Statistics and Its Interface. 8: 463-476
Williams RS, Lotia S, Holloway AK, et al. (2015) From Scientific Discovery to Cures: Bright Stars within a Galaxy. Cell. 163: 21-3
Thomas S, Underwood JG, Tseng E, et al. (2014) Long-read sequencing of chicken transcripts and identification of new transcript isoforms. Plos One. 9: e94650
Smith RP, Riesenfeld SJ, Holloway AK, et al. (2013) A compact, in vivo screen of all 6-mers reveals drivers of tissue-specific expression and guides synthetic regulatory element design. Genome Biology. 14: R72
Shaffer HB, Minx P, Warren DE, et al. (2013) The western painted turtle genome, a model for the evolution of extreme physiological adaptations in a slowly evolving lineage. Genome Biology. 14: R28
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