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Research

Diurnal and eating-associated microbial patterns revealed via high-frequency saliva sampling

Yichen Hu
Amnon Amir
Xiaochang Huang
Yan Li
Shi Huang
Elaine Wolfe
Sophie Weiss
Rob Knight
Zhenjiang Zech Xu

First Published June 10, 2022

Method

Efficient computation of Faith's phylogenetic diversity with applications in characterizing microbiomes

George Armstrong
Kalen Cantrell
Shi Huang
Daniel McDonald
Niina Haiminen
Anna Paola Carrieri Qiyun Zhu Antonio Gonzalez Imran McGrath Kristen L. Beck Daniel Hakim Aki S. Havulinna Guillaume Méric Teemu Niiranen Leo Lahti Veikko Salomaa Mohit Jain Michael Inouye Austin D. Swafford
... [+14 authors] ...,
Ho-Cheol Kim
Laxmi Parida
Yoshiki Vázquez-Baeza
Rob Knight

First Published September 3, 2021

Research

Enhancers with tissue-specific activity are enriched in intronic regions

Beatrice Borsari
Pablo Villegas-Mirón
Sílvia Pérez-Lluch
Isabel Turpin
Hafid Laayouni
Alba Segarra-Casas
Jaume Bertranpetit
Roderic Guigó
Sandra Acosta

First Published July 21, 2021

Erratum

Erratum: Ultralow-input single-tube linked-read library method enables short-read second-generation sequencing systems to routinely generate highly accurate and economical long-range sequencing information

Zhoutao Chen
Long Pham
Tsai-Chin Wu
Guoya Mo
Yu Xia
Peter L. Chang Devin Porter Tan Phan Huu Che Hao Tran Vikas Bansal Justin Shaffer Pedro Belda-Ferre Greg Humphrey Rob Knight
... [+10 authors] ...,
Pavel Pevzner
Son Pham
Yong Wang
Ming Lei

First Published May 3, 2021

Research

Deep metagenomics examines the oral microbiome during dental caries, revealing novel taxa and co-occurrences with host molecules

Jonathon L. Baker
James T. Morton
Márcia Dinis
Ruth Alvarez
Nini C. Tran
Rob Knight
Anna Edlund

First Published November 25, 2020

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

A limited set of transcriptional programs define major cell types

Alessandra Breschi
Manuel Muñoz-Aguirre
Valentin Wucher
Carrie A. Davis
Diego Garrido-Martín
Sarah Djebali Jesse Gillis Dmitri D. Pervouchine Anna Vlasova Alexander Dobin Chris Zaleski Jorg Drenkow Cassidy Danyko Alexandra Scavelli
... [+9 authors] ...,
Ferran Reverter
Michael P. Snyder
Thomas R. Gingeras
Roderic Guigó

First Published July 29, 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

Method

Ultralow-input single-tube linked-read library method enables short-read second-generation sequencing systems to routinely generate highly accurate and economical long-range sequencing information

Zhoutao Chen
Long Pham
Tsai-Chin Wu
Guoya Mo
Yu Xia
Peter L. Chang Devin Porter Tan Phan Huu Che Hao Tran Vikas Bansal Justin Shaffer Pedro Belda-Ferre Greg Humphrey Rob Knight
... [+10 authors] ...,
Pavel Pevzner
Son Pham
Yong Wang
Ming Lei

First Published June 15, 2020

Resource

Organ-level protein networks as a reference for the host effects of the microbiome

Robert H. Mills
Jacob M. Wozniak
Alison Vrbanac
Anaamika Campeau
Benoit Chassaing
Andrew Gewirtz
Rob Knight
David J. Gonzalez

First Published January 28, 2020

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Your search for returned 40 results

Research

Diurnal and eating-associated microbial patterns revealed via high-frequency saliva sampling

Method

Efficient computation of Faith's phylogenetic diversity with applications in characterizing microbiomes

Research

Enhancers with tissue-specific activity are enriched in intronic regions

Erratum

Erratum: Ultralow-input single-tube linked-read library method enables short-read second-generation sequencing systems to routinely generate highly accurate and economical long-range sequencing information

Research

Deep metagenomics examines the oral microbiome during dental caries, revealing novel taxa and co-occurrences with host molecules

Corrigendum

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

Resource

A limited set of transcriptional programs define major cell types

Resource

Functional annotation of human long noncoding RNAs via molecular phenotyping

Method

Ultralow-input single-tube linked-read library method enables short-read second-generation sequencing systems to routinely generate highly accurate and economical long-range sequencing information

Resource

Organ-level protein networks as a reference for the host effects of the microbiome

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