Difference between revisions of "User:Kam D. Dahlquist"

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(Contact Info: added office hours)
(Publications: updated list with BioPax and Ogando papers)
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#Paper1 Dionisio, JDN and Dahlquist, KD ''Improving the Computer Science in Bioinformatics Through Open Source Pedagogy'' SIGCSE Bulletin 2008 Jun; 40(2) 115-9. doi:10.1145/1383602.1383648 [http://portal.acm.org/citation.cfm?id=1383648&jmp=cit&coll=portal&dl=ACM&CFID=74660743&CFTOKEN=75759974# Abstract]
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#Paper2 pmid=20577653
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#Paper3 Dionisio, JDN and Dahlquist, KD ''Improving the Computer Science in Bioinformatics Through Open Source Pedagogy'' SIGCSE Bulletin 2008 Jun; 40(2) 115-9. doi:10.1145/1383602.1383648 [http://portal.acm.org/citation.cfm?id=1383648&jmp=cit&coll=portal&dl=ACM&CFID=74660743&CFTOKEN=75759974# Abstract]
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#Paper5 pmid=12540299
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#Paper5 pmid=18428731
#Paper6 pmid=11984561
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#Paper6 pmid=14980020
#Paper7 pmid=10860719
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#Paper7 pmid=12540299
#Paper8 pmid=9931247
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#Paper9 pmid=8893854
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#Paper10 pmid=8643361
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#Paper11 pmid=8893854
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Revision as of 10:16, 11 October 2010

Contact Info

Kam D. Dahlquist, Ph.D.
Associate Professor
Department of Biology
Loyola Marymount University
1 LMU Drive, MS8220
Los Angeles, CA 90045 

I am the head of the Dahlquist Lab at Loyola Marymount University. I learned about OpenWetWare through a Google search when I was searching for a protocol online. I've joined because I run a lab with undergraduates at a primarily undergraduate institution and would like to post my protocols and supply lists online for easy access and to share them with the community.

Office Hours Spring 2010

MWF 10:00 AM - 12:00 PM

Office: Seaver 218

Education

  • 2000, PhD, University of California, Santa Cruz
  • 1993, BA, Pomona College

Research interests

  1. XMLPipeDB: A Reusable, Open Source Tool Chain for Building Relational Databases from XML Sources; creating MAPPs and Gene Databases for the GenMAPP software
  2. The Global Transcriptional Response of Saccharomyces cerevisiae to Cold Shock and Recovery
  3. Mathematical Modeling of the Transcriptional Network Controlling the Environmental Stress Response in Saccharomyces cerevisiae
  4. Identifying Soil Bacteria and Biochemical Pathways in the Ballona Wetlands for the Bioremediation of Organic Pollutants

Publications

  1. Demir E, Cary MP, Paley S, Fukuda K, Lemer C, Vastrik I, Wu G, D'Eustachio P, Schaefer C, Luciano J, Schacherer F, Martinez-Flores I, Hu Z, Jimenez-Jacinto V, Joshi-Tope G, Kandasamy K, Lopez-Fuentes AC, Mi H, Pichler E, Rodchenkov I, Splendiani A, Tkachev S, Zucker J, Gopinath G, Rajasimha H, Ramakrishnan R, Shah I, Syed M, Anwar N, Babur O, Blinov M, Brauner E, Corwin D, Donaldson S, Gibbons F, Goldberg R, Hornbeck P, Luna A, Murray-Rust P, Neumann E, Ruebenacker O, Samwald M, van Iersel M, Wimalaratne S, Allen K, Braun B, Whirl-Carrillo M, Cheung KH, Dahlquist K, Finney A, Gillespie M, Glass E, Gong L, Haw R, Honig M, Hubaut O, Kane D, Krupa S, Kutmon M, Leonard J, Marks D, Merberg D, Petri V, Pico A, Ravenscroft D, Ren L, Shah N, Sunshine M, Tang R, Whaley R, Letovksy S, Buetow KH, Rzhetsky A, Schachter V, Sobral BS, Dogrusoz U, McWeeney S, Aladjem M, Birney E, Collado-Vides J, Goto S, Hucka M, Le Novère N, Maltsev N, Pandey A, Thomas P, Wingender E, Karp PD, Sander C, and Bader GD. The BioPAX community standard for pathway data sharing. Nat Biotechnol. 2010 Sep;28(9):935-42. DOI:10.1038/nbt.1666 | PubMed ID:20829833 | HubMed [Paper1]
  2. Ogando DG, Dahlquist KD, Alizadeh M, Kunchithapautham K, Li J, Yu N, LaVail MM, Rohrer B, Vollrath D, and Danciger M. Candidate genes for chromosomes 6 and 10 quantitative trait loci for age-related retinal degeneration in mice. Mol Vis. 2010 Jun 5;16:1004-18. PubMed ID:20577653 | HubMed [Paper2]
  3. Dionisio, JDN and Dahlquist, KD Improving the Computer Science in Bioinformatics Through Open Source Pedagogy SIGCSE Bulletin 2008 Jun; 40(2) 115-9. doi:10.1145/1383602.1383648 Abstract [Paper3]
  4. Salomonis N, Hanspers K, Zambon AC, Vranizan K, Lawlor SC, Dahlquist KD, Doniger SW, Stuart J, Conklin BR, and Pico AR. GenMAPP 2: new features and resources for pathway analysis. BMC Bioinformatics. 2007 Jun 24;8:217. DOI:10.1186/1471-2105-8-217 | PubMed ID:17588266 | HubMed [Paper4]
  5. Dahlquist KD. Using GenMAPP and MAPPFinder to view microarray data on biological pathways and identify global trends in the data. Curr Protoc Bioinformatics. 2004 May;Chapter 7:Unit 7.5. DOI:10.1002/0471250953.bi0705s05 | PubMed ID:18428731 | HubMed [Paper5]
  6. Segal MR, Dahlquist KD, and Conklin BR. Regression approaches for microarray data analysis. J Comput Biol. 2003;10(6):961-80. DOI:10.1089/106652703322756177 | PubMed ID:14980020 | HubMed [Paper6]
  7. Doniger SW, Salomonis N, Dahlquist KD, Vranizan K, Lawlor SC, and Conklin BR. MAPPFinder: using Gene Ontology and GenMAPP to create a global gene-expression profile from microarray data. Genome Biol. 2003;4(1):R7. PubMed ID:12540299 | HubMed [Paper7]
  8. Dahlquist KD, Salomonis N, Vranizan K, Lawlor SC, and Conklin BR. GenMAPP, a new tool for viewing and analyzing microarray data on biological pathways. Nat Genet. 2002 May;31(1):19-20. DOI:10.1038/ng0502-19 | PubMed ID:11984561 | HubMed [Paper8]
  9. Dahlquist KD and Puglisi JD. Interaction of translation initiation factor IF1 with the E. coli ribosomal A site. J Mol Biol. 2000 May 26;299(1):1-15. DOI:10.1006/jmbi.2000.3672 | PubMed ID:10860719 | HubMed [Paper9]
  10. Recht MI, Douthwaite S, Dahlquist KD, and Puglisi JD. Effect of mutations in the A site of 16 S rRNA on aminoglycoside antibiotic-ribosome interaction. J Mol Biol. 1999 Feb 12;286(1):33-43. DOI:10.1006/jmbi.1998.2446 | PubMed ID:9931247 | HubMed [Paper10]
  11. Recht MI, Fourmy D, Blanchard SC, Dahlquist KD, and Puglisi JD. RNA sequence determinants for aminoglycoside binding to an A-site rRNA model oligonucleotide. J Mol Biol. 1996 Oct 4;262(4):421-36. DOI:10.1006/jmbi.1996.0526 | PubMed ID:8893854 | HubMed [Paper11]
  12. Dahlquist K and Puglisi JD. Investigating the structure and function of translation initiation factor 1 in Escherichia coli. Nucleic Acids Symp Ser. 1995(33):170-1. PubMed ID:8643361 | HubMed [Paper12]
All Medline abstracts: PubMed | HubMed

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