Paper Abstract and Keywords |
Presentation |
2022-11-24 14:15
Fast reconstruction of 3D chromosome structure based on an inverse transform of a recurrence plot Yoshito Hirata (U. Tsukuba) NLP2022-63 |
Abstract |
(in Japanese) |
(See Japanese page) |
(in English) |
A recurrence plot was originally proposed as a two-dimensional tool for visualizing a time series (Eckmann et al., EPL 1987; Marwan et al., Phys. Rep., 2007). It is known that one can recover a rough shape of the original time series from a recurrence plot (Hirata et al., Eur. Phys. J. Spec. Top., 2008; Hirata et al., Int. J. Bifurcat. Chaos, 2015; Khor & Small, Chaos, 2016). We use this property to reconstruct 3D chromosome structure from single cell Hi-C data (Hirata et al., Sci. Rep., 2016),
which record which parts of chromosomes are close to which parts (Nagano et al., Nature, 2013; Tan et al., Science, 2018). Furthermore, we improve this recovery process to make it run faster (Hirata et al., Chaos, 2021). The tool of nonlinear time series analysis is opening a door of new biology. |
Keyword |
(in Japanese) |
(See Japanese page) |
(in English) |
recurrence plots / inverse transform / single cell Hi-C data / 3D chromosome structure / reconstruction / / / |
Reference Info. |
IEICE Tech. Rep., vol. 122, no. 280, NLP2022-63, pp. 31-34, Nov. 2022. |
Paper # |
NLP2022-63 |
Date of Issue |
2022-11-17 (NLP) |
ISSN |
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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NLP2022-63 |
Conference Information |
Committee |
NLP |
Conference Date |
2022-11-24 - 2022-11-25 |
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(See Japanese page) |
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Paper Information |
Registration To |
NLP |
Conference Code |
2022-11-NLP |
Language |
Japanese |
Title (in Japanese) |
(See Japanese page) |
Sub Title (in Japanese) |
(See Japanese page) |
Title (in English) |
Fast reconstruction of 3D chromosome structure based on an inverse transform of a recurrence plot |
Sub Title (in English) |
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Keyword(1) |
recurrence plots |
Keyword(2) |
inverse transform |
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single cell Hi-C data |
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3D chromosome structure |
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reconstruction |
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1st Author's Name |
Yoshito Hirata |
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University of Tsukuba (U. Tsukuba) |
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Speaker |
Author-1 |
Date Time |
2022-11-24 14:15:00 |
Presentation Time |
25 minutes |
Registration for |
NLP |
Paper # |
NLP2022-63 |
Volume (vol) |
vol.122 |
Number (no) |
no.280 |
Page |
pp.31-34 |
#Pages |
4 |
Date of Issue |
2022-11-17 (NLP) |
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