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dc.contributor.authorBajic, VB
dc.contributor.authorTan, SL
dc.contributor.authorChristoffels, A
dc.contributor.authorSchonbach, C
dc.contributor.authorLipovich, L
dc.contributor.authorYang, L
dc.contributor.authorHofmann, O
dc.contributor.authorKruger, A
dc.contributor.authorHide, W
dc.contributor.authorKai, C
dc.contributor.authorKawai, J
dc.contributor.authorHume, DA
dc.contributor.authorCarninci, P
dc.contributor.authorHayashizaki, Y
dc.date.accessioned2021-02-04T02:22:45Z
dc.date.available2021-02-04T02:22:45Z
dc.date.issued2006-04-01
dc.identifier.citationBajic, V. B., Tan, S. L., Christoffels, A., Schonbach, C., Lipovich, L., Yang, L., Hofmann, O., Kruger, A., Hide, W., Kai, C., Kawai, J., Hume, D. A., Carninci, P. & Hayashizaki, Y. (2006). Mice and men: Their promoter properties. PLOS GENETICS, 2 (4), pp.614-626. https://doi.org/10.1371/journal.pgen.0020054.
dc.identifier.issn1553-7404
dc.identifier.urihttp://hdl.handle.net/11343/259659
dc.description.abstractUsing the two largest collections of Mus musculus and Homo sapiens transcription start sites (TSSs) determined based on CAGE tags, ditags, full-length cDNAs, and other transcript data, we describe the compositional landscape surrounding TSSs with the aim of gaining better insight into the properties of mammalian promoters. We classified TSSs into four types based on compositional properties of regions immediately surrounding them. These properties highlighted distinctive features in the extended core promoters that helped us delineate boundaries of the transcription initiation domain space for both species. The TSS types were analyzed for associations with initiating dinucleotides, CpG islands, TATA boxes, and an extensive collection of statistically significant cis-elements in mouse and human. We found that different TSS types show preferences for different sets of initiating dinucleotides and cis-elements. Through Gene Ontology and eVOC categories and tissue expression libraries we linked TSS characteristics to expression. Moreover, we show a link of TSS characteristics to very specific genomic organization in an example of immune-response-related genes (GO:0006955). Our results shed light on the global properties of the two transcriptomes not revealed before and therefore provide the framework for better understanding of the transcriptional mechanisms in the two species, as well as a framework for development of new and more efficient promoter- and gene-finding tools.
dc.languageEnglish
dc.publisherPUBLIC LIBRARY SCIENCE
dc.rights.urihttps://creativecommons.org/licenses/by/4.0
dc.titleMice and men: Their promoter properties
dc.typeJournal Article
dc.identifier.doi10.1371/journal.pgen.0020054
melbourne.affiliation.departmentClinical Pathology
melbourne.affiliation.facultyMedicine, Dentistry & Health Sciences
melbourne.source.titlePLoS Genetics
melbourne.source.volume2
melbourne.source.issue4
melbourne.source.pages614-626
dc.rights.licenseCC BY
melbourne.elementsid1220655
melbourne.contributor.authorHofmann, Oliver
dc.identifier.eissn1553-7404
melbourne.accessrightsOpen Access


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