{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,2,26]],"date-time":"2026-02-26T21:49:35Z","timestamp":1772142575446,"version":"3.50.1"},"reference-count":15,"publisher":"Springer Science and Business Media LLC","issue":"1","license":[{"start":{"date-parts":[[2017,6,2]],"date-time":"2017-06-02T00:00:00Z","timestamp":1496361600000},"content-version":"tdm","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"},{"start":{"date-parts":[[2017,6,2]],"date-time":"2017-06-02T00:00:00Z","timestamp":1496361600000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/100000002","name":"National Institutes of Health","doi-asserted-by":"publisher","award":["P01-HD39691"],"award-info":[{"award-number":["P01-HD39691"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000002","name":"National Institutes of Health","doi-asserted-by":"publisher","award":["P01-HD39691"],"award-info":[{"award-number":["P01-HD39691"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000002","name":"National Institutes of Health","doi-asserted-by":"publisher","award":["P01-HD39691"],"award-info":[{"award-number":["P01-HD39691"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100004329","name":"Slovenian Research Agency","doi-asserted-by":"crossref","award":["P2-0209"],"award-info":[{"award-number":["P2-0209"]}],"id":[{"id":"10.13039\/501100004329","id-type":"DOI","asserted-by":"crossref"}]},{"DOI":"10.13039\/501100004329","name":"Slovenian Research Agency","doi-asserted-by":"crossref","award":["J2-5480"],"award-info":[{"award-number":["J2-5480"]}],"id":[{"id":"10.13039\/501100004329","id-type":"DOI","asserted-by":"crossref"}]},{"DOI":"10.13039\/100000092","name":"U.S. National Library of Medicine","doi-asserted-by":"publisher","award":["T15LM007093-21"],"award-info":[{"award-number":["T15LM007093-21"]}],"id":[{"id":"10.13039\/100000092","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["BMC Bioinformatics"],"published-print":{"date-parts":[[2017,12]]},"DOI":"10.1186\/s12859-017-1706-9","type":"journal-article","created":{"date-parts":[[2017,6,2]],"date-time":"2017-06-02T11:56:24Z","timestamp":1496404584000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":41,"title":["dictyExpress: a web-based platform for sequence data management and analytics in Dictyostelium and beyond"],"prefix":"10.1186","volume":"18","author":[{"given":"Miha","family":"Stajdohar","sequence":"first","affiliation":[]},{"ORCID":"https:\/\/orcid.org\/0000-0002-3216-4048","authenticated-orcid":false,"given":"Rafael D.","family":"Rosengarten","sequence":"additional","affiliation":[]},{"given":"Janez","family":"Kokosar","sequence":"additional","affiliation":[]},{"given":"Luka","family":"Jeran","sequence":"additional","affiliation":[]},{"given":"Domen","family":"Blenkus","sequence":"additional","affiliation":[]},{"given":"Gad","family":"Shaulsky","sequence":"additional","affiliation":[]},{"given":"Blaz","family":"Zupan","sequence":"additional","affiliation":[]}],"member":"297","published-online":{"date-parts":[[2017,6,2]]},"reference":[{"key":"1706_CR1","first-page":"241","volume":"56","author":"K Raper","year":"1940","unstructured":"Raper K. Pseudoplasmodium formation and organization in dictyostelium discoideum. J Elisha Mitchell Sci Soc. 1940; 56:241\u201382.","journal-title":"J Elisha Mitchell Sci Soc"},{"issue":"3","key":"1706_CR2","doi-asserted-by":"publisher","first-page":"717","DOI":"10.1534\/genetics.110.119297","volume":"185","author":"J Williams","year":"2010","unstructured":"Williams J. Dictyostelium finds new roles to model. Genetics. 2010; 185(3):717\u201326.","journal-title":"Genetics"},{"issue":"7038","key":"1706_CR3","doi-asserted-by":"publisher","first-page":"43","DOI":"10.1038\/nature03481","volume":"435","author":"L Eichinger","year":"2005","unstructured":"Eichinger L, Pachebat JA, Glockner G, Rajandream MA, Sucgang R, Berriman M, Song J, Olsen R, Szafranski K, Xu Q, Tunggal B, Kummerfeld S, Madera M, Konfortov BA, Rivero F, Bankier AT, Lehmann R, Hamlin N, Davies R, Gaudet P, Fey P, Pilcher K, Chen G, Saunders D, Sodergren E, Davis P, Kerhornou A, Nie X, Hall N, Anjard C, Hemphill L, Bason N, Farbrother P, Desany B, Just E, Morio T, Rost R, Churcher C, Cooper J, Haydock S, van Driessche N, Cronin A, Goodhead I, Muzny D, Mourier T, Pain A, Lu M, Harper D, Lindsay R, Hauser H, James K, Quiles M, Madan Babu M, Saito T, Buchrieser C, Wardroper A, Felder M, Thangavelu M, Johnson D, Knights A, Loulseged H, Mungall K, Oliver K, Price C, Quail MA, Urushihara H, Hernandez J, Rabbinowitsch E, Steffen D, Sanders M, Ma J, Kohara Y, Sharp S, Simmonds M, Spiegler S, Tivey A, Sugano S, White B, Walker D, Woodward J, Winckler T, Tanaka Y, Shaulsky G, Schleicher M, Weinstock G, Rosenthal A, Cox EC, Chisholm RL, Gibbs R, Loomis WF, Platzer M, Kay RR, Williams J, Dear PH, Noegel AA, Barrell B, Kuspa A. The genome of the social amoeba Dictyostelium discoideum. Nature. 2005; 435(7038):43\u201357.","journal-title":"Nature"},{"issue":"7","key":"1706_CR4","doi-asserted-by":"crossref","first-page":"1543","DOI":"10.1242\/dev.129.7.1543","volume":"129","author":"N Van Driessche","year":"2002","unstructured":"Van Driessche N, Shaw C, Katoh M, Morio T, Sucgang R, Ibarra M, Kuwayama H, Saito T, Urushihara H, Maeda M, Takeuchi I, Ochiai H, Eaton W, Tollett J, Halter J, Kuspa A, Tanaka Y, Shaulsky G. A transcriptional profile of multicellular development in Dictyostelium discoideum. Development. 2002; 129(7):1543\u201352.","journal-title":"Development"},{"issue":"3","key":"1706_CR5","doi-asserted-by":"publisher","first-page":"35","DOI":"10.1186\/gb-2010-11-3-r35","volume":"11","author":"A Parikh","year":"2010","unstructured":"Parikh A, Miranda ER, Katoh-Kurasawa M, Fuller D, Rot G, Zagar L, Curk T, Sucgang R, Chen R, Zupan B, Loomis WF, Kuspa A, Shaulsky G. Conserved developmental transcriptomes in evolutionarily divergent species. Genome Biol. 2010; 11(3):35.","journal-title":"Genome Biol"},{"key":"1706_CR6","doi-asserted-by":"publisher","first-page":"294","DOI":"10.1186\/s12864-015-1491-7","volume":"16","author":"RD Rosengarten","year":"2015","unstructured":"Rosengarten RD, Santhanam B, Fuller D, Katoh-Kurasawa M, Loomis WF, Zupan B, Shaulsky G. Leaps and lulls in the developmental transcriptome of Dictyostelium discoideum. BMC Genomics. 2015; 16:294.","journal-title":"BMC Genomics"},{"issue":"2","key":"1706_CR7","doi-asserted-by":"publisher","first-page":"387","DOI":"10.1534\/g3.116.037150","volume":"7","author":"RD Rosengarten","year":"2017","unstructured":"Rosengarten RD, Santhanam B, Kokosar J, Shaulsky G. The long non-coding RNA transcriptome of dictyostelium discoideum development. G3: Genes | Genomes | Genetics. 2017; 7(2):387\u201398.","journal-title":"G3: Genes | Genomes | Genetics"},{"key":"1706_CR8","doi-asserted-by":"publisher","first-page":"7551","DOI":"10.1038\/ncomms8551","volume":"6","author":"B Santhanam","year":"2015","unstructured":"Santhanam B, Cai H, Devreotes PN, Shaulsky G, Katoh-Kurasawa M. The GATA transcription factor GtaC regulates early developmental gene expression dynamics in Dictyostelium. Nat Commun. 2015; 6:7551.","journal-title":"Nat Commun"},{"issue":"9","key":"1706_CR9","doi-asserted-by":"publisher","first-page":"1268","DOI":"10.1101\/gr.205682.116","volume":"26","author":"CL Li","year":"2016","unstructured":"Li CL, Santhanam B, Webb AN, Zupan B, Shaulsky G. Gene discovery by chemical mutagenesis and whole-genome sequencing in Dictyostelium. Genome Res. 2016; 26(9):1268\u201376.","journal-title":"Genome Res"},{"key":"1706_CR10","doi-asserted-by":"publisher","first-page":"265","DOI":"10.1186\/1471-2105-10-265","volume":"10","author":"G Rot","year":"2009","unstructured":"Rot G, Parikh A, Curk T, Kuspa A, Shaulsky G, Zupan B. dictyExpress: a Dictyostelium discoideum gene expression database with an explorative data analysis web-based interface. BMC Bioinforma. 2009; 10:265.","journal-title":"BMC Bioinforma"},{"key":"1706_CR11","doi-asserted-by":"crossref","DOI":"10.1201\/b10683","volume-title":"Interactive Data Visualisation","author":"M Ward","year":"2010","unstructured":"Ward M, Grinstein G, Keim D. Interactive Data Visualisation. Natick, Massachusetts: A K Peters, Ltd.; 2010."},{"key":"1706_CR12","doi-asserted-by":"publisher","first-page":"422","DOI":"10.1186\/1471-2105-11-422","volume":"11","author":"TJ Hardcastle","year":"2010","unstructured":"Hardcastle TJ, Kelly KA. baySeq: empirical Bayesian methods for identifying differential expression in sequence count data. BMC Bioinforma. 2010; 11:422.","journal-title":"BMC Bioinforma"},{"issue":"1","key":"1706_CR13","doi-asserted-by":"publisher","first-page":"871","DOI":"10.1186\/s12864-016-3223-z","volume":"17","author":"C Schilde","year":"2016","unstructured":"Schilde C, Lawal HM, Noegel AA, Eichinger L, Schaap P, Glockner G. A set of genes conserved in sequence and expression traces back the establishment of multicellularity in social amoebae. BMC Genomics. 2016; 17(1):871.","journal-title":"BMC Genomics"},{"key":"1706_CR14","doi-asserted-by":"publisher","first-page":"12085","DOI":"10.1038\/ncomms12085","volume":"7","author":"G Glockner","year":"2016","unstructured":"Glockner G, Lawal HM, Felder M, Singh R, Singer G, Weijer CJ, Schaap P. The multicellularity genes of dictyostelid social amoebas. Nat Commun. 2016; 7:12085.","journal-title":"Nat Commun"},{"key":"1706_CR15","doi-asserted-by":"publisher","first-page":"10938","DOI":"10.1038\/ncomms10938","volume":"7","author":"X Zhang","year":"2016","unstructured":"Zhang X, Zhuchenko O, Kuspa A, Soldati T. Social amoebae trap and kill bacteria by casting DNA nets. Nat Commun. 2016; 7:10938.","journal-title":"Nat Commun"}],"container-title":["BMC Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/s12859-017-1706-9.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/article\/10.1186\/s12859-017-1706-9\/fulltext.html","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1186\/s12859-017-1706-9.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2022,7,29]],"date-time":"2022-07-29T02:45:16Z","timestamp":1659062716000},"score":1,"resource":{"primary":{"URL":"https:\/\/bmcbioinformatics.biomedcentral.com\/articles\/10.1186\/s12859-017-1706-9"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2017,6,2]]},"references-count":15,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2017,12]]}},"alternative-id":["1706"],"URL":"https:\/\/doi.org\/10.1186\/s12859-017-1706-9","relation":{},"ISSN":["1471-2105"],"issn-type":[{"value":"1471-2105","type":"electronic"}],"subject":[],"published":{"date-parts":[[2017,6,2]]},"assertion":[{"value":"30 November 2016","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"23 May 2017","order":2,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"2 June 2017","order":3,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}}],"article-number":"291"}}