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

被引：71

作者：

Hubbard, SJ

Grafham, DV

Beattie, KJ

Overton, IM

McLaren, SR

Croning, MDR

Boardman, PE

Bonfield, JK

Burnside, J

Davies, RM

Farrell, ER

Francis, MD

Griffiths-Jones, S

Humphray, SJ

Hyland, C

Scott, CE

Tang, HZ

Taylor, RG

Tickle, C

Brown, WRA

Birney, E

Rogers, J

Wilson, SA

机构：

[1] Univ Sheffield, Dept Mol Biol & Biotechnol, Sheffield S10 2TN, S Yorkshire, England

[2] Univ Manchester, Fac Life Sci, Manchester M60 1QD, Lancs, England

[3] Sanger Inst, Hinxton CB10 1SA, Cambs, England

[4] Univ Dundee, Div Cell & Dev Biol, Dundee DD1 5EH, Scotland

[5] Delaware Biotechnol Inst, Newark, DE 19711 USA

[6] Univ Nottingham, Genet Inst, Queens Med Ctr, Nottingham NG7 2UH, England

[7] European Bioinformat Inst, EMBL, Cambridge CB10 1SA, England

来源：

GENOME RESEARCH | 2005年 / 15卷 / 01期

基金：

英国生物技术与生命科学研究理事会;

关键词：

D O I：

10.1101/gr.3011405

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

We present an analysis of the chicken (Gallus gallus) transcriptome based on the full insert sequences for 19,626 cDNAs, combined with 485,337 EST sequences. The cDNA data set has been functionally annotated and describes a minimum of 11,929 chicken coding genes, including the sequence for 2260 full-length cDNAs together with a collection of noncoding (nc) cDNAs that have been stringently filtered to remove Untranslated regions of coding mRNAs. The combined collection of cDNAs and ESTs describe 62,546 clustered transcripts and provide transcriptional evidence for a total of 18,989 chicken genes, including 88% of the annotated Ensembl gene set. Analysis of the ncRNAs reveals a set that is highly conserved in chickens and mammals, including sequences for 14 pri-miRNAs encoding 23 different miRNAs. The data sets described here provide a transcriptome toolkit linked to physical clones for bioinformaticians and experimental biologists who wish to use chicken systems as a low-cost, accessible alternative to mammals for the analysis of vertebrate development, immunology, and cell biology.

引用

页码：174 / 183

页数：10

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[31] Conservation of the sequence and temporal expression of let-7 heterochronic regulatory RNA [J].