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Items: 24

1.

Alternative splicing and the evolution of phenotypic novelty.

Bush SJ, Chen L, Tovar-Corona JM, Urrutia AO.

Philos Trans R Soc Lond B Biol Sci. 2017 Feb 5;372(1713). pii: 20150474. Review.

2.

Perspectives on the history of evo-devo and the contemporary research landscape in the genomics era.

Tickle C, Urrutia AO.

Philos Trans R Soc Lond B Biol Sci. 2017 Feb 5;372(1713). pii: 20150473.

3.

Neocortex expansion is linked to size variations in gene families with chemotaxis, cell-cell signalling and immune response functions in mammals.

Castillo-Morales A, Monzón-Sandoval J, de Sousa AA, Urrutia AO, Gutierrez H.

Open Biol. 2016 Oct;6(10). pii: 160132.

4.

Modular reorganization of the global network of gene regulatory interactions during perinatal human brain development.

Monzón-Sandoval J, Castillo-Morales A, Urrutia AO, Gutierrez H.

BMC Dev Biol. 2016 May 12;16:13. doi: 10.1186/s12861-016-0111-3.

5.

Genes that Escape X-Inactivation in Humans Have High Intraspecific Variability in Expression, Are Associated with Mental Impairment but Are Not Slow Evolving.

Zhang Y, Castillo-Morales A, Jiang M, Zhu Y, Hu L, Urrutia AO, Kong X, Hurst LD.

Mol Biol Evol. 2016 Jan;33(1):302. doi: 10.1093/molbev/msv180. Epub 2015 Nov 13. No abstract available.

6.

Optimization of next-generation sequencing transcriptome annotation for species lacking sequenced genomes.

Ockendon NF, O'Connell LA, Bush SJ, Monzón-Sandoval J, Barnes H, Székely T, Hofmann HA, Dorus S, Urrutia AO.

Mol Ecol Resour. 2016 Mar;16(2):446-58. doi: 10.1111/1755-0998.12465. Epub 2015 Oct 14.

7.

Alternative Splice in Alternative Lice.

Tovar-Corona JM, Castillo-Morales A, Chen L, Olds BP, Clark JM, Reynolds SE, Pittendrigh BR, Feil EJ, Urrutia AO.

Mol Biol Evol. 2015 Oct;32(10):2749-59. doi: 10.1093/molbev/msv151. Epub 2015 Jul 13.

8.
9.

Correcting for differential transcript coverage reveals a strong relationship between alternative splicing and organism complexity.

Chen L, Bush SJ, Tovar-Corona JM, Castillo-Morales A, Urrutia AO.

Mol Biol Evol. 2014 Jun;31(6):1402-13. doi: 10.1093/molbev/msu083. Epub 2014 Mar 27.

10.

Increased brain size in mammals is associated with size variations in gene families with cell signalling, chemotaxis and immune-related functions.

Castillo-Morales A, Monzón-Sandoval J, Urrutia AO, Gutiérrez H.

Proc Biol Sci. 2013 Nov 27;281(1775):20132428. doi: 10.1098/rspb.2013.2428. Print 2014 Jan 22.

11.

Presence-absence variation in A. thaliana is primarily associated with genomic signatures consistent with relaxed selective constraints.

Bush SJ, Castillo-Morales A, Tovar-Corona JM, Chen L, Kover PX, Urrutia AO.

Mol Biol Evol. 2014 Jan;31(1):59-69. doi: 10.1093/molbev/mst166. Epub 2013 Sep 25.

12.

Genes that escape X-inactivation in humans have high intraspecific variability in expression, are associated with mental impairment but are not slow evolving.

Zhang Y, Castillo-Morales A, Jiang M, Zhu Y, Hu L, Urrutia AO, Kong X, Hurst LD.

Mol Biol Evol. 2013 Dec;30(12):2588-601. doi: 10.1093/molbev/mst148. Epub 2013 Sep 10. Erratum in: Mol Biol Evol. 2016 Jan;33(1):302.

13.

Evidence for deep phylogenetic conservation of exonic splice-related constraints: splice-related skews at exonic ends in the brown alga Ectocarpus are common and resemble those seen in humans.

Wu X, Tronholm A, Cáceres EF, Tovar-Corona JM, Chen L, Urrutia AO, Hurst LD.

Genome Biol Evol. 2013;5(9):1731-45. doi: 10.1093/gbe/evt115.

14.

Alternative splicing: a potential source of functional innovation in the eukaryotic genome.

Chen L, Tovar-Corona JM, Urrutia AO.

Int J Evol Biol. 2012;2012:596274. doi: 10.1155/2012/596274. Epub 2012 Jul 2.

15.

Protein amino acid composition: a genomic signature of encephalization in mammals.

Gutierrez H, Castillo A, Monzon J, Urrutia AO.

PLoS One. 2011;6(11):e27261. doi: 10.1371/journal.pone.0027261. Epub 2011 Nov 23.

16.

Increased levels of noisy splicing in cancers, but not for oncogene-derived transcripts.

Chen L, Tovar-Corona JM, Urrutia AO.

Hum Mol Genet. 2011 Nov 15;20(22):4422-9. doi: 10.1093/hmg/ddr370. Epub 2011 Aug 23.

17.

Do Alu repeats drive the evolution of the primate transcriptome?

Urrutia AO, Ocaña LB, Hurst LD.

Genome Biol. 2008;9(2):R25. doi: 10.1186/gb-2008-9-2-r25. Epub 2008 Feb 1.

18.

Chromatin remodelling is a major source of coexpression of linked genes in yeast.

Batada NN, Urrutia AO, Hurst LD.

Trends Genet. 2007 Oct;23(10):480-4. Epub 2007 Sep 5.

PMID:
17822800
19.

Splicing and the evolution of proteins in mammals.

Parmley JL, Urrutia AO, Potrzebowski L, Kaessmann H, Hurst LD.

PLoS Biol. 2007 Feb;5(2):e14.

20.

The signature of selection mediated by expression on human genes.

Urrutia AO, Hurst LD.

Genome Res. 2003 Oct;13(10):2260-4. Epub 2003 Sep 15.

21.

A unification of mosaic structures in the human genome.

Lercher MJ, Urrutia AO, Pavlícek A, Hurst LD.

Hum Mol Genet. 2003 Oct 1;12(19):2411-5. Epub 2003 Jul 29.

PMID:
12915446
22.

Evidence that the human X chromosome is enriched for male-specific but not female-specific genes.

Lercher MJ, Urrutia AO, Hurst LD.

Mol Biol Evol. 2003 Jul;20(7):1113-6. Epub 2003 May 30.

PMID:
12777530
23.

Clustering of housekeeping genes provides a unified model of gene order in the human genome.

Lercher MJ, Urrutia AO, Hurst LD.

Nat Genet. 2002 Jun;31(2):180-3. Epub 2002 May 6.

PMID:
11992122

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