Blockclust: efficient clustering and classification of non-coding rnas from short Read RNA-seq profiles
Author:
Abstract
Sequence and secondary structure analysis can be used to assign putative functions to non-coding RNAs. However sequence information is changed by post-transcriptional modifications and secondary structure is only a proxy for the true 3D conformation of the RNA polymer. In order to tackle these issues we can extract a different type of description using the pattern of processing that can be observed through the traces left in small RNA-seq reads data. To obtain an efficient and scalable procedure, we propose to encode expression profiles in discrete structures, and process them using fast graph-kernel techniques.
- Citation
- BibTeX
Videm, P., Rose, D., Costa, F. & Backofen, R.,
(2014).
Blockclust: efficient clustering and classification of non-coding rnas from short Read RNA-seq profiles.
In:
Giegerich, R., Hofestädt, R. & Nattkemper, T. W.
(Hrsg.),
German conference on bioinformatics 2014.
Bonn:
Gesellschaft für Informatik e.V..
(S. 1-22).
@inproceedings{mci/Videm2014,
author = {Videm, Pavankumar AND Rose, Dominic AND Costa, Fabrizio AND Backofen, Rolf},
title = {Blockclust: efficient clustering and classification of non-coding rnas from short Read RNA-seq profiles},
booktitle = {German conference on bioinformatics 2014},
year = {2014},
editor = {Giegerich, Robert AND Hofestädt, Ralf AND Nattkemper, Tim W.} ,
pages = { 1-22 },
publisher = {Gesellschaft für Informatik e.V.},
address = {Bonn}
}
author = {Videm, Pavankumar AND Rose, Dominic AND Costa, Fabrizio AND Backofen, Rolf},
title = {Blockclust: efficient clustering and classification of non-coding rnas from short Read RNA-seq profiles},
booktitle = {German conference on bioinformatics 2014},
year = {2014},
editor = {Giegerich, Robert AND Hofestädt, Ralf AND Nattkemper, Tim W.} ,
pages = { 1-22 },
publisher = {Gesellschaft für Informatik e.V.},
address = {Bonn}
}
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More Info
ISBN: 978-3-88579-629-9
ISSN: 1617-5468
xmlui.MetaDataDisplay.field.date: 2014
Language:
(en)

Content Type: Text/Conference Paper