Difference between revisions of "User:Kdahlquist"

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=== Work Experience ===
 
=== Work Experience ===
 +
 +
* Affiliate Faculty, Bioethics Institute, Loyola Marymount University, Los Angeles, California, 2013-present
 +
* William F. McLaughlin Chair of Biology, 2010–2012
 +
* Associate Professor, Department of Biology, Loyola Marymount University, Los Angeles, California, 2009–present
 +
* Assistant Professor, Department of Biology, Loyola Marymount University, Los Angeles, California, 2005–2009,
 +
* Assistant Professor, Department of Biology, Vassar College, Poughkeepsie, New York, 2003–2005
 +
* Postdoctoral Fellow, Gladstone Institute of Cardiovascular Disease, University of California, San Francisco, 2000–2003
 +
* Adjunct Lecturer, Department of Biology, Santa Clara University, Santa Clara, California, Spring 2000
 +
* Visiting Researcher, Department of Structural Biology, Stanford University, Stanford, California, 1997–2000
 +
* Research Assistant, Department of Biology, University of California, Santa Cruz, California, 1994–1997
  
 
=== Personal Interests and Hobbies ===
 
=== Personal Interests and Hobbies ===
 +
 +
* Reading science fiction
 +
* Dance
 +
* Needlework
 +
* Cooking and baking
 +
 +
=== Gene Database Source Files ===
 +
 +
==== GO ====
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* [[Media:Go daily-termdb-20131021-125457pm.zip | OBO XML .zip file]]
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** Creation date of unzipped file: 2013-10-21 12:54:57 pm
 +
 +
==== UniProt XML ====
 +
 +
From UniProt release 2013_10 - October 16, 2013
 +
 +
* ''Arabidopsis thaliana''
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** Tax ID: 3702
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** [[Media:Arabidopsis_thaliana_UniProt_20131031.xml.gz | Arabidopsis_thaliana_UniProt_20131031.xml.gz]]
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*** [http://www.uniprot.org/uniprot/?query=organism%3a3702+keyword%3a1185&format=*&compress=yes Download page]
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* ''Escherichia coli''
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** Tax ID: 83333 (includes MG1655 Tax ID 511145 and W3110 Tax ID 316407)
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** [[Media:Escherichia_coli_UniProt_20131031.xml.gz | Escherichia_coli_UniProt_20131031.xml.gz]]
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*** [http://www.uniprot.org/uniprot/?query=organism%3a562+keyword%3a181&format=*&compress=yes Download page]
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* ''Helicobacter pylori'' (strain ATCC 700392 / 26695) (Campylobacter pylori)
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** Tax ID: 85962
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** [[Media:Helicobacter_pylori_UniProt_20131029.xml.gz | Helicobacter_pylori_UniProt_20131029.xml.gz]]
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*** [http://www.uniprot.org/uniprot/?query=organism%3a85962+keyword%3a1185&format=*&compress=yes Download page]
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* ''Mycobacterium smegmatis'' (strain ATCC 700084 / mc(2)155)
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** Tax ID 246196
 +
** [[Media:Mycobacterium_smegmatis_UniProt_20131029.xml.gz | Mycobacterium_smegmatis_UniProt_20131029.xml.gz]]
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*** [http://www.uniprot.org/uniprot/?query=organism%3a246196+keyword%3a1185&format=*&compress=yes Download page]
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* ''Mycobacterium tuberculosis'' (strain ATCC 25618 / H37Rv)
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** Tax ID 83332; looks like ID has changed to 1773 which designate just ''Mycobacterium tuberculosis''
 +
** [[Media:Mycobacterium_tuberculosis_UniProt_20131031.xml.gz | Mycobacterium_tuberculosis_UniProt_20131031.xml.gz]]
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*** [http://www.uniprot.org/uniprot/?query=organism%3a1773+keyword%3a1185&format=*&compress=yes Download page]
 +
* ''Plasmodium falciparum''  (isolate 3D7)
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** Tax ID 36329
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** [[Media:Plasmodium_falciparum_UniProt_20131031.xml.gz | Plasmodium_falciparum_UniProt_20131031.xml.gz]]
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*** [http://www.uniprot.org/uniprot/?query=organism%3a36329+keyword%3a1185&format=* Download page]
 +
* ''Pseudomonas aerugenosa'' (strain ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228)
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** Tax ID 208964
 +
**[[Media:Pseudomonas_aerugenosa_UniProt_20131031.xml.gz | Pseudomonas_aerugenosa_UniProt_20131031.xml.gz]]
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*** [http://www.uniprot.org/uniprot/?query=organism%3a208964+keyword%3a1185&format=*&compress=yes Download page]
 +
* ''Salmonella typhimurium''  (strain LT2 / SGSC1412 / ATCC 700720)
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** Tax ID 99287
 +
** [[Media:Salmonella_typhimurium_UniProt_20131031.xml.gz | Salmonella_typhimurium_UniProt_20131031.xml.gz]]
 +
*** [http://www.uniprot.org/uniprot/?query=organism%3a99287+keyword%3a1185&format=*&compress=yes Download page]
 +
* ''Staphylococcus aureus'' (strain MRSA252)
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** Tax ID 282458
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** [[Media:Staphylococcus_aureus_UniProt_20131031.xml.gz | Staphylococcus_aureus_UniProt_20131031.xml.gz]]
 +
*** [http://www.uniprot.org/uniprot/?query=organism%3a282458+keyword%3a181&format=*&compress=yes Download page]
 +
* ''Vibrio cholerae'' serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)
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** Tax ID 243277
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** [[Media:46.V cholerae ATCC 39315-20131021.xml.zip | 46.V cholerae ATCC 39315-20131021.xml.zip]]
 +
*** [http://www.uniprot.org/uniprot/?query=organism%3a243277+keyword%3a1185&format=*&compress=yes Download page]
 +
 +
==== GOA ====
 +
 +
* ''Arabidopsis thaliana''
 +
** 2009 version of Gene Database used file named "3.A_thaliana.goa"; however, did not find a file with this name on the GOA FTP site.
 +
** [[Media:217288.A_thaliana_20131031.goa | 217288.A_thaliana_20131031.goa]] version 10/15/2013 6:54:00 AM
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*** [ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/proteomes/217288.A_thaliana.goa Download link]
 +
* ''Escherichia coli''
 +
** 2009 version of Gene Database used file named "18.E_coli_K12_.goa"; however, did dnot find a file with this name on the GOA FTP site.
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** [[Media:18.E_coli_MG1655_20131031.goa | 18.E_coli_MG1655_20131031.goa]] version 10/15/2013 10:53:00 AM
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*** [ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/proteomes/18.E_coli_MG1655.goa Download link for 18.E_coli_MG1655.goa]
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** or [[Media:313660.E_coli_20131031.goa | 313660.E_coli_20131031.goa]] version 10/15/2013 10:50:00 AM
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*** [ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/proteomes/313660.E_coli.goa Download link for 313660.E_coli.goa]
 +
* ''Helicobacter pylori'' (strain ATCC 700392 / 26695) (Campylobacter pylori)
 +
** [[Media:23.H_pylori_26695_20131031.goa | 23.H_pylori_26695_20131031.goa]] version 10/15/2013 11:52:00 AM
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*** [ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/proteomes/23.H_pylori_26695.goa Download link for 23.H_pylori_26695.goa]
 +
* ''Mycobacterium smegmatis'' (strain ATCC 700084 / mc(2)155)
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** [[Media:25827.M_smegmatis_20131105.goa | 25827.M_smegmatis_20131105.goa]] version 10/15/2013 1:48:00 PM
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*** [ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/proteomes/25827.M_smegmatis.goa Download link]
 +
* ''Mycobacterium tuberculosis'' (strain ATCC 25618 / H37Rv)
 +
** [[Media:30.M_tuberculosis_ATCC_25618_20131031.goa | 30.M_tuberculosis_ATCC_25618_20131031.goa]] version 10/15/2013 1:50:00 PM
 +
*** [ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/proteomes/30.M_tuberculosis_ATCC_25618.goa Download link]
 +
* ''Plasmodium falciparum''  (isolate 3D7)
 +
** [[Media:493.P_falciparum_20131105.goa | 493.P_falciparum_20131105.goa]] version 10/15/2013 3:05:00 PM
 +
*** [ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/proteomes/493.P_falciparum.goa Download link]
 +
* ''Pseudomonas aerugenosa'' (strain ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228)
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** [[Media:36.P_aeruginosa_LMG_12228_20131105.goa | 36.P_aeruginosa_LMG_12228_20131105.goa]] version 10/15/2013 3:21:00 PM
 +
*** [ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/proteomes/36.P_aeruginosa_LMG_12228.goa Download link]
 +
* ''Salmonella typhimurium''  (strain LT2 / SGSC1412 / ATCC 700720)
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** [[Media:69.S_typhimurium_ATCC_700720_20131105.goa | 69.S_typhimurium_ATCC_700720_20131105.goa]] version 10/15/2013 4:23:00 PM
 +
*** [ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/proteomes/69.S_typhimurium_ATCC_700720.goa Download link]
 +
* ''Staphylococcus aureus'' (strain MRSA252)
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** [[Media:19583.S_aureus_MRSA252_20131105.goa | 19583.S_aureus_MRSA252_20131105.goa]] version 10/15/2013 4:55:00 PM
 +
*** [ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/proteomes/19583.S_aureus_MRSA252.goa Download link]
 +
* ''Vibrio cholerae'' serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)
 +
** [[Media:46.V cholerae ATCC 39315-20131021.goa.zip | 46.V cholerae ATCC 39315-20131021.goa.zip]] version 10/15/2013 6:09:00 PM
 +
*** [ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/proteomes/46.V_cholerae_ATCC_39315.goa Download link]
 +
 +
In process species:
 +
 +
* ''Saccharomyces cerevisiae''
 +
**71242.S_cerevisiae_ATCC_204508.goa
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***ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/proteomes/71242.S_cerevisiae_ATCC_204508.goa
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* ''Sinorhizobium meliloti''
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** 58.R_meliloti.goa
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*** ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/proteomes/58.R_meliloti.goa
 +
* ''Streptococcus pneumoniae'' (strain TIGR4)
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** 57.S_pneumoniae_TIGR4.goa
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*** ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/proteomes/57.S_pneumoniae_TIGR4.goa
 +
* ''Streptococcus pneumoniae'' (strain R6)
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** 64.S_pneumoniae_ATCC_BAA-255.goa
 +
*** ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/proteomes/64.S_pneumoniae_ATCC_BAA-255.goa
 +
* ''Streptococcus pneumoniae'' (strain G54)
 +
** 31634.S_pneumoniae_19F.goa
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*** ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/proteomes/31634.S_pneumoniae_19F.goa
 +
* ''Leishmania major''
 +
** 21780.L_major.goa
 +
*** ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/proteomes/21780.L_major.goa
 +
* ''Leishmania infantum''
 +
** 83363.L_infantum.goa
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*** ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/proteomes/83363.L_infantum.goa
 +
* ''Chlamydia trachomatis''
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** 22183.C_trachomatis_A.goa
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*** ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/proteomes/22183.C_trachomatis_A.goa
 +
* ''Pseudomonas putida'' KT2440
 +
** 109.P_putida_KT2440.goa
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*** ftp://ftp.ebi.ac.uk/pub/databases/GO/goa/proteomes/109.P_putida_KT2440.goa
 +
 +
=== New gdb exports ===
 +
 +
* [[Media:Vc-Std_External_20131122_attempt2.zip | Vc-Std_External_20131122_attempt2.zip]]
 +
 +
[[Image:TallyEngine_Vc_20131122.jpg]]
 +
 +
* [[Media:Hp-Std_External_20131122.zip | Hp-Std_External_20131122.zip]]
 +
 +
[[Image:Hp_TallyEngine_20131122.jpg]]
 +
 +
* [[Media:Pf-Std_External_20131125.zip | Pf-Std_External_20131125.zip]]
 +
 +
[[Image:Pf_TallyEngine_20131125.jpg]]
 +
 +
* [[Media:Ms-Std_External_20131125.zip]]
 +
 +
[[Image:Ms_TallyEngine_20131125.jpg]]

Latest revision as of 19:50, 2 May 2014

Contents

[edit] Kam D. Dahlquist, Ph.D.

[edit] Contact Information 

Associate Professor
Department of Biology 
Loyola Marymount University 
1 LMU Drive, MS 8220 
Los Angeles, CA 90045-2659 
Tel: 310-338-7697 
Fax: 310-338-4479
E-mail: kdahlquist at lmu dot edu
Office: Seaver 218 
Lab: Seaver 222

Office Hours (Fall 2013): Mondays, Tuesdays, and Thursdays 1:30-3:00 PM and by appointment

For more information about me, please see my web pages:

[edit] Education

  • Ph.D., University of California, Santa Cruz, Molecular, Cellular, and Developmental Biology Program, March 2000
  • B.A., Pomona College, Claremont, California, Biology, cum laude, May 1993
  • Study Abroad Program, University College, Oxford University, Oxford, England, Specialized tutorial in Philosophy of Science, Fall 1991

[edit] Work Experience

  • Affiliate Faculty, Bioethics Institute, Loyola Marymount University, Los Angeles, California, 2013-present
  • William F. McLaughlin Chair of Biology, 2010–2012
  • Associate Professor, Department of Biology, Loyola Marymount University, Los Angeles, California, 2009–present
  • Assistant Professor, Department of Biology, Loyola Marymount University, Los Angeles, California, 2005–2009,
  • Assistant Professor, Department of Biology, Vassar College, Poughkeepsie, New York, 2003–2005
  • Postdoctoral Fellow, Gladstone Institute of Cardiovascular Disease, University of California, San Francisco, 2000–2003
  • Adjunct Lecturer, Department of Biology, Santa Clara University, Santa Clara, California, Spring 2000
  • Visiting Researcher, Department of Structural Biology, Stanford University, Stanford, California, 1997–2000
  • Research Assistant, Department of Biology, University of California, Santa Cruz, California, 1994–1997

[edit] Personal Interests and Hobbies

  • Reading science fiction
  • Dance
  • Needlework
  • Cooking and baking

[edit] Gene Database Source Files

[edit] GO

[edit] UniProt XML

From UniProt release 2013_10 - October 16, 2013

[edit] GOA

In process species:

[edit] New gdb exports

TallyEngine Vc 20131122.jpg

Hp TallyEngine 20131122.jpg

Pf TallyEngine 20131125.jpg

Ms TallyEngine 20131125.jpg

Retrieved from "https://xmlpipedb.lmucs.io/biodb/fall2013/index.php?title=User:Kdahlquist&oldid=7208"
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