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The cellular microscopy phenotype ontology.
Jupp S, Malone J, Burdett T, Heriche JK, Williams E, Ellenberg J, Parkinson H, Rustici G. Jupp S, et al. Among authors: malone j. J Biomed Semantics. 2016 May 18;7:28. doi: 10.1186/s13326-016-0074-0. eCollection 2016. J Biomed Semantics. 2016. PMID: 27195102 Free PMC article.
Open Targets: a platform for therapeutic target identification and validation.
Koscielny G, An P, Carvalho-Silva D, Cham JA, Fumis L, Gasparyan R, Hasan S, Karamanis N, Maguire M, Papa E, Pierleoni A, Pignatelli M, Platt T, Rowland F, Wankar P, Bento AP, Burdett T, Fabregat A, Forbes S, Gaulton A, Gonzalez CY, Hermjakob H, Hersey A, Jupe S, Kafkas Ş, Keays M, Leroy C, Lopez FJ, Magarinos MP, Malone J, McEntyre J, Munoz-Pomer Fuentes A, O'Donovan C, Papatheodorou I, Parkinson H, Palka B, Paschall J, Petryszak R, Pratanwanich N, Sarntivijal S, Saunders G, Sidiropoulos K, Smith T, Sondka Z, Stegle O, Tang YA, Turner E, Vaughan B, Vrousgou O, Watkins X, Martin MJ, Sanseau P, Vamathevan J, Birney E, Barrett J, Dunham I. Koscielny G, et al. Among authors: malone j. Nucleic Acids Res. 2017 Jan 4;45(D1):D985-D994. doi: 10.1093/nar/gkw1055. Epub 2016 Nov 29. Nucleic Acids Res. 2017. PMID: 27899665 Free PMC article.
Anatomy ontologies and potential users: bridging the gap.
Travillian RS, Adamusiak T, Burdett T, Gruenberger M, Hancock J, Mallon AM, Malone J, Schofield P, Parkinson H. Travillian RS, et al. Among authors: malone j. J Biomed Semantics. 2011 Aug 9;2 Suppl 4(Suppl 4):S3. doi: 10.1186/2041-1480-2-S4-S3. Epub 2011 Aug 9. J Biomed Semantics. 2011. PMID: 21995944 Free PMC article.
Disease Ontology 2015 update: an expanded and updated database of human diseases for linking biomedical knowledge through disease data.
Kibbe WA, Arze C, Felix V, Mitraka E, Bolton E, Fu G, Mungall CJ, Binder JX, Malone J, Vasant D, Parkinson H, Schriml LM. Kibbe WA, et al. Among authors: malone j. Nucleic Acids Res. 2015 Jan;43(Database issue):D1071-8. doi: 10.1093/nar/gku1011. Epub 2014 Oct 27. Nucleic Acids Res. 2015. PMID: 25348409 Free PMC article.
CLO: The cell line ontology.
Sarntivijai S, Lin Y, Xiang Z, Meehan TF, Diehl AD, Vempati UD, Schürer SC, Pang C, Malone J, Parkinson H, Liu Y, Takatsuki T, Saijo K, Masuya H, Nakamura Y, Brush MH, Haendel MA, Zheng J, Stoeckert CJ, Peters B, Mungall CJ, Carey TE, States DJ, Athey BD, He Y. Sarntivijai S, et al. Among authors: malone j. J Biomed Semantics. 2014 Aug 13;5:37. doi: 10.1186/2041-1480-5-37. eCollection 2014. J Biomed Semantics. 2014. PMID: 25852852 Free PMC article.
Ten Simple Rules for Selecting a Bio-ontology.
Malone J, Stevens R, Jupp S, Hancocks T, Parkinson H, Brooksbank C. Malone J, et al. PLoS Comput Biol. 2016 Feb 11;12(2):e1004743. doi: 10.1371/journal.pcbi.1004743. eCollection 2016 Feb. PLoS Comput Biol. 2016. PMID: 26867217 Free PMC article. No abstract available.
Modeling sample variables with an Experimental Factor Ontology.
Malone J, Holloway E, Adamusiak T, Kapushesky M, Zheng J, Kolesnikov N, Zhukova A, Brazma A, Parkinson H. Malone J, et al. Bioinformatics. 2010 Apr 15;26(8):1112-8. doi: 10.1093/bioinformatics/btq099. Epub 2010 Mar 3. Bioinformatics. 2010. PMID: 20200009 Free PMC article.
1,279 results