Full-Malaria/Parasites and Full-Arthropods: databases of full-length cDNAs of parasites and arthropods, update 2009
作者： H. Wakaguri , Y. Suzuki , T. Katayama , S. Kawashima , E. Kibukawa
DOI: 10.1093/NAR/GKN856
关键词:
摘要: Full-Malaria/Parasites is a database for transcriptome studies of apicomplexa and other parasites, which based on our original full-length cDNA sequences physical clone resources. In this update, the has been expanded to contain shogun sequencing entire 14 818 non-redundant clones from six parasites 6.8 million transcription start sites (TSS), both had produced by novel protocols using oligo-capping method Illumina GA sequencer. The former should be ultimate data exact annotation expressed genes, while latter useful ultra-deep expression analysis. Furthermore, we have launched Full-Arthropods, arthropods medical importance. Full-Arthropods contains 50 343 one-pass sequences, 10 399 shotgun complete 22.4 TSS tags in anopheles mosquitoes that transmit malaria, tsetse flies trypanosomiasis dust mites cause allergic dermatitis bronchial asthma. By providing largest integrated resources as well their vectors, help combat parasitic diseases. are accessible http://fullmal.hgc.jp/.
oup.com
oxfordjournals.org
paperity.org参考文章(11)
Alan G. Barbour, Wolfram R. Zückert, New tricks of tick-borne pathogen Nature. ,vol. 390, pp. 553- 554 ,(1997) , 10.1038/37475
Declan Butler, African labs win major role in tsetse-fly genome project Nature. ,vol. 427, pp. 384- 384 ,(2004) , 10.1038/427384B
J. Watanabe, H. Wakaguri, M. Sasaki, Y. Suzuki, S. Sugano, Comparasite: a database for comparative study of transcriptomes of parasites defined by full-length cDNAs Nucleic Acids Research. ,vol. 35, pp. 431- 438 ,(2007) , 10.1093/NAR/GKL1039
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
David R Bentley, Whole-genome re-sequencing. Current Opinion in Genetics & Development. ,vol. 16, pp. 545- 552 ,(2006) , 10.1016/J.GDE.2006.10.009
Kourosh Salehi-Ashtiani, Xinping Yang, Adnan Derti, Weidong Tian, Tong Hao, Chenwei Lin, Kathryn Makowski, Lei Shen, Ryan R Murray, David Szeto, Nadeem Tusneem, Douglas R Smith, Michael E Cusick, David E Hill, Frederick P Roth, Marc Vidal, Isoform discovery by targeted cloning, 'deep-well' pooling and parallel sequencing Nature Methods. ,vol. 5, pp. 597- 600 ,(2008) , 10.1038/NMETH.1224
Robert A Holt, G Mani Subramanian, Aaron Halpern, Granger G Sutton, Rosane Charlab, Deborah R Nusskern, Patrick Wincker, Andrew G Clark, JoséM C Ribeiro, Ron Wides, Steven L Salzberg, Brendan Loftus, Mark Yandell, William H Majoros, Douglas B Rusch, Zhongwu Lai, Cheryl L Kraft, Josep F Abril, Veronique Anthouard, Peter Arensburger, Peter W Atkinson, Holly Baden, Veronique de Berardinis, Danita Baldwin, Vladimir Benes, Jim Biedler, Claudia Blass, Randall Bolanos, Didier Boscus, Mary Barnstead, Shuang Cai, Angela Center, Kabir Chatuverdi, George K Christophides, Mathew A Chrystal, Michele Clamp, Anibal Cravchik, Val Curwen, Ali Dana, Art Delcher, Ian Dew, Cheryl A Evans, Michael Flanigan, Anne Grundschober-Freimoser, Lisa Friedli, Zhiping Gu, Ping Guan, Roderic Guigo, Maureen E Hillenmeyer, Susanne L Hladun, James R Hogan, Young S Hong, Jeffrey Hoover, Olivier Jaillon, Zhaoxi Ke, Chinnappa Kodira, Elena Kokoza, Anastasios Koutsos, Ivica Letunic, Alex Levitsky, Yong Liang, Jhy-Jhu Lin, Neil F Lobo, John R Lopez, Joel A Malek, Tina C McIntosh, Stephan Meister, Jason Miller, Clark Mobarry, Emmanuel Mongin, Sean D Murphy, David A O'Brochta, Cynthia Pfannkoch, Rong Qi, Megan A Regier, Karin Remington, Hongguang Shao, Maria V Sharakhova, Cynthia D Sitter, Jyoti Shetty, Thomas J Smith, Renee Strong, Jingtao Sun, Dana Thomasova, Lucas Q Ton, Pantelis Topalis, Zhijian Tu, Maria F Unger, Brian Walenz, Aihui Wang, Jian Wang, Mei Wang, Xuelan Wang, Kerry J Woodford, Jennifer R Wortman, Martin Wu, Alison Yao, Evgeny M Zdobnov, Hongyu Zhang, Qi Zhao, Shaying Zhao, Shiaoping C Zhu, Igor Zhimulev, Mario Coluzzi, Alessandra della Torre, Charles W Roth, Christos Louis, Francis Kalush, Richard J Mural, Eugene W Myers, Mark D Adams, Hamilton O Smith, Samuel Broder, Malcolm J Gardner, Claire M Fraser, Ewan Birney, Peer Bork, Paul T Brey, J Craig Venter, Jean Weissenbach, Fotis C Kafatos, Frank H Collins, Stephen L Hoffman, None, The Genome Sequence of the Malaria Mosquito Anopheles gambiae Science. ,vol. 298, pp. 129- 149 ,(2002) , 10.1126/SCIENCE.1076181
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
Riu Yamashita, Yutaka Suzuki, Hiroyuki Wakaguri, Katsuki Tsuritani, Kenta Nakai, Sumio Sugano, DBTSS: DataBase of Human Transcription Start Sites, progress report 2006 Nucleic Acids Research. ,vol. 34, pp. 86- 89 ,(2006) , 10.1093/NAR/GKM901
D. R. Zerbino, E. Birney, Velvet: Algorithms for de novo short read assembly using de Bruijn graphs Genome Research. ,vol. 18, pp. 821- 829 ,(2008) , 10.1101/GR.074492.107