The statistical geometry of transcriptome divergence in cell-type evolution and cancer

Liang, Cong, The FANTOM Consortium, Forrest, Alistair R. R., Wagner, Guenter P., Kenna, Tony, Beckhouse, Anthony, Blumenthal, Antje, Briggs, James, Hitchens, Kelly, Ovchinnikov, Dmitry, Vijayan, Dipti, Wells, Christine and Wolvetang, Ernst (2015) The statistical geometry of transcriptome divergence in cell-type evolution and cancer. Nature Communications, 6 . doi:10.1038/ncomms7066

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Author Liang, Cong
The FANTOM Consortium
Forrest, Alistair R. R.
Wagner, Guenter P.
Kenna, Tony
Beckhouse, Anthony
Blumenthal, Antje
Briggs, James
Hitchens, Kelly
Ovchinnikov, Dmitry
Vijayan, Dipti
Wells, Christine
Wolvetang, Ernst
Title The statistical geometry of transcriptome divergence in cell-type evolution and cancer
Journal name Nature Communications   Check publisher's open access policy
ISSN 2041-1723
Publication date 2015-01-01
Year available 2015
Sub-type Article (original research)
DOI 10.1038/ncomms7066
Open Access Status DOI
Volume 6
Total pages 6
Place of publication London, United Kingdom
Publisher Nature Publishing Group
Language eng
Abstract In evolution, body plan complexity increases due to an increase in the number of individualized cell types. Yet, there is very little understanding of the mechanisms that produce this form of organismal complexity. One model for the origin of novel cell types is the sister cell-type model. According to this model, each cell type arises together with a sister cell type through specialization from an ancestral cell type. A key prediction of the sister cell-type model is that gene expression profiles of cell types exhibit tree structure. Here we present a statistical model for detecting tree structure in transcriptomic data and apply it to transcriptomes from ENCODE and FANTOM5. We show that transcriptomes of normal cells harbour substantial amounts of hierarchical structure. In contrast, cancer cell lines have less tree structure, suggesting that the emergence of cancer cells follows different principles from that of evolutionary cell-type origination.
Keyword Multidisciplinary Sciences
Science & Technology - Other Topics
Q-Index Code C1
Q-Index Status Provisional Code
Grant ID 54860
Institutional Status UQ

Document type: Journal Article
Sub-type: Article (original research)
Collections: Official 2016 Collection
UQ Diamantina Institute Publications
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Citation counts: TR Web of Science Citation Count  Cited 16 times in Thomson Reuters Web of Science Article | Citations
Scopus Citation Count Cited 18 times in Scopus Article | Citations
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