Porcine transcriptome analysis based on 97 non-normalized cDNA libraries and assembly of 1,021,891 expressed sequence tags

Jan Gorodkin¹ , Susanna Cirera¹ , Jakob Hedegaard² , Michael J Gilchrist³ , Frank Panitz² , Claus Jørgensen¹ , Karsten Scheibye-Knudsen¹ , Troels Arvin¹ , Steen Lumholdt¹ , Milena Sawera¹ , Trine Green¹ , Bente J Nielsen¹ , Jakob H Havgaard¹ , Carina Rosenkilde¹ , Jun Wang⁴^,5^,6 , Heng Li⁴^,5 , Ruiqiang Li⁴^,6 , Bin Liu⁴ , Songnian Hu⁴ , Wei Dong⁴ , Wei Li⁴ , Jun Yu⁴ , Jian Wang⁴ , Hans-Henrik Stærfeldt⁷ , Rasmus Wernersson⁷ , Lone B Madsen² , Bo Thomsen² , Henrik Hornshøj² , Zhan Bujie² , Xuegang Wang² , Xuefei Wang² , Lars Bolund⁴^,5 , Søren Brunak⁷ , Huanming Yang⁴ , Christian Bendixen² and Merete Fredholm¹

¹Division of Genetics and Bioinformatics, IBHV, Grønnegärdsvej 3, The Royal Veterinary and Agricultural University, DK-1870 Frederiksberg C, Denmark

²Department of Genetics and Biotechnology, Danish Institute of Agricultural Sciences, Blichers Alle, DK-8830 Tjele, Denmark

³The Wellcome Trust/Cancer Research UK Gurdon Institute, Cambridge, CB2 1QN, UK

⁴Beijing Genomics Institute, The Airport Industrial Road, Beijing 101300, PR China

⁵Institute of Human Genetics, University of Aarhus, Nordre Ringgade 1, DK-8000 Aarhus C, Denmark

⁶Department of Biochemistry and Molecular Biology, University of Southern Denmark, Campus Vej 55, DK-5230 Odense M, Denmark

⁷Center for Biological Sequence Analysis, BioCentrum-DTU, Building 208, DK-2800 Lyngby, Denmark

author email corresponding author email

Genome Biology 2007, 8:R45doi:10.1186/gb-2007-8-4-r45


Published:	2 April 2007

Subject areas: Bioinformatics, Genome studies

Additional files

Additional data file 1:

Additional data file 1 contains figures related to the expression analysis, cleaning and correlations. Furthermore, Additional data file 1 contains tables of noncoding RNA, housekeeping genes and the top 50 cDNA-library-specific genes. Finally, it contains a table of the NCBI trace archive accession numbers.

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Additional data file 2:

Additional data file 2 contains pie charts of how the expression for each cDNA library is distributed in the main level of GO category 'molecular function'.

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Additional data file 3:

Additional data file 3 contains pie charts of how the expression for each cDNA library is distributed in the GO category of 'cellular component'.

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Additional data file 4:

Additional data file 4 contains pie charts of how the expression for each cDNA library is distributed in the GO category of 'biological process'.

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