Comparasite: a database for comparative study of transcriptomes of parasites defined by full-length cDNAs
作者： J. Watanabe , H. Wakaguri , M. Sasaki , Y. Suzuki , S. Sugano
DOI: 10.1093/NAR/GKL1039
关键词: Database 、 PSORT 、 Apicomplexa 、 SOSUI 、 Plasmodium berghei 、 InterPro 、 Gene 、 Plasmodium yoelii 、 Complementary DNA 、 Biology 、 Genetics
摘要: Comparasite is a database for comparative studies of transcriptomes parasites. In this database, each data defined by the full-length cDNAs from various apicomplexan It integrates seven individual databases, Full-Parasites, consisting numerous cDNA clones that we have produced and sequenced: 12 484 sequences Plasmodium falciparum, 11 262 yoelii, 9633 vivax, 1518 berghei, 7400 Toxoplasma gondii, 5921 Cryptosporidium parvum 10 966 tapeworm Echinococcus multilocularis. Putatively counterpart gene groups are clustered analysis any combination six apicomplexa species implemented, such as interspecies comparisons regarding protein motifs (InterPro), predicted subcellular localization signals (PSORT), transmembrane regions (SOSUI) or upstream promoter elements. By specifying keywords other search conditions, retrieves putative containing given feature in common species-specific manner. enabling multi-faceted analyses genes protozoa, monophyletic organisms evolved to diversify parasitize hosts adopting complex life cycles, should help elucidate mechanism behind parasitism. Our databases accessible http://fullmal.ims.u-tokyo.ac.jp.
oup.com
paperity.org参考文章(15)
Yaakov Pollack, Nina Kogan, Jacob Golenser, Plasmodium falciparum: evidence for a DNA methylation pattern. Experimental Parasitology. ,vol. 72, pp. 339- 344 ,(1991) , 10.1016/0014-4894(91)90079-C
Li Li, Christian J Stoeckert, David S Roos, OrthoMCL: identification of ortholog groups for eukaryotic genomes. Genome Research. ,vol. 13, pp. 2178- 2189 ,(2003) , 10.1101/GR.1224503
Malcolm J. Gardner, Neil Hall, Eula Fung, Owen White, Matthew Berriman, Richard W. Hyman, Jane M. Carlton, Arnab Pain, Karen E. Nelson, Sharen Bowman, Ian T. Paulsen, Keith James, Jonathan A. Eisen, Kim Rutherford, Steven L. Salzberg, Alister Craig, Sue Kyes, Man-Suen Chan, Vishvanath Nene, Shamira J. Shallom, Bernard Suh, Jeremy Peterson, Sam Angiuoli, Mihaela Pertea, Jonathan Allen, Jeremy Selengut, Daniel Haft, Michael W. Mather, Akhil B. Vaidya, David M. A. Martin, Alan H. Fairlamb, Martin J. Fraunholz, David S. Roos, Stuart A. Ralph, Geoffrey I. McFadden, Leda M. Cummings, G. Mani Subramanian, Chris Mungall, J. Craig Venter, Daniel J. Carucci, Stephen L. Hoffman, Chris Newbold, Ronald W. Davis, Claire M. Fraser, Bart Barrell, Genome sequence of the human malaria parasite Plasmodium falciparum Nature. ,vol. 419, pp. 498- 511 ,(2002) , 10.1038/NATURE01097
J. Watanabe, Full-malaria 2004: an enlarged database for comparative studies of full-length cDNAs of malaria parasites, Plasmodium species Nucleic Acids Research. ,vol. 32, pp. 334D- 338 ,(2004) , 10.1093/NAR/GKH115
Akiko Shibui, Takashi Shiibashi, Sadao Nogami, Sumio Sugano, Junichi Watanabe, A novel method for development of malaria vaccines using full-length cDNA libraries. Vaccine. ,vol. 23, pp. 4359- 4366 ,(2005) , 10.1016/J.VACCINE.2005.03.036
Omar K. Ruvalcaba-Salazar, Ma. del Carmen Ramírez-Estudillo, Dvorak Montiel-Condado, Félix Recillas-Targa, Miguel Vargas, Rosaura Hernández-Rivas, Recombinant and native Plasmodium falciparum TATA-binding-protein binds to a specific TATA box element in promoter regions. Molecular and Biochemical Parasitology. ,vol. 140, pp. 183- 196 ,(2005) , 10.1016/J.MOLBIOPARA.2005.01.002
Koen J. Dechering, Anita M. Kaan, Wilfred Mbacham, Dyann F. Wirth, Wijnand Eling, Ruud N. H. Konings, Hendrik G. Stunnenberg, Isolation and Functional Characterization of Two Distinct Sexual-Stage-Specific Promoters of the Human Malaria Parasite Plasmodium falciparum Molecular and Cellular Biology. ,vol. 19, pp. 967- 978 ,(1999) , 10.1128/MCB.19.2.967
M. King, A. Wilson, Evolution at two levels in humans and chimpanzees Science. ,vol. 188, pp. 107- 116 ,(1975) , 10.1126/SCIENCE.1090005
Jane M. Carlton, Samuel V. Angiuoli, Bernard B. Suh, Taco W. Kooij, Mihaela Pertea, Joana C. Silva, Maria D. Ermolaeva, Jonathan E. Allen, Jeremy D. Selengut, Hean L. Koo, Jeremy D. Peterson, Mihai Pop, Daniel S. Kosack, Martin F. Shumway, Shelby L. Bidwell, Shamira J. Shallom, Susan E. van Aken, Steven B. Riedmuller, Tamara V. Feldblyum, Jennifer K. Cho, John Quackenbush, Martha Sedegah, Azadeh Shoaibi, Leda M. Cummings, Laurence Florens, John R. Yates, J. Dale Raine, Robert E. Sinden, Michael A. Harris, Deirdre A. Cunningham, Peter R. Preiser, Lawrence W. Bergman, Akhil B. Vaidya, Leo H. van Lin, Chris J. Janse, Andrew P. Waters, Hamilton O. Smith, Owen R. White, Steven L. Salzberg, J. Craig Venter, Claire M. Fraser, Stephen L. Hoffman, Malcolm J. Gardner, Daniel J. Carucci, Genome sequence and comparative analysis of the model rodent malaria parasite Plasmodium yoelii yoelii Nature. ,vol. 419, pp. 512- 519 ,(2002) , 10.1038/NATURE01099
S. Kato, Vector-capping: a simple method for preparing a high-quality full-length cDNA library. DNA Research. ,vol. 12, pp. 53- 62 ,(2005) , 10.1093/DNARES/12.1.53