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Species Resource name RRC ID Author Title Journal Published Volume Pages Pubmed ID DOI
Information   Oryzabase   47262   Bessho-Uehara K, Wang DR, Furuta T, Minami A, Nagai K, Gamuyao R, Asano K, Angeles-Shim RB, Shimizu Y, Ayano M, Komeda N, Doi K, Miura K, Toda Y, Kinoshita T, Okuda S, Higashiyama T, Nomoto M, Tada Y, Shinohara H, Matsubayashi Y, Greenberg A, Wu J, Yasui H, Yoshimura A, Mori H, McCouch SR, Ashikari M.   Loss of function at RAE2, a previously unidentified EPFL, is required for awnlessness in cultivated Asian rice.   Proc. Natl. Acad. Sci. U.S.A.   2016 -7 -29   113(32)   8969-74   27466405   10.1073/pnas.1604849113  
Information   Oryzabase   47259   Sakuraba Y, Han SH, Yang HJ, Piao W, Paek NC.   Mutation of Rice Early Flowering3.1 (OsELF3.1) delays leaf senescence in rice.   Plant Mol. Biol.   2016 -7 -6   92(1-2)   223-34   27380315   10.1007/s11103-016-0507-2  
Information   Oryzabase   47263   Aravind Venkatesan, Gildas Tagny Ngompe, Nordine El Hassouni, Manuel Ruiz, Pierre Larmande   AgroLD API suite: an API-centric approach towards knowledge extraction in the Agronomic Linked Data knowledge base   AgroLD API suite   2016 -6 -10          
Information   Oryzabase   47261   Shanshan Xiao, Min Shao, Dong Wang, Wenqi Li, Fengquan Liu   Identification and Evolution of FYVE Domain-Containing Proteins and Their Expression Patterns in Response to Abiotic Stresses in Rice   Plant Mol Biol Rep   2016 -4 -25   34   1064-1082     DOI 10.1007/s11105-016-0988-9  
Rice, Information   Oryzabase   36322   Ohyanagi H, Ebata T, Huang X, Gong H, Fujita M, Mochizuki T, Toyoda A, Fujiyama A, Kaminuma E, Nakamura Y, Feng Q, Wang ZX, Han B, Kurata N.   OryzaGenome: Genome Diversity Database of Wild Oryza Species.   Plant Cell Physiol.   2015 -11 -19   57(1)   e1   26578696   10.1093/pcp/pcv171  
Rice, Information   Oryzabase   34827   Katsunori Tanaka, Nobuhiko Kamijo, Hiroaki Tabuchi, Kuniko Hanamori, Ryuji Matsuda, Junko Suginomori, Yo-Ichiro Sato, Tetsuro Udatsu, Ryuji Ishikawa   Morphological and molecular genetics of ancient remains and modern rice (Oryza sativa) confirm diversity in ancient Japan   Genetic Resources and Crop Evolution   2015 -7 -11     1-18     10.1007/s10722-015-0262-2  
Rice, Information   Oryzabase   34825   Zhang F, Huang LY, Zhang F, Ali J, Cruz CV, Zhuo DL, Du ZL, Li ZK, Zhou YL.   Comparative transcriptome profiling of a rice line carrying Xa39 and its parents triggered by Xanthomonas oryzae pv. oryzae provides novel insights into the broad-spectrum hypersensitive response.   BMC Genomics   2015 -3 -15   16   111   25765449   10.1186/s12864-015-1329-3  
Rice, Information   Oryzabase   34826   Yu Sugiyama, Hiroyasu Michiyama, Tatsuya Hirano   Involvement of α-Amylase Genes in Starch Degradation in Rice Leaf Sheaths at the Post-Heading Stage   Plant Prod Sci   2015 -1 -6   18-3   277-283     doi.org/10.1626/pps.18.277  
Rice, Information   Oryzabase   25689   Ishiwata A, Ozawa M, Nagasaki H, Kato M, Noda Y, Yamaguchi T, Nosaka M, Shimizu-Sato S, Nagasaki A, Maekawa M, Hirano HY, Sato Y.   Two WUSCHEL-related homeobox genes, narrow leaf2 and narrow leaf3, control leaf width in rice.   Plant Cell Physiol.   2013 -2 -20   54(5)   779-92   23420902   10.1093/pcp/pct032  
Rice, Information   Oryzabase   25691   Cheng X, Zhu L, He G.   Towards understanding of molecular interactions between rice and the brown planthopper.   Mol Plant   2013 -2 -12   6(3)   621-34   23396040   10.1093/mp/sst030  
Rice, Information   Oryzabase   25688   Sakai H, Lee SS, Tanaka T, Numa H, Kim J, Kawahara Y, Wakimoto H, Yang CC, Iwamoto M, Abe T, Yamada Y, Muto A, Inokuchi H, Ikemura T, Matsumoto T, Sasaki T, Itoh T.   Rice Annotation Project Database (RAP-DB): an integrative and interactive database for rice genomics.   Plant Cell Physiol.   2013 -1 -10   54(2)   e6   23299411   10.1093/pcp/pcs183  
Information   Oryzabase   25687   Cooper L, Walls RL, Elser J, Gandolfo MA, Stevenson DW, Smith B, Preece J, Athreya B, Mungall CJ, Rensing S, Hiss M, Lang D, Reski R, Berardini TZ, Li D, Huala E, Schaeffer M, Menda N, Arnaud E, Shrestha R, Yamazaki Y, Jaiswal P.   The plant ontology as a tool for comparative plant anatomy and genomic analyses.   Plant Cell Physiol.   2012 -12 -12   54(2)   e1   23220694   10.1093/pcp/pcs163  
Rice, Information   Oryzabase   25690   Sato Y, Namiki N, Takehisa H, Kamatsuki K, Minami H, Ikawa H, Ohyanagi H, Sugimoto K, Itoh J, Antonio BA, Nagamura Y.   RiceFREND: a platform for retrieving coexpressed gene networks in rice.   Nucleic Acids Res.   2012 -11 -28   41(Database issue)   D1214-21   23180784   10.1093/nar/gks1122  
Information   Oryzabase   18953   Walls RL, Athreya B, Cooper L, Elser J, Gandolfo MA, Jaiswal P, Mungall CJ, Preece J, Rensing S, Smith B, Stevenson DW.   Ontologies as integrative tools for plant science.   Am. J. Bot.   2012 -8 -1   99(8)   1263-75   22847540   10.3732/ajb.1200222  
Information   nbrp   25686   Andoh T, Takayama Y, Yamakoshi T, Lee JB, Sano A, Shimizu T, Kuraishi Y.   Involvement of serine protease and proteinase-activated receptor 2 in dermatophyte-associated itch in mice.   J. Pharmacol. Exp. Ther.   2012 -7 -5   343(1)   91-6   22761302   10.1124/jpet.112.195222  
Rice, Information   W1943, W0106, Oryzabase   15409   Yang CC, Kawahara Y, Mizuno H, Wu J, Matsumoto T, Itoh T.   Independent domestication of Asian rice followed by gene flow from japonica to indica.   Mol. Biol. Evol.   2012 -2 -10   29(5)   1471-9   22319137   10.1093/molbev/msr315  
Information   Oryzabase   18952   Myint KK, Fujita D, Matsumura M, Sonoda T, Yoshimura A, Yasui H.   Mapping and pyramiding of two major genes for resistance to the brown planthopper (Nilaparvata lugens [Stål]) in the rice cultivar ADR52.   Theor. Appl. Genet.   2011 -11 -4   124(3)   495-504   22048639   10.1007/s00122-011-1723-4  
Information   Oryzabase   18954   Verdier V, Vera Cruz C, Leach JE.   Controlling rice bacterial blight in Africa: needs and prospects.   J. Biotechnol.   2011 -10 -4   159(4)   320-8   21963588   10.1016/j.jbiotec.2011.09.020  
Information, Drosophila   http://www.dgrc.kit.ac.jp/en/index.html   15370   Wolf MJ, Rockman HA.   Drosophila, genetic screens, and cardiac function.   Circ. Res.   2011 -9 -16   109(7)   794-806   21921272   10.1161/CIRCRESAHA.111.244897  
Information   nbrp   25685   Tateno H, Yabe R, Sato T, Shibazaki A, Shikanai T, Gonoi T, Narimatsu H, Hirabayashi J.   Human ZG16p recognizes pathogenic fungi through non-self polyvalent mannose in the digestive system.   Glycobiology   2011 -9 -7   22(2)   210-20   21893569   10.1093/glycob/cwr130  
Information   Oryzabase   12493   Yu G, Duan J, Yan H, Song B, He Z.   cDNA-AFLP analysis of gene expression differences between the flower bud and sprout-shoot apical meristem of Angelica sinensis (Oliv.) Diels.   Genet. Mol. Biol.   2011 -7 -8   34(2)   274-9   21734829    
Information   Oryzabase   12491   Harnsomburana J, Green JM, Barb AS, Schaeffer M, Vincent L, Shyu CR.   Computable visually observed phenotype ontological framework for plants.   BMC Bioinformatics   2011 -6 -28   12   260   21702966   10.1186/1471-2105-12-260  
Information   Oryzabase   12484   Whetzel PL, Noy NF, Shah NH, Alexander PR, Nyulas C, Tudorache T, Musen MA.   BioPortal: enhanced functionality via new Web services from the National Center for Biomedical Ontology to access and use ontologies in software applications.   Nucleic Acids Res.   2011 -6 -16   39(Web Server issue)   W541-5   21672956   10.1093/nar/gkr469  
Rice, Information   Oryzabase, W0106, W0107, W0108, W0137...   19241   Asano K, Yamasaki M, Takuno S, Miura K, Katagiri S, Ito T, Doi K, Wu J, Ebana K, Matsumoto T, Innan H, Kitano H, Ashikari M, Matsuoka M.   Artificial selection for a green revolution gene during japonica rice domestication.   Proc. Natl. Acad. Sci. U.S.A.   2011 -6 -8   108(27)   11034-9   21646530   10.1073/pnas.1019490108  
Information   Oryzabase   11917   Green JM, Harnsomburana J, Schaeffer ML, Lawrence CJ, Shyu CR.   Multi-source and ontology-based retrieval engine for maize mutant phenotypes.   Database (Oxford)   2011 -5 -12   2011   bar012   21558151   10.1093/database/bar012  
Information   Oryzabase   12486   Nagamine A, Matsusaka H, Ushijima T, Kawagoe Y, Ogawa M, Okita TW, Kumamaru T.   A role for the cysteine-rich 10 kDa prolamin in protein body I formation in rice.   Plant Cell Physiol.   2011 -4 -28   52(6)   1003-16   21521743   10.1093/pcp/pcr053  
Information   Oryzabase   11916   Matsumoto T, Tanaka T, Sakai H, Amano N, Kanamori H, Kurita K, Kikuta A, Kamiya K, Yamamoto M, Ikawa H, Fujii N, Hori K, Itoh T, Sato K.   Comprehensive sequence analysis of 24,783 barley full-length cDNAs derived from 12 clone libraries.   Plant Physiol.   2011 -3 -19   156(1)   20-8   21415278   10.1104/pp.110.171579  
Information   nigfly   11925   Pandey UB, Nichols CD.   Human disease models in Drosophila melanogaster and the role of the fly in therapeutic drug discovery.   Pharmacol. Rev.   2011 -3 -19   63(2)   411-36   21415126   10.1124/pr.110.003293  
Information, Drosophila   http://www.dgrc.kit.ac.jp/en/index.html   15351   Pandey UB, Nichols CD.   Human disease models in Drosophila melanogaster and the role of the fly in therapeutic drug discovery.   Pharmacol. Rev.   2011 -3 -19   63(2)   411-36   21415126   10.1124/pr.110.003293  
Information   Oryzabase   11918   Torres Acosta JA, Fowke LC, Wang H.   Analyses of phylogeny, evolution, conserved sequences and genome-wide expression of the ICK/KRP family of plant CDK inhibitors.   Ann. Bot.   2011 -3 -10   107(7)   1141-57   21385782   10.1093/aob/mcr034  
Information   KOMUGI   18957   Liu W, Jin Y, Rouse M, Friebe B, Gill B, Pumphrey MO.   Development and characterization of wheat-Ae. searsii Robertsonian translocations and a recombinant chromosome conferring resistance to stem rust.   Theor. Appl. Genet.   2011 -2 -25   122(8)   1537-45   21347655   10.1007/s00122-011-1553-4  
Information, Drosophila   Infomation of DME1-001M04 and DME1-007E02 (Drosophi...   15378   Méndez-Lago M, Bergman CM, de Pablos B, Tracey A, Whitehead SL, Villasante A.   A large palindrome with interchromosomal gene duplications in the pericentromeric region of the D. melanogaster Y chromosome.   Mol. Biol. Evol.   2011 -2 -8   28(7)   1967-71   21297157   10.1093/molbev/msr034  
Information   Drosophila database   11532   Shinomiya K, Matsuda K, Oishi T, Otsuna H, Ito K.   Flybrain neuron database: a comprehensive database system of the Drosophila brain neurons.   J. Comp. Neurol.   2011 -2 -1   519(5)   807-33   21280038   10.1002/cne.22540  
Information, Drosophila   database http://kyotofly.kit.jp/cgi-bin/stocks/inde...   15347   Shinomiya K, Matsuda K, Oishi T, Otsuna H, Ito K.   Flybrain neuron database: a comprehensive database system of the Drosophila brain neurons.   J. Comp. Neurol.   2011 -2 -1   519(5)   807-33   21280038   10.1002/cne.22540  
Information   Oryzabase   7217   Schindelman G, Fernandes JS, Bastiani CA, Yook K, Sternberg PW.   Worm Phenotype Ontology: integrating phenotype data within and beyond the C. elegans community.   BMC Bioinformatics   2011 -1 -26   12   32   21261995   10.1186/1471-2105-12-32  
Information   Oryzabase   7218   Nagamura Y, Antonio BA, Sato Y, Miyao A, Namiki N, Yonemaru J, Minami H, Kamatsuki K, Shimura K, Shimizu Y, Hirochika H.   Rice TOGO Browser: A platform to retrieve integrated information on rice functional and applied genomics.   Plant Cell Physiol.   2011 -1 -11   52(2)   230-7   21216747   10.1093/pcp/pcq197  
Information   Oryzabase   12279   Fumio Taguchi-Shiobara et al.   A loss-of-function mutation of rice DENSE PANICLE 1 causes semi-dwarfness and slightly increased number of spikelets   Breed Sci.   2011   61   17-25      
Information, Drosophila   Gal4 Enhancer Trap Insertion Database (GETDB), http://kyotofly.kit.jp/stocks/GETDB/getdb.html Stocks of DGRC Kyoto,...   15383   Kiichiro Taniguchi, Akihiko Kokuryo, Takao Imano, Ryunosuke Minami, Hideki Nakagoshi and Takashi Adachi-Yamada   Binucleation of Drosophila Adult Male Accessory Gland Cells Increases Plasticity of Organ Size for Effective Reproduction   J Organ Biol   2011   1   1000e101      
Information   Oryzabase   11919   Youens-Clark K, Buckler E, Casstevens T, Chen C, Declerck G, Derwent P, Dharmawardhana P, Jaiswal P, Kersey P, Karthikeyan AS, Lu J, McCouch SR, Ren L, Spooner W, Stein JC, Thomason J, Wei S, Ware D.   Gramene database in 2010: updates and extensions.   Nucleic Acids Res.   2010 -11 -16   39(Database issue)   D1085-94   21076153   10.1093/nar/gkq1148  
Information   Oryzabase   7211   Mast S, Peng L, Jordan TW, Flint H, Phillips L, Donaldson L, Strabala TJ, Wagner A.   Proteomic analysis of membrane preparations from developing Pinus radiata compression wood.   Tree Physiol.   2010 -10 -30   30(11)   1456-68   21030408   10.1093/treephys/tpq084  
Information   nbrp   11927   Yoshizawa K, Nakao K, Habiro M, Hayashi K, Kuwata M, Uehara N, Yuri T, Nakamura K, Tsubura A.   Cerebromalacia with epilepsy and cortical blindness in a laboratory Japanese macaque (Macaca fuscata).   Toxicol Pathol   2010 -10 -5   38(7)   1058-63   20884816   10.1177/0192623310382561  
Information   KOMUGI   18958   Herrera-Foessel SA, Lagudah ES, Huerta-Espino J, Hayden MJ, Bariana HS, Singh D, Singh RP.   New slow-rusting leaf rust and stripe rust resistance genes Lr67 and Yr46 in wheat are pleiotropic or closely linked.   Theor. Appl. Genet.   2010 -9 -18   122(1)   239-49   20848270   10.1007/s00122-010-1439-x  
Information   KOMUGI   18956   Li Q, Chen XM, Wang MN, Jing JX.   Yr45, a new wheat gene for stripe rust resistance on the long arm of chromosome 3D.   Theor. Appl. Genet.   2010 -9 -15   122(1)   189-97   20838759   10.1007/s00122-010-1435-1  
Information   nbrp   11928   Williams JM, Mangan ME, Perreault-Micale C, Lathe S, Sirohi N, Lathe WC.   OpenHelix: bioinformatics education outside of a different box.   Brief. Bioinformatics   2010 -8 -28   11(6)   598-609   20798181   10.1093/bib/bbq026  
Information   Drosophila database   11531   Masuda-Nakagawa LM, Awasaki T, Ito K, O'Kane CJ.   Targeting expression to projection neurons that innervate specific mushroom body calyx and antennal lobe glomeruli in larval Drosophila.   Gene Expr. Patterns   2010 -7 -28   10(7-8)   328-37   20659588   10.1016/j.gep.2010.07.004  
Information   Oryzabase   11922   Sen TZ, Harper LC, Schaeffer ML, Andorf CM, Seigfried TE, Campbell DA, Lawrence CJ.   Choosing a genome browser for a Model Organism Database: surveying the maize community.   Database (Oxford)   2010 -7 -16   2010   baq007   20627860   10.1093/database/baq007  
Information   Drosophila database   11530   Knowles-Barley S, Longair M, Armstrong JD.   BrainTrap: a database of 3D protein expression patterns in the Drosophila brain.   Database (Oxford)   2010 -7 -14   2010   baq005   20624714   10.1093/database/baq005  
Information   Oryzabase   12292   Ammiraju JS, Fan C, Yu Y, Song X, Cranston KA, Pontaroli AC, Lu F, Sanyal A, Jiang N, Rambo T, Currie J, Collura K, Talag J, Bennetzen JL, Chen M, Jackson S, Wing RA.   Spatio-temporal patterns of genome evolution in allotetraploid species of the genus Oryza.   Plant J.   2010 -5 -22   63(3)   430-42   20487382   10.1111/j.1365-313X.2010.04251.x  
Information   Oryzabase   12495   Hirotsu N, Murakami N, Kashiwagi T, Ujiie K, Ishimaru K.   Protocol: a simple gel-free method for SNP genotyping using allele-specific primers in rice and other plant species.   Plant Methods   2010 -4 -23   6   12   20409329   10.1186/1746-4811-6-12  
Information   nbrp   11929   Nakase M, Tani M, Morita T, Kitamoto HK, Kashiwazaki J, Nakamura T, Hosomi A, Tanaka N, Takegawa K.   Mannosylinositol phosphorylceramide is a major sphingolipid component and is required for proper localization of plasma-membrane proteins in Schizosaccharomyces pombe.   J. Cell. Sci.   2010 -4 -15   123(Pt 9)   1578-87   20388730   10.1242/jcs.059139  
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