Literature DB >> 15642098

Full-length cDNAs from chicken bursal lymphocytes to facilitate gene function analysis.

Randolph B Caldwell1, Andrzej M Kierzek, Hiroshi Arakawa, Yuri Bezzubov, Jolanta Zaim, Petra Fiedler, Stefan Kutter, Artem Blagodatski, Diyana Kostovska, Marek Koter, Jiri Plachy, Piero Carninci, Yoshihide Hayashizaki, Jean-Marie Buerstedde.   

Abstract

A large number of cDNA inserts were sequenced from a high-quality library of chicken bursal lymphocyte cDNAs. Comparisons to public gene databases indicate that the cDNA collection represents more than 2,000 new, full-length transcripts. This resource defines the structure and the coding potential of a large fraction of B-cell specific and housekeeping genes whose function can be analyzed by disruption in the chicken DT40 B-cell line.

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Year:  2004        PMID： 15642098      PMCID： PMC549067          DOI： 10.1186/gb-2004-6-1-r6

Source DB:  PubMed          Journal:  Genome Biol        ISSN： 1474-7596            Impact factor:   13.583


  32 in total

1.  Normalization and subtraction of cap-trapper-selected cDNAs to prepare full-length cDNA libraries for rapid discovery of new genes.

Authors:  P Carninci; Y Shibata; N Hayatsu; Y Sugahara; K Shibata; M Itoh; H Konno; Y Okazaki; M Muramatsu; Y Hayashizaki
Journal:  Genome Res       Date:  2000-10       Impact factor: 9.043

2.  Sequence assembly and finishing methods.

Authors:  R Staden; D P Judge; J K Bonfield
Journal:  Methods Biochem Anal       Date:  2001

3.  UTRdb and UTRsite: specialized databases of sequences and functional elements of 5' and 3' untranslated regions of eukaryotic mRNAs. Update 2002.

Authors:  Graziano Pesole; Sabino Liuni; Giorgio Grillo; Flavio Licciulli; Flavio Mignone; Carmela Gissi; Cecilia Saccone
Journal:  Nucleic Acids Res       Date:  2002-01-01       Impact factor: 16.971

4.  Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs.

Authors:  Y Okazaki; M Furuno; T Kasukawa; J Adachi; H Bono; S Kondo; I Nikaido; N Osato; R Saito; H Suzuki; I Yamanaka; H Kiyosawa; K Yagi; Y Tomaru; Y Hasegawa; A Nogami; C Schönbach; T Gojobori; R Baldarelli; D P Hill; C Bult; D A Hume; J Quackenbush; L M Schriml; A Kanapin; H Matsuda; S Batalov; K W Beisel; J A Blake; D Bradt; V Brusic; C Chothia; L E Corbani; S Cousins; E Dalla; T A Dragani; C F Fletcher; A Forrest; K S Frazer; T Gaasterland; M Gariboldi; C Gissi; A Godzik; J Gough; S Grimmond; S Gustincich; N Hirokawa; I J Jackson; E D Jarvis; A Kanai; H Kawaji; Y Kawasawa; R M Kedzierski; B L King; A Konagaya; I V Kurochkin; Y Lee; B Lenhard; P A Lyons; D R Maglott; L Maltais; L Marchionni; L McKenzie; H Miki; T Nagashima; K Numata; T Okido; W J Pavan; G Pertea; G Pesole; N Petrovsky; R Pillai; J U Pontius; D Qi; S Ramachandran; T Ravasi; J C Reed; D J Reed; J Reid; B Z Ring; M Ringwald; A Sandelin; C Schneider; C A M Semple; M Setou; K Shimada; R Sultana; Y Takenaka; M S Taylor; R D Teasdale; M Tomita; R Verardo; L Wagner; C Wahlestedt; Y Wang; Y Watanabe; C Wells; L G Wilming; A Wynshaw-Boris; M Yanagisawa; I Yang; L Yang; Z Yuan; M Zavolan; Y Zhu; A Zimmer; P Carninci; N Hayatsu; T Hirozane-Kishikawa; H Konno; M Nakamura; N Sakazume; K Sato; T Shiraki; K Waki; J Kawai; K Aizawa; T Arakawa; S Fukuda; A Hara; W Hashizume; K Imotani; Y Ishii; M Itoh; I Kagawa; A Miyazaki; K Sakai; D Sasaki; K Shibata; A Shinagawa; A Yasunishi; M Yoshino; R Waterston; E S Lander; J Rogers; E Birney; Y Hayashizaki
Journal:  Nature       Date:  2002-12-05       Impact factor: 49.962

5.  The InterPro Database, 2003 brings increased coverage and new features.

Authors:  Nicola J Mulder; Rolf Apweiler; Teresa K Attwood; Amos Bairoch; Daniel Barrell; Alex Bateman; David Binns; Margaret Biswas; Paul Bradley; Peer Bork; Phillip Bucher; Richard R Copley; Emmanuel Courcelle; Ujjwal Das; Richard Durbin; Laurent Falquet; Wolfgang Fleischmann; Sam Griffiths-Jones; Daniel Haft; Nicola Harte; Nicolas Hulo; Daniel Kahn; Alexander Kanapin; Maria Krestyaninova; Rodrigo Lopez; Ivica Letunic; David Lonsdale; Ville Silventoinen; Sandra E Orchard; Marco Pagni; David Peyruc; Chris P Ponting; Jeremy D Selengut; Florence Servant; Christian J A Sigrist; Robert Vaughan; Evgueni M Zdobnov
Journal:  Nucleic Acids Res       Date:  2003-01-01       Impact factor: 16.971

6.  A comprehensive collection of chicken cDNAs.

Authors:  Paul E Boardman; Juan Sanz-Ezquerro; Ian M Overton; David W Burt; Elizabeth Bosch; Willy T Fong; Cheryll Tickle; William R A Brown; Stuart A Wilson; Simon J Hubbard
Journal:  Curr Biol       Date:  2002-11-19       Impact factor: 10.834

7.  Connecting sequence and biology in the laboratory mouse.

Authors:  Richard M Baldarelli; David P Hill; Judith A Blake; Jun Adachi; Masaaki Furuno; Dirck Bradt; Lori E Corbani; Sharon Cousins; Kenneth S Frazer; Dong Qi; Longlong Yang; Sridhar Ramachandran; Deborah Reed; Yunxia Zhu; Takeya Kasukawa; Martin Ringwald; Benjamin L King; Lois J Maltais; Louise M McKenzie; Lynn M Schriml; Donna Maglott; Deanna M Church; Kim Pruitt; Janan T Eppig; Joel E Richardson; Jim A Kadin; Carol J Bult
Journal:  Genome Res       Date:  2003-06       Impact factor: 9.043

Review 8.  Untranslated regions of mRNAs.

Authors:  Flavio Mignone; Carmela Gissi; Sabino Liuni; Graziano Pesole
Journal:  Genome Biol       Date:  2002-02-28       Impact factor: 13.583

9.  Evaluation of the chicken transcriptome by SAGE of B cells and the DT40 cell line.

Authors:  Matthias B Wahl; Randolph B Caldwell; Andrzej M Kierzek; Hiroshi Arakawa; Eduardo Eyras; Nina Hubner; Christian Jung; Manuel Soeldenwagner; Manuela Cervelli; Yan-Dong Wang; Volkmar Liebscher; Jean-Marie Buerstedde
Journal:  BMC Genomics       Date:  2004-12-21       Impact factor: 3.969

Review 10.  Pushing the limits of the scanning mechanism for initiation of translation.

Authors:  Marilyn Kozak
Journal:  Gene       Date:  2002-10-16       Impact factor: 3.688
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  38 in total

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Authors:  Johanna B Withers; Karen L Beemon
Journal:  J Cell Biochem       Date:  2011-11       Impact factor: 4.429

2.  Host proteolytic activity is necessary for infectious bursal disease virus capsid protein assembly.

Authors:  Nerea Irigoyen; José R Castón; José F Rodríguez
Journal:  J Biol Chem       Date:  2012-05-22       Impact factor: 5.157

3.  Variations in intracellular levels of TATA binding protein can affect specific genes by different mechanisms.

Authors:  Stephanie D Bush; Patricia Richard; James L Manley
Journal:  Mol Cell Biol       Date:  2007-10-22       Impact factor: 4.272

4.  Structural features in the Rous sarcoma virus RNA stability element are necessary for sensing the correct termination codon.

Authors:  Johanna B Withers; Karen L Beemon
Journal:  Retrovirology       Date:  2010-08-05       Impact factor: 4.602

5.  Structural characterization of the Rous sarcoma virus RNA stability element.

Authors:  Jason E Weil; Michalis Hadjithomas; Karen L Beemon
Journal:  J Virol       Date:  2008-12-17       Impact factor: 5.103

6.  Comprehensive survey and genomic characterization of Toll-like receptors (TLRs) in channel catfish, Ictalurus punctatus: identification of novel fish TLRs.

Authors:  Sylvie M A Quiniou; Pierre Boudinot; Eva Bengtén
Journal:  Immunogenetics       Date:  2013-04-05       Impact factor: 2.846

7.  Transcriptome analysis for the chicken based on 19,626 finished cDNA sequences and 485,337 expressed sequence tags.

Authors:  Simon J Hubbard; Darren V Grafham; Kevin J Beattie; Ian M Overton; Stuart R McLaren; Michael D R Croning; Paul E Boardman; James K Bonfield; Joan Burnside; Robert M Davies; Elizabeth R Farrell; Matthew D Francis; Sam Griffiths-Jones; Sean J Humphray; Christopher Hyland; Carol E Scott; Haizhou Tang; Ruth G Taylor; Cheryll Tickle; William R A Brown; Ewan Birney; Jane Rogers; Stuart A Wilson
Journal:  Genome Res       Date:  2004-12-08       Impact factor: 9.043

8.  Characterising alternate splicing and tissue specific expression in the chicken from ESTs.

Authors:  H Tang; T Heeley; R Morlec; S J Hubbard
Journal:  Cytogenet Genome Res       Date:  2007       Impact factor: 1.636

9.  Chicken cells sense influenza A virus infection through MDA5 and CARDIF signaling involving LGP2.

Authors:  Matthias Liniger; Artur Summerfield; Gert Zimmer; Kenneth C McCullough; Nicolas Ruggli
Journal:  J Virol       Date:  2011-11-09       Impact factor: 5.103

10.  Compartmentalized Reconstitution of Post-squalene Pathway for 7-Dehydrocholesterol Overproduction in Saccharomyces cerevisiae.

Authors:  Xiao-Jing Guo; Ming-Dong Yao; Wen-Hai Xiao; Ying Wang; Guang-Rong Zhao; Ying-Jin Yuan
Journal:  Front Microbiol       Date:  2021-05-21       Impact factor: 5.640
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