{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,10,24]],"date-time":"2025-10-24T08:04:15Z","timestamp":1761293055462},"publisher-location":"Berlin, Heidelberg","reference-count":19,"publisher":"Springer Berlin Heidelberg","isbn-type":[{"type":"print","value":"9783642405105"},{"type":"electronic","value":"9783642405112"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2013]]},"DOI":"10.1007\/978-3-642-40511-2_30","type":"book-chapter","created":{"date-parts":[[2013,8,18]],"date-time":"2013-08-18T21:53:28Z","timestamp":1376862808000},"page":"416-430","source":"Crossref","is-referenced-by-count":15,"title":["ChEA2: Gene-Set Libraries from ChIP-X Experiments to Decode the Transcription Regulome"],"prefix":"10.1007","author":[{"given":"Yan","family":"Kou","sequence":"first","affiliation":[]},{"given":"Edward Y.","family":"Chen","sequence":"additional","affiliation":[]},{"given":"Neil R.","family":"Clark","sequence":"additional","affiliation":[]},{"given":"Qiaonan","family":"Duan","sequence":"additional","affiliation":[]},{"given":"Christopher M.","family":"Tan","sequence":"additional","affiliation":[]},{"given":"Avi","family":"Ma\u2018ayan","sequence":"additional","affiliation":[]}],"member":"297","reference":[{"key":"30_CR1","doi-asserted-by":"publisher","first-page":"2438","DOI":"10.1093\/bioinformatics\/btq466","volume":"26","author":"A. Lachmann","year":"2010","unstructured":"Lachmann, A., Xu, H., Krishnan, J., Berger, S.I., Mazloom, A.R., Ma\u2019ayan, A.: ChEA: transcription factor regulation inferred from integrating genome-wide ChIP-X experiments. Bioinformatics\u00a026, 2438\u20132444 (2010)","journal-title":"Bioinformatics"},{"key":"30_CR2","doi-asserted-by":"publisher","first-page":"1447","DOI":"10.1093\/bioinformatics\/btr156","volume":"27","author":"L. Chen","year":"2011","unstructured":"Chen, L., Wu, G., Ji, H.: hmChIP: a database and web server for exploring publicly available human and mouse ChIP-seq and ChIP-chip data. Bioinformatics\u00a027, 1447\u20131448 (2011)","journal-title":"Bioinformatics"},{"key":"30_CR3","doi-asserted-by":"publisher","first-page":"430","DOI":"10.1093\/nar\/gkr332","volume":"39","author":"J. Qin","year":"2011","unstructured":"Qin, J., Li, M.J., Wang, P., Zhang, M.Q., Wang, J.: ChIP-Array: combinatory analysis of ChIP-seq\/chip and microarray gene expression data to discover direct\/indirect targets of a transcription factor. Nucleic Acids Research\u00a039, W430\u2013W436 (2011)","journal-title":"Nucleic Acids Research"},{"key":"30_CR4","doi-asserted-by":"publisher","first-page":"19","DOI":"10.1186\/1471-2105-13-19","volume":"13","author":"C. Lepoivre","year":"2012","unstructured":"Lepoivre, C., Bergon, A., Lopez, F., Perumal, N., Nguyen, C., Imbert, J., Puthier, D.: TranscriptomeBrowser 3.0: introducing a new compendium of molecular interactions and a new visualization tool for the study of gene regulatory networks. BMC Bioinformatics\u00a013, 19 (2012)","journal-title":"BMC Bioinformatics"},{"key":"30_CR5","doi-asserted-by":"publisher","first-page":"1411","DOI":"10.1093\/bioinformatics\/bts157","volume":"28","author":"B. Qin","year":"2012","unstructured":"Qin, B., Zhou, M., Ge, Y., Taing, L., Liu, T., Wang, Q., Wang, S., Chen, J., Shen, L., Duan, X.: CistromeMap: a knowledgebase and web server for ChIP-Seq and DNase-Seq studies in mouse and human. Bioinformatics\u00a028, 1411\u20131412 (2012)","journal-title":"Bioinformatics"},{"key":"30_CR6","doi-asserted-by":"publisher","first-page":"1352","DOI":"10.1093\/bioinformatics\/btt135","volume":"29","author":"H. Sun","year":"2013","unstructured":"Sun, H., Qin, B., Liu, T., Wang, Q., Liu, J., Wang, J., Lin, X., Yang, Y., Taing, L., Rao, P.K., et al.: CistromeFinder for ChIP-seq and DNase-seq data reuse. Bioinformatics\u00a029, 1352\u20131354 (2013)","journal-title":"Bioinformatics"},{"key":"30_CR7","doi-asserted-by":"publisher","first-page":"405","DOI":"10.1186\/1471-2164-13-405","volume":"13","author":"L. Bovolenta","year":"2012","unstructured":"Bovolenta, L., Acencio, M., Lemke, N.: HTRIdb: an open-access database for experimentally verified human transcriptional regulation interactions. BMC Genomics\u00a013, 405 (2012)","journal-title":"BMC Genomics"},{"key":"30_CR8","doi-asserted-by":"publisher","first-page":"22","DOI":"10.1038\/nmeth.1371","volume":"6","author":"S. Pepke","year":"2009","unstructured":"Pepke, S., Wold, B., Mortazavi, A.: Computation for ChIP-seq and RNA-seq studies. Nat. Meth.\u00a06, S22\u2013S32 (2009)","journal-title":"Nat. Meth."},{"key":"30_CR9","doi-asserted-by":"publisher","first-page":"1952","DOI":"10.1093\/bioinformatics\/btp340","volume":"25","author":"C. Zang","year":"2009","unstructured":"Zang, C., Schones, D.E., Zeng, C., Cui, K., Zhao, K., Peng, W.: A clustering approach for identification of enriched domains from histone modification ChIP-Seq data. Bioinformatics\u00a025, 1952\u20131958 (2009)","journal-title":"Bioinformatics"},{"key":"30_CR10","doi-asserted-by":"crossref","unstructured":"The ENCODE Consortium Project, An integrated encyclopedia of DNA elements in the human genome. Nature 489, 57\u201374 (2012)","DOI":"10.1038\/nature11247"},{"key":"30_CR11","doi-asserted-by":"publisher","first-page":"128","DOI":"10.1186\/1471-2105-14-128","volume":"14","author":"E.Y. Chen","year":"2013","unstructured":"Chen, E.Y., Tan, C., Kou, Y., Duan, Q., Wang, Z., Meirelles, G., Clark, N.R., Ma\u2019ayan, A.: Enrichr: interactive and collaborative HTML5 gene list enrichment analysis tool. BMC Bioinformatics\u00a014, 128 (2013)","journal-title":"BMC Bioinformatics"},{"key":"30_CR12","unstructured":"Tan, C., Chen, E.Y., Dannenfelser, R., Clark, N.R., Ma\u2019ayan, A.: Network2Canvas: Network Visualization on a Canvas with Enrichment Analysis. Bioinformatics (2013) (published online: June 7, 2013)"},{"key":"30_CR13","doi-asserted-by":"publisher","first-page":"89","DOI":"10.1186\/1752-0509-6-89","volume":"6","author":"N. Clark","year":"2012","unstructured":"Clark, N., Dannenfelser, R., Tan, C., Komosinski, M., Ma\u2019ayan, A.: Sets2Networks: network inference from repeated observations of sets. BMC Systems Biology\u00a06, 89 (2012)","journal-title":"BMC Systems Biology"},{"key":"30_CR14","doi-asserted-by":"publisher","first-page":"372","DOI":"10.1186\/1471-2105-8-372","volume":"8","author":"S. Berger","year":"2007","unstructured":"Berger, S., Posner, J., Ma\u2019ayan, A.: Genes2Networks: connecting lists of gene symbols using mammalian protein interactions databases. BMC Bioinformatics\u00a08, 372 (2007)","journal-title":"BMC Bioinformatics"},{"issue":"1","key":"30_CR15","doi-asserted-by":"publisher","first-page":"881","DOI":"10.1093\/nar\/gkr974","volume":"40","author":"J.T. Eppig","year":"2012","unstructured":"Eppig, J.T., Blake, J.A., Bult, C.J., Kadin, J.A., Richardson, J.E.: The Mouse Genome Database (MGD): comprehensive resource for genetics and genomics of the laboratory mouse. Nucleic Acids Res.\u00a040(1), D881\u2013D886 (2012)","journal-title":"Nucleic Acids Res."},{"key":"30_CR16","doi-asserted-by":"publisher","first-page":"1817","DOI":"10.1073\/pnas.1305623110","volume":"110","author":"M. Decressac","year":"2013","unstructured":"Decressac, M., Mattsson, B., Weikop, P., Lundblad, M., Jakobsson, J., Bj\u00f6rklund, A.: TFEB-mediated autophagy rescues midbrain dopamine neurons from \u03b1-synuclein toxicity. Proc. Natl. Acad. Sci. U S A\u00a0110, E1817\u2013E1826 (2013)","journal-title":"Proc. Natl. Acad. Sci. U S A"},{"issue":"4-6","key":"30_CR17","first-page":"321","volume":"7","author":"T. Hai","year":"1999","unstructured":"Hai, T., Wolfgang, C.D., Marsee, D.K., Allen, A.E., Sivaprasad, U.: ATF3 and stress responses. Gene Expr.\u00a07(4-6), 321\u2013335 (1999)","journal-title":"Gene Expr."},{"issue":"5","key":"30_CR18","doi-asserted-by":"publisher","first-page":"337","DOI":"10.1111\/j.1600-0749.2005.00262.x","volume":"18","author":"S. Corre","year":"2005","unstructured":"Corre, S., Galibert, M.: Upstream stimulating factors: highly versatile stress-responsive transcription factors. Pigment Cell Res.\u00a018(5), 337\u2013348 (2005)","journal-title":"Pigment Cell Res."},{"key":"30_CR19","unstructured":"Holzinger, A.: On Knowledge Discovery and interactive intelligent visualization of biomedical data - Challenges in Human\u2013Computer Interaction & Biomedical Informatics. In: Helfert, M., Francalanci, C., Filipe, J. (eds.) Proceedings of the International Conference on Data Technologies and Application, Rome DATA 2012, Setubal (PT), pp. 3\u201316. SciTec Press (2012)"}],"container-title":["Lecture Notes in Computer Science","Availability, Reliability, and Security in Information Systems and HCI"],"original-title":[],"link":[{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1007\/978-3-642-40511-2_30","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2019,5,16]],"date-time":"2019-05-16T14:41:15Z","timestamp":1558017675000},"score":1,"resource":{"primary":{"URL":"http:\/\/link.springer.com\/10.1007\/978-3-642-40511-2_30"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2013]]},"ISBN":["9783642405105","9783642405112"],"references-count":19,"URL":"https:\/\/doi.org\/10.1007\/978-3-642-40511-2_30","relation":{},"ISSN":["0302-9743","1611-3349"],"issn-type":[{"type":"print","value":"0302-9743"},{"type":"electronic","value":"1611-3349"}],"subject":[],"published":{"date-parts":[[2013]]}}}