Takashi Gojobori

Takashi Gojobori

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Takashi Gojobori

Publications by authors named "Takashi Gojobori"

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Monitoring of the toxic dinoflagellate Alexandrium catenella in Osaka Bay, Japan using a massively parallel sequencing (MPS)-based technique.

Harmful Algae 2019 Nov 12;89:101660. Epub 2019 Sep 12.

Computational Bioscience Research Center, King Abdullah University of Science and Technology, 4700 KAUST, Thuwal, 23955-6900, Saudi Arabia.

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http://dx.doi.org/10.1016/j.hal.2019.101660DOI Listing
November 2019

Mining biosynthetic gene clusters in Virgibacillus genomes.

BMC Genomics 2019 Sep 3;20(1):696. Epub 2019 Sep 3.

Computational Bioscience Research Center (CBRC), Computer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division, King Abdullah University of Science and Technology (KAUST), Thuwal, 23955-6900, Kingdom of Saudi Arabia.

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http://dx.doi.org/10.1186/s12864-019-6065-7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6724285PMC
September 2019

Finding Nemo's Genes: A chromosome-scale reference assembly of the genome of the orange clownfish Amphiprion percula.

Mol Ecol Resour 2019 May 10;19(3):570-585. Epub 2018 Sep 10.

KAUST Environmental Epigenetic Program, Division of Biological and Environmental Sciences and Engineering, King Abdullah University of Science and Technology, Thuwal, Saudi Arabia.

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http://dx.doi.org/10.1111/1755-0998.12939DOI Listing
May 2019

A Preliminary Metagenome Analysis Based on a Combination of Protein Domains.

Proteomes 2019 Apr 29;7(2). Epub 2019 Apr 29.

Department of Aquatic Bioscience, Graduate School of Agricultural and Life Sciences, The University of Tokyo, Bunkyo, Tokyo 113-8657, Japan.

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http://dx.doi.org/10.3390/proteomes7020019DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6630717PMC
April 2019

The apocarotenoid metabolite zaxinone regulates growth and strigolactone biosynthesis in rice.

Nat Commun 2019 02 18;10(1):810. Epub 2019 Feb 18.

Division of Biological and Environmental Science and Engineering, the BioActives Lab, King Abdullah University of Science and Technology, Thuwal, 23955-6900, Saudi Arabia.

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http://dx.doi.org/10.1038/s41467-019-08461-1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6379432PMC
February 2019

Regionalized nervous system in Hydra and the mechanism of its development.

Gene Expr Patterns 2019 01 21;31:42-59. Epub 2019 Jan 21.

Department of Developmental Genetics, National Institute of Genetics, Yata 1,111, Mishima, Shizuoka, 411-8540, Japan; Department of Molecular Evolution and Genomics, Center for Organismic Studies, Heidelberg, University of Heidelberg, Im Neuenheimer Feld 230, 69120, Heidelberg, Germany. Electronic address:

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http://dx.doi.org/10.1016/j.gep.2019.01.003DOI Listing
January 2019

Comparative genome and transcriptome analysis of diatom, Skeletonema costatum, reveals evolution of genes for harmful algal bloom.

BMC Genomics 2018 Oct 22;19(1):765. Epub 2018 Oct 22.

National Research Institute of Fisheries Science, 2-12-4 Fukuura, Kanazawa, Yokohama, Kanagawa, 236-8648, Japan.

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https://bmcgenomics.biomedcentral.com/articles/10.1186/s1286
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http://dx.doi.org/10.1186/s12864-018-5144-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6198448PMC
October 2018

Global Ramifications of Dust and Sandstorm Microbiota.

Genome Biol Evol 2018 08 1;10(8):1970-1987. Epub 2018 Aug 1.

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

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http://dx.doi.org/10.1093/gbe/evy134DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6097598PMC
August 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.

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

In silico exploration of Red Sea Bacillus genomes for natural product biosynthetic gene clusters.

BMC Genomics 2018 May 22;19(1):382. Epub 2018 May 22.

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

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http://dx.doi.org/10.1186/s12864-018-4796-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5964695PMC
May 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.

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

Low Concentrations of Vitamin C Reduce the Synthesis of Extracellular Polymers and Destabilize Bacterial Biofilms.

Front Microbiol 2017 22;8:2599. Epub 2017 Dec 22.

Systems and Synthetic Biology Division, Department of Biology and Biological Engineering, Chalmers University of Technology, Gothenburg, Sweden.

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http://dx.doi.org/10.3389/fmicb.2017.02599DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5748153PMC
December 2017

The Emerging Facets of Non-Cancerous Warburg Effect.

Front Endocrinol (Lausanne) 2017 23;8:279. Epub 2017 Oct 23.

King Abdullah University of Science and Technology (KAUST), Computational Bioscience Research Centre (CBRC), Thuwal, Saudi Arabia.

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http://journal.frontiersin.org/article/10.3389/fendo.2017.00
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http://dx.doi.org/10.3389/fendo.2017.00279DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5660072PMC
October 2017

Building a bio-based industry in the Middle East through harnessing the potential of the Red Sea biodiversity.

Appl Microbiol Biotechnol 2017 Jun 20;101(12):4837-4851. Epub 2017 May 20.

Department of Biology and Biological Engineering, Chalmers University of Technology, Kemivägen 10, SE412 96, Gothenburg, Sweden.

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http://link.springer.com/10.1007/s00253-017-8310-9
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http://dx.doi.org/10.1007/s00253-017-8310-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5486811PMC
June 2017

Comparative genomic analysis of translation initiation mechanisms for genes lacking the Shine-Dalgarno sequence in prokaryotes.

Nucleic Acids Res 2017 04;45(7):3922-3931

King Abdullah University of Science and Technology, Computational Bioscience Research Center, Thuwal 23955-6900, Kingdom of Saudi Arabia.

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http://dx.doi.org/10.1093/nar/gkx124DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5397173PMC
April 2017

FARNA: knowledgebase of inferred functions of non-coding RNA transcripts.

Nucleic Acids Res 2017 03;45(5):2838-2848

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

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http://dx.doi.org/10.1093/nar/gkw973DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5389649PMC
March 2017

In silico screening for candidate chassis strains of free fatty acid-producing cyanobacteria.

BMC Genomics 2017 01 5;18(1):33. Epub 2017 Jan 5.

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

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http://dx.doi.org/10.1186/s12864-016-3389-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5217662PMC
January 2017

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.

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

Selection pressure on human STR loci and its relevance in repeat expansion disease.

Mol Genet Genomics 2016 Oct 11;291(5):1851-69. Epub 2016 Jun 11.

National Institute of Advanced Industrial Science and Technology, 2-3-26 Aomi Koto-ku, Tokyo, 135-0064, Japan.

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http://dx.doi.org/10.1007/s00438-016-1219-7DOI Listing
October 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:

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

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

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

Single-cell technologies in environmental omics.

Gene 2016 Feb 22;576(2 Pt 1):701-7. Epub 2015 Oct 22.

King Abdullah University of Science and Technology (KAUST), Computational Bioscience Research Center (CBRC), Biological and Environmental Sciences and Engineering Division (BESE), Saudi Arabia. Electronic address:

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http://dx.doi.org/10.1016/j.gene.2015.10.031DOI Listing
February 2016

V-GAP: Viral genome assembly pipeline.

Gene 2016 Feb 22;576(2 Pt 1):676-80. Epub 2015 Oct 22.

Research Center for Aquatic Genomics, National Research Institute of Fisheries Science, Fisheries Research Agency, 2-12-4 Fukuura, Kanazawa, Yokohama 236-8648, Kanagawa, Japan.

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http://dx.doi.org/10.1016/j.gene.2015.10.029DOI Listing
February 2016

Influences of diurnal sampling bias on fixed-point monitoring of plankton biodiversity determined using a massively parallel sequencing-based technique.

Gene 2016 Feb 16;576(2 Pt 1):667-75. Epub 2015 Oct 16.

Research Center for Aquatic Genomics, National Research Institute of Fisheries Science, 2-12-4 Fukuura, Kanazawa-ku, Yokohama, Kanagawa 236-8648, Japan.

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http://dx.doi.org/10.1016/j.gene.2015.10.025DOI Listing
February 2016

Speciation of two gobioid species, Pterogobius elapoides and Pterogobius zonoleucus revealed by multi-locus nuclear and mitochondrial DNA analyses.

Gene 2016 Feb 28;576(2 Pt 1):593-602. Epub 2015 Oct 28.

Center for Information Biology, National Institute of Genetics, 1111 Yata, Mishima, Shizuoka 411-8540, Japan; Computational Bioscience Research Center, Biological and Environmental Science and Engineering, King Abdullah University of Science and Technology (KAUST), Thuwal 23955-6900, Saudi Arabia. Electronic address:

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http://dx.doi.org/10.1016/j.gene.2015.10.014DOI Listing
February 2016

Databases of the marine metagenomics.

Gene 2016 Feb 28;576(2 Pt 1):724-8. Epub 2015 Oct 28.

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

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http://dx.doi.org/10.1016/j.gene.2015.10.035DOI Listing
February 2016

Metagenomic studies of the Red Sea.

Gene 2016 Feb 23;576(2 Pt 1):717-23. Epub 2015 Oct 23.

King Abdullah University of Science and Technology, Computational Bioscience Research Center, Thuwal 23955-6900, Saudi Arabia; King Abdullah University of Science and Technology, Biological and Environmental Sciences and Engineering Division, Thuwal 23955-6900, Saudi Arabia. Electronic address:

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http://dx.doi.org/10.1016/j.gene.2015.10.034DOI Listing
February 2016

Editorial.

Gene 2016 Feb;576(2 Pt 1):592

The University of Rome, Italy.

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http://dx.doi.org/10.1016/j.gene.2015.11.017DOI Listing
February 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.

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

DESM: portal for microbial knowledge exploration systems.

Nucleic Acids Res 2016 Jan 5;44(D1):D624-33. Epub 2015 Nov 5.

King Abdullah University of Science and Technology (KAUST), Computational Bioscience Research Center (CBRC), Thuwal 23955-6900, Kingdom of Saudi Arabia King Abdullah University of Science and Technology (KAUST), Computer, Electrical and Mathematical Sciences and Engineering Division (CEMSE), Thuwal 23955-6900, Kingdom of Saudi Arabia

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http://dx.doi.org/10.1093/nar/gkv1147DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4702830PMC
January 2016

Marine metagenomics as a source for bioprospecting.

Mar Genomics 2015 Dec 12;24 Pt 1:21-30. Epub 2015 Aug 12.

Computational Bioscience Research Center (CBRC), Saudi Arabia; Biological and Environmental Sciences and Engineering Division (BESE), Saudi Arabia; King Abdullah University of Science and Technology (KAUST), Saudi Arabia. Electronic address:

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http://dx.doi.org/10.1016/j.margen.2015.07.001DOI Listing
December 2015

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.

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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.

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

Dopamine receptor genes and evolutionary differentiation in the domestication of fighting cocks and long-crowing chickens.

PLoS One 2014 31;9(7):e101778. Epub 2014 Jul 31.

National Institute of Genetics, Shizuoka, Japan; SOKENDAI, Department of Genetics, Graduate School of Advanced Studies, Hayama, Kanagawa, Japan; CBRC, BESE, King Abdullah University of Science and Technology, Thuwal, KSA.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0101778PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4117491PMC
October 2015

Marine Metagenome as A Resource for Novel Enzymes.

Genomics Proteomics Bioinformatics 2015 Oct 10;13(5):290-5. Epub 2015 Nov 10.

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

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http://dx.doi.org/10.1016/j.gpb.2015.10.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4678775PMC
October 2015

Eye-like ocelloids are built from different endosymbiotically acquired components.

Nature 2015 Jul 1;523(7559):204-7. Epub 2015 Jul 1.

1] Department of Zoology, University of British Columbia, Vancouver, British Columbia V6T 1Z4, Canada [2] Department of Botany, University of British Columbia, Vancouver, British Columbia V6T 1Z4, Canada [3] Canadian Institute for Advanced Research, Toronto, Ontario M5G 1Z8, Canada.

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http://dx.doi.org/10.1038/nature14593DOI Listing
July 2015

Challenges and opportunities of airborne metagenomics.

Genome Biol Evol 2015 May 6;7(5):1216-26. Epub 2015 May 6.

Computational Bioscience Research Center, King Abdullah University of Science and Technology, Thuwal, Kingdom of Saudi Arabia Computer, Electrical, and Mathematical Sciences and Engineering Division, King Abdullah University of Science and Technology, Thuwal, Kingdom of Saudi Arabia.

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http://dx.doi.org/10.1093/gbe/evv064DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4453059PMC
May 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.

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

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

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

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

Innexin gap junctions in nerve cells coordinate spontaneous contractile behavior in Hydra polyps.

Sci Rep 2014 Jan 7;4:3573. Epub 2014 Jan 7.

Biological and Environmental Science and Engineering Division and Computational Bioscience Research Center, KAUST, Thuwal 23955-6900, Kingdom of Saudi Arabia.

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http://www.nature.com/articles/srep03573
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http://dx.doi.org/10.1038/srep03573DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3882753PMC
January 2014

Computational analysis and functional expression of ancestral copepod luciferase.

Gene 2013 Oct 23;528(2):201-5. Epub 2013 Jul 23.

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

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http://dx.doi.org/10.1016/j.gene.2013.07.011DOI Listing
October 2013

H-InvDB in 2013: an omics study platform for human functional gene and transcript discovery.

Nucleic Acids Res 2013 Jan 28;41(Database issue):D915-9. Epub 2012 Nov 28.

Integrated Database and Systems Biology Team, Biomedicinal Information Research Center, National Institute of Advanced Industrial Science and Technology, Aomi 2-4-7, Koto-ku, Tokyo 135-0064, Japan.

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http://dx.doi.org/10.1093/nar/gks1245DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3531145PMC
January 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.

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

TP Atlas: integration and dissemination of advances in Targeted Proteins Research Program (TPRP)-structural biology project phase II in Japan.

J Struct Funct Genomics 2012 Sep 29;13(3):145-54. Epub 2012 May 29.

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

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http://dx.doi.org/10.1007/s10969-012-9139-1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3414706PMC
September 2012

Clone identification in Japanese flowering cherry (Prunus subgenus Cerasus) cultivars using nuclear SSR markers.

Breed Sci 2012 Sep 1;62(3):248-55. Epub 2012 Nov 1.

Department of Forest Genetics, Forestry and Forest Products Research Institute , 1 Matsunosato, Tsukuba, Ibaraki 305-8687, Japan.

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http://dx.doi.org/10.1270/jsbbs.62.248DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3501942PMC
September 2012

Infectious endogenous retroviruses in cats and emergence of recombinant viruses.

J Virol 2012 Aug 6;86(16):8634-44. Epub 2012 Jun 6.

Laboratory of Molecular Immunology and Infectious Disease, Joint Faculty of Veterinary Medicine, Yamaguchi University, Yoshida, Yamaguchi, Japan.

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http://dx.doi.org/10.1128/JVI.00280-12DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3421742PMC
August 2012

Evolution of bioluminescence in marine planktonic copepods.

Mol Biol Evol 2012 Jun 12;29(6):1669-81. Epub 2012 Jan 12.

Health Research Institute, National Institute of Advanced Industrial Science and Technology (AIST), Ikeda, Osaka, Japan.

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https://academic.oup.com/mbe/article-lookup/doi/10.1093/molb
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http://dx.doi.org/10.1093/molbev/mss009DOI Listing
June 2012

The temporal sequence of the mammalian neocortical neurogenetic program drives mediolateral pattern in the chick pallium.

Dev Cell 2012 Apr 15;22(4):863-70. Epub 2012 Mar 15.

Division of Brain Function, National Institute of Genetics, Graduate University for Advanced Studies (Sokendai), Mishima 411-8540, Japan.

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https://linkinghub.elsevier.com/retrieve/pii/S15345807120003
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http://dx.doi.org/10.1016/j.devcel.2012.01.004DOI Listing
April 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.

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

Multiple plastids collected by the dinoflagellate Dinophysis mitra through kleptoplastidy.

Appl Environ Microbiol 2012 Feb 18;78(3):813-21. Epub 2011 Nov 18.

Harmful Algal Bloom Division, National Research Institute of Fisheries and Environment of Inland Sea, Hatsukaichi, Hiroshima, Japan.

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http://dx.doi.org/10.1128/AEM.06544-11DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3264124PMC
February 2012

The DNA Data Bank of Japan launches a new resource, the DDBJ Omics Archive of functional genomics experiments.

Nucleic Acids Res 2012 Jan 22;40(Database issue):D38-42. Epub 2011 Nov 22.

Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Research Organization for Information and Systems, Yata, Mishima 411-8510, Japan.

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http://dx.doi.org/10.1093/nar/gkr994DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3244990PMC
January 2012

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.

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

Binary classification of protein molecules into intrinsically disordered and ordered segments.

BMC Struct Biol 2011 Jun 22;11:29. Epub 2011 Jun 22.

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

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http://dx.doi.org/10.1186/1472-6807-11-29DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3199747PMC
June 2011

Evolutionary history of dog rabies in Brazil.

J Gen Virol 2011 Jan 6;92(Pt 1):85-90. Epub 2010 Oct 6.

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

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http://dx.doi.org/10.1099/vir.0.026468-0DOI Listing
January 2011

DDBJ progress report.

Nucleic Acids Res 2011 Jan 9;39(Database issue):D22-7. Epub 2010 Nov 9.

Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Research Organization for Information and Systems, Yata, Mishima 411-8510, Japan.

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http://dx.doi.org/10.1093/nar/gkq1041DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3013661PMC
January 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.

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

The transcript repeat element: the human Alu sequence as a component of gene networks influencing cancer.

Funct Integr Genomics 2010 Aug;10(3):307-19

Centre for Comparative Genomics, School for Information Technology, Murdoch University, Murdoch, WA, Australia.

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http://dx.doi.org/10.1007/s10142-010-0168-1DOI Listing
August 2010

A non-sulfated chondroitin stabilizes membrane tubulation in cnidarian organelles.

J Biol Chem 2010 Aug 9;285(33):25613-23. Epub 2010 Jun 9.

Department of Molecular Evolution and Genomics, Institute of Zoology, Heidelberg University, Im Neuenheimer Feld 230, 69120 Heidelberg, Germany.

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http://www.jbc.org/lookup/doi/10.1074/jbc.M110.107904
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http://dx.doi.org/10.1074/jbc.M110.107904DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2919125PMC
August 2010

CIG-DB: the database for human or mouse immunoglobulin and T cell receptor genes available for cancer studies.

BMC Bioinformatics 2010 Jul 27;11:398. Epub 2010 Jul 27.

Immunotherapy Division, Shizuoka Cancer Center Research Institute, 1007 Shimonagakubo, Nagaizumi-cho, Sunto-gun, Shizuoka, 411-8777, Japan.

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http://dx.doi.org/10.1186/1471-2105-11-398DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2919518PMC
July 2010

Dynamic evolution of translation initiation mechanisms in prokaryotes.

Proc Natl Acad Sci U S A 2010 Apr 22;107(14):6382-7. Epub 2010 Mar 22.

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

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http://dx.doi.org/10.1073/pnas.1002036107DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2851962PMC
April 2010

A comprehensive survey of human polymorphisms at conserved splice dinucleotides and its evolutionary relationship with alternative splicing.

BMC Evol Biol 2010 Apr 30;10:122. Epub 2010 Apr 30.

Biomedicinal Information Research Center, National Institute of Advanced Industrial Science and Technology, 2-42 Aomi Koto-ku, Tokyo135-0064, Japan.

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http://bmcevolbiol.biomedcentral.com/articles/10.1186/1471-2
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http://dx.doi.org/10.1186/1471-2148-10-122DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2882926PMC
April 2010

Low genetic diversities of rabies virus populations within different hosts in Brazil.

Infect Genet Evol 2010 Mar 14;10(2):278-83. Epub 2009 Dec 14.

Nihon University Veterinary Research Center, 1866 Kameino, Fujisawa, Kanagawa 252-8510, Japan.

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http://linkinghub.elsevier.com/retrieve/pii/S156713480900285
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http://dx.doi.org/10.1016/j.meegid.2009.12.003DOI Listing
March 2010

Long-range neural and gap junction protein-mediated cues control polarity during planarian regeneration.

Dev Biol 2010 Mar 21;339(1):188-99. Epub 2009 Dec 21.

Center for Regenerative and Developmental Biology and Department of Biology, Tufts University. Suite 4600, 200 Boston Avenue, Medford. MA 02155, USA.

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http://linkinghub.elsevier.com/retrieve/pii/S001216060901402
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http://dx.doi.org/10.1016/j.ydbio.2009.12.012DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2823934PMC
March 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.

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

DDBJ launches a new archive database with analytical tools for next-generation sequence data.

Nucleic Acids Res 2010 Jan 22;38(Database issue):D33-8. Epub 2009 Oct 22.

Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Research Organization for Information and Systems, Yata, Mishima 411-8510, Japan.

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http://dx.doi.org/10.1093/nar/gkp847DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2808917PMC
January 2010

H-DBAS: human-transcriptome database for alternative splicing: update 2010.

Nucleic Acids Res 2010 Jan 7;38(Database issue):D86-90. Epub 2009 Dec 7.

Integrated Database and Systems Biology Team, Biomedicinal Information Research Center National Institute of Advanced Industrial Science and Technology, AIST Bio-IT Research Bldg Aomi 2-4-7, Koto-ku, Tokyo 135-0064, Japan.

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https://academic.oup.com/nar/article-lookup/doi/10.1093/nar/
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http://dx.doi.org/10.1093/nar/gkp984DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2808982PMC
January 2010

G-compass: a web-based comparative genome browser between human and other vertebrate genomes.

Bioinformatics 2009 Dec 21;25(24):3321-2. Epub 2009 Oct 21.

Japan Biological Information Research Center, Japan Biological Informatics Consortium, Aomi 2-42, Koto-ku, Tokyo 135-0064, Japan.

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http://dx.doi.org/10.1093/bioinformatics/btp594DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2788932PMC
December 2009

Mapping human genetic diversity in Asia.

Science 2009 Dec;326(5959):1541-5

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http://dx.doi.org/10.1126/science.1177074DOI Listing
December 2009

Methods for incorporating the hypermutability of CpG dinucleotides in detecting natural selection operating at the amino acid sequence level.

Mol Biol Evol 2009 Oct 6;26(10):2275-84. Epub 2009 Jul 6.

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

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https://academic.oup.com/mbe/article-lookup/doi/10.1093/molb
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http://dx.doi.org/10.1093/molbev/msp133DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2766935PMC
October 2009