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This article is part of the supplement: Tenth International Conference on Bioinformatics. First ISCB Asia Joint Conference 2011 (InCoB/ISCB-Asia 2011): Computational Biology

Open Access Proceedings

Interrogation of alternative splicing events in duplicated genes during evolution

Ting-Wen Chen12, Timothy H Wu1, Wailap V Ng1 and Wen-Chang Lin12*

Author Affiliations

1 Institute of Biomedical Informatics, National Yang-Ming University, Taipei, Taiwan

2 Institute of Biomedical Sciences, Academia Sinica, Taipei, Taiwan

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BMC Genomics 2011, 12(Suppl 3):S16  doi:10.1186/1471-2164-12-S3-S16

Published: 30 November 2011

Additional files

Additional file 1:

Box plot of protein lengths Box plot of protein lengths for four groups of genes: A_F, N_F, A_S, and N_S (AS gene families genes, no AS gene families genes, AS singletons, no AS singletons, respectively) of mouse across three different identity criteria (>10, >50, >90). This pattern of length distribution is similar to the pattern observed for human.

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Additional file 2:

Number of domain(s) distribution Number of domain(s) for genes of four groups of genes: A_F, N_F, A_S, and N_S (AS gene families genes, no AS gene families genes, AS singletons, no AS singletons, respectively) identified with identity criteria >50 and >90.

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Additional file 3:

Average EST hits per transcript for gene families and singletons with/without AS. The labels on the x axis are A_F, N_F, A_S, and N_S (for AS gene families genes, no-AS gene families genes, AS singletons, no AS singletons, respectively) across different identity criteria. Genes within N_F have relatively fewer EST hits compared to genes within A_F. These genes within N_F may actually have alternative splicing isoforms but are classified as no AS, resulting from the relatively lower expression level. We noticed that expression of these recently duplicated genes (gene families identified under identity criterion >90) are low compared to their comparable groups e.g. A_F (>90) compared to A_F (>10) and A_F (>50).

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