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Fast-evolving noncoding sequences in the human genome
Christine P Bird, Barbara E Stranger, Maureen Liu, Daryl J Thomas, Catherine E Ingle, Claude Beazley, Webb Miller, Matthew E Hurles, Emmanouil T Dermitzakis
Genome Biol. 2007; 8(6): R118. Published online 2007 June 19. doi: 10.1186/gb-2007-8-6-r118
PMCID:
PMC2394770
Abstract Full Text PDF–446K Supplementary Material

Is Cited by the Following 16 Articles in this Archive:

Analysis of Human Accelerated DNA Regions Using Archaic Hominin Genomes
Hernán A. Burbano, Richard E. Green, Tomislav Maricic, Carles Lalueza-Fox, Marco de la Rasilla, Antonio Rosas, Janet Kelso, Katherine S. Pollard, Michael Lachmann, Svante Pääbo
PLoS One. 2012; 7(3): e32877. Published online 2012 March 7. doi: 10.1371/journal.pone.0032877
PMCID:
PMC3296746
Abstract Full Text PDF–315K Supplementary Material
The Role of GC-Biased Gene Conversion in Shaping the Fastest Evolving Regions of the Human Genome
Dennis Kostka, Melissa J. Hubisz, Adam Siepel, Katherine S. Pollard
Mol Biol Evol. 2012 March; 29(3): 1047–1057. Published online 2011 November 10. doi: 10.1093/molbev/msr279
PMCID:
PMC3278478
Abstract Full Text PDF–2.0M Supplementary Material
Detection of lineage-specific evolutionary changes among primate species
Mihaela Pertea, Geo M Pertea, Steven L Salzberg
BMC Bioinformatics. 2011; 12: 274. Published online 2011 July 4. doi: 10.1186/1471-2105-12-274
PMCID:
PMC3143108
Abstract Full Text PDF–667K Supplementary Material
An Evolutionary Genomic Approach to Identify Genes Involved in Human Birth Timing
Jevon Plunkett, Scott Doniger, Guilherme Orabona, Thomas Morgan, Ritva Haataja, Mikko Hallman, Hilkka Puttonen, Ramkumar Menon, Edward Kuczynski, Errol Norwitz, Victoria Snegovskikh, Aarno Palotie, Leena Peltonen, Vineta Fellman, Emily A. DeFranco, Bimal P. Chaudhari, Tracy L. McGregor, Jude J. McElroy, Matthew T. Oetjens, Kari Teramo, Ingrid Borecki, Justin Fay, Louis Muglia
PLoS Genet. 2011 April; 7(4): e1001365. Published online 2011 April 14. doi: 10.1371/journal.pgen.1001365
PMCID:
PMC3077368
Abstract Full Text PDF–638K Supplementary Material
Genome-Wide Survey of Natural Selection on Functional, Structural, and Network Properties of Polymorphic Sites in Saccharomyces paradoxus
Anchal Vishnoi, Praveen Sethupathy, Daniel Simola, Joshua B. Plotkin, Sridhar Hannenhalli
Mol Biol Evol. 2011 September; 28(9): 2615–2627. Published online 2011 April 3. doi: 10.1093/molbev/msr085
PMCID:
PMC3203547
Free in PMC on 2012/09/01
Detecting positive selection within genomes: the problem of biased gene conversion
Abhirami Ratnakumar, Sylvain Mousset, Sylvain Glémin, Jonas Berglund, Nicolas Galtier, Laurent Duret, Matthew T. Webster
Philos Trans R Soc Lond B Biol Sci. 2010 August 27; 365(1552): 2571–2580. doi: 10.1098/rstb.2010.0007
PMCID:
PMC2935097
Abstract Full Text PDF–254K
Noncoding Sequences Near Duplicated Genes Evolve Rapidly
Dennis Kostka, Matthew W. Hahn, Katherine S. Pollard
Genome Biol Evol. 2010; 2: 518–533. Published online 2010 July 2. doi: 10.1093/gbe/evq037
PMCID:
PMC2942038
Abstract Full Text PDF–384K
The Importance of Being Cis: Evolution of Orthologous Fish and Mammalian Enhancer Activity
Deborah I. Ritter, Qiang Li, Dennis Kostka, Katherine S. Pollard, Su Guo, Jeffrey H. Chuang
Mol Biol Evol. 2010 October; 27(10): 2322–2332. Published online 2010 May 21. doi: 10.1093/molbev/msq128
PMCID:
PMC3107594
Abstract Full Text PDF–866K Supplementary Material
GC-Biased Evolution Near Human Accelerated Regions
Sol Katzman, Andrew D. Kern, Katherine S. Pollard, Sofie R. Salama, David Haussler
PLoS Genet. 2010 May; 6(5): e1000960. Published online 2010 May 20. doi: 10.1371/journal.pgen.1000960
PMCID:
PMC2873926
Abstract Full Text PDF–219K Supplementary Material
Detection of nonneutral substitution rates on mammalian phylogenies
Katherine S. Pollard, Melissa J. Hubisz, Kate R. Rosenbloom, Adam Siepel
Genome Res. 2010 January; 20(1): 110–121. doi: 10.1101/gr.097857.109
PMCID:
PMC2798823
Abstract Full Text PDF–1.4M
Evolutionary Processes Acting on Candidate cis-Regulatory Regions in Humans Inferred from Patterns of Polymorphism and Divergence
Dara G. Torgerson, Adam R. Boyko, Ryan D. Hernandez, Amit Indap, Xiaolan Hu, Thomas J. White, John J. Sninsky, Michele Cargill, Mark D. Adams, Carlos D. Bustamante, Andrew G. Clark
PLoS Genet. 2009 August; 5(8): e1000592. Published online 2009 August 7. doi: 10.1371/journal.pgen.1000592
PMCID:
PMC2714078
Abstract Full Text PDF–549K Supplementary Material
Maximum-Likelihood Model Averaging To Profile Clustering of Site Types across Discrete Linear Sequences
Zhang Zhang, Jeffrey P. Townsend
PLoS Comput Biol. 2009 June; 5(6): e1000421. Published online 2009 June 26. doi: 10.1371/journal.pcbi.1000421
PMCID:
PMC2695770
Abstract Full Text PDF–811K Supplementary Material
Revisiting the missing protein-coding gene catalog of the domestic dog
Thomas Derrien, Julien Thézé, Amaury Vaysse, Catherine André, Elaine A Ostrander, Francis Galibert, Christophe Hitte
BMC Genomics. 2009; 10: 62. Published online 2009 February 4. doi: 10.1186/1471-2164-10-62
PMCID:
PMC2644713
Abstract Full Text PDF–856K Supplementary Material
Hotspots of Biased Nucleotide Substitutions in Human Genes
Jonas Berglund, Katherine S Pollard, Matthew T Webster
PLoS Biol. 2009 January; 7(1): e1000026. Published online 2009 January 27. doi: 10.1371/journal.pbio.1000026
PMCID:
PMC2631073
Abstract Full Text PDF–388K Supplementary Material
Human-specific gain of function in a developmental enhancer
Shyam Prabhakar, Axel Visel, Jennifer A. Akiyama, Malak Shoukry, Keith D. Lewis, Amy Holt, Ingrid Plajzer-Frick, Harris Morrison, David R. FitzPatrick, Veena Afzal, Len A. Pennacchio, Edward M. Rubin, James P. Noonan
Science. Author manuscript; available in PMC 2009 April 5.
Published in final edited form as: Science. 2008 September 5; 321(5894): 1346–1350. doi: 10.1126/science.1159974
PMCID:
PMC2658639
Abstract Full Text PDF–1.1M Supplementary Material
Genome-wide identification of coding and non-coding conserved sequence tags in human and mouse genomes
Flavio Mignone, Anna Anselmo, Giacinto Donvito, Giorgio P Maggi, Giorgio Grillo, Graziano Pesole
BMC Genomics. 2008; 9: 277. Published online 2008 June 11. doi: 10.1186/1471-2164-9-277
PMCID:
PMC2442843
Abstract Full Text PDF–402K
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