Search | Genome Research

Method

Data integration and inference of gene regulation using single-cell temporal multimodal data with scTIE

Yingxin Lin
Tung-Yu Wu
Xi Chen
Sheng Wan
Brian Chao
Jingxue Xin
Jean Y.H. Yang
Wing H. Wong
Y.X. Rachel Wang

First Published December 15, 2023

Corrigendum

Corrigendum: Functional annotation of human long noncoding RNAs via molecular phenotyping

Jordan A. Ramilowski
Chi Wai Yip
Saumya Agrawal
Jen-Chien Chang
Yari Ciani
Ivan V. Kulakovskiy Mickaël Mendez Jasmine Li Ching Ooi John F. Ouyang Nick Parkinson Andreas Petri Leonie Roos Jessica Severin Kayoko Yasuzawa Imad Abugessaisa Altuna Akalin Ivan V. Antonov Erik Arner Alessandro Bonetti Hidemasa Bono Beatrice Borsari Frank Brombacher Christopher J.F. Cameron Carlo Vittorio Cannistraci Ryan Cardenas Melissa Cardon Howard Chang Josée Dostie Luca Ducoli Alexander Favorov Alexandre Fort Diego Garrido Noa Gil Juliette Gimenez Reto Guler Lusy Handoko Jayson Harshbarger Akira Hasegawa Yuki Hasegawa Kosuke Hashimoto Norihito Hayatsu Peter Heutink Tetsuro Hirose Eddie L. Imada Masayoshi Itoh Bogumil Kaczkowski Aditi Kanhere Emily Kawabata Hideya Kawaji Tsugumi Kawashima S. Thomas Kelly Miki Kojima Naoto Kondo Haruhiko Koseki Tsukasa Kouno Anton Kratz Mariola Kurowska-Stolarska Andrew Tae Jun Kwon Jeffrey Leek Andreas Lennartsson Marina Lizio Fernando López-Redondo Joachim Luginbühl Shiori Maeda Vsevolod J. Makeev Luigi Marchionni Yulia A. Medvedeva Aki Minoda Ferenc Müller Manuel Muñoz-Aguirre Mitsuyoshi Murata Hiromi Nishiyori Kazuhiro R. Nitta Shuhei Noguchi Yukihiko Noro Ramil Nurtdinov Yasushi Okazaki Valerio Orlando Denis Paquette Callum J.C. Parr Owen J.L. Rackham Patrizia Rizzu Diego Fernando Sánchez Martinez Albin Sandelin Pillay Sanjana Colin A.M. Semple Youtaro Shibayama Divya M. Sivaraman Takahiro Suzuki Suzannah C. Szumowski Michihira Tagami Martin S. Taylor Chikashi Terao Malte Thodberg Supat Thongjuea Vidisha Tripathi Igor Ulitsky Roberto Verardo Ilya E. Vorontsov Chinatsu Yamamoto Robert S. Young J. Kenneth Baillie Alistair R.R. Forrest Roderic Guigó Michael M. Hoffman Chung Chau Hon Takeya Kasukawa Sakari Kauppinen Juha Kere Boris Lenhard Claudio Schneider Harukazu Suzuki
... [+107 authors] ...,
Ken Yagi
Michiel J.L. de Hoon
Jay W. Shin
Piero Carninci

First Published September 14, 2020

Resource

Functional annotation of human long noncoding RNAs via molecular phenotyping

Jordan A. Ramilowski
Chi Wai Yip
Saumya Agrawal
Jen-Chien Chang
Yari Ciani
Ivan V. Kulakovskiy Mickaël Mendez Jasmine Li Ching Ooi John F. Ouyang Nick Parkinson Andreas Petri Leonie Roos Jessica Severin Kayoko Yasuzawa Imad Abugessaisa Altuna Akalin Ivan V. Antonov Erik Arner Alessandro Bonetti Hidemasa Bono Beatrice Borsari Frank Brombacher Christopher J.F. Cameron Carlo Vittorio Cannistraci Ryan Cardenas Melissa Cardon Howard Chang Josée Dostie Luca Ducoli Alexander Favorov Alexandre Fort Diego Garrido Noa Gil Juliette Gimenez Reto Guler Lusy Handoko Jayson Harshbarger Akira Hasegawa Yuki Hasegawa Kosuke Hashimoto Norihito Hayatsu Peter Heutink Tetsuro Hirose Eddie L. Imada Masayoshi Itoh Bogumil Kaczkowski Aditi Kanhere Emily Kawabata Hideya Kawaji Tsugumi Kawashima S. Thomas Kelly Miki Kojima Naoto Kondo Haruhiko Koseki Tsukasa Kouno Anton Kratz Mariola Kurowska-Stolarska Andrew Tae Jun Kwon Jeffrey Leek Andreas Lennartsson Marina Lizio Fernando López-Redondo Joachim Luginbühl Shiori Maeda Vsevolod J. Makeev Luigi Marchionni Yulia A. Medvedeva Aki Minoda Ferenc Müller Manuel Muñoz-Aguirre Mitsuyoshi Murata Hiromi Nishiyori Kazuhiro R. Nitta Shuhei Noguchi Yukihiko Noro Ramil Nurtdinov Yasushi Okazaki Valerio Orlando Denis Paquette Callum J.C. Parr Owen J.L. Rackham Patrizia Rizzu Diego Fernando Sánchez Martinez Albin Sandelin Pillay Sanjana Colin A.M. Semple Youtaro Shibayama Divya M. Sivaraman Takahiro Suzuki Suzannah C. Szumowski Michihira Tagami Martin S. Taylor Chikashi Terao Malte Thodberg Supat Thongjuea Vidisha Tripathi Igor Ulitsky Roberto Verardo Ilya E. Vorontsov Chinatsu Yamamoto Robert S. Young J. Kenneth Baillie Alistair R.R. Forrest Roderic Guigó Michael M. Hoffman Chung Chau Hon Takeya Kasukawa Sakari Kauppinen Juha Kere Boris Lenhard Claudio Schneider Harukazu Suzuki
... [+107 authors] ...,
Ken Yagi
Michiel J.L. de Hoon
Jay W. Shin
Piero Carninci

First Published July 27, 2020

Resource

Comprehensive, integrated, and phased whole-genome analysis of the primary ENCODE cell line K562

Bo Zhou
Steve S. Ho
Stephanie U. Greer
Xiaowei Zhu
John M. Bell
Joseph G. Arthur Noah Spies Xianglong Zhang Seunggyu Byeon Reenal Pattni Noa Ben-Efraim Michael S. Haney Rajini R. Haraksingh Giltae Song Hanlee P. Ji
... [+10 authors] ...,
Dimitri Perrin
Wing H. Wong
Alexej Abyzov
Alexander E. Urban

First Published February 8, 2019

Method

Modeling kinetic rate variation in third generation DNA sequencing data to detect putative modifications to DNA bases

Eric E. Schadt
Onureena Banerjee
Gang Fang
Zhixing Feng
Wing H. Wong
Xuegong Zhang Andrey Kislyuk Tyson A. Clark Khai Luong Alona Keren-Paz Andrew Chess Vipin Kumar
... [+7 authors] ...,
Alice Chen-Plotkin
Neal Sondheimer
Jonas Korlach
Andrew Kasarskis

First Published October 23, 2012

LETTER

The Mouse Secretome: Functional Classification of the Proteins Secreted Into the Extracellular Environment

Sean M. Grimmond
Kevin C. Miranda
Zheng Yuan
Melissa J. Davis
David A. Hume
Ken Yagi Naoko Tominaga
... [+2 authors] ...,
Hidemasa Bono
Yoshihide Hayashizaki
Yasushi Okazaki
Rohan D. Teasdale

First Published June 2, 2003

LETTER

Continued Discovery of Transcriptional Units Expressed in Cells of the Mouse Mononuclear Phagocyte Lineage

Christine A. Wells
Timothy Ravasi
Razvan Sultana
Ken Yagi
Piero Carninci
Hidemasa Bono Geoffrey Faulkner
... [+2 authors] ...,
Yasushi Okazaki
John Quackenbush
David A. Hume
Paul A. Lyons

First Published June 2, 2003

COMMENTARY

A Guide to the Mammalian Genome

Yasushi Okazaki
David A. Hume

First Published June 2, 2003

LETTER

Systematic Expression Profiling of the Mouse Transcriptome Using RIKEN cDNA Microarrays

Hidemasa Bono
Ken Yagi
Takeya Kasukawa
Itoshi Nikaido
Naoko Tominaga
Rika Miki Yosuke Mizuno Yasuhiro Tomaru Hitoshi Goto Hiroyuki Nitanda Daisuke Shimizu Hirochika Makino Tomoyuki Morita Junshin Fujiyama Takehito Sakai
... [+10 authors] ...,
Takashi Shimoji
David A. Hume
Yoshihide Hayashizaki
Yasushi Okazaki

First Published June 2, 2003

LETTER

Comprehensive Analysis of the Mouse Metabolome Based on the Transcriptome

Hidemasa Bono
Itoshi Nikaido
Takeya Kasukawa
Yoshihide Hayashizaki
Yasushi Okazaki

First Published June 2, 2003

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Your search for returned 22 results

Method

Data integration and inference of gene regulation using single-cell temporal multimodal data with scTIE

Corrigendum

Corrigendum: Functional annotation of human long noncoding RNAs via molecular phenotyping

Resource

Functional annotation of human long noncoding RNAs via molecular phenotyping

Resource

Comprehensive, integrated, and phased whole-genome analysis of the primary ENCODE cell line K562

Method

Modeling kinetic rate variation in third generation DNA sequencing data to detect putative modifications to DNA bases

LETTER

The Mouse Secretome: Functional Classification of the Proteins Secreted Into the Extracellular Environment

LETTER

Continued Discovery of Transcriptional Units Expressed in Cells of the Mouse Mononuclear Phagocyte Lineage

COMMENTARY

A Guide to the Mammalian Genome

LETTER

Systematic Expression Profiling of the Mouse Transcriptome Using RIKEN cDNA Microarrays

LETTER

Comprehensive Analysis of the Mouse Metabolome Based on the Transcriptome

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