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Chi Wai Yip
Researcher at Centre for Life
Publications - 10
Citations - 1018
Chi Wai Yip is an academic researcher from Centre for Life. The author has contributed to research in topics: Fantom & Cap analysis gene expression. The author has an hindex of 5, co-authored 10 publications receiving 717 citations.
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Journal ArticleDOI
An atlas of human long non-coding RNAs with accurate 5′ ends
Chung-Chau Hon,Jordan A. Ramilowski,Jayson Harshbarger,Nicolas Bertin,Nicolas Bertin,Owen J. L. Rackham,Owen J. L. Rackham,Julian Gough,Elena Denisenko,Sebastian Schmeier,Thomas M. Poulsen,Jessica Severin,Marina Lizio,Hideya Kawaji,Takeya Kasukawa,Masayoshi Itoh,A. Maxwell Burroughs,Shohei Noma,Sarah Djebali,Sarah Djebali,Tanvir Alam,Yulia A. Medvedeva,Alison C. Testa,Leonard Lipovich,Chi Wai Yip,Imad Abugessaisa,Mickal Mendez,Akira Hasegawa,Dave Tang,Timo Lassmann,Peter Heutink,Magda Babina,Christine A. Wells,Christine A. Wells,Soichi Kojima,Yukio Nakamura,Harukazu Suzuki,Carsten O. Daub,Michiel J. L. de Hoon,Erik Arner,Yoshihide Hayashizaki,Piero Carninci,Alistair R. R. Forrest +42 more
TL;DR: This work integrates multiple transcript collections to generate a comprehensive atlas of 27,919 human lncRNA genes with high-confidence 5′ ends and expression profiles across 1,829 samples from the major human primary cell types and tissues, identifying 19,175 potentially functional lncRNAs in the human genome.
Journal ArticleDOI
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,Nicholas J. Parkinson,Andreas Petri,Leonie Roos,Jessica Severin,Kayoko Yasuzawa,Imad Abugessaisa,Altuna Akalin,Ivan Antonov,Erik Arner,Alessandro Bonetti,Hidemasa Bono,Beatrice Borsari,Frank Brombacher,Christopher J. F. Cameron,Carlo Vittorio Cannistraci,Ryan Cardenas,Melissa Cardon,Howard Y. Chang,Josée Dostie,Luca Ducoli,Alexander V. 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 Luidy 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 T. Kwon,Jeffrey T. Leek,Andreas Lennartsson,Marina Lizio,Fernando López-Redondo,Joachim Luginbühl,Shiori Maeda,Vsevolod J. Makeev,Vsevolod J. Makeev,Luigi Marchionni,Yulia A. Medvedeva,Yulia A. Medvedeva,Aki Minoda,Ferenc Müller,Manuel Muñoz-Aguirre,Mitsuyoshi Murata,Hiromi Nishiyori,Kazuhiro R. Nitta,Shuhei Noguchi,Yukihiko Noro,Ramil N. 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. 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 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,Ken Yagi,Michiel J. L. de Hoon,Jay W. Shin,Piero Carninci +117 more
TL;DR: The largest-to-date lncRNA knockdown data set with molecular phenotyping is disseminated for further exploration and functional roles for ZNF213-AS1 and lnc-KHDC3L-2 are highlighted.
Journal ArticleDOI
FANTOM enters 20th year: expansion of transcriptomic atlases and functional annotation of non-coding RNAs.
Imad Abugessaisa,Jordan A. Ramilowski,Marina Lizio,Jesicca Severin,Akira Hasegawa,Jayson Harshbarger,Atsushi Kondo,Shuhei Noguchi,Chi Wai Yip,Jasmine Li Ching Ooi,Michihira Tagami,Fumi Hori,Saumya Agrawal,Chung-Chau Hon,Melissa Cardon,Shuya Ikeda,Hiromasa Ono,Hidemasa Bono,Masaki Kato,Kosuke Hashimoto,Alessandro Bonetti,Norio Kobayashi,Jay W. Shin,Michiel J. L. de Hoon,Yoshihide Hayashizaki,Piero Carninci,Hideya Kawaji,Takeya Kasukawa +27 more
TL;DR: The sixth (latest) edition of the FANTOM project was launched to assess the function of human long non-coding RNAs (lncRNAs), and the updated FANTOM web resource is publicly available at https://fantom.riken.jp.
Journal ArticleDOI
Recounting the FANTOM CAGE-Associated Transcriptome.
Eddie Luidy Imada,Eddie Luidy Imada,Diego F. Sanchez,Leonardo Collado-Torres,Christopher Wilks,Tejasvi Matam,Wikum Dinalankara,Aleksey Stupnikov,Francisco Lobo-Pereira,Chi Wai Yip,Kayoko Yasuzawa,Naoto Kondo,Masayoshi Itoh,Harukazu Suzuki,Takeya Kasukawa,Chung-Chau Hon,Michiel J. L. de Hoon,Jay W. Shin,Piero Carninci,Andrew E. Jaffe,Jeffrey T. Leek,Alexander V. Favorov,Glória Regina Franco,Ben Langmead,Luigi Marchionni +24 more
TL;DR: The utility of the FC-R2 atlas is demonstrated by reproducing key findings from published large studies and by generating new results across normal and diseased human samples, which will empower other researchers to investigate functions and biological roles of both known coding genes and novel lncRNAs.
Posted ContentDOI
Functional Annotation of Human Long Non-Coding 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,Nicholas J. Parkinson,Andreas Petri,Leonie Roos,Jessica Severin,Kayoko Yasuzawa,Imad Abugessaisa,Altuna Akalin,Ivan Antonov,Erik Arner,Alessandro Bonetti,Hidemasa Bono,Beatrice Borsari,Frank Brombacher,Christopher J. F. Cameron,Carlo Vittorio Cannistraci,Ryan Cardenas,Melissa Cardon,Howard Y. Chang,Josée Dostie,Luca Ducoli,Alexander V. Favorov,Alexandre Fort,Diego Garrido,Noa Gil,Juliette Gimenez,Reto Guler,Lusy Handoko,Jayson Harshbarger,Akira Hasegawa,Yuki Hasegawa,Kosuke Hashimoto,N. Hayatsu,Peter Heutink,Tetsuro Hirose,Eddie Luidy 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 T. Kwon,Jeffrey T. 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 N. 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. 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 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,Ken Yagi,Michiel J. L. de Hoon,Jay W. Shin,Piero Carninci +115 more
TL;DR: Combining cellular and molecular profiling provided a powerful approach to unravel the distinct functions of lncRNAs, which are highlighted with specific functional roles for ZNF213-AS1 and lnc-KHDC3L-2.