Janna Hastings

Janna Hastings

Group Coordinator - Steinbeck team: Cheminformatics and metabolism

Janna Hastings coordinates EMBL-EBI's Cheminformatics and Metabolism team, which develops the ChEBI and MetaboLights resources. She specialises in chemical and biomedical ontology, and has a background in computer science and logic-based AI. Prior to joining EMBL-EBI in 2006, Janna spent many years in diverse roles in industrial IT analysis and development. 

ORCID iD: 0000-0002-3469-4923

Tel:+ 44 (0) 1223 494 411 / Fax:+ 44 (0) 1223 492 468

Publications

2015

DINTO: Using OWL Ontologies and SWRL Rules to Infer Drug-Drug Interactions and Their Mechanisms.
Herrero-Zazo M, Segura-Bedmar I, Hastings J, Martínez P.
J Chem Inf Model Volume 55 (2015) p.1698-1707
DOI: 10.1021/acs.jcim.5b00119

BiNChE: a web tool and library for chemical enrichment analysis based on the ChEBI ontology.
Moreno P, Beisken S, Harsha B, Muthukrishnan V, Tudose I, Dekker A, Dornfeldt S, Taruttis F, Grosse I, Hastings J, Neumann S, Steinbeck C.
BMC Bioinformatics Volume 16 (2015) p.56
DOI: 10.1186/s12859-015-0486-3

PubChemRDF: towards the semantic annotation of PubChem compound and substance databases.
Fu G, Batchelor C, Dumontier M, Hastings J, Willighagen E, Bolton E.
J Cheminform Volume 7 (2015) p.34
DOI: 10.1186/s13321-015-0084-4

eNanoMapper: harnessing ontologies to enable data integration for nanomaterial risk assessment.
Hastings J, Jeliazkova N, Owen G, Tsiliki G, Munteanu CR, Steinbeck C, Willighagen E.
J Biomed Semantics Volume 6 (2015) p.10
DOI: 10.1186/s13326-015-0005-5

2014

Interdisciplinary perspectives on the development, integration, and application of cognitive ontologies.
Hastings J, Frishkoff GA, Smith B, Jensen M, Poldrack RA, Lomax J, Bandrowski A, Imam F, Turner JA, Martone ME.
Front Neuroinform Volume 8 (2014) p.62
DOI: 10.3389/fninf.2014.00062

Ten recommendations for software engineering in research.
Hastings J, Haug K, Steinbeck C.
Gigascience Volume 3 (2014) p.31
DOI: 10.1186/2047-217x-3-31

Evaluating the Emotion Ontology through use in the self-reporting of emotional responses at an academic conference.
Hastings J, Brass A, Caine C, Jay C, Stevens R.
J Biomed Semantics Volume 5 (2014) p.38
DOI: 10.1186/2041-1480-5-38

2013

UniChem: a unified chemical structure cross-referencing and identifier tracking system.
Chambers J, Davies M, Gaulton A, Hersey A, Velankar S, Petryszak R, Hastings J, Bellis L, McGlinchey S, Overington JP.
J Cheminform Volume 5 (2013) p.3
DOI: 10.1186/1758-2946-5-3

The ChEMBL database as linked open data.
Willighagen EL, Waagmeester A, Spjuth O, Ansell P, Williams AJ, Tkachenko V, Hastings J, Chen B, Wild DJ.
J Cheminform Volume 5 (2013) p.23
DOI: 10.1186/1758-2946-5-23

The ChEBI reference database and ontology for biologically relevant chemistry: enhancements for 2013.
Hastings J, de Matos P, Dekker A, Ennis M, Harsha B, Kale N, Muthukrishnan V, Owen G, Turner S, Williams M, Steinbeck C.
Nucleic Acids Res Volume 41 (2013) p.d456-63
DOI: 10.1093/nar/gks1146

MetaboLights--an open-access general-purpose repository for metabolomics studies and associated meta-data.
Haug K, Salek RM, Conesa P, Hastings J, de Matos P, Rijnbeek M, Mahendraker T, Williams M, Neumann S, Rocca-Serra P, Maguire E, González-Beltrán A, Sansone SA, Griffin JL, Steinbeck C.
Nucleic Acids Res Volume 41 (2013) p.d781-6
DOI: 10.1093/nar/gks1004

The MetaboLights repository: curation challenges in metabolomics.
Salek RM, Haug K, Conesa P, Hastings J, Williams M, Mahendraker T, Maguire E, González-Beltrán AN, Rocca-Serra P, Sansone SA, Steinbeck C.
Database (Oxford) Volume 2013 (2013) p.bat029
DOI: 10.1093/database/bat029

OntoQuery: easy-to-use web-based OWL querying.
Tudose I, Hastings J, Muthukrishnan V, Owen G, Turner S, Dekker A, Kale N, Ennis M, Steinbeck C.
Bioinformatics Volume 29 (2013) p.2955-2957
DOI: 10.1093/bioinformatics/btt514

Dovetailing biology and chemistry: integrating the Gene Ontology with the ChEBI chemical ontology.
Hill DP, Adams N, Bada M, Batchelor C, Berardini TZ, Dietze H, Drabkin HJ, Ennis M, Foulger RE, Harris MA, Hastings J, Kale NS, de Matos P, Mungall CJ, Owen G, Roncaglia P, Steinbeck C, Turner S, Lomax J.
BMC Genomics Volume 14 (2013) p.513
DOI: 10.1186/1471-2164-14-513

Exploiting disjointness axioms to improve semantic similarity measures.
Ferreira JD, Hastings J, Couto FM.
Bioinformatics Volume 29 (2013) p.2781-2787
DOI: 10.1093/bioinformatics/btt491

Expanding natural product chemistry resources at the EBI.
Hastings J, Conesa P, Dekker A, Ennis M, Haug K, Jayaseelan K, Kale N, Mahendraker T, Moreno P, Muthukrishnan V, Owen G, Salek R, Turner S, Steinbeck C.
Journal of Cheminformatics Volume 5 (2013) p.p43-p43

FMCS: a novel algorithm for the multiple MCS problem.
Dalke A, Hastings J.
Journal of Cheminformatics Volume 5 (2013) p.o6-o6

2012

Accessing and using chemical property databases.
Hastings J, Josephs Z, Steinbeck C.
Methods Mol Biol Volume 929 (2012) p.193-219
DOI: 10.1007/978-1-62703-050-2_9

Structure-based classification and ontology in chemistry.
Hastings J, Magka D, Batchelor C, Duan L, Stevens R, Ennis M, Steinbeck C.
J Cheminform Volume 4 (2012) p.8
DOI: 10.1186/1758-2946-4-8

Ontologies for human behavior analysis and their application to clinical data.
Hastings J, Schulz S.
Int Rev Neurobiol Volume 103 (2012) p.89-107
DOI: 10.1016/b978-0-12-388408-4.00005-8

Structured chemical class definitions and automated matching for chemical ontology evolution.
Duan L, Hastings J, de Matos P, Ennis M, Steinbeck C.
Journal of Cheminformatics Volume 4 (2012) p.p5-p5

Three hybrid classifiers for the detection of emotions in suicide notes.
Liakata M, Kim JH, Saha S, Hastings J, Rebholz-Schuhmann D.
Biomed Inform Insights Volume 5 (2012) p.175-184
DOI: 10.4137/bii.s8967

A database for chemical proteomics: ChEBI.
de Matos P, Adams N, Hastings J, Moreno P, Steinbeck C.
Methods Mol Biol Volume 803 (2012) p.273-296
DOI: 10.1007/978-1-61779-364-6_19

Toxicology ontology perspectives.
Hardy B, Apic G, Carthew P, Clark D, Cook D, Dix I, Escher S, Hastings J, Heard DJ, Jeliazkova N, Judson P, Matis-Mitchell S, Mitic D, Myatt G, Shah I, Spjuth O, Tcheremenskaia O, Toldo L, Watson D, White A, Yang C.
ALTEX Volume 29 (2012) p.139-156

Process attributes in bio-ontologies.
Andrade AQ, Blondé W, Hastings J, Schulz S.
BMC Bioinformatics Volume 13 (2012) p.217
DOI: 10.1186/1471-2105-13-217

Requirements for semantic biobanks.
Andrade AQ, Kreuzthaler M, Hastings J, Krestyaninova M, Schulz S.
Stud Health Technol Inform Volume 180 (2012) p.569-573

Cheminformatics
Wegner JK, Sterling A, Guha R, Bender A, Faulon J-L, Hastings J, O'Boyle N, Overington J, Van Vlijmen H, Willighagen E.
Commun ACM Volume 55 (2012) p.65-75
DOI: 10.1145/2366316.2366334

Food for thought ... A toxicology ontology roadmap.
Hardy B, Apic G, Carthew P, Clark D, Cook D, Dix I, Escher S, Hastings J, Heard DJ, Jeliazkova N, Judson P, Matis-Mitchell S, Mitic D, Myatt G, Shah I, Spjuth O, Tcheremenskaia O, Toldo L, Watson D, White A, Yang C.
ALTEX Volume 29 (2012) p.129-137

Self-organizing ontology of biochemically relevant small molecules.
Chepelev LL, Hastings J, Ennis M, Steinbeck C, Dumontier M.
BMC Bioinformatics Volume 13 (2012) p.3
DOI: 10.1186/1471-2105-13-3

2011

Chemical ontologies: what are they, what are they for and what are the challenges.
Hastings J, Adams N, Ennis M, Hull D, Steinbeck C.
Journal of Cheminformatics Volume 3 (2011) p.o4-o4

Unintended consequences of existential quantifications in biomedical ontologies.
Boeker M, Tudose I, Hastings J, Schober D, Schulz S.
BMC Bioinformatics Volume 12 (2011) p.456
DOI: 10.1186/1471-2105-12-456

The chemical information ontology: provenance and disambiguation for chemical data on the biological semantic web.
Hastings J, Chepelev L, Willighagen E, Adams N, Steinbeck C, Dumontier M.
PLoS One Volume 6 (2011) p.e25513
DOI: 10.1371/journal.pone.0025513

Controlled vocabularies and semantics in systems biology.
Courtot M, Juty N, Knüpfer C, Waltemath D, Zhukova A, Dräger A, Dumontier M, Finney A, Golebiewski M, Hastings J, Hoops S, Keating S, Kell DB, Kerrien S, Lawson J, Lister A, Lu J, Machne R, Mendes P, Pocock M, Rodriguez N, Villeger A, Wilkinson DJ, Wimalaratne S, Laibe C, Hucka M, Le Novère N.
Mol Syst Biol Volume 7 (2011) p.543
DOI: 10.1038/msb.2011.77

2010

Chemical Entities of Biological Interest: an update.
de Matos P, Alcántara R, Dekker A, Ennis M, Hastings J, Haug K, Spiteri I, Turner S, Steinbeck C.
Nucleic Acids Res Volume 38 (2010) p.d249-54
DOI: 10.1093/nar/gkp886

ChEBI: a chemistry ontology and database.
de Matos P, Dekker A, Ennis M, Hastings J, Haug K, Turner S, Steinbeck C.
Journal of Cheminformatics Volume 2 (2010) p.p6-p6

2009

ChEBI: an open bioinformatics and cheminformatics resource.
Degtyarenko K, Hastings J, de Matos P, Ennis M.
Curr Protoc Bioinformatics Volume Chapter 14 (2009) p.unit 14.9
DOI: 10.1002/0471250953.bi1409s26

2008

ChEBI: a database and ontology for chemical entities of biological interest.
Degtyarenko K, de Matos P, Ennis M, Hastings J, Zbinden M, McNaught A, Alcántara R, Darsow M, Guedj M, Ashburner M.
Nucleic Acids Res Volume 36 (2008) p.d344-50
DOI: 10.1093/nar/gkm791