RT Journal
A1 Carninci, Piero
A1 Waki, Kazunori
A1 Shiraki, Toshiyuki
A1 Konno, Hideaki
A1 Shibata, Kazuhiro
A1 Itoh, Masayoshi
A1 Aizawa, Katsunori
A1 Arakawa, Takahiro
A1 Ishii, Yoshiyuki
A1 Sasaki, Daisuke
A1 Bono, Hidemasa
A1 Kondo, Shinji
A1 Sugahara, Yuichi
A1 Saito, Rintaro
A1 Osato, Naoki
A1 Fukuda, Shiro
A1 Sato, Kenjiro
A1 Watahiki, Akira
A1 Hirozane-Kishikawa, Tomoko
A1 Nakamura, Mari
A1 Shibata, Yuko
A1 Yasunishi, Ayako
A1 Kikuchi, Noriko
A1 Yoshiki, Atsushi
A1 Kusakabe, Moriaki
A1 Gustincich, Stefano
A1 Beisel, Kirk
A1 Pavan, William
A1 Aidinis, Vassilis
A1 Nakagawara, Akira
A1 Held, William A.
A1 Iwata, Hiroo
A1 Kono, Tomohiro
A1 Nakauchi, Hiromitsu
A1 Lyons, Paul
A1 Wells, Christine
A1 Hume, David A.
A1 Fagiolini, Michela
A1 Hensch, Takao K.
A1 Brinkmeier, Michelle
A1 Camper, Sally
A1 Hirota, Junji
A1 Mombaerts, Peter
A1 Muramatsu, Masami
A1 Okazaki, Yasushi
A1 Kawai, Jun
A1 Hayashizaki, Yoshihide
T1 Targeting a Complex Transcriptome: The Construction of the Mouse Full-Length cDNA Encyclopedia
JF Genome Research 
JO Genome Research 
YR 2003 
FD June 01 
VO 13 
IS 6b 
SP 1273 
OP 1289 
DO 10.1101/gr.1119703 
UL http://genome.cshlp.org/content/13/6b/1273.abstract 
AB We report the construction of the mouse full-length cDNA encyclopedia,the  most extensive view of a complex transcriptome,on the basis of preparing and  sequencing 246 libraries. Before cloning,cDNAs were enriched in full-length by  Cap-Trapper,and in most cases,aggressively subtracted/normalized. We have  produced 1,442,236 successful 3′-end sequences clustered into 171,144  groups, from which 60,770 clones were fully sequenced cDNAs annotated in the  FANTOM-2 annotation. We have also produced 547,149 5′ end reads,which  clustered into 124,258 groups. Altogether, these cDNAs were further grouped in  70,000 transcriptional units (TU),which represent the best coverage of a  transcriptome so far. By monitoring the extent of normalization/subtraction,  we define the tentative equivalent coverage (TEC),which was estimated to be  equivalent to >12,000,000 ESTs derived from standard libraries. High  coverage explains discrepancies between the very large numbers of clusters  (and TUs) of this project,which also include non-protein-coding RNAs,and the  lower gene number estimation of genome annotations. Altogether,5′-end  clusters identify regions that are potential promoters for 8637 known genes  and 5′-end clusters suggest the presence of almost 63,000  transcriptional starting points. An estimate of the frequency of  polyadenylation signals suggests that at least half of the singletons in the  EST set represent real mRNAs. Clones accounting for about half of the  predicted TUs await further sequencing. The continued high-discovery rate  suggests that the task of transcriptome discovery is not yet complete.