Targeting a complex transcriptome: The construction of the mouse full-length cDNA encyclopedia

P Carninci; K Waki; T Shiraki; H Konno; K Shibata; M Itoh; K Aizawa; T Arakawa; Y Ishii; D Sasaki; H Bono; S Kondo; Y Sugahara; R Saito; N Osato; S Fukuda; K Sato; A Watahiki; T Hirozane-Kishikawa; M Nakamura; Y Shibata; A Yasunishi; N Kikuchi; A Yoshiki; M Kusakabe; S Gustincich; K Beisel; W Pavan; V Aidinis; A Nakagawara; WA Held; H Iwata; T Kono; H Nakauchi; P Lyons; C Wells; DA Hume; M Fagiolini; TK Hensch; M Brinkmeier; S Camper; J Hirota; P Mombaerts; M Muramatsu; Y Okazaki; J Kawai; Y Hayashizaki

Journal article

Targeting a complex transcriptome: The construction of the mouse full-length cDNA encyclopedia

P Carninci, K Waki, T Shiraki, H Konno, K Shibata, M Itoh, K Aizawa, T Arakawa, Y Ishii, D Sasaki, H Bono, S Kondo, Y Sugahara, R Saito, N Osato, S Fukuda, K Sato, A Watahiki, T Hirozane-Kishikawa, M Nakamura Show all

Genome Research | COLD SPRING HARBOR LAB PRESS, PUBLICATIONS DEPT | Published : 2003

DOI: 10.1101/gr.1119703

Open access

Abstract

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 cDNAsannotated 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...

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