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Results: 1 to 20 of 73

1.

Ranking adverse drug reactions with crowdsourcing.

Gottlieb A, Hoehndorf R, Dumontier M, Altman RB.

J Med Internet Res. 2015 Mar 23;17(3):e80. doi: 10.2196/jmir.3962.

2.

Pharmacogenomic knowledge representation, reasoning and genome-based clinical decision support based on OWL 2 DL ontologies.

Samwald M, Miñarro Giménez JA, Boyce RD, Freimuth RR, Adlassnig KP, Dumontier M.

BMC Med Inform Decis Mak. 2015 Dec;15(1):130. doi: 10.1186/s12911-015-0130-1. Epub 2015 Feb 22.

3.

Drug-drug interaction data source survey and linking.

Ayvaz S, Zhu Q, Hochheiser H, Brochhausen M, Horn J, Dumontier M, Samwald M, Boyce RD.

AMIA Jt Summits Transl Sci Proc. 2014 Apr 7;2014:16. eCollection 2014.

4.

SPARQL-enabled identifier conversion with Identifiers.org.

Wimalaratne SM, Bolleman J, Juty N, Katayama T, Dumontier M, Redaschi N, Le Novère N, Hermjakob H, Laibe C.

Bioinformatics. 2015 Jan 31. pii: btv064. [Epub ahead of print]

5.

Finding our way through phenotypes.

Deans AR, Lewis SE, Huala E, Anzaldo SS, Ashburner M, Balhoff JP, Blackburn DC, Blake JA, Burleigh JG, Chanet B, Cooper LD, Courtot M, Csösz S, Cui H, Dahdul W, Das S, Dececchi TA, Dettai A, Diogo R, Druzinsky RE, Dumontier M, Franz NM, Friedrich F, Gkoutos GV, Haendel M, Harmon LJ, Hayamizu TF, He Y, Hines HM, Ibrahim N, Jackson LM, Jaiswal P, James-Zorn C, Köhler S, Lecointre G, Lapp H, Lawrence CJ, Le Novère N, Lundberg JG, Macklin J, Mast AR, Midford PE, Mikó I, Mungall CJ, Oellrich A, Osumi-Sutherland D, Parkinson H, Ramírez MJ, Richter S, Robinson PN, Ruttenberg A, Schulz KS, Segerdell E, Seltmann KC, Sharkey MJ, Smith AD, Smith B, Specht CD, Squires RB, Thacker RW, Thessen A, Fernandez-Triana J, Vihinen M, Vize PD, Vogt L, Wall CE, Walls RL, Westerfeld M, Wharton RA, Wirkner CS, Woolley JB, Yoder MJ, Zorn AM, Mabee P.

PLoS Biol. 2015 Jan 6;13(1):e1002033. doi: 10.1371/journal.pbio.1002033. eCollection 2015 Jan.

6.

Bridging islands of information to establish an integrated knowledge base of drugs and health outcomes of interest.

Boyce RD, Ryan PB, Norén GN, Schuemie MJ, Reich C, Duke J, Tatonetti NP, Trifirò G, Harpaz R, Overhage JM, Hartzema AG, Khayter M, Voss EA, Lambert CG, Huser V, Dumontier M.

Drug Saf. 2014 Aug;37(8):557-67. doi: 10.1007/s40264-014-0189-0.

7.

The Semanticscience Integrated Ontology (SIO) for biomedical research and knowledge discovery.

Dumontier M, Baker CJ, Baran J, Callahan A, Chepelev L, Cruz-Toledo J, Del Rio NR, Duck G, Furlong LI, Keath N, Klassen D, McCusker JP, Queralt-Rosinach N, Samwald M, Villanueva-Rosales N, Wilkinson MD, Hoehndorf R.

J Biomed Semantics. 2014 Mar 6;5(1):14. doi: 10.1186/2041-1480-5-14.

8.

BioHackathon series in 2011 and 2012: penetration of ontology and linked data in life science domains.

Katayama T, Wilkinson MD, Aoki-Kinoshita KF, Kawashima S, Yamamoto Y, Yamaguchi A, Okamoto S, Kawano S, Kim JD, Wang Y, Wu H, Kano Y, Ono H, Bono H, Kocbek S, Aerts J, Akune Y, Antezana E, Arakawa K, Aranda B, Baran J, Bolleman J, Bonnal RJ, Buttigieg PL, Campbell MP, Chen YA, Chiba H, Cock PJ, Cohen KB, Constantin A, Duck G, Dumontier M, Fujisawa T, Fujiwara T, Goto N, Hoehndorf R, Igarashi Y, Itaya H, Ito M, Iwasaki W, Kalaš M, Katoda T, Kim T, Kokubu A, Komiyama Y, Kotera M, Laibe C, Lapp H, Lütteke T, Marshall MS, Mori T, Mori H, Morita M, Murakami K, Nakao M, Narimatsu H, Nishide H, Nishimura Y, Nystrom-Persson J, Ogishima S, Okamura Y, Okuda S, Oshita K, Packer NH, Prins P, Ranzinger R, Rocca-Serra P, Sansone S, Sawaki H, Shin SH, Splendiani A, Strozzi F, Tadaka S, Toukach P, Uchiyama I, Umezaki M, Vos R, Whetzel PL, Yamada I, Yamasaki C, Yamashita R, York WS, Zmasek CM, Kawamoto S, Takagi T.

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

9.

Sub-NOAEL amounts of vinclozolin and xenoestrogens target rat chondrogenesis in vivo.

Auxietre TA, Dumontier MF, Balguy I, Frapart Y, Canivenc-Lavier MC, Berges R, Boudalia S, Auger J, Corvol MT, Savouret JF.

Biochimie. 2014 Apr;99:169-77. doi: 10.1016/j.biochi.2013.12.001. Epub 2013 Dec 12.

PMID:
24333988
10.

Mouse model phenotypes provide information about human drug targets.

Hoehndorf R, Hiebert T, Hardy NW, Schofield PN, Gkoutos GV, Dumontier M.

Bioinformatics. 2014 Mar 1;30(5):719-25. doi: 10.1093/bioinformatics/btt613. Epub 2013 Oct 24.

11.

An RDF/OWL knowledge base for query answering and decision support in clinical pharmacogenetics.

Samwald M, Freimuth R, Luciano JS, Lin S, Powers RL, Marshall MS, Adlassnig KP, Dumontier M, Boyce RD.

Stud Health Technol Inform. 2013;192:539-42.

12.

Ontology-Based Querying with Bio2RDF's Linked Open Data.

Callahan A, Cruz-Toledo J, Dumontier M.

J Biomed Semantics. 2013 Apr 15;4 Suppl 1:S1. doi: 10.1186/2041-1480-4-S1-S1. Epub 2013 Apr 15.

13.

Selected papers from the 15th Annual Bio-Ontologies Special Interest Group Meeting.

Soldatova LN, Sansone SA, Dumontier M, Shah NH.

J Biomed Semantics. 2013 Apr 15;4 Suppl 1:I1. doi: 10.1186/2041-1480-4-S1-I1. Epub 2013 Apr 15.

14.

The SADI Personal Health Lens: A Web Browser-Based System for Identifying Personally Relevant Drug Interactions.

Vandervalk B, McCarthy EL, Cruz-Toledo J, Klein A, Baker CJ, Dumontier M, Wilkinson MD.

JMIR Res Protoc. 2013 Apr 5;2(1):e14. doi: 10.2196/resprot.2315.

15.

State of the art and open challenges in community-driven knowledge curation.

Groza T, Tudorache T, Dumontier M.

J Biomed Inform. 2013 Feb;46(1):1-4. doi: 10.1016/j.jbi.2012.11.007. Epub 2012 Dec 3. No abstract available.

16.

Evaluation of research in biomedical ontologies.

Hoehndorf R, Dumontier M, Gkoutos GV.

Brief Bioinform. 2013 Nov;14(6):696-712. doi: 10.1093/bib/bbs053. Epub 2012 Sep 8.

17.

Identifying aberrant pathways through integrated analysis of knowledge in pharmacogenomics.

Hoehndorf R, Dumontier M, Gkoutos GV.

Bioinformatics. 2012 Aug 15;28(16):2169-75. doi: 10.1093/bioinformatics/bts350. Epub 2012 Jun 17.

18.

Selected papers from the 14th Annual Bio-Ontologies Special Interest Group Meeting.

Soldatova LN, Sansone SA, Dumontier M, Shah NH.

J Biomed Semantics. 2012 Apr 24;3 Suppl 1:I1. doi: 10.1186/2041-1480-3-S1-I1.

19.

Aptamer Base: a collaborative knowledge base to describe aptamers and SELEX experiments.

Cruz-Toledo J, McKeague M, Zhang X, Giamberardino A, McConnell E, Francis T, DeRosa MC, Dumontier M.

Database (Oxford). 2012 Mar 20;2012:bas006. doi: 10.1093/database/bas006. Print 2012.

20.

Semantically enabling pharmacogenomic data for the realization of personalized medicine.

Samwald M, Coulet A, Huerga I, Powers RL, Luciano JS, Freimuth RR, Whipple F, Pichler E, Prud'hommeaux E, Dumontier M, Marshall MS.

Pharmacogenomics. 2012 Jan;13(2):201-12. doi: 10.2217/pgs.11.179. Review. Erratum in: Pharmacogenomics. 2012 Apr;13(5):628.

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