{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,1,8]],"date-time":"2026-01-08T17:35:30Z","timestamp":1767893730778,"version":"3.49.0"},"reference-count":32,"publisher":"Oxford University Press (OUP)","license":[{"start":{"date-parts":[[2020,7,7]],"date-time":"2020-07-07T00:00:00Z","timestamp":1594080000000},"content-version":"vor","delay-in-days":188,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100012226","name":"Fundamental Research Funds for the Central Universities","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100012226","id-type":"DOI","asserted-by":"publisher"}]},{"name":"WeiJian Special Foundation, Zhejiang University School of Public Health"},{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["21976155"],"award-info":[{"award-number":["21976155"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["81773016"],"award-info":[{"award-number":["81773016"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Zhejiang Provincial Natural Science Foundation of China","award":["LY18C060001"],"award-info":[{"award-number":["LY18C060001"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2020,1,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Autophagy is an essential cellular process that is closely implicated in diverse pathophysiological processes and a variety of human diseases, especially tumors. Autophagy is regarded as not only an anti-cancer process in tumorigenesis but also a pro-tumor process in progression and metastasis according to current research. It means the role of autophagy in tumor is considered to be complex, controversial and context dependent. Hence, a comprehensive database is of great significance to obtain an in-depth understanding of such complex correlations between autophagy and tumor. To achieve this objective, here we developed the Autophagy and Tumor Database (named as ATdb, http:\/\/www.bigzju.com\/ATdb\/#\/) to compile the published information concerning autophagy and tumor research. ATdb connected 25 types of tumors with 137 genes required for autophagy-related pathways, containing 219 population filters, 2650 hazard ratio trend plots, 658 interacting microRNAs, 266 interacting long non-coding RNAs, 155 post-translational modifications, 298 DNA methylation records, 331 animal models and 70 clinical trials. ATdb could enable users to search, browse, download and carry out efficient online analysis. For instance, users can make prediction of autophagy gene regulators in a context-dependent manner and in a precise subpopulation and tumor subtypes. Also, it is feasible in ATdb to cluster tumors into distinguished groups based on the gene-related long non-coding RNAs to gain novel insights into their potential functional implications. Thus, ATdb offers a powerful online database for the autophagy community to explore the complex world of autophagy and tumor.<\/jats:p>\n               <jats:p>Database URL: http:\/\/www.bigzju.com\/ATdb\/#\/<\/jats:p>","DOI":"10.1093\/database\/baaa052","type":"journal-article","created":{"date-parts":[[2020,6,8]],"date-time":"2020-06-08T11:09:11Z","timestamp":1591614551000},"source":"Crossref","is-referenced-by-count":14,"title":["Autophagy and Tumor Database: ATdb, a novel database connecting autophagy and tumor"],"prefix":"10.1093","volume":"2020","author":[{"given":"Kelie","family":"Chen","sequence":"first","affiliation":[{"name":"Department of Toxicology of School of Public Health, and Department of Gynecologic Oncology of Women's Hospital, Zhejiang University School of Medicine, Hangzhou 310058, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Dexin","family":"Yang","sequence":"additional","affiliation":[{"name":"Department of Toxicology of School of Public Health, and Department of Gynecologic Oncology of Women's Hospital, Zhejiang University School of Medicine, Hangzhou 310058, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Fan","family":"Zhao","sequence":"additional","affiliation":[{"name":"Department of Toxicology of School of Public Health, and Department of Gynecologic Oncology of Women's Hospital, Zhejiang University School of Medicine, Hangzhou 310058, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Shengchao","family":"Wang","sequence":"additional","affiliation":[{"name":"Department of Gynecologic Oncology of Women's Hospital, Zhejiang University School of Medicine, Hangzhou 310058, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yao","family":"Ye","sequence":"additional","affiliation":[{"name":"Department of Oncology, Second Affiliated Hospital, Zhejiang University School of Medicine, Hangzhou 310058, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Wenjie","family":"Sun","sequence":"additional","affiliation":[{"name":"Department of Pathology, Zhejiang University School of Medicine, Hangzhou 310058, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Haohua","family":"Lu","sequence":"additional","affiliation":[{"name":"Department of Toxicology of School of Public Health, and Department of Gynecologic Oncology of Women's Hospital, Zhejiang University School of Medicine, Hangzhou 310058, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Zhi","family":"Ruan","sequence":"additional","affiliation":[{"name":"Sir Run Run Shaw Hospital, School of Medicine, Zhejiang University, Hangzhou 310016, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jinming","family":"Xu","sequence":"additional","affiliation":[{"name":"Department of Thoracic Surgery, The First Affiliated Hospital, Zhejiang University School of Medicine, Hangzhou 310003, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Tianru","family":"Wang","sequence":"additional","affiliation":[{"name":"Epidemiology Stream, Dalla Lana School of Public Health, University of Toronto, M5T 3M7 ON, Canada"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Guang","family":"Lu","sequence":"additional","affiliation":[{"name":"Department of Physiology, Yong Loo Lin School of Medicine, National University of Singapore, Singapore 117597, Singapore"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Liming","family":"Wang","sequence":"additional","affiliation":[{"name":"Department of Physiology, Yong Loo Lin School of Medicine, National University of Singapore, Singapore 117597, Singapore"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yu","family":"Shi","sequence":"additional","affiliation":[{"name":"State Key Laboratory for Diagnosis and Treatment of Infectious Diseases, Collaborative Innovation Center for Diagnosis and Treatment of Infectious Disease, The First Affiliated Hospital, Zhejiang University School of Medicine, Hangzhou 310003, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Honghe","family":"Zhang","sequence":"additional","affiliation":[{"name":"Department of Pathology, Zhejiang University School of Medicine, Hangzhou 310058, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Han","family":"Wu","sequence":"additional","affiliation":[{"name":"Second Affiliated Hospital, Zhejiang University School of Medicine, Hangzhou, 310009, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Weiguo","family":"Lu","sequence":"additional","affiliation":[{"name":"Department of Gynecologic Oncology of Women's Hospital, Zhejiang University School of Medicine, Hangzhou 310058, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Han-Ming","family":"Shen","sequence":"additional","affiliation":[{"name":"Department of Physiology, Yong Loo Lin School of Medicine, National University of Singapore, Singapore 117597, Singapore"},{"name":"Faculty of Health Sciences, University of Macau, Macau, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Dajing","family":"Xia","sequence":"additional","affiliation":[{"name":"Department of Toxicology of School of Public Health, and Department of Gynecologic Oncology of Women's Hospital, Zhejiang University School of Medicine, Hangzhou 310058, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yihua","family":"Wu","sequence":"additional","affiliation":[{"name":"Department of Toxicology of School of Public Health, and Department of Gynecologic Oncology of Women's Hospital, Zhejiang University School of Medicine, Hangzhou 310058, China"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2020,7,7]]},"reference":[{"key":"2020072909465883400_ref1","doi-asserted-by":"crossref","first-page":"207","DOI":"10.1080\/15548627.2017.1378838","article-title":"Autophagy pathway: cellular and molecular mechanisms","volume":"14","author":"Yu","year":"2018","journal-title":"Autophagy"},{"key":"2020072909465883400_ref2","doi-asserted-by":"crossref","first-page":"11","DOI":"10.1016\/j.cell.2018.09.048","article-title":"Biological functions of autophagy genes: a disease perspective","volume":"176","author":"Levine","year":"2019","journal-title":"Cell"},{"key":"2020072909465883400_ref3","doi-asserted-by":"crossref","first-page":"1273","DOI":"10.4161\/auto.7.11.17661","article-title":"A comprehensive glossary of autophagy-related molecules and 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Sci."},{"key":"2020072909465883400_ref5","doi-asserted-by":"crossref","first-page":"1811","DOI":"10.15252\/embj.201796697","article-title":"Molecular definitions of autophagy and related processes","volume":"36","author":"Galluzzi","year":"2017","journal-title":"EMBO J."},{"key":"2020072909465883400_ref6","doi-asserted-by":"crossref","first-page":"349","DOI":"10.1038\/s41580-018-0003-4","article-title":"Mechanism and medical implications of mammalian autophagy","volume":"19","author":"Dikic","year":"2018","journal-title":"Nat. Rev. Mol. Cell Biol."},{"key":"2020072909465883400_ref7","doi-asserted-by":"crossref","first-page":"385","DOI":"10.1038\/s41580-019-0149-8","article-title":"Decelerating ageing and biological clocks by autophagy","volume":"20","author":"Lopez-Otin","year":"2019","journal-title":"Nat. Rev. Mol. Cell Biol."},{"key":"2020072909465883400_ref8","doi-asserted-by":"crossref","first-page":"e12403","DOI":"10.1111\/cpr.12403","article-title":"Autophagic compound database: a resource connecting autophagy-modulating compounds, their potential targets and relevant diseases","volume":"51","author":"Deng","year":"2018","journal-title":"Cell Prolif."},{"key":"2020072909465883400_ref9","doi-asserted-by":"crossref","first-page":"296","DOI":"10.1080\/15548627.2017.1402990","article-title":"THANATOS: an integrative data resource of proteins and post-translational modifications in the regulation of autophagy","volume":"14","author":"Deng","year":"2018","journal-title":"Autophagy"},{"key":"2020072909465883400_ref10","doi-asserted-by":"crossref","first-page":"1917","DOI":"10.1080\/15548627.2015.1089375","article-title":"ncRDeathDB: a comprehensive bioinformatics resource for deciphering network organization of the ncRNA-mediated cell death system","volume":"11","author":"Wu","year":"2015","journal-title":"Autophagy"},{"key":"2020072909465883400_ref11","doi-asserted-by":"crossref","first-page":"155","DOI":"10.4161\/15548627.2014.994346","article-title":"Autophagy regulatory network - a systems-level bioinformatics resource for studying the mechanism and regulation of autophagy","volume":"11","author":"Turei","year":"2015","journal-title":"Autophagy"},{"key":"2020072909465883400_ref12","doi-asserted-by":"crossref","first-page":"1403","DOI":"10.4161\/auto.29231","article-title":"Combined autophagy and HDAC inhibition: a phase I safety, tolerability, pharmacokinetic, and pharmacodynamic analysis of hydroxychloroquine in combination with the HDAC inhibitor vorinostat in patients with advanced solid tumors","volume":"10","author":"Mahalingam","year":"2014","journal-title":"Autophagy"},{"key":"2020072909465883400_ref13","doi-asserted-by":"crossref","first-page":"1391","DOI":"10.4161\/auto.29119","article-title":"Combined MTOR and autophagy inhibition: phase I trial of hydroxychloroquine and temsirolimus in patients with advanced solid tumors and melanoma","volume":"10","author":"Rangwala","year":"2014","journal-title":"Autophagy"},{"key":"2020072909465883400_ref14","doi-asserted-by":"crossref","first-page":"1359","DOI":"10.4161\/auto.28984","article-title":"A phase I\/II trial of hydroxychloroquine in conjunction with radiation therapy and concurrent and adjuvant temozolomide in patients with newly diagnosed glioblastoma multiforme","volume":"10","author":"Rosenfeld","year":"2014","journal-title":"Autophagy"},{"key":"2020072909465883400_ref15","doi-asserted-by":"crossref","first-page":"1380","DOI":"10.4161\/auto.29264","article-title":"Combined autophagy and proteasome inhibition: a phase 1 trial of hydroxychloroquine and bortezomib in patients with relapsed\/refractory myeloma","volume":"10","author":"Vogl","year":"2014","journal-title":"Autophagy"},{"key":"2020072909465883400_ref16","doi-asserted-by":"crossref","first-page":"760","DOI":"10.4161\/auto.7.7.15454","article-title":"The acquisition of resistance to TNF\u03b1 in breast cancer cells is associated with constitutive activation of autophagy as revealed by a transcriptome analysis using a custom microarray","volume":"7","author":"Moussay","year":"2011","journal-title":"Autophagy"},{"key":"2020072909465883400_ref17","doi-asserted-by":"crossref","first-page":"D986","DOI":"10.1093\/nar\/gkq995","article-title":"The autophagy database: an all-inclusive information resource on autophagy that provides nourishment for research","volume":"39","author":"Homma","year":"2011","journal-title":"Nucleic Acids Res."},{"key":"2020072909465883400_ref18","doi-asserted-by":"crossref","first-page":"34","DOI":"10.1186\/s13321-018-0289-4","article-title":"HAMdb: a database of human autophagy modulators with specific pathway and disease information","volume":"10","author":"Wang","year":"2018","journal-title":"J. Cheminform."},{"key":"2020072909465883400_ref19","doi-asserted-by":"crossref","first-page":"bay093","DOI":"10.1093\/database\/bay093","article-title":"ATD: a comprehensive bioinformatics resource for deciphering the association of autophagy and diseases","volume":"2018","author":"Wang","year":"2018","journal-title":"Database (Oxford)"},{"key":"2020072909465883400_ref20","doi-asserted-by":"crossref","first-page":"1110","DOI":"10.1080\/15548627.2018.1450020","article-title":"Mechanisms and context underlying the role of autophagy in cancer metastasis","volume":"14","author":"Dower","year":"2018","journal-title":"Autophagy"},{"key":"2020072909465883400_ref21","doi-asserted-by":"crossref","first-page":"1206","DOI":"10.1080\/15548627.2016.1170265","article-title":"Revisiting autophagy addiction of tumor cells","volume":"12","author":"Nyfeler","year":"2016","journal-title":"Autophagy"},{"key":"2020072909465883400_ref22","doi-asserted-by":"crossref","first-page":"528","DOI":"10.1038\/nrc.2017.53","article-title":"Targeting autophagy in cancer","volume":"17","author":"Levy","year":"2017","journal-title":"Nat. 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