User:Hiram: Difference between revisions

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<h4>Publications</h4>
<h4>Publications</h4>
<ul>
<ul>
<li> Kabat JL, Barberan-Soler S, McKenna P, Clawson H, Farrer T, et al. (2006)<BR>
<LI> 2006-07-14
Intronic Alternative Splicing Regulators Identified by Comparative Genomics in Nematodes.<BR>
[http://compbiol.plosjournals.org/perlserv/?request=get-document&doi=10.1371/journal.pcbi.0020086 Intronic alternative splicing regulators identified by comparative genomics in nematodes]<BR>
[http://compbiol.plosjournals.org/perlserv/?request=get-document&doi=10.1371/journal.pcbi.0020086 PLoS Comput Biol 2(7): e86]</li>
        Kabat JL, Barberan-Soler S, McKenna P, Clawson H, Farrer T, Zahler AM, Stormo G<BR>
        (2006) <I>PLoS Computational Biology</I> 14 July 2006 <B>2(7):e86</B><BR>
        PMID: 16839192
</LI>
<LI> 2006-05-01
[http://bioinformatics.oxfordjournals.org/cgi/reprint/22/9/1036 The UCSC Known Genes]<BR>
        Hsu F, Kent WJ, Clawson H, Kuhn RM, Diekhans M, Haussler D<BR>
        (2006) <I>Bioinformatics</I> 01 May 2006 <B>22(9):1036-46</B><BR>
        PMID: 16500937
</LI>
<LI> 2006-01-01
[http://nar.oxfordjournals.org/cgi/content/full/34/suppl_1/D590" The UCSC Genome Browser Database: update 2006]<BR>
        Hinrichs AS, Karolchik D, Baertsch R, Barber GP, Bejerano G, Clawson H,
        Diekhans M, Furey TS, Harte RA, Hsu F, Hillman-Jackson J, Kuhn RM,
        Pedersen JS, Pohl A, Raney BJ, Rosenbloom KR, Siepel A, Smith KE,
        Sugnet CW, Sultan-Qurraie A, Thomas DJ, Trumbower H, Weber RJ,
        Weirauch M, Zweig AS, Haussler D, Kent WJ<BR>
        (2006) <I>Nucleic Acids Research</I> 01 Jan 2006 <B>34(Database issue):D590-8</B><BR>
        PMID: 16381938
</LI>
<LI> 2005-08-25
[http://www.genome.org/cgi/content/full/15/8/1034" Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes]<BR>
        Siepel A, Bejerano G, Pedersen JS, Hinrichs AS, Hou M, Rosenbloom K,
        Clawson H, Spieth J, Hillier LW, Richards S, Weinstock GM, Wilson RK,
        Gibbs RA, Kent WJ, Miller W, Haussler D<BR>
        (2005) <I>Genome Research</I> 15 Aug 2005 <B>(8):1034-50</B><BR>
        PMID 16024819
</LI>
<LI> 2005-05-15
[http://www.genome.org/cgi/content/full/15/5/737" Exploring relationships and mining data with the UCSC Gene Sorter]<BR>
        Kent WJ, Hsu F, Karolchik D, Kuhn RM, Clawson H, Trumbower H, Haussler D<BR>
        (2005) <I>Genome Research</I> 15 May 2005 <B>(5):737-41</B><BR>
        PMID 15867434
</LI>
<LI> 2004-10-22
[http://www.sciencemag.org/cgi/content/full/306/5696/636 The ENCODE (ENCyclopedia Of DNA Elements) Project]<BR>
        (2004) <I>Science</I> 22 Oct 2004 <B>306(5696):636-40</B>
</LI>
<LI> 2004-04-14
[http://www.genome.org/cgi/content/full/14/4/708" Aligning Multiple Genomic Sequences With the Threaded Blockset Aligner]<BR>
        Mathieu Blanchette, W. James Kent, Cathy Riemer,
        Laura Elnitski, Arian F.A. Smit, Krishna M. Roskin,
        Robert Baertsch, Kate Rosenbloom, Hiram Clawson,
        Eric D. Green, David Haussler and Webb Miller<BR>
        (2004) <I> Genome Research </I> 14 April 2004 <B>(4):708-715</B>
        <I> ISSN 1088-9051 </I><BR>
        PMID 15060014
</LI>
<LI> 2004-04-01
[http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed&cmd=Retrieve&list_uids=15057822&dopt=Abstract" Genome sequence of the Brown Norway rat yields insights into mammalian evolution]<BR>
        Rat Genome Sequenceing Project Consortium
        (2004) <I> Nature </I> 01 April 2004 <B>428(6982):493-521</B><BR>
        PMID 15057822
</LI>
</ul>
</ul>


Revision as of 18:37, 24 July 2006

Office phone: 831-459-5871
Office: room 515 Engineering II U.C. Santa Cruz
Email: note the E-mail this user button in the toolbox on the left

Mailstop: CBSE/ITI, 1156 High Street, Santa Cruz, CA 95064

Areas of Responsibility

Building new browser assemblies "wiggle" data encoding tracks
Correlation functions on the Table browser Source tree organization, browser porting issues, browser installation setup
Wiki installation and evaluation Cluster job organization and management
"randomPlacement" program for genome location randomization experiments Web Statistics
Unix expertise Date/Time functions (local genomewiki Special Pages< Special:Jday php programming example)
Astrophotography Solar Eclipse experience

Publications

To Do List

  • MySQL 5.0 migration
  • Webb & David's randomization work
  • wiki administration (on-going situation)
  • Tasks Completed

links to remember

Writing Special Pages Restricted Rights
Restrict Patch Hidden Pages
Custom Namespaces Collaborative Software
Change Navigation Links Image link syntax
Wikipedia Criticism Adding Captcha
Wiki Stats Wormbase Wiki
Polling 

Wiki Maintenance

  • 2006-06-09 - added Google search extension
  • 2006-06-07 - Upgraded to version 1.6.7
  • 2006-05-24 - Upgraded to version 1.6.6

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