{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,7,30]],"date-time":"2026-07-30T22:39:25Z","timestamp":1785451165196,"version":"3.56.0"},"reference-count":18,"publisher":"Oxford University Press (OUP)","license":[{"start":{"date-parts":[[2024,12,5]],"date-time":"2024-12-05T00:00:00Z","timestamp":1733356800000},"content-version":"vor","delay-in-days":339,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100000024","name":"CIHR","doi-asserted-by":"publisher","award":["202309PJT"],"award-info":[{"award-number":["202309PJT"]}],"id":[{"id":"10.13039\/501100000024","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Canadian Strategic Innovation Fund"},{"DOI":"10.13039\/501100000038","name":"NSERC","doi-asserted-by":"publisher","award":["RGPIN-2019-04416"],"award-info":[{"award-number":["RGPIN-2019-04416"]}],"id":[{"id":"10.13039\/501100000038","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100000024","name":"CIHR","doi-asserted-by":"publisher","award":["202309PJT"],"award-info":[{"award-number":["202309PJT"]}],"id":[{"id":"10.13039\/501100000024","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Canadian Strategic Innovation Fund"},{"DOI":"10.13039\/501100000038","name":"NSERC","doi-asserted-by":"publisher","award":["RGPIN-2019-04416"],"award-info":[{"award-number":["RGPIN-2019-04416"]}],"id":[{"id":"10.13039\/501100000038","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2024,12,5]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Deciphering pathway\u2013phenotype associations is critical for a system-wide understanding of cells and the chemistry of life. An approach to reach this goal is to systematically modulate pathways pharmacologically. The targeted and controlled regulation of an increasing number of proteins is becoming possible, thanks to the growing list of chemical probes and chemogenomic compounds available to cell biologists, but no resource is available that directly maps these chemical tools on cellular pathways. To fill this gap, we developed Probe my Pathway (PmP), a database where high-quality chemical probes and well-characterized sets of chemogenomic compounds are mapped on all the human pathways of the Reactome database. The web interface allows users to browse the data via icicle charts or search the data for compounds, proteins, or pathways. Chemists can rapidly find pathways with low chemical coverage or explore the structural chemistry of ligands targeting specific cellular machineries. Cell biologists can look for chemical probes targeting different proteins in the same pathway or find which pathways are targeted by chemical probes of interest. PmP is updated annually and will grow with the expanding chemical tool kit produced by Target 2035 and other efforts.<\/jats:p>\n               <jats:p>Database URL: https:\/\/apps.thesgc.org\/pmp\/<\/jats:p>","DOI":"10.1093\/database\/baae116","type":"journal-article","created":{"date-parts":[[2024,12,10]],"date-time":"2024-12-10T20:32:43Z","timestamp":1733862763000},"source":"Crossref","is-referenced-by-count":1,"title":["Probe my Pathway (PmP): a portal to explore the chemical coverage of the human Reactome"],"prefix":"10.1093","volume":"2024","author":[{"given":"Haejin Angela","family":"Kwak","sequence":"first","affiliation":[{"name":"Structural Genomics Consortium, University of Toronto , 101 College Street, MaRS South Tower, Suite 700, Toronto, Ontario M5G 1L7,","place":["Canada"]},{"name":"Department of Pharmacology and Toxicology, University of Toronto , 1 King\u2019s College Circle, Toronto, Ontario M5S 1A8,","place":["Canada"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Lihua","family":"Liu","sequence":"additional","affiliation":[{"name":"Structural Genomics Consortium, University of Toronto , 101 College Street, MaRS South Tower, Suite 700, Toronto, Ontario M5G 1L7,","place":["Canada"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1047-3309","authenticated-orcid":false,"given":"Matthieu","family":"Schapira","sequence":"additional","affiliation":[{"name":"Structural Genomics Consortium, University of Toronto , 101 College Street, MaRS South Tower, Suite 700, Toronto, Ontario M5G 1L7,","place":["Canada"]},{"name":"Department of Pharmacology and Toxicology, University of Toronto , 1 King\u2019s College Circle, Toronto, Ontario M5S 1A8,","place":["Canada"]}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2024,12,3]]},"reference":[{"key":"2025013112520942800_R1","doi-asserted-by":"publisher","first-page":"159","DOI":"10.1038\/nchembio.296","article-title":"The art of the chemical probe","volume":"6","author":"Frye","year":"2010","journal-title":"Nat Chem Biol"},{"key":"2025013112520942800_R2","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1007\/978-1-0716-3397-7_1","article-title":"An introduction to chemogenomics","volume":"2706","author":"Chaikuad","year":"2023","journal-title":"Methods Mol Biol"},{"key":"2025013112520942800_R3","doi-asserted-by":"publisher","first-page":"D1492","DOI":"10.1093\/nar\/gkac909","article-title":"The Chemical Probes Portal: an expert review-based public resource to empower chemical probe assessment, selection and use","volume":"51","author":"Antolin","year":"2023","journal-title":"Nucleic Acids Res"},{"key":"2025013112520942800_R4","doi-asserted-by":"publisher","first-page":"D1405","DOI":"10.1093\/nar\/gkac1033","article-title":"Pharos 2023: an integrated resource for the understudied human proteome","volume":"51","author":"Kelleher","year":"2023","journal-title":"Nucleic Acids Res"},{"key":"2025013112520942800_R5","doi-asserted-by":"publisher","first-page":"759","DOI":"10.1038\/nmeth.4365","article-title":"Probes &Drugs portal: an interactive, open data resource for chemical biology","volume":"14","author":"Skuta","year":"2017","journal-title":"Nat Methods"},{"key":"2025013112520942800_R6","doi-asserted-by":"publisher","DOI":"10.1093\/database\/baac088","article-title":"ChemBioPort: an online portal to navigate the structure, function and chemical inhibition of the human proteome","volume":"2022","author":"Liu","year":"2022","journal-title":"Database"},{"key":"2025013112520942800_R7","first-page":"D498","article-title":"The reactome pathway knowledgebase","volume":"48","author":"Jassal","year":"2020","journal-title":"Nucleic Acids Res"},{"key":"2025013112520942800_R8","doi-asserted-by":"publisher","first-page":"D353","DOI":"10.1093\/nar\/gkw1092","article-title":"KEGG: new perspectives on genomes, pathways, diseases and drugs","volume":"45","author":"Kanehisa","year":"2017","journal-title":"Nucleic Acids Res"},{"key":"2025013112520942800_R9","doi-asserted-by":"publisher","DOI":"10.1186\/s12859-021-04252-y","article-title":"Predicting biological pathways of chemical compounds with a profile-inspired approach","volume":"22","author":"Lopez-Iba\u00f1ez","year":"2021","journal-title":"BMC Bioinf"},{"key":"2025013112520942800_R10","doi-asserted-by":"publisher","DOI":"10.1016\/j.drudis.2024.104144","article-title":"Chemical coverage of human biological pathways","volume":"29","author":"Kwak","year":"2024","journal-title":"Drug Discov Today"},{"key":"2025013112520942800_R11","doi-asserted-by":"publisher","first-page":"475","DOI":"10.1038\/d41573-022-00071-9","article-title":"opnMe.com: a digital initiative for sharing tools with the biomedical research community","volume":"21","author":"Gollner","year":"2022","journal-title":"Nat Rev Drug Discov"},{"key":"2025013112520942800_R12","doi-asserted-by":"publisher","DOI":"10.7554\/eLife.34311","article-title":"Donated chemical probes for open science","volume":"7","author":"M\u00fcller","year":"2018","journal-title":"Elife"},{"key":"2025013112520942800_R13","doi-asserted-by":"publisher","DOI":"10.3390\/ijms22020566","article-title":"The Kinase Chemogenomic Set (KCGS): an open science resource for kinase vulnerability identification","volume":"22","author":"Wells","year":"2021","journal-title":"Int J Mol Sci"},{"key":"2025013112520942800_R14","doi-asserted-by":"publisher","first-page":"536","DOI":"10.1038\/nchembio.1867","article-title":"The promise and peril of chemical probes","volume":"11","author":"Arrowsmith","year":"2015","journal-title":"Nat Chem Biol"},{"key":"2025013112520942800_R15","doi-asserted-by":"publisher","first-page":"1446","DOI":"10.1039\/D2MD00291D","article-title":"The era of high-quality chemical probes","volume":"13","author":"Licciardello","year":"2022","journal-title":"RSC Med Chem"},{"key":"2025013112520942800_R16","doi-asserted-by":"publisher","first-page":"821","DOI":"10.1038\/s41589-022-01024-4","article-title":"PRMT inhibition induces a viral mimicry response in triple-negative breast cancer","volume":"18","author":"Wu","year":"2022","journal-title":"Nat Chem Biol"},{"key":"2025013112520942800_R17","doi-asserted-by":"publisher","first-page":"2111","DOI":"10.1016\/j.drudis.2019.06.020","article-title":"Target 2035: probing the human proteome","volume":"24","author":"Carter","year":"2019","journal-title":"Drug Discov Today"},{"key":"2025013112520942800_R18","doi-asserted-by":"publisher","first-page":"13","DOI":"10.1039\/D1MD00228G","article-title":"Target 2035\u2014update on the quest for a probe for every protein","volume":"13","author":"M\u00fcller","year":"2022","journal-title":"RSC Med Chem"}],"container-title":["Database"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/database\/article-pdf\/doi\/10.1093\/database\/baae116\/60961170\/baae116.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/database\/article-pdf\/doi\/10.1093\/database\/baae116\/60961170\/baae116.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,1,31]],"date-time":"2025-01-31T12:52:38Z","timestamp":1738327958000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/database\/article\/doi\/10.1093\/database\/baae116\/7917298"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2024]]},"references-count":18,"URL":"https:\/\/doi.org\/10.1093\/database\/baae116","relation":{},"ISSN":["1758-0463"],"issn-type":[{"value":"1758-0463","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2024]]},"published":{"date-parts":[[2024]]},"article-number":"baae116"}}