Paper Abstract and Keywords |
Presentation |
2015-01-26 16:15
A Two Phase Scheme for De Novo Genome Assembly based on de Bruijn Graphs for Multiple Short Read Sets Takuto Shigenobu, Morikazu Nakamura (Univ. of the Ryukyus) MSS2014-75 SS2014-39 |
Abstract |
(in Japanese) |
(See Japanese page) |
(in English) |
We propose a two phase scheme for de novo genome assembly based on de Bruijn graphs.
Given multiple short read sets obtained with different environments but for a same target genome, our scheme applies firstly a de Bruijn Graph based assembly algorithm to each and then perform again the algorithm for the obtained contigs.
Moreover, we present a generalized extension of our proposed scheme.
Computer experiment shows that our approach performs effectively for some benchmark test data. |
Keyword |
(in Japanese) |
(See Japanese page) |
(in English) |
DNA assembly / de Bruijn graph / de novo assembly / two phase assemblyl / / / / |
Reference Info. |
IEICE Tech. Rep., vol. 114, no. 415, MSS2014-75, pp. 37-41, Jan. 2015. |
Paper # |
MSS2014-75 |
Date of Issue |
2015-01-19 (MSS, SS) |
ISSN |
Print edition: ISSN 0913-5685 Online edition: ISSN 2432-6380 |
Copyright and reproduction |
All rights are reserved and no part of this publication may be reproduced or transmitted in any form or by any means, electronic or mechanical, including photocopy, recording, or any information storage and retrieval system, without permission in writing from the publisher. Notwithstanding, instructors are permitted to photocopy isolated articles for noncommercial classroom use without fee. (License No.: 10GA0019/12GB0052/13GB0056/17GB0034/18GB0034) |
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MSS2014-75 SS2014-39 |
Conference Information |
Committee |
MSS SS |
Conference Date |
2015-01-26 - 2015-01-27 |
Place (in Japanese) |
(See Japanese page) |
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Paper Information |
Registration To |
MSS |
Conference Code |
2015-01-MSS-SS |
Language |
Japanese |
Title (in Japanese) |
(See Japanese page) |
Sub Title (in Japanese) |
(See Japanese page) |
Title (in English) |
A Two Phase Scheme for De Novo Genome Assembly based on de Bruijn Graphs for Multiple Short Read Sets |
Sub Title (in English) |
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Keyword(1) |
DNA assembly |
Keyword(2) |
de Bruijn graph |
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de novo assembly |
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two phase assemblyl |
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1st Author's Name |
Takuto Shigenobu |
1st Author's Affiliation |
University of the Ryukyus (Univ. of the Ryukyus) |
2nd Author's Name |
Morikazu Nakamura |
2nd Author's Affiliation |
University of the Ryukyus (Univ. of the Ryukyus) |
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Speaker |
Author-1 |
Date Time |
2015-01-26 16:15:00 |
Presentation Time |
25 minutes |
Registration for |
MSS |
Paper # |
MSS2014-75, SS2014-39 |
Volume (vol) |
vol.114 |
Number (no) |
no.415(MSS), no.416(SS) |
Page |
pp.37-41 |
#Pages |
5 |
Date of Issue |
2015-01-19 (MSS, SS) |
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