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Items: 40

1.

Nanopore DNA Sequencing and Genome Assembly on the International Space Station.

Castro-Wallace SL, Chiu CY, John KK, Stahl SE, Rubins KH, McIntyre ABR, Dworkin JP, Lupisella ML, Smith DJ, Botkin DJ, Stephenson TA, Juul S, Turner DJ, Izquierdo F, Federman S, Stryke D, Somasekar S, Alexander N, Yu G, Mason CE, Burton AS.

Sci Rep. 2017 Dec 21;7(1):18022. doi: 10.1038/s41598-017-18364-0.

2.

Diagnosis of Fatal Human Case of St. Louis Encephalitis Virus Infection by Metagenomic Sequencing, California, 2016.

Chiu CY, Coffey LL, Murkey J, Symmes K, Sample HA, Wilson MR, Naccache SN, Arevalo S, Somasekar S, Federman S, Stryke D, Vespa P, Schiller G, Messenger S, Humphries R, Miller S, Klausner JD.

Emerg Infect Dis. 2017 Oct;23(10):1964-1968. doi: 10.3201/eid2310.161986.

3.

Transcriptomic variation of pharmacogenes in multiple human tissues and lymphoblastoid cell lines.

Chhibber A, French CE, Yee SW, Gamazon ER, Theusch E, Qin X, Webb A, Papp AC, Wang A, Simmons CQ, Konkashbaev A, Chaudhry AS, Mitchel K, Stryke D, Ferrin TE, Weiss ST, Kroetz DL, Sadee W, Nickerson DA, Krauss RM, George AL, Schuetz EG, Medina MW, Cox NJ, Scherer SE, Giacomini KM, Brenner SE.

Pharmacogenomics J. 2017 Mar;17(2):137-145. doi: 10.1038/tpj.2015.93. Epub 2016 Feb 9.

4.

Rapid metagenomic identification of viral pathogens in clinical samples by real-time nanopore sequencing analysis.

Greninger AL, Naccache SN, Federman S, Yu G, Mbala P, Bres V, Stryke D, Bouquet J, Somasekar S, Linnen JM, Dodd R, Mulembakani P, Schneider BS, Muyembe-Tamfum JJ, Stramer SL, Chiu CY.

Genome Med. 2015 Sep 29;7:99. doi: 10.1186/s13073-015-0220-9.

5.

A novel outbreak enterovirus D68 strain associated with acute flaccid myelitis cases in the USA (2012-14): a retrospective cohort study.

Greninger AL, Naccache SN, Messacar K, Clayton A, Yu G, Somasekar S, Federman S, Stryke D, Anderson C, Yagi S, Messenger S, Wadford D, Xia D, Watt JP, Van Haren K, Dominguez SR, Glaser C, Aldrovandi G, Chiu CY.

Lancet Infect Dis. 2015 Jun;15(6):671-82. doi: 10.1016/S1473-3099(15)70093-9. Epub 2015 Mar 31.

6.

The Structure-Function Linkage Database.

Akiva E, Brown S, Almonacid DE, Barber AE 2nd, Custer AF, Hicks MA, Huang CC, Lauck F, Mashiyama ST, Meng EC, Mischel D, Morris JH, Ojha S, Schnoes AM, Stryke D, Yunes JM, Ferrin TE, Holliday GL, Babbitt PC.

Nucleic Acids Res. 2014 Jan;42(Database issue):D521-30. doi: 10.1093/nar/gkt1130. Epub 2013 Nov 23.

7.

Genetic and epigenetic regulation of the organic cation transporter 3, SLC22A3.

Chen L, Hong C, Chen EC, Yee SW, Xu L, Almof EU, Wen C, Fujii K, Johns SJ, Stryke D, Ferrin TE, Simko J, Chen X, Costello JF, Giacomini KM.

Pharmacogenomics J. 2013 Apr;13(2):110-20. doi: 10.1038/tpj.2011.60. Epub 2012 Jan 10.

8.

A common 5'-UTR variant in MATE2-K is associated with poor response to metformin.

Choi JH, Yee SW, Ramirez AH, Morrissey KM, Jang GH, Joski PJ, Mefford JA, Hesselson SE, Schlessinger A, Jenkins G, Castro RA, Johns SJ, Stryke D, Sali A, Ferrin TE, Witte JS, Kwok PY, Roden DM, Wilke RA, McCarty CA, Davis RL, Giacomini KM.

Clin Pharmacol Ther. 2011 Nov;90(5):674-84. doi: 10.1038/clpt.2011.165. Epub 2011 Sep 28.

9.

Functional characterization of liver enhancers that regulate drug-associated transporters.

Kim MJ, Skewes-Cox P, Fukushima H, Hesselson S, Yee SW, Ramsey LB, Nguyen L, Eshragh JL, Castro RA, Wen CC, Stryke D, Johns SJ, Ferrin TE, Kwok PY, Relling MV, Giacomini KM, Kroetz DL, Ahituv N.

Clin Pharmacol Ther. 2011 Apr;89(4):571-8. doi: 10.1038/clpt.2010.353. Epub 2011 Mar 2.

10.

Role of organic cation transporter 3 (SLC22A3) and its missense variants in the pharmacologic action of metformin.

Chen L, Pawlikowski B, Schlessinger A, More SS, Stryke D, Johns SJ, Portman MA, Chen E, Ferrin TE, Sali A, Giacomini KM.

Pharmacogenet Genomics. 2010 Nov;20(11):687-99. doi: 10.1097/FPC.0b013e32833fe789.

11.

Genetic variants of human organic anion transporter 4 demonstrate altered transport of endogenous substrates.

Shima JE, Komori T, Taylor TR, Stryke D, Kawamoto M, Johns SJ, Carlson EJ, Ferrin TE, Giacomini KM.

Am J Physiol Renal Physiol. 2010 Oct;299(4):F767-75. doi: 10.1152/ajprenal.00312.2010. Epub 2010 Jul 28.

12.

Identification and characterization of novel polymorphisms in the basal promoter of the human transporter, MATE1.

Ha Choi J, Wah Yee S, Kim MJ, Nguyen L, Ho Lee J, Kang JO, Hesselson S, Castro RA, Stryke D, Johns SJ, Kwok PY, Ferrin TE, Goo Lee M, Black BL, Ahituv N, Giacomini KM.

Pharmacogenet Genomics. 2009 Oct;19(10):770-80. doi: 10.1097/FPC.0b013e328330eeca.

13.

Genetic variation in the proximal promoter of ABC and SLC superfamilies: liver and kidney specific expression and promoter activity predict variation.

Hesselson SE, Matsson P, Shima JE, Fukushima H, Yee SW, Kobayashi Y, Gow JM, Ha C, Ma B, Poon A, Johns SJ, Stryke D, Castro RA, Tahara H, Choi JH, Chen L, Picard N, Sjödin E, Roelofs MJ, Ferrin TE, Myers R, Kroetz DL, Kwok PY, Giacomini KM.

PLoS One. 2009 Sep 9;4(9):e6942. doi: 10.1371/journal.pone.0006942.

14.

Genetic variants in multidrug and toxic compound extrusion-1, hMATE1, alter transport function.

Chen Y, Teranishi K, Li S, Yee SW, Hesselson S, Stryke D, Johns SJ, Ferrin TE, Kwok P, Giacomini KM.

Pharmacogenomics J. 2009 Apr;9(2):127-36. doi: 10.1038/tpj.2008.19. Epub 2009 Jan 27.

15.

Functional genetic variation in the basal promoter of the organic cation/carnitine transporters OCTN1 (SLC22A4) and OCTN2 (SLC22A5).

Tahara H, Yee SW, Urban TJ, Hesselson S, Castro RA, Kawamoto M, Stryke D, Johns SJ, Ferrin TE, Kwok PY, Giacomini KM.

J Pharmacol Exp Ther. 2009 Apr;329(1):262-71. doi: 10.1124/jpet.108.146449. Epub 2009 Jan 13.

16.

Identification and characterization of proximal promoter polymorphisms in the human concentrative nucleoside transporter 2 (SLC28A2).

Yee SW, Shima JE, Hesselson S, Nguyen L, De Val S, Lafond RJ, Kawamoto M, Johns SJ, Stryke D, Kwok PY, Ferrin TE, Black BL, Gurwitz D, Ahituv N, Giacomini KM.

J Pharmacol Exp Ther. 2009 Mar;328(3):699-707. doi: 10.1124/jpet.108.147207. Epub 2008 Dec 19.

17.

The human multidrug resistance protein 4 (MRP4, ABCC4): functional analysis of a highly polymorphic gene.

Abla N, Chinn LW, Nakamura T, Liu L, Huang CC, Johns SJ, Kawamoto M, Stryke D, Taylor TR, Ferrin TE, Giacomini KM, Kroetz DL.

J Pharmacol Exp Ther. 2008 Jun;325(3):859-68. doi: 10.1124/jpet.108.136523. Epub 2008 Mar 25.

18.

Functional effects of protein sequence polymorphisms in the organic cation/ergothioneine transporter OCTN1 (SLC22A4).

Urban TJ, Yang C, Lagpacan LL, Brown C, Castro RA, Taylor TR, Huang CC, Stryke D, Johns SJ, Kawamoto M, Carlson EJ, Ferrin TE, Burchard EG, Giacomini KM.

Pharmacogenet Genomics. 2007 Sep;17(9):773-82.

PMID:
17700366
19.

Comparison of methods for genomic localization of gene trap sequences.

Harper CA, Huang CC, Stryke D, Kawamoto M, Ferrin TE, Babbitt PC.

BMC Genomics. 2006 Sep 18;7:236.

20.

Interaction of methotrexate with organic-anion transporting polypeptide 1A2 and its genetic variants.

Badagnani I, Castro RA, Taylor TR, Brett CM, Huang CC, Stryke D, Kawamoto M, Johns SJ, Ferrin TE, Carlson EJ, Burchard EG, Giacomini KM.

J Pharmacol Exp Ther. 2006 Aug;318(2):521-9. Epub 2006 May 15.

PMID:
16702441
21.

PharmGKB submission update: VI. PMT submissions of genetic variations in neurotransmitter transporters (SLC6, SLC17, and SLC18) to the PharmGKB network.

Badagnani I, Sorani M, Edwards RH, Brown C, Castro RA, Huang CC, Stryke D, Kawamoto M, Johns SJ, Carlson EJ, Taylor T, Chan W, De La Cruz M, Ferrin TE, Burchard EG, Herskowitz I, Kroetz DL, Giacomini KM.

Pharmacol Rev. 2006 Mar;58(1):5-6. No abstract available.

PMID:
16507879
22.

PharmGKB submission update: V. PMT submissions of genetic variation in SLC22 family transporters.

Shu Y, Urban TJ, Leabman MK, Fujita T, Erdman AR, Lagpacan LL, Brown C, Castro RA, Huang CC, Stryke D, Kawamoto M, Johns SJ, Taylor TR, Chan W, De La Cruz M, Carlson EJ, Ferrin TE, Brett CM, Burchard EG, Herskowitz I, Kroetz DL, Giacomini KM.

Pharmacol Rev. 2006 Mar;58(1):3-4. No abstract available.

PMID:
16507878
23.

PharmGKB submission update: IV. PMT submissions of genetic variations in ATP-Binding cassette transporters to the PharmGKB network.

Nguyen TD, Gow JM, Chinn LW, Kelly L, Jeong H, Huang CC, Stryke D, Kawamoto M, Johns SJ, Carlson E, Taylor T, Ferrin TE, Sali A, Giacomini KM, Kroetz DL.

Pharmacol Rev. 2006 Mar;58(1):1-2. No abstract available.

PMID:
16507877
24.

The International Gene Trap Consortium Website: a portal to all publicly available gene trap cell lines in mouse.

Nord AS, Chang PJ, Conklin BR, Cox AV, Harper CA, Hicks GG, Huang CC, Johns SJ, Kawamoto M, Liu S, Meng EC, Morris JH, Rossant J, Ruiz P, Skarnes WC, Soriano P, Stanford WL, Stryke D, von Melchner H, Wurst W, Yamamura K, Young SG, Babbitt PC, Ferrin TE.

Nucleic Acids Res. 2006 Jan 1;34(Database issue):D642-8.

25.

The human organic anion transporter 3 (OAT3; SLC22A8): genetic variation and functional genomics.

Erdman AR, Mangravite LM, Urban TJ, Lagpacan LL, Castro RA, de la Cruz M, Chan W, Huang CC, Johns SJ, Kawamoto M, Stryke D, Taylor TR, Carlson EJ, Ferrin TE, Brett CM, Burchard EG, Giacomini KM.

Am J Physiol Renal Physiol. 2006 Apr;290(4):F905-12. Epub 2005 Nov 15.

26.

Functional characterization and haplotype analysis of polymorphisms in the human equilibrative nucleoside transporter, ENT2.

Owen RP, Lagpacan LL, Taylor TR, De La Cruz M, Huang CC, Kawamoto M, Johns SJ, Stryke D, Ferrin TE, Giacomini KM.

Drug Metab Dispos. 2006 Jan;34(1):12-5. Epub 2005 Oct 7.

PMID:
16214850
27.

Functional analysis of polymorphisms in the organic anion transporter, SLC22A6 (OAT1).

Fujita T, Brown C, Carlson EJ, Taylor T, de la Cruz M, Johns SJ, Stryke D, Kawamoto M, Fujita K, Castro R, Chen CW, Lin ET, Brett CM, Burchard EG, Ferrin TE, Huang CC, Leabman MK, Giacomini KM.

Pharmacogenet Genomics. 2005 Apr;15(4):201-9.

PMID:
15864112
28.

Genetic analysis and functional characterization of polymorphisms in the human concentrative nucleoside transporter, CNT2.

Owen RP, Gray JH, Taylor TR, Carlson EJ, Huang CC, Kawamoto M, Johns SJ, Stryke D, Ferrin TE, Giacomini KM.

Pharmacogenet Genomics. 2005 Feb;15(2):83-90.

PMID:
15861032
29.

Enhancing data sharing in collaborative research projects with DASH.

Ferrin TE, Huang CC, Greenblatt DM, Stryke D, Giacomini KM, Morris JH.

Pac Symp Biocomput. 2005:260-71.

30.

Functional analysis of genetic variants in the human concentrative nucleoside transporter 3 (CNT3; SLC28A3).

Badagnani I, Chan W, Castro RA, Brett CM, Huang CC, Stryke D, Kawamoto M, Johns SJ, Ferrin TE, Carlson EJ, Burchard EG, Giacomini KM.

Pharmacogenomics J. 2005;5(3):157-65.

PMID:
15738947
31.

PharmGKB update: III. Genetic variants of SLC22A1, solute carrier family 22 (organic cation transporter), member 1.

Shu Y, Leabman MK, Feng B, Mangravite LM, Huang CC, Stryke D, Kawamoto M, Johns SJ, DeYoung J, Carlson E, Ferrin TE, Herskowitz I, Giacomini KM.

Pharmacol Rev. 2004 Jun;56(2):161. No abstract available.

PMID:
15169925
32.

Functional and genetic diversity in the concentrative nucleoside transporter, CNT1, in human populations.

Gray JH, Mangravite LM, Owen RP, Urban TJ, Chan W, Carlson EJ, Huang CC, Kawamoto M, Johns SJ, Stryke D, Ferrin TE, Giacomini KM.

Mol Pharmacol. 2004 Mar;65(3):512-9.

PMID:
14978229
33.

Sequence diversity and haplotype structure in the human ABCB1 (MDR1, multidrug resistance transporter) gene.

Kroetz DL, Pauli-Magnus C, Hodges LM, Huang CC, Kawamoto M, Johns SJ, Stryke D, Ferrin TE, DeYoung J, Taylor T, Carlson EJ, Herskowitz I, Giacomini KM, Clark AG; Pharmacogenetics of Membrane Transporters Investigators.

Pharmacogenetics. 2003 Aug;13(8):481-94. Erratum in: Pharmacogenetics. 2003 Nov;13(11):701.

PMID:
12893986
34.

PharmGKB update: I. Genetic variants of the organic cation transporter 2 (OCT2, SLC22A2).

Leabman MK, Huang CC, Stryke D, Johns SJ, Kawamoto M, Ferrin TE, DeYoung J, Taylor TR, De La Cruz M, Herskowitz I, Giacomini KM.

Pharmacol Rev. 2003 Sep;55(3):399. Epub 2003 Jul 17. Review. No abstract available.

PMID:
12869664
35.

Functional characterization in yeast of genetic variants in the human equilibrative nucleoside transporter, ENT1.

Osato DH, Huang CC, Kawamoto M, Johns SJ, Stryke D, Wang J, Ferrin TE, Herskowitz I, Giacomini KM.

Pharmacogenetics. 2003 May;13(5):297-301.

PMID:
12724623
36.

Evolutionary conservation predicts function of variants of the human organic cation transporter, OCT1.

Shu Y, Leabman MK, Feng B, Mangravite LM, Huang CC, Stryke D, Kawamoto M, Johns SJ, DeYoung J, Carlson E, Ferrin TE, Herskowitz I, Giacomini KM; Pharmacogenetics Of Membrane Transporters Investigators.

Proc Natl Acad Sci U S A. 2003 May 13;100(10):5902-7. Epub 2003 Apr 28.

37.

Natural variation in human membrane transporter genes reveals evolutionary and functional constraints.

Leabman MK, Huang CC, DeYoung J, Carlson EJ, Taylor TR, de la Cruz M, Johns SJ, Stryke D, Kawamoto M, Urban TJ, Kroetz DL, Ferrin TE, Clark AG, Risch N, Herskowitz I, Giacomini KM; Pharmacogenetics Of Membrane Transporters Investigators.

Proc Natl Acad Sci U S A. 2003 May 13;100(10):5896-901. Epub 2003 Apr 28.

38.

SNP analysis and presentation in the Pharmacogenetics of Membrane Transporters Project.

Stryke D, Huang CC, Kawamoto M, Johns SJ, Carlson EJ, Deyoung JA, Leabman MK, Herskowitz I, Giacomini KM, Ferrin TE.

Pac Symp Biocomput. 2003:535-47.

39.

BayGenomics: a resource of insertional mutations in mouse embryonic stem cells.

Stryke D, Kawamoto M, Huang CC, Johns SJ, King LA, Harper CA, Meng EC, Lee RE, Yee A, L'Italien L, Chuang PT, Young SG, Skarnes WC, Babbitt PC, Ferrin TE.

Nucleic Acids Res. 2003 Jan 1;31(1):278-81.

40.

Polymorphisms in a human kidney xenobiotic transporter, OCT2, exhibit altered function.

Leabman MK, Huang CC, Kawamoto M, Johns SJ, Stryke D, Ferrin TE, DeYoung J, Taylor T, Clark AG, Herskowitz I, Giacomini KM; Pharmacogenetics of Membrane Transporters Investigators.

Pharmacogenetics. 2002 Jul;12(5):395-405.

PMID:
12142729

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