Zobrazeno 1 - 10
of 63
pro vyhledávání: '"Hazuki Takahashi"'
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:
Hazuki Takahashi, Ana Kozhuharova, Harshita Sharma, Masakazu Hirose, Takako Ohyama, Francesca Fasolo, Toshio Yamazaki, Diego Cotella, Claudio Santoro, Silvia Zucchelli, Stefano Gustincich, Piero Carninci
Publikováno v:
PLoS ONE, Vol 13, Iss 2, p e0183229 (2018)
SINEUPs are antisense long noncoding RNAs, in which an embedded SINE B2 element UP-regulates translation of partially overlapping target sense mRNAs. SINEUPs contain two functional domains. First, the binding domain (BD) is located in the region anti
Externí odkaz:
https://doaj.org/article/c97deee961594180b4f5b1535889a7a8
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:
Nejc Haberman, Holly Digby, Rupert Faraway, Rebecca Cheung, Andrew M Jobbins, Callum Parr, Kayoko Yasuzawa, Takeya Kasukawa, Chi Wai Yip, Masaki Kato, Hazuki Takahashi, Piero Carninci, Santiago Vernia, Jernej Ule, Christopher R Sibley, Aida Martinez-Sanchez, Boris Lenhard
SummaryThe 3’ untranslated region (3’UTR) plays a crucial role in determining mRNA stability, localisation, translation and degradation. Cap analysis gene expression (CAGE), a method for the detection of capped 5’ ends of mRNAs, additionally re
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::18bb72c57a82b070076c02347f548466
http://hdl.handle.net/10044/1/105362
http://hdl.handle.net/10044/1/105362
Autor:
Harshita Sharma, Matthew N Z Valentine, Naoko Toki, Hiromi Sueki Nishiyori, Stefano Gustincich, Hazuki Takahashi, Piero Carninci
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 RNA funct
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::5e665640281f3d5b5fef2dc243a0ec00
https://doi.org/10.1101/2023.05.22.541671
https://doi.org/10.1101/2023.05.22.541671
Publikováno v:
Genome Res
Long noncoding RNAs or lncRNAs are a class of non-protein-coding RNAs that are >200 nt in length. Almost 50% of lncRNAs during zebrafish development are transcribed in an antisense direction to a protein-coding gene. However, the role of these natura
Autor:
Matthew N. Z. Valentine, Piero Carninci, Hazuki Takahashi, Naoko Toki, Silvia Zucchelli, Harshita Sharma, Ferdous-Ur M Rahman, Stefano Gustincich
Publikováno v:
Nucleic Acids Research
SINEUPs are long non-coding RNAs (lncRNAs) that contain a SINE element, and which up-regulate the translation of target mRNA. They have been studied in a wide range of applications, as both biological and therapeutic tools, although the underpinning
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
Autor:
Hazuki Takahashi, Christopher Vollmers, Stefan Goetz, Margaret E. Hunter, Gabriela Balderrama-Gutierrez, David Moraga, Maite De María, Mark Diekhans, Francisco Jose Pardo-Palacios, Piero Carninci, Jonathan M. Mudge, Roderic Guigó, Gloria M. Sheynkman, Ingrid Youngworth, Kin Fai Au, Matthew Adams, Muhammed Hasan Çelik, Haoran Li, Alison D. Tang, Ana Conesa, Silvia Carbonell-Sala, Barbara J. Wold, Angela N. Brooks, Brian Williams, Julien Lagarde, Cindy Liang, Fairlie Reese, Ali Mortazavi, Andrey D. Prjibelski, Natàlia Garcia-Reyero, Jane E. Loveland, Nancy D. Denslow, Dingjie Wang, Amit Behera, Adam Frankish, Hagen Tilgner, Carlos Menor
With increased usage of long-read sequencing technologies to perform transcriptome analyses, there becomes a greater need to evaluate different methodologies including library preparation, sequencing platform, and computational analysis tools. Here,
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::493797105c71ddbcbb569d8057a59b05
https://doi.org/10.21203/rs.3.rs-777702/v1
https://doi.org/10.21203/rs.3.rs-777702/v1