다음과 같은 기능을 한번의 로그인으로 사용 할 수 있습니다.
NTIS 바로가기
Journal of plant biotechnology = 식물생명공학회지, v.33 no.3, 2006년, pp.209 - 222
김정은 (한국생명공학연구원 식물유전체연구센터) , 백효정 (한국생명공학연구원 식물유전체연구센터) , 김영철 (한국생명공학연구원 식물유전체연구센터) , 허철구 (한국생명공학연구원 식물유전체연구센터)
AI-Helper
The whole genome sequence was completed in arabidopsis and rice. Large amounts of EST data have been available from many other plants. Also, vast quantities of diverse biological data have been generated by various '-omics' technologies such as transcriptomics, proteomics, and metabolomics. Bioinfor...
Adams MD, Kelley JM, Gocayne JD, Dubnick M, Polymeropoulos MH, Xiao H, Merril CR, Wu A, Olde S, Moreno RF, Kerlavage AR, McCombie WR, Venter JC (1991) Complementary-DNA sequencing expressed sequence tags and human genome project. Science 252: 1651-1656
Audic S, Claverie JM (1997) The significance of digital gene expression profiles. Genome Res 7: 986-995
Ausubel FM (2005) Are innate immune signaling pathways in plants and animals conserved? Nature lmmunol 6: 973-979
Sae MS, Cho EJ, Choi E-Y, Park OK (2003) Analysis of the Arabidopsis nuclear proteome and its response to cold stress. Plant J. 36: 652-663
Bedell JA, Budiman MA, Nunberg A, Citek RW, Robbins D, Jones J, Flick E, Rholfing T, Fries J, Bradford K, McMenamy J, Smith M, Holeman H, Roe BA, Wiley G, Korf IF, Rabinowicz PD, Lakey N, McCombie WR, Jeddeloh JA,Martienssen RA. (2005) Sorghum genome sequencing by methylation filtration. PLoS Bioi 3: e13
Benton D (1996) Bioinformatics-principles and potential of a new multidisciplinary tool. Trends Biotechnol 14: 261-272
Besemer J, Borodovsky M (2005) GeneMark: web software for gene finding in prokaryotes, eukaryotes and viruses. Nucleic Acids Res 33: W451-454
Breyne P, Dreesen R, Vandepoele K, De Veylder L, Van Breusegem F, Callewaert L, Rombauts S, Raes J, Cannoot B, Engler G, Inze D, labeau M (2002) Transcriptome analysis during cell division in plants. Proc Natl Acad Sci 99: 14825-14830
Burge C, Karlin S (1997) Prediction of complete gene structures in human genomic DNA. J Mol Biol 268: 78-94
Burke J, Davison D, Hide W (1999) d2_cluster: a validated method for clustering EST and full-length cDNA sequences. Genome Res 9: 1135-1142
Cannon SB, Crow JA, Heuer ML, Wang X, Cannon EK, Dwan C, Lamblin AF, Vasdewani J, Mudge J, Cook A, Gish J, Cheung F, Kenton S, Kunau TM, Brown D, May GD, Kim D, Cook DR, Roe BA, Town CD, Young ND, Retzel EF (2005) Databases and information integration for the Medicago truncatula genome and transcriptome. Plant Physiol 138: 38-46
Charless S Jr, Kang BC, Llu K, Mazourek M, Moore SL, Yoo EY, Kim BD, Paran I, Jhan MM (2005) The Pun1 gene for pungency in pepper encodes a putative acyltransferase. Plant J 42: 675-688
Chen W, Provart NJ, Glazebrook J, Katagiri F, Chang HS, Eulgem T, Mauch F, Luan S, lou G, Whitham SA, Budworth PR, Tao Y, Xie z, Chen X, Lam S, Kreps JA, Harper JF, Si-Ammour A, Mauch-Mani B, Heinlein M, Kobayashi K, Hohn T, Dangl JL, Wang X, lhu T (2002) Expression profile matrix of Arabidopsis transcription factor genes suggests their putative functions in response to environmental stresses. Plant Cell 14: 559-574
Cuartero J, Bolarin MC, Asins MJ, Moreno V (2006) Increasing salt tolerance in the tomato. J Exp Bot 57: 1045-1058
Dangl JL, Dietrich RA, Richberg MH (1996) Death don't have no mercy: cell death programs in plant-microbe interactions. Plant Cell 8: 1793-1807
Dong S, Earls DB (1994) Gene structure prediction by linguistic methods. Genomics 23: 540-551
Edwards D, Batley J (2004) Plant bioinformatics: from genome to phenome. Trends Biotech 22: 232-237
Eisen MB, Spellman PT, Brown PO, Botstein D (1998) Cluster analysis and display of genome-wide expression patterns. Proc Nat Acad Sci 95: 14863-14868
Ewing B, Reen P (1998) Base-calling of automated sequencer traces using phred. II. Error probabilities. Genome Res 8: 186-194
Fleming CM, Kowalski BR, Apffel A, Hancock WS (1999) Windowed mass selection method: a new data processing algorithm for liquid chromatography?mass spectrometry data. J Chromatogr A 849: 71-85
Glinski M, Weckwerth W (2006) The role of mass spectrometry in plant systems biology. Mass Spectrom Rev 25: 173-214
Goff SA, Ricke D, Lan TH, Presting G, Wang R, Dunn M, Glazebrook J, Sessions A, Oeller P, Varma H, Hadley D, Hutchison D, Martin C, Katagiri F, Lange BM, Moughamer T, Xia Y, Budworth P, Zhong J, Miguel T, Paszkowski U, Zhang S, Colbert M, Sun WL, Chen L, Cooper B, Park S, Wood TC, Mao L, Quail P, Wing R, Dean R, Yu Y, Zharkikh A, Shen R, Sahasrabudhe S, Thomas A, Cannings R, Gutin A, Pruss D, Reid J, Tavtigian S, Mitchell J, Eldredge G, Scholl T, Miller RM, Bhatnagar S, Adey N, Rubano T, Tusneem N, Robinson R, Feldhaus J, Macalma T, Oliphant A, Briggs S (2002) A draft sequence of the rice genome (Oryza sativa L. ssp japonica). Science 296: 92-100
Goodacre R, Vaidyanathan S, Dunn WB, Harrigan GG, Kell DB (2004) Metabolomics by numbers: acquiring and understanding global metabolite data. Trends Biotechnol 22: 245-252
Guigo R, Knudsen S, Drake N, Smith T (1992) Prediction of gene structure. J Mol Biol 226: 141-157
Gupta S, Zink D, Korn B, Vingron M, Haas SA (2004) Genome wide identification and classification of alternative splicing based on EST data. Bioinformatics 20: 2579-2585
Haberer G, Mader MT, Kosarev P, Span nag I M, Yang L, Mayer KFX (2006). Large-scale cis-element Detection by Analysis of Correlated Expression and Sequence Conservation between Arabidopsis and Brassica oleracea (pp. pp.106.085639)
Halket JM, Przyborowska A, Stein SE, Mallard WG, Down S, Chalmers RA (1999) Deconvolution gas chromatography/ mass spectrometry of urinary organic acids?potential for pattern recognition and automated identification of metabolic disorders. Rapid Commun Mass Spectrorn 13: 279-84
Hebsgaard SM, Korning PG, Tolstrup N, Engelbrecht J, Rouze P,Brunak S (1996) Splice site prediction in Arabidopsis thaliana pre-mRNA by combining local and global sequence information. Nucleic Acids Res 24: 3439-3452
Henderson J, Sahasrabudhe S, Fasman KH (1997) Finding genes in human DNA with a hidden Markov model. J Comput Biol 4: 127-141
Huang X, Madan A (1999) CAP3: A DNA sequence assembly program. Genome Res 9: 868-877
Jaffe DB, Butler J, Gnerre S, Mauceli E, Lindblad-Toh K, Mesirov JP, Zody Me,Lander ES (2003) Whole-genome sequence assembly for mammalian genomes: Arachne 2. Genome Res 13: 91-96
Jeong SC, Yang K, Park JY, Han KS, Yu S, Hwang TY, Hur CG, Kim SH, Park PB, Kim HM, Park YI, Liu JR (2006) Structure, expression, and mapping of two nodule-specific genes identified by mining public soybean EST databases. Gene (in press)
Jeppe RA, Thomas L (2003) Functional markers in plants. Trends Plant Sci 8: 544-560
Kang HY, Kim JF, Kim MH, Park SH, Oh TK, Hur CG (2006) MELDB: a database for microbial esterases and lipases. FEBS Lett 580: 2736-2740
Karas M, Hillenkamp F (1988) Laser desorption ionization of proteins with molecular masses exceeding 10,000 daltons. Anal Chem 60: 2299-2301
Kawai-Yamada M, Jin L, Yoshinaga K, Hirata A, Uchimiya H (2001) Mammalian Bax-induced plant cell death can be down-regulated by overexpression of Arabidopsis Bax Inhibitor-1 (AtBl-1). Proc Nat Acad Sci 98: 12295-12300
Kruft V, Eubel H, Jansch L, Werhahn W, Braun HP (2001) Proteomic approach to identify novel mitochondrial proteins in Arabidopsis. Plant Physiol 127: 1694-1710
Kulp D, Haussler D, Reese MG, Eeckman FH (1996) A generalized hidden Markov model for the recognition of human genes in DNA. Proc Int Conf Intell Syst Mol BioI 4: 134-142
Lee S, Kim SY, Chung E, Joung YH, Pai HS, Hur CG, Choi D (2004) EST and microarray analyses of pathogenresponsive genes in hot pepper( Capsicum annuum L.) non-host resistance against soybean pustule pathogen (Xanthomonas axonopodis pv. glycines). Funct Integr Genomics 4: 196-205
Lisacek F, Cohen-Boulakia S, Appel RD (2006) Proteome informatics II: Bioinformatics for comparative proteomics. Proteomics 6: 5445-5466
Liu J, Rost B (2003) Domains, motifs and clusters in the protein universe. Curr Opin Chem BioI 7: 5-11
Liu Y, Schiff M, Marathe R, Dinesh-Kumar SP (2002) Tobacco Rarl, EDSl, and NPRI/NIMI like genes are required for N-mediated resistance to tobacco mosaic virus. Plant J 30: 415-429
Marathe R, Guan Z, Anandalakshmi R, Zhao H, DineshKumar SP (2004) Study of Arabidopsis thaliana resistome in response to cucumber mosaic virus infection using whole genome microarray. Plant Mol Biol 55: 501-520
Maleck K, Levine A, Eulgem T, Morgan A, Schmid J, Lawton KA, Dangle JL, Dietrich RA (2000) The transcriptome of Arabidopsis thaliana during systemic acquired resistance. Nature Genetics 26: 403-410
Mathe C, Sagot MF, Schiex T, Rouze P (2002) Current methods of gene prediction, their strengths and weaknesses. Nucleic Acids Res 30: 4103-4117
Matys V, Fricke E, Geffers R, Gossling E, Haubrock M, Hehl R, Hornischer K, Karas D, Kel AE, Kel-Margoulis OV, Kloos DU, Land S, Lewicki-Potapov B, Michael H, MunchR, Reuter I, Rotert S, Saxel H, Scheer M, Thiele S, Wingender E (2003) TRANSFAC: transcriptional regulation, from patterns to profiles. Nucleic Acids Res 31: 374-378
Meyers BC, Kozik A, Griego A, Kuang H, Michelmore RW (2003) Genome-Wide Analysis of NBS-LRR Encoding Genes in Arabidopsis. Plant Cell 15: 809-834
Nagayama K (1997) Protein arrays: concepts and subjects. Adv Biophys 34: 3-23
Newton RP, Brenton AG, Smith CJ, Dudley E (2004) Plant proteome analysis by mass spectrometry: principles, problems, pitfalls and recent developments. Phytochemistry 65: 1449-1485
Nielsen KL, Hogh AL, Emmersen J (2006). DeepSAGE-digital transcriptomics with high sensitivity, simple experimental protocol and multiplexing of samples (pp. gk1714)
Norbeli I, Thornton JM (2006) A bioinformatician's view of the metabolome. BioEssays 28: 534-545
Ogata H, Goto S, Sato K, Fujibuchi W, Bono H, Kanehisa M. (1999) KEGG: Kyoto Encyclopedia of Genes and Genomes. Nucleic Acids Res 27: 29-34
Palagi PM, Hernandez P, Walther D, Appel RD. (2006) Proteome informatics I: Bioinformatics tools for processing experimental data. Proteomics 6: 5435-5444
Patterson SD, Aebersold RH (2003) Proteomics: the first decade and beyond. Nat. Genet. Suppl. 33: 311-323
Peltier JB, Friso G, Kalume DE, Roepstorff P, Nilsson F, Adamska I, van Wijk KJ (2000) Protomics of the chlotoplast: systematic identification and targeting analysis of luminal and peripheral thylakoid proteins. Plant Cell 12: 319-342
Peltier JB, Ytterberg J, Liberles DA, Roepstorff P, van Wijk KJ (2001) Identification of a 350 kDa ClpP protease complex with 10 different Clp isoforms in chloroplasts of Arebidopsis tha/iana. J Bioi Chem 276: 16318-16327
Rajee KV, Andrease G, Mark ES (2005) Genomics-assisted breeding for crop improvements. Tends Plant Sci 10: 621-630
Rhee SY, Dickerson J, Xu D. (2006) Bioinformatics and Its Applications in Plant Biology. Annu Rev Plant Bioi 57: 335-360
Richmond T, Somerville S (2000) Chasing the dream: plant EST microarrays. Curr Opin Plant Bioi 3: 108-116
Rogic S, Mackworth AK, Ouellette FB. (2001) Evaluation of gene-finding programs on mammalian sequences. Genome Res 11: 817-832
Ronneberg TA, Freeland SJ, Landweber LF. (2001) Genview and Gencode : a pair of programs to test theories of genetic code evolution. Bioinformatics 17: 280-281
Salzberg S, Deicher AL, Fasman KH, Henderson J. (1998) A decision tree system for finding genes in DNA. J Com put Bioi 5: 667-680
Seki M, Satou M, Sakurai T, Akiyama K, !ida K, Ishida J, Nakajima M, Enju A, Narusaka M, Fujita M, Oono Y, Kamei A, Yamaguchi-Shinozaki K, Shinozaki K (2004) RIKEN Arabidopsis full-length (RAFL) eDNA and its applications for expression profiling under abiotic stress conditions. J Exp Bot 55: 213-223
Shulaev V (2006) Metaboloics technology and bioinformatics. Brief Bioinform 7: 128-139
Silivo S, Roberto T (2005) To clone or not to clone plant QTLs: present and future challenges. Trends plant science 10: 297-304
Silivo S, Roverto T, Elena C, Marco M, Stanislas V, Leon B, Peter I, Keith E, Ronald LP (2002) Toward positional cloning of Vgtl, a QTL controlling the transition from the vegetative to the reproductive phase in maize. Plant Mol BioI 48: 601-603
Smith CM, Shindyalov IN, Veretnik S, Gribskov M, Taylor SS, Ten Eyck LF, Bourne PE (1997) The protein kinase resource. Trends Biochem Sci 22: 444-446
Snyder EE, Stormo GD (1995) Identification of protein coding regions in genomic DNA. J Mol Bioi 248: 1-18
Stanke M, Keller O, Gunduz I, Hayes A, Waack S, Morgenstern B (2006) AUGUSTUS: ab initio prediction of alternative transcripts (Vol. 34, pp. W435-439)
Stephen R, Heiko S, Klaus M (2005) PlantMarkers-a database of predicted molecular markers from plants. Nucleic Acids Research 33: 628-632
Tatusov RL, Fedorova ND, Jackson JD, Jacobs AR, Kiryutin B, Koonin EV, Krylov DM, Mazumder R, Mekhedov SL, Nikolskaya AN, Rao BS, Smirnov S, Sverdlov AV, Vasudevan S, Wolf YI, Yin JJ, Natale DA (2003) The COG database: an updated version includes eukaryotes. BMC Bioinformatics 4: 41
Tatusov RL, Galperin MY, Natale DA, Koonin EV (2000) The COG database: a tool for genome-scale analysis of protein functions and evolution. Nucleic Acids Res 28: 33-36
Terabe S, Markuszewski MJ, Inoue N, et al. (2001) Capillary electrophoretic techniques toward the metabolome analysis. Pure Appl Chem 73: 1563-1572
The Arabidopsis Genome Initiative (2000) Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature 408: 796-815
Viant MR, Rosenblum ES, and Tieerdema RS (2003) NMR-based metabolomics: a powerful approach for characterizing the effects of environmental stressors on organism health. Environ Sci Technol 37: 4982-4989
Walter G, Bussow K, Cahill D, Lueking A,Lehrach H (2000) Protein arrays for gene expression and molecular interaction screening. Curr Opin Microbiol 3: 298-302
Wan XY, Wan JM, Jiang L, Wang JK, Zhai HQ, Wang JF, Wang HL, Lei CL, Wang JL, Zhang X, Cheng ZJ, Guo XP (2006) QTL analysis for rice grain length and fine mapping of an identified QTL with stable and major effects. Theor Appl Genet 112: 1258-1270
Wang J, Delabie J, Aasheim H, Smeland E,Myklebost O (2002) Clustering of the SOM easily reveals distinct gene expression patterns: results of a reanalysis of lymphoma study. BMC Bioinformatics 3: 36
Watson JD, Crick FHC (1953) Molecular structure of nucleic acids-A structure for deoxyribose nucleic acid. Nature 171: 737-738
Wayne ML, Mclntyre LM (2002) Combining mapping and arraying: An approach to candidate gene identification. PNAS 99: 14903-14906
Windig W, Phalp JM, Payne AW (1996) A noise and background reduction methods for component detection in liquid chromatography/mass spectrometry. Anal Chem 68: 3602-3606
Wolter DA, Washburn MP, Yates JR 3rd (2001) An automated multidimensional protein identification technology for shotgun proteomics. Anal Chem 73:5683-5690
Xu Y, Mural R, Shah M, Uberbacher E. (1994) Recognizing exons in genomic sequence using GRAIL II. Genet Eng (N Y) 16: 241-253
Yang Y, Shah J, Klessig DF (1997) Signal perception and transduction in plant defense responses. Genes Dev 11: 1621-1639
Yu J, Hu S, Wang J, Wong GK, Li S, Liu B, Deng Y, Dai L, Zhou Y, Zhang X, Cao M, Liu J, Sun J, Tang J,Chen Y, Huang X, Lin W, Ye C, Tong W, Cong L,Geng J, Han Y, Li L, Li W, Hu G, Huang X, Li W, Li J, Liu Z, u L, Liu J, Qi Q, Liu J, Li L, Li T, Wang X, Lu H, Wu T, Zhu M, Ni P, Han H, Dong W, Ren X, Feng X, Cui P, Li X, Wang H, Xu X, Zhai W, Xu Z, Zhang J, He S, Zhang J, Xu J, Zhang K, Zheng X,Dong J, Zeng W, Tao L, Ye J, Tan J, Ren X, Chen X, He J, Liu D, Tian W, Tian C, Xia H, Bao Q, Li G, Gao H, Cao T, Wang J, Zhao W, u P, Chen W,wang X, Zhang Y, Hu J, Wang J, Liu S, Yang J;Zhang G, Xiong Y, Li Z, Mao L, Zhou C, Zhu Z,Chen R, Hao B, Zheng W, Chen S, Guo W, Li G, Liu S, Tao M, Wang J, Zhu L, Yuan L, Yang H (2002) A draft sequence of the rice genome (Oryza sativa L. ssp. indica). Science 296: 79-92
Zhang MQ. (1997) Identification of protein coding regions in the human genome by quadratic discriminant analysis. Proc Natl Acad Sci 94: 565-568
Zhang W, Ruan J, Ho T-hD, You Y, Yu T, Quatrano RS. (2005) cis-Regulatory element based targeted gene finding: genome-wide identification of abscisic acid- and abiotic stress-responsive genes in Arabidopsis thaliana. Bioinformatics 21: 3074-3081
Zhou T, Wang Y, Chen J-Q, Araki H, Jing Z, Jiang K, Shen J, Tian D (2004) Genome-wide identification of NBS genes in japonica rice reveals significant expansion of divergent non-TIR NBS-LRR genes. Mol Gen Genomics 271: 402-415
*원문 PDF 파일 및 링크정보가 존재하지 않을 경우 KISTI DDS 시스템에서 제공하는 원문복사서비스를 사용할 수 있습니다.
출판사/학술단체 등이 한시적으로 특별한 프로모션 또는 일정기간 경과 후 접근을 허용하여, 출판사/학술단체 등의 사이트에서 이용 가능한 논문
Copyright KISTI. All Rights Reserved.
※ AI-Helper는 부적절한 답변을 할 수 있습니다.