{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,6,6]],"date-time":"2026-06-06T16:00:48Z","timestamp":1780761648274,"version":"3.54.1"},"publisher-location":"New York, NY, USA","reference-count":40,"publisher":"ACM","license":[{"start":{"date-parts":[[2020,10,19]],"date-time":"2020-10-19T00:00:00Z","timestamp":1603065600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/www.acm.org\/publications\/policies\/copyright_policy#Background"}],"funder":[{"DOI":"10.13039\/501100001602","name":"Science Foundation Ireland","doi-asserted-by":"publisher","award":["12\/RC\/2289_P2"],"award-info":[{"award-number":["12\/RC\/2289_P2"]}],"id":[{"id":"10.13039\/501100001602","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["dl.acm.org"],"crossmark-restriction":true},"short-container-title":[],"published-print":{"date-parts":[[2020,10,19]]},"DOI":"10.1145\/3340531.3412776","type":"proceedings-article","created":{"date-parts":[[2020,10,19]],"date-time":"2020-10-19T05:31:06Z","timestamp":1603085466000},"page":"3173-3180","update-policy":"https:\/\/doi.org\/10.1145\/crossmark-policy","source":"Crossref","is-referenced-by-count":65,"title":["BioKG"],"prefix":"10.1145","author":[{"given":"Brian","family":"Walsh","sequence":"first","affiliation":[{"name":"NUI Galway Insight Centre for Data analytics, Galway, Ireland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sameh K.","family":"Mohamed","sequence":"additional","affiliation":[{"name":"NUI Galway Insight Centre for Data analytics, Galway, Ireland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"V\u00edt","family":"Nov\u00e1\u010dek","sequence":"additional","affiliation":[{"name":"NUI Galway Insight Centre for Data analytics, Galway, Ireland"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"320","published-online":{"date-parts":[[2020,10,19]]},"reference":[{"key":"e_1_3_2_2_1_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gku1205"},{"key":"e_1_3_2_2_2_1","doi-asserted-by":"publisher","DOI":"10.7171\/jbt.18-2902-002"},{"key":"e_1_3_2_2_3_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.jbi.2008.03.004"},{"key":"e_1_3_2_2_4_1","volume-title":"Jason Weston, and Oksana Yakhnenko.","author":"Bordes Antoine","year":"2013","unstructured":"Antoine Bordes , Nicolas Usunier , Alberto Garc'i a-Dur\u00e1 n , Jason Weston, and Oksana Yakhnenko. 2013 . Translating Embeddings for Modeling Multi-relational Data. In NIPS. 2787--2795. Antoine Bordes, Nicolas Usunier, Alberto Garc'i a-Dur\u00e1 n, Jason Weston, and Oksana Yakhnenko. 2013. Translating Embeddings for Modeling Multi-relational Data. In NIPS. 2787--2795."},{"key":"e_1_3_2_2_5_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkj021"},{"key":"e_1_3_2_2_6_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkp846"},{"key":"e_1_3_2_2_7_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gky1049"},{"key":"e_1_3_2_2_8_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkq1018"},{"key":"e_1_3_2_2_9_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkr912"},{"key":"e_1_3_2_2_10_1","volume-title":"Klein","author":"Hewett Micheal","year":"2002","unstructured":"Micheal Hewett , Diane E. Oliver , Daniel L. Rubin , Katrina L. Easton , Joshua M. Stuart , Russ B. Altman , and Teri E . Klein . 2002 . PharmGKB: the Pharmacogenetics Knowledge Base. Nucleic acids research, Vol. 30 1 (2002), 163--5. Micheal Hewett, Diane E. Oliver, Daniel L. Rubin, Katrina L. Easton, Joshua M. Stuart, Russ B. Altman, and Teri E. Klein. 2002. PharmGKB: the Pharmacogenetics Knowledge Base. Nucleic acids research, Vol. 30 1 (2002), 163--5."},{"key":"e_1_3_2_2_11_1","doi-asserted-by":"publisher","DOI":"10.1038\/s41587-019-0391-9"},{"key":"e_1_3_2_2_12_1","doi-asserted-by":"publisher","DOI":"10.1038\/nmeth.2968"},{"key":"e_1_3_2_2_13_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkr1122"},{"key":"e_1_3_2_2_14_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkv1070"},{"key":"e_1_3_2_2_15_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkq1126"},{"key":"e_1_3_2_2_16_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkv1075"},{"key":"e_1_3_2_2_17_1","doi-asserted-by":"crossref","unstructured":"Xin Liu Feng Zhu Xiaohua Ma Lin Tao Jingxian Zhang Shengyong Yang Yuquan Wei and Y. Z. Chen. 2011. The Therapeutic Target Database: an internet resource for the primary targets of approved clinical trial and experimental drugs. Expert opinion on therapeutic targets Vol. 15 8 (2011) 903--12.  Xin Liu Feng Zhu Xiaohua Ma Lin Tao Jingxian Zhang Shengyong Yang Yuquan Wei and Y. Z. Chen. 2011. The Therapeutic Target Database: an internet resource for the primary targets of approved clinical trial and experimental drugs. Expert opinion on therapeutic targets Vol. 15 8 (2011) 903--12.","DOI":"10.1517\/14728222.2011.586635"},{"key":"e_1_3_2_2_18_1","volume-title":"Suchanek","author":"Mahdisoltani Farzaneh","year":"2015","unstructured":"Farzaneh Mahdisoltani , Joanna Biega , and Fabian M . Suchanek . 2015 . YAGO3: A Knowledge Base from Multilingual Wikipedias. In CIDR. www.cidrdb.org. Farzaneh Mahdisoltani, Joanna Biega, and Fabian M. Suchanek. 2015. YAGO3: A Knowledge Base from Multilingual Wikipedias. In CIDR. www.cidrdb.org."},{"key":"e_1_3_2_2_19_1","doi-asserted-by":"publisher","DOI":"10.1289\/ehp.6028"},{"key":"e_1_3_2_2_20_1","doi-asserted-by":"publisher","DOI":"10.1145\/219717.219748"},{"key":"e_1_3_2_2_21_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gky1100"},{"key":"e_1_3_2_2_22_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.ins.2019.08.061"},{"key":"e_1_3_2_2_23_1","first-page":"430","article-title":"Predicting The Effects of Chemical-Protein Interactions On Proteins Using Tensor Factorisation","volume":"2020","author":"Mohamed Sameh K","year":"2020","unstructured":"Sameh K Mohamed and Aayah Nounu . 2020 . Predicting The Effects of Chemical-Protein Interactions On Proteins Using Tensor Factorisation . AMIA Summits on Translational Science Proceedings , Vol. 2020 (2020), 430 . Sameh K Mohamed and Aayah Nounu. 2020. Predicting The Effects of Chemical-Protein Interactions On Proteins Using Tensor Factorisation. AMIA Summits on Translational Science Proceedings, Vol. 2020 (2020), 430.","journal-title":"AMIA Summits on Translational Science Proceedings"},{"key":"e_1_3_2_2_24_1","volume-title":"2020 a. Biological applications of knowledge graph embedding models. Briefings in Bioinformatics (02","author":"Mohamed Sameh K","year":"2020","unstructured":"Sameh K Mohamed , Aayah Nounu , and V'i t Nov\u00e1 cek. 2020 a. Biological applications of knowledge graph embedding models. Briefings in Bioinformatics (02 2020 ). https:\/\/doi.org\/10.1093\/bib\/bbaa012 bbaa012. 10.1093\/bib Sameh K Mohamed, Aayah Nounu, and V'i t Nov\u00e1 cek. 2020 a. Biological applications of knowledge graph embedding models. Briefings in Bioinformatics (02 2020). https:\/\/doi.org\/10.1093\/bib\/bbaa012 bbaa012."},{"key":"e_1_3_2_2_25_1","volume-title":"Mohamed and V'i t Nov\u00e1 cek","author":"Sameh","year":"2019","unstructured":"Sameh K. Mohamed and V'i t Nov\u00e1 cek . 2019 . Link Prediction Using Multi Part Embeddings. In ESWC (Lecture Notes in Computer Science , Vol. 11503). Springer, 240-- 254 . Sameh K. Mohamed and V'i t Nov\u00e1 cek. 2019. Link Prediction Using Multi Part Embeddings. In ESWC (Lecture Notes in Computer Science, Vol. 11503). Springer, 240--254."},{"key":"e_1_3_2_2_26_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btz600"},{"key":"e_1_3_2_2_27_1","doi-asserted-by":"publisher","DOI":"10.1109\/JPROC.2015.2483592"},{"key":"e_1_3_2_2_28_1","volume-title":"Yaffe","author":"Obenauer John C.","year":"2003","unstructured":"John C. Obenauer , Lewis C. Cantley , and Michael B . Yaffe . 2003 . Scansite 2.0: proteome-wide prediction of cell signaling interactions using short sequence motifs. Nucleic acids research, Vol. 31 13 (2003), 3635--41. John C. Obenauer, Lewis C. Cantley, and Michael B. Yaffe. 2003. Scansite 2.0: proteome-wide prediction of cell signaling interactions using short sequence motifs. Nucleic acids research, Vol. 31 13 (2003), 3635--41."},{"key":"e_1_3_2_2_29_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btx731"},{"key":"e_1_3_2_2_30_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkt1115"},{"key":"e_1_3_2_2_31_1","volume-title":"Daly","author":"Song Jiangning","year":"2017","unstructured":"Jiangning Song , Huilin Wang , Jiawei Wang , Andr\u00e9 Leier , Tatiana T. Marquez-Lago , Bingjiao Yang , Ziding Zhang , Tatsuya Akutsu , Geoffrey I. Webb , and Roger J . Daly . 2017 . PhosphoPredict: A bioinformatics tool for prediction of human kinase-specific phosphorylation substrates and sites by integrating heterogeneous feature selection. Scientific Reports , Vol. 7 (2017). Jiangning Song, Huilin Wang, Jiawei Wang, Andr\u00e9 Leier, Tatiana T. Marquez-Lago, Bingjiao Yang, Ziding Zhang, Tatsuya Akutsu, Geoffrey I. Webb, and Roger J. Daly. 2017. PhosphoPredict: A bioinformatics tool for prediction of human kinase-specific phosphorylation substrates and sites by integrating heterogeneous feature selection. Scientific Reports, Vol. 7 (2017)."},{"key":"e_1_3_2_2_32_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkj109"},{"key":"e_1_3_2_2_33_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkq973"},{"key":"e_1_3_2_2_34_1","volume-title":"Altman","author":"Tatonetti Nicholas P.","year":"2012","unstructured":"Nicholas P. Tatonetti , Patrick Ye , Roxana Daneshjou , and Russ B . Altman . 2012 . Data-driven prediction of drug effects and interactions. Science translational medicine , Vol. 4 125 (2012), 125ra31. Nicholas P. Tatonetti, Patrick Ye, Roxana Daneshjou, and Russ B. Altman. 2012. Data-driven prediction of drug effects and interactions. Science translational medicine , Vol. 4 125 (2012), 125ra31."},{"key":"e_1_3_2_2_35_1","volume-title":"Complex Embeddings for Simple Link Prediction. In ICML (JMLR Workshop and Conference Proceedings","volume":"2080","author":"Trouillon Th\u00e9","year":"2016","unstructured":"Th\u00e9 o Trouillon , Johannes Welbl , Sebastian Riedel , \u00c9 ric Gaussier, and Guillaume Bouchard . 2016 . Complex Embeddings for Simple Link Prediction. In ICML (JMLR Workshop and Conference Proceedings , Vol. 48). JMLR.org, 2071-- 2080 . Th\u00e9 o Trouillon, Johannes Welbl, Sebastian Riedel, \u00c9 ric Gaussier, and Guillaume Bouchard. 2016. Complex Embeddings for Simple Link Prediction. In ICML (JMLR Workshop and Conference Proceedings, Vol. 48). JMLR.org, 2071--2080."},{"key":"e_1_3_2_2_36_1","doi-asserted-by":"publisher","DOI":"10.1038\/nbt1210-1248"},{"key":"e_1_3_2_2_37_1","volume-title":"STRING: a database of predicted functional associations between proteins. Nucleic acids research","author":"von Mering Christian","year":"2003","unstructured":"Christian von Mering , Martijn A. Huynen , Daniel Jaeggi , Steffen Schmidt , Peer Bork , and Berend Snel . 2003. STRING: a database of predicted functional associations between proteins. Nucleic acids research , Vol. 31 1 ( 2003 ), 258--61. Christian von Mering, Martijn A. Huynen, Daniel Jaeggi, Steffen Schmidt, Peer Bork, and Berend Snel. 2003. STRING: a database of predicted functional associations between proteins. Nucleic acids research, Vol. 31 1 (2003), 258--61."},{"key":"e_1_3_2_2_38_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkm958"},{"key":"e_1_3_2_2_39_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btn162"},{"key":"e_1_3_2_2_40_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/bty294"}],"event":{"name":"CIKM '20: The 29th ACM International Conference on Information and Knowledge Management","location":"Virtual Event Ireland","acronym":"CIKM '20","sponsor":["SIGWEB ACM Special Interest Group on Hypertext, Hypermedia, and Web","SIGIR ACM Special Interest Group on Information Retrieval"]},"container-title":["Proceedings of the 29th ACM International Conference on Information &amp; Knowledge Management"],"original-title":[],"link":[{"URL":"https:\/\/dl.acm.org\/doi\/10.1145\/3340531.3412776","content-type":"unspecified","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/dl.acm.org\/doi\/pdf\/10.1145\/3340531.3412776","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,6,17]],"date-time":"2025-06-17T22:02:56Z","timestamp":1750197776000},"score":1,"resource":{"primary":{"URL":"https:\/\/dl.acm.org\/doi\/10.1145\/3340531.3412776"}},"subtitle":["A Knowledge Graph for Relational Learning On Biological Data"],"short-title":[],"issued":{"date-parts":[[2020,10,19]]},"references-count":40,"alternative-id":["10.1145\/3340531.3412776","10.1145\/3340531"],"URL":"https:\/\/doi.org\/10.1145\/3340531.3412776","relation":{},"subject":[],"published":{"date-parts":[[2020,10,19]]},"assertion":[{"value":"2020-10-19","order":2,"name":"published","label":"Published","group":{"name":"publication_history","label":"Publication History"}}]}}