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Results: 1 to 20 of 98

1.

Exploring a clinically friendly web-based approach to clinical decision support linked to the electronic health record: design philosophy, prototype implementation, and framework for assessment.

Miller P, Phipps M, Chatterjee S, Rajeevan N, Levin F, Frawley S, Tokuno H.

JMIR Med Inform. 2014 Aug 18;2(2):e20. doi: 10.2196/medinform.3586. eCollection 2014 Jul.

PMID:
25580426
[PubMed]
Free PMC Article
2.

Perception of odors linked to precise timing in the olfactory system.

Rebello MR, McTavish TS, Willhite DC, Short SM, Shepherd GM, Verhagen JV.

PLoS Biol. 2014 Dec 16;12(12):e1002021. doi: 10.1371/journal.pbio.1002021. eCollection 2014 Dec.

PMID:
25514030
[PubMed - in process]
Free PMC Article
3.

Shared VH1-46 gene usage by pemphigus vulgaris autoantibodies indicates common humoral immune responses among patients.

Cho MJ, Lo AS, Mao X, Nagler AR, Ellebrecht CT, Mukherjee EM, Hammers CM, Choi EJ, Sharma PM, Uduman M, Li H, Rux AH, Farber SA, Rubin CB, Kleinstein SH, Sachais BS, Posner MR, Cavacini LA, Payne AS.

Nat Commun. 2014 Jun 19;5:4167. doi: 10.1038/ncomms5167.

PMID:
24942562
[PubMed - in process]
Free PMC Article
4.

High-resolution antibody dynamics of vaccine-induced immune responses.

Laserson U, Vigneault F, Gadala-Maria D, Yaari G, Uduman M, Vander Heiden JA, Kelton W, Taek Jung S, Liu Y, Laserson J, Chari R, Lee JH, Bachelet I, Hickey B, Lieberman-Aiden E, Hanczaruk B, Simen BB, Egholm M, Koller D, Georgiou G, Kleinstein SH, Church GM.

Proc Natl Acad Sci U S A. 2014 Apr 1;111(13):4928-33. doi: 10.1073/pnas.1323862111. Epub 2014 Mar 17.

PMID:
24639495
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Mining images in biomedical publications: Detection and analysis of gel diagrams.

Kuhn T, Nagy ML, Luong T, Krauthammer M.

J Biomed Semantics. 2014 Feb 25;5(1):10. doi: 10.1186/2041-1480-5-10.

PMID:
24568573
[PubMed]
Free PMC Article
6.

Identification of the maize gravitropism gene lazy plant1 by a transposon-tagging genome resequencing strategy.

Howard TP 3rd, Hayward AP, Tordillos A, Fragoso C, Moreno MA, Tohme J, Kausch AP, Mottinger JP, Dellaporta SL.

PLoS One. 2014 Jan 31;9(1):e87053. doi: 10.1371/journal.pone.0087053. eCollection 2014.

PMID:
24498020
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Models of somatic hypermutation targeting and substitution based on synonymous mutations from high-throughput immunoglobulin sequencing data.

Yaari G, Vander Heiden JA, Uduman M, Gadala-Maria D, Gupta N, Stern JN, O'Connor KC, Hafler DA, Laserson U, Vigneault F, Kleinstein SH.

Front Immunol. 2013 Nov 15;4:358. doi: 10.3389/fimmu.2013.00358. eCollection 2013.

PMID:
24298272
[PubMed]
Free PMC Article
8.

Reaction-diffusion in the NEURON simulator.

McDougal RA, Hines ML, Lytton WW.

Front Neuroinform. 2013 Nov 15;7:28. doi: 10.3389/fninf.2013.00028. eCollection 2013.

PMID:
24298253
[PubMed]
Free PMC Article
9.

Quantitative set analysis for gene expression: a method to quantify gene set differential expression including gene-gene correlations.

Yaari G, Bolen CR, Thakar J, Kleinstein SH.

Nucleic Acids Res. 2013 Oct;41(18):e170. doi: 10.1093/nar/gkt660. Epub 2013 Aug 5.

PMID:
23921631
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Arpeggio: harmonic compression of ChIP-seq data reveals protein-chromatin interaction signatures.

Stanton KP, Parisi F, Strino F, Rabin N, Asp P, Kluger Y.

Nucleic Acids Res. 2013 Sep;41(16):e161. doi: 10.1093/nar/gkt627. Epub 2013 Jul 19.

PMID:
23873955
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

A new system for comparative functional genomics of Saccharomyces yeasts.

Caudy AA, Guan Y, Jia Y, Hansen C, DeSevo C, Hayes AP, Agee J, Alvarez-Dominguez JR, Arellano H, Barrett D, Bauerle C, Bisaria N, Bradley PH, Breunig JS, Bush E, Cappel D, Capra E, Chen W, Clore J, Combs PA, Doucette C, Demuren O, Fellowes P, Freeman S, Frenkel E, Gadala-Maria D, Gawande R, Glass D, Grossberg S, Gupta A, Hammonds-Odie L, Hoisos A, Hsi J, Hsu YH, Inukai S, Karczewski KJ, Ke X, Kojima M, Leachman S, Lieber D, Liebowitz A, Liu J, Liu Y, Martin T, Mena J, Mendoza R, Myhrvold C, Millian C, Pfau S, Raj S, Rich M, Rokicki J, Rounds W, Salazar M, Salesi M, Sharma R, Silverman S, Singer C, Sinha S, Staller M, Stern P, Tang H, Weeks S, Weidmann M, Wolf A, Young C, Yuan J, Crutchfield C, McClean M, Murphy CT, LlinĂ¡s M, Botstein D, Troyanskaya OG, Dunham MJ.

Genetics. 2013 Sep;195(1):275-87. doi: 10.1534/genetics.113.152918. Epub 2013 Jul 12.

PMID:
23852385
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Semi-supervised clinical text classification with Laplacian SVMs: an application to cancer case management.

Garla V, Taylor C, Brandt C.

J Biomed Inform. 2013 Oct;46(5):869-75. doi: 10.1016/j.jbi.2013.06.014. Epub 2013 Jul 8.

PMID:
23845911
[PubMed - indexed for MEDLINE]
Free PMC Article
13.
14.

Adjusting for background mutation frequency biases improves the identification of cancer driver genes.

Evans P, Avey S, Kong Y, Krauthammer M.

IEEE Trans Nanobioscience. 2013 Sep;12(3):150-7. doi: 10.1109/TNB.2013.2263391. Epub 2013 May 16.

PMID:
23694700
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Differential expression analysis for paired RNA-Seq data.

Chung LM, Ferguson JP, Zheng W, Qian F, Bruno V, Montgomery RR, Zhao H.

BMC Bioinformatics. 2013 Mar 27;14:110. doi: 10.1186/1471-2105-14-110.

PMID:
23530607
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

Multiple transcription factor binding sites predict AID targeting in non-Ig genes.

Duke JL, Liu M, Yaari G, Khalil AM, Tomayko MM, Shlomchik MJ, Schatz DG, Kleinstein SH.

J Immunol. 2013 Apr 15;190(8):3878-88. doi: 10.4049/jimmunol.1202547. Epub 2013 Mar 20.

PMID:
23514741
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Impaired toll-like receptor 3-mediated immune responses from macrophages of patients chronically infected with hepatitis C virus.

Qian F, Bolen CR, Jing C, Wang X, Zheng W, Zhao H, Fikrig E, Bruce RD, Kleinstein SH, Montgomery RR.

Clin Vaccine Immunol. 2013 Feb;20(2):146-55. doi: 10.1128/CVI.00530-12. Epub 2012 Dec 5.

PMID:
23220997
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

An integrated map of genetic variation from 1,092 human genomes.

1000 Genomes Project Consortium, Abecasis GR, Auton A, Brooks LD, DePristo MA, Durbin RM, Handsaker RE, Kang HM, Marth GT, McVean GA.

Nature. 2012 Nov 1;491(7422):56-65. doi: 10.1038/nature11632.

PMID:
23128226
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Identification of core DNA elements that target somatic hypermutation.

Kohler KM, McDonald JJ, Duke JL, Arakawa H, Tan S, Kleinstein SH, Buerstedde JM, Schatz DG.

J Immunol. 2012 Dec 1;189(11):5314-26. doi: 10.4049/jimmunol.1202082. Epub 2012 Oct 19.

PMID:
23087403
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Knowledge-based biomedical word sense disambiguation: an evaluation and application to clinical document classification.

Garla VN, Brandt C.

J Am Med Inform Assoc. 2013 Sep-Oct;20(5):882-6. doi: 10.1136/amiajnl-2012-001350. Epub 2012 Oct 16. Erratum in: J Am Med Inform Assoc. 2014 May-Jun;21(3):568.

PMID:
23077130
[PubMed - indexed for MEDLINE]
Free PMC Article

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