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Shinichi Morishita
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:
CGC1, a new reference genome for
Caenorhabditis elegans
Kazuki Ichikawa
,
Massa J. Shoura
,
Karen L. Artiles
,
Dae-Eun Jeong
,
Chie Owa
,
Haruka Kobayashi
,
Yoshihiko Suzuki
,
Manami Kanamori
,
Yu Toyoshima
,
Yuichi Iino
,
Ann E. Rougvie
,
Lamia Wahba
,
Andrew Z. Fire
,
Erich M. Schwarz
,
and
Shinichi Morishita
Genome Res.
August 2025
35
:
1902
-
1918
;
Published in Advance
July 15, 2025
,
doi:
10.1101/gr.280274.124
Abstract
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Method
:
Highly accurate assembly polishing with DeepPolisher
Mira Mastoras
,
Mobin Asri
,
Lucas Brambrink
,
Prajna Hebbar
,
Alexey Kolesnikov
,
Daniel E. Cook
,
Maria Nattestad
,
Julian Lucas
,
Taylor S. Won
,
Pi-Chuan Chang
,
Andrew Carroll
,
Benedict Paten
,
Kishwar Shafin
,
and
and the Human Pangenome Reference Consortium
Genome Res.
July 2025
35
:
1595
-
1608
;
Published in Advance
May 19, 2025
,
doi:
10.1101/gr.280149.124
Abstract
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Research
:
CTCF looping is established during gastrulation in medaka embryos
Ryohei Nakamura
,
Yuichi Motai
,
Masahiko Kumagai
,
Candice L. Wike
,
Haruyo Nishiyama
,
Yoichiro Nakatani
,
Neva C. Durand
,
Kaori Kondo
,
Takashi Kondo
,
Tatsuya Tsukahara
,
Atsuko Shimada
,
Bradley R. Cairns
,
Erez Lieberman Aiden
,
Shinichi Morishita
,
and
Hiroyuki Takeda
Genome Res.
June 2021
31
:
968
-
980
;
Published in Advance
May 18, 2021
,
doi:
10.1101/gr.269951.120
Abstract
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Resource
:
Recompleting the
Caenorhabditis elegans
genome
Jun Yoshimura
,
Kazuki Ichikawa
,
Massa J. Shoura
,
Karen L. Artiles
,
Idan Gabdank
,
Lamia Wahba
,
Cheryl L. Smith
,
Mark L. Edgley
,
Ann E. Rougvie
,
Andrew Z. Fire
,
Shinichi Morishita
,
and
Erich M. Schwarz
Genome Res.
June 2019
29
:
1009
-
1022
;
Published in Advance
May 23, 2019
,
doi:
10.1101/gr.244830.118
Abstract
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Resource
:
The transcription start site landscape of
C. elegans
Taro Leo Saito
,
Shin-ichi Hashimoto
,
Sam Guoping Gu
,
J. Jason Morton
,
Michael Stadler
,
Thomas Blumenthal
,
Andrew Fire
,
and
Shinichi Morishita
Genome Res.
August 2013
23
:
1348
-
1361
;
Published in Advance
May 1, 2013
,
doi:
10.1101/gr.151571.112
Abstract
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Research
:
Genome-wide genetic variations are highly correlated with proximal DNA methylation patterns
Wei Qu
,
Shin-ichi Hashimoto
,
Atsuko Shimada
,
Yoichiro Nakatani
,
Kazuki Ichikawa
,
Taro L. Saito
,
Katsumi Ogoshi
,
Kouji Matsushima
,
Yutaka Suzuki
,
Sumio Sugano
,
Hiroyuki Takeda
,
and
Shinichi Morishita
Genome Res.
August 2012
22
:
1419
-
1425
;
Published in Advance
June 11, 2012
,
doi:
10.1101/gr.140236.112
Abstract
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Resource
:
Efficient frequency-based de novo short-read clustering for error trimming in next-generation sequencing
Wei Qu
,
Shin-ichi Hashimoto
,
and
Shinichi Morishita
Genome Res.
July 2009
19
:
1309
-
1315
;
Published in Advance
May 13, 2009
,
doi:
10.1101/gr.089151.108
Abstract
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ARTICLE
:
Reconstruction of the vertebrate ancestral genome reveals dynamic genome reorganization in early vertebrates
Yoichiro Nakatani
,
Hiroyuki Takeda
,
Yuji Kohara
,
and
Shinichi Morishita
Genome Res.
September 2007
17
:
1254
-
1265
;
Published in Advance
July 25, 2007
,
doi:
10.1101/gr.6316407
Abstract
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REPORT
:
Identification and Characterization of the Potential Promoter Regions of 1031 Kinds of Human Genes
Yutaka Suzuki
,
Tatsuhiko Tsunoda
,
Jun Sese
,
Hirotoshi Taira
,
Junko Mizushima-Sugano
,
Hiroko Hata
,
Toshio Ota
,
Takao Isogai
,
Toshihiro Tanaka
,
Yusuke Nakamura
,
Akira Suyama
,
Yoshiyuki Sakaki
,
Shinichi Morishita
,
Kousaku Okubo
,
and
Sumio Sugano
Genome Res.
May 1, 2001
11
:
677
-
684
;
Published in Advance
April 11, 2001
,
doi:
10.1101/gr.164001
Abstract
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RESOURCE
:
BodyMap: A Collection of 3′ ESTs for Analysis of Human Gene Expression Information
Shoko Kawamoto
,
Junji Yoshii
,
Katsuya Mizuno
,
Kouichi Ito
,
Yasuhide Miyamoto
,
Tadashi Ohnishi
,
Ryo Matoba
,
Naohiro Hori
,
Yuhiko Matsumoto
,
Toshiyuki Okumura
,
Yuko Nakao
,
Hisae Yoshii
,
Junko Arimoto
,
Hiroko Ohashi
,
Hiroko Nakanishi
,
Ikko Ohno
,
Jun Hashimoto
,
Kota Shimizu
,
Kazuhisa Maeda
,
Hiroshi Kuriyama
,
Koji Nishida
,
Akiyo Shimizu-Matsumoto
,
Wakako Adachi
,
Reiko Ito
,
Satoshi Kawasaki
,
K.S. Chae
,
Katsuji Murakawa
,
Masahiro Yokoyama
,
Atsushi Fukushima
,
Teruyoshi Hishiki
,
Akihiko Nakaya
,
Jun Sese
,
Norikazu Monma
,
Hitoshi Nikaido
,
Shinichi Morishita
,
Kenichi Matsubara
,
and
Kousaku Okubo
Genome Res.
November 1, 2000
10
:
1817
-
1827
;
doi:
10.1101/gr.151500
Abstract
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