Kazuho Ikeo

Kazuho Ikeo

UNVERIFIED PROFILE

Are you Kazuho Ikeo?   Register this Author

Register author
Kazuho Ikeo

Kazuho Ikeo

Publications by authors named "Kazuho Ikeo"

Are you Kazuho Ikeo?   Register this Author

100Publications

2460Reads

13Profile Views

The reduction of miR146b-5p in monocytes and T cells could contribute to the immunopathogenesis of hepatitis C virus infection.

Sci Rep 2019 Sep 16;9(1):13393. Epub 2019 Sep 16.

Department of Virology & Liver unit, Nagoya City University Graduate School of Medical Sciences, Kawasumi, Mizuho, Nagoya, 467-8601, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/s41598-019-49706-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6746729PMC
September 2019

Aging of spermatogonial stem cells by Jnk-mediated glycolysis activation.

Proc Natl Acad Sci U S A 2019 Aug 29;116(33):16404-16409. Epub 2019 Jul 29.

Department of Molecular Genetics, Graduate School of Medicine, Kyoto University, 606-8501 Kyoto, Japan;

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1073/pnas.1904980116DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6697785PMC
August 2019

Clonal analysis revealed functional heterogeneity in cancer stem-like cell phenotypes in uterine endometrioid adenocarcinoma.

Exp Mol Pathol 2019 02 30;106:78-88. Epub 2018 Nov 30.

Departments of Pathology, Sapporo Medical University School of Medicine, South-1 West-17, Chuo-Ku, Sapporo 060-8556, Japan; CREST, Japan Science and Technology Agency, Tokyo 102-0076, Japan. Electronic address:

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.yexmp.2018.11.013DOI Listing
February 2019

An Association Between Core Mutations in Hepatitis B Virus Genotype F1b and Hepatocellular Carcinoma in Alaskan Native People.

Hepatology 2019 Jan 10;69(1):19-33. Epub 2018 Dec 10.

Department of Virology and Liver Unit, Nagoya City University Graduate School of Medical Science, Nagoya, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1002/hep.30111DOI Listing
January 2019

Transcriptomic changes with increasing algal symbiont reveal the detailed process underlying establishment of coral-algal symbiosis.

Sci Rep 2018 11 14;8(1):16802. Epub 2018 Nov 14.

Center for Information Biology, National Institute of Genetics, 1111 Yata, Mishima, Shizuoka, 411-8540, Japan.

View Article

Download full-text PDF

Source
http://www.nature.com/articles/s41598-018-34575-5
Publisher Site
http://dx.doi.org/10.1038/s41598-018-34575-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6235891PMC
November 2018

Molecular phylogeny of ten intertidal hermit crabs of the genus Pagurus inferred from multiple mitochondrial genes, with special emphasis on the evolutionary relationship of Pagurus lanuginosus and Pagurus maculosus.

Genetica 2018 Oct 10;146(4-5):369-381. Epub 2018 Jul 10.

Laboratory for DNA Data Analysis, National Institute of Genetics, 1111 Yata, Mishima, Shizuoka, 411-8540, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1007/s10709-018-0029-8DOI Listing
October 2018

Gene-by-Gene or Localized Dosage Compensation on the Neo-X Chromosome in Drosophila miranda.

Genome Biol Evol 2018 08;10(8):1875-1881

King Abdullah University of Science and Technology (KAUST), Biological and Environmental Science and Engineering, Computational Bioscience Research Center, Thuwal, Kingdom of Saudi Arabia.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/gbe/evy148DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6071650PMC
August 2018

HpBase: A genome database of a sea urchin, Hemicentrotus pulcherrimus.

Dev Growth Differ 2018 Apr 13;60(3):174-182. Epub 2018 Mar 13.

Shimoda Marine Research Center, University of Tsukuba, Shizuoka, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1111/dgd.12429DOI Listing
April 2018

Molecular Cloning of Secreted Luciferases from Marine Planktonic Copepods.

Methods Mol Biol 2016 ;1461:33-41

Health Research Institute, National Institute of Advanced Industrial Science and Technology (AIST), 1-8-31 Midorigaoka, Ikeda, Osaka, 563-8577, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1007/978-1-4939-3813-1_3DOI Listing
January 2018

Maser: one-stop platform for NGS big data from analysis to visualization.

Database (Oxford) 2018 01;2018

Center for Information Biology, National Institute of Genetics, 1111 Yata, Mishima, Shizuoka 411-8540, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/database/bay027DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5905357PMC
January 2018

DNA Methylome Analysis Identifies Transcription Factor-Based Epigenomic Signatures of Multilineage Competence in Neural Stem/Progenitor Cells.

Cell Rep 2017 Sep;20(12):2992-3003

Department of Stem Cell Biology and Medicine, Graduate School of Medical Sciences, Kyushu University, 3-1-1 Maidashi, Higashi-ku, Fukuoka 812-8582, Japan. Electronic address:

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.celrep.2017.08.086DOI Listing
September 2017

Constitutive centromere-associated network controls centromere drift in vertebrate cells.

J Cell Biol 2017 Jan 9;216(1):101-113. Epub 2016 Dec 9.

Graduate School of Frontier Biosciences, Osaka University, Suita, Osaka 565-0871, Japan

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1083/jcb.201605001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5223601PMC
January 2017

Effect of Wild and Cultivated Rice Genotypes on Rhizosphere Bacterial Community Composition.

Rice (N Y) 2016 Dec 24;9(1):42. Epub 2016 Aug 24.

Laboratory for DNA Data Analysis, National Institute of Genetics, 1111 Yata, Mishima, Shizuoka, 411-8540, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/s12284-016-0111-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4996804PMC
December 2016

Accelerated pseudogenization on the neo-X chromosome in Drosophila miranda.

Nat Commun 2016 11 29;7:13659. Epub 2016 Nov 29.

Center for Information Biology, National Institute of Genetics, 1111 Yata, Mishima, Shizuoka 411-8540, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/ncomms13659DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5141340PMC
November 2016

Two-step evolution of endosymbiosis between hydra and algae.

Mol Phylogenet Evol 2016 10 9;103:19-25. Epub 2016 Jul 9.

King Abdullah University of Science and Technology (KAUST), Computational Bioscience Research Center, Thuwal 23955-6900, Saudi Arabia. Electronic address:

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.ympev.2016.07.010DOI Listing
October 2016

Novel C8orf37 Mutations in Patients with Early-onset Retinal Dystrophy, Macular Atrophy, Cataracts, and High Myopia.

Ophthalmic Genet 2016 12;37(1):68-75. Epub 2014 Aug 12.

a Division of Molecular and Cellular Biology , National Institute of Sensory Organs, National Hospital Organization Tokyo Medical Center , Tokyo , Japan .

View Article

Download full-text PDF

Source
http://dx.doi.org/10.3109/13816810.2014.949380DOI Listing
September 2016

CCT2 Mutations Evoke Leber Congenital Amaurosis due to Chaperone Complex Instability.

Sci Rep 2016 09 20;6:33742. Epub 2016 Sep 20.

Division of Molecular and Cellular Biology, National Institute of Sensory Organs, National Hospital Organization Tokyo Medical Center, Tokyo, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/srep33742DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5028737PMC
September 2016

Different Endosymbiotic Interactions in Two Hydra Species Reflect the Evolutionary History of Endosymbiosis.

Genome Biol Evol 2016 08 3;8(7):2155-63. Epub 2016 Aug 3.

King Abdullah University of Science and Technology (KAUST), Computational Bioscience Research Center, Thuwal, Kingdom of Saudi Arabia

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/gbe/evw142DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4987108PMC
August 2016

RPE65 Mutations in Two Japanese Families with Leber Congenital Amaurosis.

Ophthalmic Genet 2016 06 12;37(2):161-9. Epub 2014 Dec 12.

a Division of Molecular and Cellular Biology , National Institute of Sensory Organs, National Hospital Organization Tokyo Medical Center , Tokyo , Japan .

View Article

Download full-text PDF

Source
http://dx.doi.org/10.3109/13816810.2014.991931DOI Listing
June 2016

Evolutionary Transitions of MicroRNA-Target Pairs.

Genome Biol Evol 2016 06 4;8(5):1621-33. Epub 2016 Jun 4.

Center for Information Biology, National Institute of Genetics, Shizuoka, Japan King Abdullah University of Science and Technology, Computational Bioscience Research Center, Biological and Environmental Science and Engineering, Thuwal, Kingdom of Saudi Arabia.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/gbe/evw092DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4898806PMC
June 2016

Function and evolutionary origin of unicellular camera-type eye structure.

PLoS One 2015 3;10(3):e0118415. Epub 2015 Mar 3.

CIB-DDBJ, National Institute of Genetics, Mishima, Japan; Department of Life Sciences, National Cheng Kung University, Tainan, Taiwan; CBRC/BESE, KAUST, Thuwal, 23955-6900, Kingdom of Saudi Arabia.

View Article

Download full-text PDF

Source
http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0118415PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4348419PMC
January 2016

Comparative miRNAs analysis of Two contrasting broccoli inbred lines with divergent head-forming capacity under temperature stress.

BMC Genomics 2015 Dec 1;16:1026. Epub 2015 Dec 1.

Department of Life Sciences, National Cheng Kung University, No. 1 University Road, East Dist, Tainan, 701, Taiwan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/s12864-015-2201-1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4667509PMC
December 2015

Coevolution of axon guidance molecule Slit and its receptor Robo.

PLoS One 2014 6;9(5):e94970. Epub 2014 May 6.

Laboratory of Developmental Genetics, Shandong Agricultural University, Tai'an, Shandong, China.

View Article

Download full-text PDF

Source
http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0094970PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4011710PMC
October 2015

Reduced rod electroretinograms in carrier parents of two Japanese siblings with autosomal recessive retinitis pigmentosa associated with PDE6B gene mutations.

Doc Ophthalmol 2015 Aug 1;131(1):71-9. Epub 2015 Apr 1.

Department of Ophthalmology, Kinki University Faculty of Medicine, 377-2 Ohno-Higashi, Osaka-Sayama City, Osaka, 589-8511, Japan,

View Article

Download full-text PDF

Source
http://link.springer.com/10.1007/s10633-015-9497-7
Publisher Site
http://dx.doi.org/10.1007/s10633-015-9497-7DOI Listing
August 2015

HJURP is involved in the expansion of centromeric chromatin.

Mol Biol Cell 2015 Aug 10;26(15):2742-54. Epub 2015 Jun 10.

Department of Molecular Genetics, National Institute of Genetics, and Graduate University for Advanced Studies (SOKENDAI), Mishima, Shizuoka 411-8540, Japan Graduate School of Frontier Biosciences, Osaka University, Suita, Osaka 565-0871, Japan

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1091/mbc.E15-02-0094DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4571335PMC
August 2015

Congenital Achromatopsia and Macular Atrophy Caused by a Novel Recessive PDE6C Mutation (p.E591K).

Ophthalmic Genet 2015 Jun 21;36(2):137-44. Epub 2015 Jan 21.

Division of Molecular and Cellular Biology, National Institute of Sensory Organs, National Hospital Organization Tokyo Medical Center , Tokyo , Japan .

View Article

Download full-text PDF

Source
http://dx.doi.org/10.3109/13816810.2014.991932DOI Listing
June 2015

Novel nonsense and splice site mutations in CRB1 gene in two Japanese patients with early-onset retinal dystrophy.

Doc Ophthalmol 2015 Feb 17;130(1):49-55. Epub 2014 Oct 17.

Department of Ophthalmology, Kinki University Faculty of Medicine, 377-2 Ohno-Higashi, Osaka-Sayama City, Osaka, 589-8511, Japan,

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1007/s10633-014-9464-8DOI Listing
February 2015

Human genome network platform: a resource for TFRN analysis.

Methods Mol Biol 2014 ;1164:147-62

Center for Information Biology, National Institute of Genetics, Yata 1111, Mishima, Shizuoka, 411-8540, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1007/978-1-4939-0805-9_12DOI Listing
January 2015

RHO Mutations (p.W126L and p.A346P) in Two Japanese Families with Autosomal Dominant Retinitis Pigmentosa.

J Ophthalmol 2014 16;2014:210947. Epub 2014 Nov 16.

Division of Molecular and Cellular Biology, National Institute of Sensory Organs, National Hospital Organization Tokyo Medical Center, 2-5-1 Higashigaoka, Meguro-ku, Tokyo 152-8902, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1155/2014/210947DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4248368PMC
December 2014

Whole-exome sequencing identifies a novel ALMS1 mutation (p.Q2051X) in two Japanese brothers with Alström syndrome.

Mol Vis 2013 24;19:2393-406. Epub 2013 Nov 24.

Division of Molecular and Cellular Biology, National Institute of Sensory Organs, National Hospital Organization Tokyo Medical Center, Tokyo, Japan ; Department of Ophthalmology, The Jikei University School of Medicine, Tokyo, Japan.

View Article

Download full-text PDF

Source
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3850975PMC
July 2014

Evolutionarily conserved transcription factor Apontic controls the G1/S progression by inducing cyclin E during eye development.

Proc Natl Acad Sci U S A 2014 Jul 16;111(26):9497-502. Epub 2014 Jun 16.

Center for Information Biology andComputational Bioscience Research Center, Biological and Environmental Sciences and Engineering Division, King Abdullah University of Science and Technology, Thuwal 23955-6900, Kingdom of Saudi Arabia; andDepartment of Life Sciences, National Cheng Kung University, Tainan 701, Taiwan, Republic of China

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1073/pnas.1407145111DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4084451PMC
July 2014

Autosomal recessive cone-rod dystrophy associated with compound heterozygous mutations in the EYS gene.

Doc Ophthalmol 2014 Jun 21;128(3):211-7. Epub 2014 Mar 21.

Division of Molecular and Cellular Biology, National Institute of Sensory Organs, National Hospital Organization Tokyo Medical Center, Tokyo, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1007/s10633-014-9435-0DOI Listing
June 2014

Longitudinal clinical course of three Japanese patients with Leber congenital amaurosis/early-onset retinal dystrophy with RDH12 mutation.

Doc Ophthalmol 2014 Jun 22;128(3):219-28. Epub 2014 Apr 22.

Department of Ophthalmology, Kinki University Faculty of Medicine, 377-2 Ohno-Higashi, Osaka-Sayama City, Osaka, 589-8511, Japan,

View Article

Download full-text PDF

Source
http://link.springer.com/10.1007/s10633-014-9436-z
Publisher Site
http://dx.doi.org/10.1007/s10633-014-9436-zDOI Listing
June 2014

Histone H4 Lys 20 monomethylation of the CENP-A nucleosome is essential for kinetochore assembly.

Dev Cell 2014 Jun;29(6):740-9

Department of Molecular Genetics, National Institute of Genetics and The Graduate University for Advanced Studies (SOKENDAI), Mishima, Shizuoka 411-8540, Japan. Electronic address:

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.devcel.2014.05.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4081567PMC
June 2014

Efficient screening of long terminal repeat retrotransposons that show high insertion polymorphism via high-throughput sequencing of the primer binding site.

Genome 2014 May 25;57(5):245-52. Epub 2014 Jun 25.

a Graduate School of Environmental and Life Science, Okayama University, 1-1-1 Tsushimanaka Kitaku, Okayama, Okayama 700-8530, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1139/gen-2014-0031DOI Listing
May 2014

Tissue- and stage-dependent dosage compensation on the neo-X chromosome in Drosophila pseudoobscura.

Mol Biol Evol 2014 Mar 3;31(3):614-24. Epub 2013 Dec 3.

Center for Information Biology, National Institute of Genetics, Mishima, Shizuoka, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/molbev/mst239DOI Listing
March 2014

Chromosome engineering allows the efficient isolation of vertebrate neocentromeres.

Dev Cell 2013 Mar 14;24(6):635-48. Epub 2013 Mar 14.

Department of Molecular Genetics, National Institute of Genetics and The Graduate University for Advanced Studies SOKENDAI, Mishima, Shizuoka 411-8540, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.devcel.2013.02.009DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3925796PMC
March 2013

Genome and transcriptome analysis of the food-yeast Candida utilis.

PLoS One 2012 18;7(5):e37226. Epub 2012 May 18.

Central Laboratories for Frontier Technology, KIRIN Holdings Company, Ltd., Yokohama, Kanagawa, Japan.

View Article

Download full-text PDF

Source
http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0037226PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3356342PMC
December 2012

Evolutionary patterns of recently emerged animal duplogs.

Genome Biol Evol 2011 22;3:1119-35. Epub 2011 Aug 22.

Division of Population Genetics, National Institute of Genetics, Mishima, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/gbe/evr074DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3194840PMC
February 2012

Effective gene collection from the metatranscriptome of marine microorganisms.

BMC Genomics 2011 Nov 30;12 Suppl 3:S15. Epub 2011 Nov 30.

Ochadai Academic Production, Ochanomizu University, Ohtsuka 2-1-1, Bunkyo, Tokyo, 112-8610, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/1471-2164-12-S3-S15DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3333174PMC
November 2011

Gene dosage imbalance of human chromosome 21 in mouse embryonic stem cells differentiating to neurons.

Gene 2011 Aug 27;481(2):93-101. Epub 2011 Apr 27.

Department of Obstetrics and Gynaecology, The Chinese University of Hong Kong, Shatin, New Territories.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.gene.2011.04.003DOI Listing
August 2011

Biological databases at DNA Data Bank of Japan in the era of next-generation sequencing technologies.

Adv Exp Med Biol 2010 ;680:125-35

Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Yata, Shizuoka, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1007/978-1-4419-5913-3_15DOI Listing
February 2011

Evolutionary pattern of gene homogenization between primate-specific paralogs after human and macaque speciation using the 4-2-4 method.

Mol Biol Evol 2010 Sep 29;27(9):2152-71. Epub 2010 Apr 29.

Division of Population Genetics, National Institute of Genetics, Mishima, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/molbev/msq109DOI Listing
September 2010

The dynamic genome of Hydra.

Nature 2010 Mar 14;464(7288):592-6. Epub 2010 Mar 14.

US Department of Energy Joint Genome Institute, Walnut Creek, California 94598, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/nature08830DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4479502PMC
March 2010

Distribution and structural diversity of cilia in tadpole larvae of the ascidian Ciona intestinalis.

Dev Biol 2010 Jan 14;337(1):42-62. Epub 2009 Oct 14.

Shimoda Marine Research Center, University of Tsukuba, Shimoda, Shizuoka 415-0025, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.ydbio.2009.10.012DOI Listing
January 2010

Evolutionary origin of the vertebrate blood complement and coagulation systems inferred from liver EST analysis of lamprey.

Dev Comp Immunol 2009 ;33(1):77-87

Department of Biological Sciences, Graduate School of Science, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-0033, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.dci.2008.07.005DOI Listing
May 2009

The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line.

Authors:
Harukazu Suzuki Alistair R R Forrest Erik van Nimwegen Carsten O Daub Piotr J Balwierz Katharine M Irvine Timo Lassmann Timothy Ravasi Yuki Hasegawa Michiel J L de Hoon Shintaro Katayama Kate Schroder Piero Carninci Yasuhiro Tomaru Mutsumi Kanamori-Katayama Atsutaka Kubosaki Altuna Akalin Yoshinari Ando Erik Arner Maki Asada Hiroshi Asahara Timothy Bailey Vladimir B Bajic Denis Bauer Anthony G Beckhouse Nicolas Bertin Johan Björkegren Frank Brombacher Erika Bulger Alistair M Chalk Joe Chiba Nicole Cloonan Adam Dawe Josee Dostie Pär G Engström Magbubah Essack Geoffrey J Faulkner J Lynn Fink David Fredman Ko Fujimori Masaaki Furuno Takashi Gojobori Julian Gough Sean M Grimmond Mika Gustafsson Megumi Hashimoto Takehiro Hashimoto Mariko Hatakeyama Susanne Heinzel Winston Hide Oliver Hofmann Michael Hörnquist Lukasz Huminiecki Kazuho Ikeo Naoko Imamoto Satoshi Inoue Yusuke Inoue Ryoko Ishihara Takao Iwayanagi Anders Jacobsen Mandeep Kaur Hideya Kawaji Markus C Kerr Ryuichiro Kimura Syuhei Kimura Yasumasa Kimura Hiroaki Kitano Hisashi Koga Toshio Kojima Shinji Kondo Takeshi Konno Anders Krogh Adele Kruger Ajit Kumar Boris Lenhard Andreas Lennartsson Morten Lindow Marina Lizio Cameron Macpherson Norihiro Maeda Christopher A Maher Monique Maqungo Jessica Mar Nicholas A Matigian Hideo Matsuda John S Mattick Stuart Meier Sei Miyamoto Etsuko Miyamoto-Sato Kazuhiko Nakabayashi Yutaka Nakachi Mika Nakano Sanne Nygaard Toshitsugu Okayama Yasushi Okazaki Haruka Okuda-Yabukami Valerio Orlando Jun Otomo Mikhail Pachkov Nikolai Petrovsky Charles Plessy John Quackenbush Aleksandar Radovanovic Michael Rehli Rintaro Saito Albin Sandelin Sebastian Schmeier Christian Schönbach Ariel S Schwartz Colin A Semple Miho Sera Jessica Severin Katsuhiko Shirahige Cas Simons George St Laurent Masanori Suzuki Takahiro Suzuki Matthew J Sweet Ryan J Taft Shizu Takeda Yoichi Takenaka Kai Tan Martin S Taylor Rohan D Teasdale Jesper Tegnér Sarah Teichmann Eivind Valen Claes Wahlestedt Kazunori Waki Andrew Waterhouse Christine A Wells Ole Winther Linda Wu Kazumi Yamaguchi Hiroshi Yanagawa Jun Yasuda Mihaela Zavolan David A Hume Takahiro Arakawa Shiro Fukuda Kengo Imamura Chikatoshi Kai Ai Kaiho Tsugumi Kawashima Chika Kawazu Yayoi Kitazume Miki Kojima Hisashi Miura Kayoko Murakami Mitsuyoshi Murata Noriko Ninomiya Hiromi Nishiyori Shohei Noma Chihiro Ogawa Takuma Sano Christophe Simon Michihira Tagami Yukari Takahashi Jun Kawai Yoshihide Hayashizaki

Nat Genet 2009 May 19;41(5):553-62. Epub 2009 Apr 19.

RIKEN Omics Science Center, RIKEN Yokohama Institute, Kanagawa, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/ng.375DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6711855PMC
May 2009

The evolutionary study of small RNA-directed gene silencing pathways by investigating RNase III enzymes.

Gene 2009 Apr 31;435(1-2):1-8. Epub 2009 Jan 31.

Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Yata, Mishima, Shizuoka, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.gene.2008.12.022DOI Listing
April 2009

Specific expression of Gsta4 in mouse cochlear melanocytes: a novel role for hearing and melanocyte differentiation.

Pigment Cell Melanoma Res 2009 Feb 28;22(1):111-9. Epub 2008 Oct 28.

Department of Developmental Biology and Neurosciences, Graduate School of Life Sciences, Tohoku University, Sendai, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1111/j.1755-148X.2008.00513.xDOI Listing
February 2009

An evolutionary origin and selection process of goldfish.

Gene 2009 Feb 6;430(1-2):5-11. Epub 2008 Nov 6.

Tokai University School of Medicine, Shimokasuya, Isehara, Kanagawa 259-1193, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.gene.2008.10.019DOI Listing
February 2009

Optimized ancestral state reconstruction using Sankoff parsimony.

BMC Bioinformatics 2009 Feb 7;10:51. Epub 2009 Feb 7.

Center for Information Biology and DNA Databank of Japan, National Institute of Genetics, Yata 1111, Mishima, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/1471-2105-10-51DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2677398PMC
February 2009

DDBJ dealing with mass data produced by the second generation sequencer.

Nucleic Acids Res 2009 Jan 16;37(Database issue):D16-8. Epub 2008 Oct 16.

Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Research Organization of Information and Systems, Yata, Mishima 411-8540, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gkn724DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2686496PMC
January 2009

The evolutionary relationship between gene duplication and alternative splicing.

Gene 2008 Dec 12;427(1-2):19-31. Epub 2008 Sep 12.

Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Yata 1111, Mishima, Shizuoka, 411-8540, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.gene.2008.09.002DOI Listing
December 2008

The origin of nucleus: rebuild from the prokaryotic ancestors of ribosome export factors.

Gene 2008 Nov 21;423(2):149-52. Epub 2008 Jun 21.

Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Research Organization of Information and Systems, 1111 Yata, Mishima, Shizuoka 411-8540, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.gene.2008.06.018DOI Listing
November 2008

Eukaryotic nuclear structure explains the evolutionary rate difference of ribosome export factors.

Gene 2008 Sep 7;421(1-2):7-13. Epub 2008 Jun 7.

Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Research Organization of Information and Systems, 1111 Yata, Mishima, Shizuoka 411-8540, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.gene.2008.05.021DOI Listing
September 2008

Cilium evolution: identification of a novel protein, nematocilin, in the mechanosensory cilium of Hydra nematocytes.

Mol Biol Evol 2008 Sep 17;25(9):2009-17. Epub 2008 Jul 17.

Center for Information Biology and DDBJ, National Institute of Genetics, Mishima, Japan.

View Article

Download full-text PDF

Source
https://academic.oup.com/mbe/article-lookup/doi/10.1093/molb
Publisher Site
http://dx.doi.org/10.1093/molbev/msn154DOI Listing
September 2008

The H-Invitational Database (H-InvDB), a comprehensive annotation resource for human genes and transcripts.

Authors:
Chisato Yamasaki Katsuhiko Murakami Yasuyuki Fujii Yoshiharu Sato Erimi Harada Jun-ichi Takeda Takayuki Taniya Ryuichi Sakate Shingo Kikugawa Makoto Shimada Motohiko Tanino Kanako O Koyanagi Roberto A Barrero Craig Gough Hong-Woo Chun Takuya Habara Hideki Hanaoka Yosuke Hayakawa Phillip B Hilton Yayoi Kaneko Masako Kanno Yoshihiro Kawahara Toshiyuki Kawamura Akihiro Matsuya Naoki Nagata Kensaku Nishikata Akiko Ogura Noda Shin Nurimoto Naomi Saichi Hiroaki Sakai Ryoko Sanbonmatsu Rie Shiba Mami Suzuki Kazuhiko Takabayashi Aiko Takahashi Takuro Tamura Masayuki Tanaka Susumu Tanaka Fusano Todokoro Kaori Yamaguchi Naoyuki Yamamoto Toshihisa Okido Jun Mashima Aki Hashizume Lihua Jin Kyung-Bum Lee Yi-Chueh Lin Asami Nozaki Katsunaga Sakai Masahito Tada Satoru Miyazaki Takashi Makino Hajime Ohyanagi Naoki Osato Nobuhiko Tanaka Yoshiyuki Suzuki Kazuho Ikeo Naruya Saitou Hideaki Sugawara Claire O'Donovan Tamara Kulikova Eleanor Whitfield Brian Halligan Mary Shimoyama Simon Twigger Kei Yura Kouichi Kimura Tomohiro Yasuda Tetsuo Nishikawa Yutaka Akiyama Chie Motono Yuri Mukai Hideki Nagasaki Makiko Suwa Paul Horton Reiko Kikuno Osamu Ohara Doron Lancet Eric Eveno Esther Graudens Sandrine Imbeaud Marie Anne Debily Yoshihide Hayashizaki Clara Amid Michael Han Andreas Osanger Toshinori Endo Michael A Thomas Mika Hirakawa Wojciech Makalowski Mitsuteru Nakao Nam-Soon Kim Hyang-Sook Yoo Sandro J De Souza Maria de Fatima Bonaldo Yoshihito Niimura Vladimir Kuryshev Ingo Schupp Stefan Wiemann Matthew Bellgard Masafumi Shionyu Libin Jia Danielle Thierry-Mieg Jean Thierry-Mieg Lukas Wagner Qinghua Zhang Mitiko Go Shinsei Minoshima Masafumi Ohtsubo Kousuke Hanada Peter Tonellato Takao Isogai Ji Zhang Boris Lenhard Sangsoo Kim Zhu Chen Ursula Hinz Anne Estreicher Kenta Nakai Izabela Makalowska Winston Hide Nicola Tiffin Laurens Wilming Ranajit Chakraborty Marcelo Bento Soares Maria Luisa Chiusano Yutaka Suzuki Charles Auffray Yumi Yamaguchi-Kabata Takeshi Itoh Teruyoshi Hishiki Satoshi Fukuchi Ken Nishikawa Sumio Sugano Nobuo Nomura Yoshio Tateno Tadashi Imanishi Takashi Gojobori

Nucleic Acids Res 2008 Jan 18;36(Database issue):D793-9. Epub 2007 Dec 18.

Japan Biological Information Research Center, Japan Biological Informatics Consortium, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gkm999DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2238988PMC
January 2008

The Rice Annotation Project Database (RAP-DB): 2008 update.

Nucleic Acids Res 2008 Jan 17;36(Database issue):D1028-33. Epub 2007 Dec 17.

National Institute of Agrobiological Sciences, Ibaraki 305-8602, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gkm978DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2238920PMC
January 2008

Evolutionary origin of sex-related genes in the mouse brain.

Gene 2007 Dec 17;406(1-2):108-12. Epub 2007 Jul 17.

Center for Information Biology and DDBJ, National Institute of Genetics, Mishima, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.gene.2007.06.024DOI Listing
December 2007

The evolutionary emergence of cell type-specific genes inferred from the gene expression analysis of Hydra.

Proc Natl Acad Sci U S A 2007 Sep 31;104(37):14735-40. Epub 2007 Aug 31.

Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Mishima, Shizuoka 411-8540 Japan.

View Article

Download full-text PDF

Source
http://www.pnas.org/cgi/doi/10.1073/pnas.0703331104
Publisher Site
http://dx.doi.org/10.1073/pnas.0703331104DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1963347PMC
September 2007

Compensatory change of interacting amino acids in the coevolution of transcriptional coactivator MBF1 and TATA-box-binding protein.

Mol Biol Evol 2007 Jul 17;24(7):1458-63. Epub 2007 Apr 17.

Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Mishima, Shizuoka, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/molbev/msm073DOI Listing
July 2007

A web-based interactive developmental table for the ascidian Ciona intestinalis, including 3D real-image embryo reconstructions: I. From fertilized egg to hatching larva.

Dev Dyn 2007 Jul;236(7):1790-805

Department of Bioscience and Informatics, Faculty of Science and Technology, Keio University, Yokohama, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1002/dvdy.21188DOI Listing
July 2007

Transcriptional interferences in cis natural antisense transcripts of humans and mice.

Genetics 2007 Jun 3;176(2):1299-306. Epub 2007 Apr 3.

Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Research Organization of Information and Systems, Mishima 411-8540, Japan.

View Article

Download full-text PDF

Source
http://www.genetics.org/cgi/doi/10.1534/genetics.106.069484
Publisher Site
http://dx.doi.org/10.1534/genetics.106.069484DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1894591PMC
June 2007

Curated genome annotation of Oryza sativa ssp. japonica and comparative genome analysis with Arabidopsis thaliana.

Genome Res 2007 Feb 8;17(2):175-83. Epub 2007 Jan 8.

Division of Genome and Biodiversity Research, National Institute of Agrobiological Sciences, Tsukuba, Ibaraki 305-8602, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1101/gr.5509507DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1781349PMC
February 2007

Degeneration after sexual differentiation in hydra and its relevance to the evolution of aging.

Gene 2006 Dec 25;385:64-70. Epub 2006 Aug 25.

Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Yata 1111, Mishima, Shizuoka 411-8540, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.gene.2006.06.031DOI Listing
December 2006

magp4 gene may contribute to the diversification of cichlid morphs and their speciation.

Gene 2006 May 6;373:126-33. Epub 2006 Mar 6.

Graduate School of Bioscience and Biotechnology, Tokyo Institute of Technology, 4259-B21, Nagatsuta-cho, Midori-ku, Yokohama, 226-8501, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.gene.2006.01.016DOI Listing
May 2006

Phylogeny of the sex-determining gene Sex-lethal in insects.

Genome 2006 Mar;49(3):254-62

Institut für Biologie, Universität zu Lübeck, Ratzeburger Allee 160, D-23538 Lübeck, Germany.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1139/g05-107DOI Listing
March 2006

Molecular cloning and chromosomal localization of the Bombyx Sex-lethal gene.

Genome 2006 Mar;49(3):263-8

Graduate School of Bioagricultural Sciences, Nagoya University, Nagoya, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1139/g05-108DOI Listing
March 2006

Evolution of metabolic networks by gain and loss of enzymatic reaction in eukaryotes.

Gene 2006 Jan 15;365:88-94. Epub 2005 Dec 15.

Genome Research Department, National Institute of Agrobiological Sciences, Tsukuba, Ibaraki 305-8602, Japan.

View Article

Download full-text PDF

Source
http://linkinghub.elsevier.com/retrieve/pii/S037811190500630
Publisher Site
http://dx.doi.org/10.1016/j.gene.2005.09.030DOI Listing
January 2006

Comparative genome analyses of nervous system-specific genes.

Gene 2006 Jan 20;365:130-6. Epub 2005 Dec 20.

Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Mishima, Shizuoka 411-8540, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.gene.2005.09.001DOI Listing
January 2006

The Rice Annotation Project Database (RAP-DB): hub for Oryza sativa ssp. japonica genome information.

Nucleic Acids Res 2006 Jan;34(Database issue):D741-4

Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Research Organization of Information and Systems, 1111 Yata, Mishima, Shizuoka 411-8540, Japan.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gkj094DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1347456PMC
January 2006

[Genome network].

Nihon Yakurigaku Zasshi 2005 Jul;126(1):55-9

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1254/fpj.126.55DOI Listing
July 2005