Zobrazeno 1 - 10
of 32
pro vyhledávání: '"Hiromi Nishiyori"'
Autor:
Sílvia Carbonell-Sala, Tamara Perteghella, Julien Lagarde, Hiromi Nishiyori, Emilio Palumbo, Carme Arnan, Hazuki Takahashi, Piero Carninci, Barbara Uszczynska-Ratajczak, Roderic Guigó
Publikováno v:
Nature Communications, Vol 15, Iss 1, Pp 1-13 (2024)
Abstract Long-read RNA sequencing is essential to produce accurate and exhaustive annotation of eukaryotic genomes. Despite advancements in throughput and accuracy, achieving reliable end-to-end identification of RNA transcripts remains a challenge f
Externí odkaz:
https://doaj.org/article/6f0dff57dab14db685b630a7d127b446
Autor:
Harshita Sharma, Matthew N. Z. Valentine, Naoko Toki, Hiromi Nishiyori Sueki, Stefano Gustincich, Hazuki Takahashi, Piero Carninci
Publikováno v:
Nature Communications, Vol 15, Iss 1, Pp 1-19 (2024)
Abstract RNA structure folding largely influences RNA regulation by providing flexibility and functional diversity. In silico and in vitro analyses are limited in their ability to capture the intricate relationships between dynamic RNA structure and
Externí odkaz:
https://doaj.org/article/1637cefee94c4fa7afc213d5a0c824ed
Autor:
Mathys Grapotte, Manu Saraswat, Chloé Bessière, Christophe Menichelli, Jordan A. Ramilowski, Jessica Severin, Yoshihide Hayashizaki, Masayoshi Itoh, Michihira Tagami, Mitsuyoshi Murata, Miki Kojima-Ishiyama, Shohei Noma, Shuhei Noguchi, Takeya Kasukawa, Akira Hasegawa, Harukazu Suzuki, Hiromi Nishiyori-Sueki, Martin C. Frith, FANTOM consortium, Clément Chatelain, Piero Carninci, Michiel J. L. de Hoon, Wyeth W. Wasserman, Laurent Bréhélin, Charles-Henri Lecellier
Publikováno v:
Nature Communications, Vol 12, Iss 1, Pp 1-18 (2021)
Mammalian genomes are scattered with repetitive sequences, but their biology remains largely elusive. Here, the authors show that transcription can initiate from short tandem repetitive sequences, and that genetic variants linked to human diseases ar
Externí odkaz:
https://doaj.org/article/2414817241b342aaa3ae4af0ca7b56ad
Autor:
Mathys Grapotte, Manu Saraswat, Chloé Bessière, Christophe Menichelli, Jordan A. Ramilowski, Jessica Severin, Yoshihide Hayashizaki, Masayoshi Itoh, Michihira Tagami, Mitsuyoshi Murata, Miki Kojima-Ishiyama, Shohei Noma, Shuhei Noguchi, Takeya Kasukawa, Akira Hasegawa, Harukazu Suzuki, Hiromi Nishiyori-Sueki, Martin C. Frith, FANTOM consortium, Clément Chatelain, Piero Carninci, Michiel J. L. de Hoon, Wyeth W. Wasserman, Laurent Bréhélin, Charles-Henri Lecellier
Publikováno v:
Nature Communications, Vol 13, Iss 1, Pp 1-1 (2022)
Externí odkaz:
https://doaj.org/article/14293c7d029a44079ad009ca25c6c174
Autor:
Norihiro Maeda, Hiromi Nishiyori, Mari Nakamura, Chika Kawazu, Mitsuyoshi Murata, Hiromi Sano, Kengo Hayashida, Shiro Fukuda, Michihira Tagami, Akira Hasegawa, Kayoko Murakami, Kate Schroder, Katharine Irvine, David A. Hume, Yoshihide Hayashizaki, Piero Carninci, Harukazu Suzuki
Publikováno v:
BioTechniques, Vol 45, Iss 1, Pp 95-97 (2008)
CAGE (cap analysis of gene expression) is a method for identifying transcription start sites by sequencing the first 20 or 21 nucleotides from the 5′ end of capped transcripts, allowing genome-wide promoter analyses to be performed. The potential o
Externí odkaz:
https://doaj.org/article/ade8da03359e4b5f8b2e86b21c54107a
Akademický článek
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Autor:
Michiel de Hoon, Alessandro Bonetti, Charles Plessy, Yoshinari Ando, Chung-Chau Hon, Yuri Ishizu, Masayoshi Itoh, Sachi Kato, Dongyan Lin, Sho Maekawa, Mitsuyoshi Murata, Hiromi Nishiyori, Jay W. Shin, Jens Stolte, Ana Maria Suzuki, Michihira Tagami, Hazuki Takahashi, Supat Thongjuea, Alistair R.R. Forrest, Yoshihide Hayashizaki, Juha Kere, Piero Carninci
Publikováno v:
Genome Research. 32:1727-1735
In eukaryotes, capped RNAs include long transcripts such as messenger RNAs and long noncoding RNAs, as well as shorter transcripts such as spliceosomal RNAs, small nucleolar RNAs, and enhancer RNAs. Long capped transcripts can be profiled using cap a
Autor:
Chi Wai Yip, Chung-Chau Hon, Kayoko Yasuzawa, Divya M. Sivaraman, Jordan A. Ramilowski, Youtaro Shibayama, Saumya Agrawal, Anika V. Prabhu, Callum Parr, Jessica Severin, Yan Jun Lan, Josée Dostie, Andreas Petri, Hiromi Nishiyori-Sueki, Michihira Tagami, Masayoshi Itoh, Fernando López-Redondo, Tsukasa Kouno, Jen-Chien Chang, Joachim Luginbühl, Masaki Kato, Mitsuyoshi Murata, Wing Hin Yip, Xufeng Shu, Imad Abugessaisa, Akira Hasegawa, Harukazu Suzuki, Sakari Kauppinen, Ken Yagi, Yasushi Okazaki, Takeya Kasukawa, Michiel de Hoon, Piero Carninci, Jay W. Shin
Publikováno v:
Yip, C W, Hon, C-C, Yasuzawa, K, Sivaraman, D M, Ramilowski, J A, Shibayama, Y, Agrawal, S, Prabhu, A V, Parr, C, Severin, J, Lan, Y J, Dostie, J, Petri, A, Nishiyori-Sueki, H, Tagami, M, Itoh, M, López-Redondo, F, Kouno, T, Chang, J-C, Luginbühl, J, Kato, M, Murata, M, Yip, W H, Shu, X, Abugessaisa, I, Hasegawa, A, Suzuki, H, Kauppinen, S, Yagi, K, Okazaki, Y, Kasukawa, T, de Hoon, M, Carninci, P & Shin, J W 2022, ' Antisense-oligonucleotide-mediated perturbation of long non-coding RNA reveals functional features in stem cells and across cell types ', Cell reports, vol. 41, no. 13, 111893 . https://doi.org/10.1016/j.celrep.2022.111893
Within the scope of the FANTOM6 consortium, we perform a large-scale knockdown of 200 long non-coding RNAs (lncRNAs) in human induced pluripotent stem cells (iPSCs) and systematically characterize their roles in self-renewal and pluripotency. We find
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::d15a652955f06a58b1c97bd8ea86768f
https://vbn.aau.dk/da/publications/57100123-2566-469a-9534-0fbe9f544bdc
https://vbn.aau.dk/da/publications/57100123-2566-469a-9534-0fbe9f544bdc
Autor:
Yuki Yoshida, Nurislam Shaikhutdinov, Olga Kozlova, Masayoshi Itoh, Michihira Tagami, Mitsuyoshi Murata, Hiromi Nishiyori-Sueki, Miki Kojima-Ishiyama, Shohei Noma, Alexander Cherkasov, Guzel Gazizova, Aigul Nasibullina, Ruslan Deviatiiarov, Elena Shagimardanova, Alina Ryabova, Katsushi Yamaguchi, Takahiro Bino, Shuji Shigenobu, Shoko Tokumoto, Yugo Miyata, Richard Cornette, Takahiro G Yamada, Akira Funahashi, Masaru Tomita, Oleg Gusev, Takahiro Kikawada
Publikováno v:
NAR genomics and bioinformatics. 4(2)
Non-biting midges (Chironomidae) are known to inhabit a wide range of environments, and certain species can tolerate extreme conditions, where the rest of insects cannot survive. In particular, the sleeping chironomid Polypedilum vanderplanki is know
Autor:
Hazuki Takahashi, Hiromi Nishiyori-Sueki, Jordan A. Ramilowski, Piero Carninci, Masayoshi Itoh
Publikováno v:
Methods in molecular biology (Clifton, N.J.). 2351
The Cap Analysis of Gene Expression (CAGE) is a powerful method to identify the Transcription Start Sites (TSSs) of capped RNAs while simultaneously measuring transcripts expression level. CAGE allows mapping at single nucleotide resolution at all ac