J
Junshi Yazaki
Researcher at Salk Institute for Biological Studies
Publications - 45
Citations - 7126
Junshi Yazaki is an academic researcher from Salk Institute for Biological Studies. The author has contributed to research in topics: Gene & Gene expression. The author has an hindex of 29, co-authored 45 publications receiving 6636 citations. Previous affiliations of Junshi Yazaki include National Agriculture and Food Research Organization & University of Tsukuba.
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Journal ArticleDOI
Genome-wide high-resolution mapping and functional analysis of DNA methylation in arabidopsis.
Xiaoyu Zhang,Junshi Yazaki,Ambika Sundaresan,Shawn J. Cokus,Simon W. L. Chan,Huaming Chen,Ian R. Henderson,Paul Shinn,Matteo Pellegrini,Steve E. Jacobsen,Joseph R. Ecker +10 more
TL;DR: This is the first comprehensive DNA methylation map of an entire genome, at 35 base pair resolution, using the flowering plant Arabidopsis thaliana as a model and finds that pericentromeric heterochromatin, repetitive sequences, and regions producing small interfering RNAs are heavily methylated.
Journal ArticleDOI
Collection, Mapping, and Annotation of Over 28,000 cDNA Clones from japonica Rice
Shoshi Kikuchi,Kouji Satoh,Toshifumi Nagata,Nobuyuki Kawagashira,Koji Doi,Naoki Kishimoto,Junshi Yazaki,Masahiro Ishikawa,Hitomi Yamada,Hisako Ooka,Isamu Hotta,Keiichi Kojima,Takahiro Namiki,Eisuke Ohneda,Wataru Yahagi,Kohji Suzuki,Chao Jie Li,Kenji Ohtsuki,Toru Shishiki,Yasuhiro Otomo,Kazuo Murakami,Yoshiharu Iida,Sumio Sugano,Tatsuto Fujimura,Yutaka Suzuki,Yuki Tsunoda,Takashi Kurosaki,Takeko Kodama,Hiromi Masuda,Michie Kobayashi,Quihong Xie,Min Lu,Ryuya Narikawa,Akio Sugiyama,Kouichi Mizuno,Satoko Yokomizo,Junko Niikura,Rieko Ikeda,Junya Ishibiki,Midori Kawamata,Akemi Yoshimura,Junichirou Miura,Takahiro Kusumegi,Mitsuru Oka,Risa Ryu,Mariko Ueda,Kenichi Matsubara,Jun Kawai,Piero Carninci,Jun Adachi,Katsunori Aizawa,Takahiro Arakawa,Shiro Fukuda,Ayako Hara,Wataru Hashidume,Norihito Hayatsu,Koichi Imotani,Yoshiki Ishii,Masayoshi Itoh,Ikuko Kagawa,Shinji Kondo,Hedeaki Konno,Ai Miyazaki,Naoki Osato,Yoshimi Ota,Rintaro Saito,Daisuke Sasaki,Kenjiro Sato,Kazuhiro Shibata,Akira Shinagawa,Toshiyuki Shiraki,Masayasu Yoshino,Yoshihide Hayashizaki +72 more
TL;DR: Mapping of the cDNA clones to genomic DNA revealed that there are 19,000 to 20,500 transcription units in the rice genome, and protein informatics analysis against the InterPro database revealed the existence of proteins presented in rice but not in Arabidopsis.
Journal ArticleDOI
Evidence for Network Evolution in an Arabidopsis Interactome Map
Matija Dreze,Anne-Ruxandra Carvunis,Benoit Charloteaux,Mary Galli,Samuel J. Pevzner,Murat Tasan,Yong-Yeol Ahn,Padmavathi Balumuri,Albert-László Barabási,Vanessa Bautista,Pascal Braun,Danielle Byrdsong,Huaming Chen,Jonathan D. Chesnut,Michael E. Cusick,Jeffery L. Dangl,Chris de los Reyes,Amélie Dricot,Melissa Duarte,Joseph R. Ecker,Changyu Fan,Lantian Gai,Fana Gebreab,Gourab Ghoshal,Patrick Gilles,Bryan J. Gutierrez,Tong Hao,David E. Hill,Christopher Kim,Rosa Cheuk Kim,Claire Lurin,Andrew MacWilliams,Uday Matrubutham,Tijana Milenkovic,Jyotika Mirchandani,Dario Monachello,Jonathan D. Moore,M. Shahid Mukhtar,Eric Olivares,Suswapna Patnaik,Matthew M. Poulin,Natasa Przulj,Rosa Quan,Sabrina Rabello,Gopalakrishna Ramaswamy,Patrick Reichert,Edward A. Rietman,Thomas Rolland,Viviana Romero,Frederick P. Roth,Balaji Santhanam,Robert J. Schmitz,Paul Shinn,William Spooner,Joshua C. Stein,Geetha M. Swamilingiah,Stanley Tam,Jean Vandenhaute,Marc Vidal,Selma Waaijers,Doreen Ware,Evan M. Weiner,Stacy Wu,Junshi Yazaki +63 more
TL;DR: A proteome-wide binary protein-protein interaction map for the interactome network of the plant Arabidopsis thaliana containing about 6200 highly reliable interactions between about 2700 proteins is described.
Journal ArticleDOI
Literature-curated protein interaction datasets.
Michael E. Cusick,Haiyuan Yu,Alex Smolyar,Kavitha Venkatesan,Anne-Ruxandra Carvunis,Anne-Ruxandra Carvunis,Nicolas Simonis,Jean François Rual,Heather Borick,Pascal Braun,Matija Dreze,Jean Vandenhaute,Mary Galli,Junshi Yazaki,David E. Hill,Joseph R. Ecker,Frederick P. Roth,Marc Vidal +17 more
TL;DR: An evaluation of existing curation of protein interaction experiments reported in the literature found that curation can be error-prone and possibly of lower quality than commonly assumed.
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Genome-Wide High-Resolution Mapping of Exosome Substrates Reveals Hidden Features in the Arabidopsis Transcriptome
Julia A. Chekanova,Julia A. Chekanova,Brian D. Gregory,Sergei V. Reverdatto,Huaming Chen,Ravi Kumar,Tanya Hooker,Junshi Yazaki,Pinghua Li,Nikolai P. Skiba,Qian Peng,Qian Peng,Jose M. Alonso,Vladimir Brukhin,Ueli Grossniklaus,Joseph R. Ecker,Dmitry A. Belostotsky,Dmitry A. Belostotsky +17 more
TL;DR: It is demonstrated that as opposed to yeast and metazoans the plant exosome core possesses an unanticipated functional plasticity and a genome-wide atlas of Arabidopsis exosomes targets is presented, which will aid in illuminating new fundamental components and regulatory mechanisms of eukaryotic transcriptomes.