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Items: 15

1.

Genomics Virtual Laboratory: A Practical Bioinformatics Workbench for the Cloud.

Afgan E, Sloggett C, Goonasekera N, Makunin I, Benson D, Crowe M, Gladman S, Kowsar Y, Pheasant M, Horst R, Lonie A.

PLoS One. 2015 Oct 26;10(10):e0140829. doi: 10.1371/journal.pone.0140829. eCollection 2015.

2.

Comparison of ultra-conserved elements in drosophilids and vertebrates.

Makunin IV, Shloma VV, Stephen SJ, Pheasant M, Belyakin SN.

PLoS One. 2013 Dec 13;8(12):e82362. doi: 10.1371/journal.pone.0082362. eCollection 2013.

3.

ENCODE whole-genome data in the UCSC Genome Browser.

Rosenbloom KR, Dreszer TR, Pheasant M, Barber GP, Meyer LR, Pohl A, Raney BJ, Wang T, Hinrichs AS, Zweig AS, Fujita PA, Learned K, Rhead B, Smith KE, Kuhn RM, Karolchik D, Haussler D, Kent WJ.

Nucleic Acids Res. 2010 Jan;38(Database issue):D620-5. doi: 10.1093/nar/gkp961. Epub 2009 Nov 17.

4.

The UCSC Genome Browser database: update 2010.

Rhead B, Karolchik D, Kuhn RM, Hinrichs AS, Zweig AS, Fujita PA, Diekhans M, Smith KE, Rosenbloom KR, Raney BJ, Pohl A, Pheasant M, Meyer LR, Learned K, Hsu F, Hillman-Jackson J, Harte RA, Giardine B, Dreszer TR, Clawson H, Barber GP, Haussler D, Kent WJ.

Nucleic Acids Res. 2010 Jan;38(Database issue):D613-9. doi: 10.1093/nar/gkp939. Epub 2009 Nov 11.

5.

The UCSC Genome Browser Database: update 2009.

Kuhn RM, Karolchik D, Zweig AS, Wang T, Smith KE, Rosenbloom KR, Rhead B, Raney BJ, Pohl A, Pheasant M, Meyer L, Hsu F, Hinrichs AS, Harte RA, Giardine B, Fujita P, Diekhans M, Dreszer T, Clawson H, Barber GP, Haussler D, Kent WJ.

Nucleic Acids Res. 2009 Jan;37(Database issue):D755-61. doi: 10.1093/nar/gkn875. Epub 2008 Nov 7.

6.

Maintenance of transposon-free regions throughout vertebrate evolution.

Simons C, Makunin IV, Pheasant M, Mattick JS.

BMC Genomics. 2007 Dec 20;8:470.

7.

Large-scale appearance of ultraconserved elements in tetrapod genomes and slowdown of the molecular clock.

Stephen S, Pheasant M, Makunin IV, Mattick JS.

Mol Biol Evol. 2008 Feb;25(2):402-8. Epub 2007 Dec 3.

PMID:
18056681
8.

Orthologous microRNA genes are located in cancer-associated genomic regions in human and mouse.

Makunin IV, Pheasant M, Simons C, Mattick JS.

PLoS One. 2007 Nov 7;2(11):e1133.

9.

Raising the estimate of functional human sequences.

Pheasant M, Mattick JS.

Genome Res. 2007 Sep;17(9):1245-53. Epub 2007 Aug 9. Review.

10.

The relationship between non-protein-coding DNA and eukaryotic complexity.

Taft RJ, Pheasant M, Mattick JS.

Bioessays. 2007 Mar;29(3):288-99.

PMID:
17295292
11.

Evidence for control of splicing by alternative RNA secondary structures in Dipteran homothorax pre-mRNA.

Glazov EA, Pheasant M, Nahkuri S, Mattick JS.

RNA Biol. 2006 Jan-Mar;3(1):36-9. Epub 2006 Mar 15.

PMID:
17114937
12.

Transposon-free regions in mammalian genomes.

Simons C, Pheasant M, Makunin IV, Mattick JS.

Genome Res. 2006 Feb;16(2):164-72. Epub 2005 Dec 19.

13.

The amazing complexity of the human transcriptome.

Frith MC, Pheasant M, Mattick JS.

Eur J Hum Genet. 2005 Aug;13(8):894-7. No abstract available.

14.

Ultraconserved elements in insect genomes: a highly conserved intronic sequence implicated in the control of homothorax mRNA splicing.

Glazov EA, Pheasant M, McGraw EA, Bejerano G, Mattick JS.

Genome Res. 2005 Jun;15(6):800-8. Epub 2005 May 17.

15.

Ultraconserved elements in the human genome.

Bejerano G, Pheasant M, Makunin I, Stephen S, Kent WJ, Mattick JS, Haussler D.

Science. 2004 May 28;304(5675):1321-5. Epub 2004 May 6.

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