Article thumbnail

Assessment of orthologous splicing isoforms in human and mouse orthologous genes

By Federico Zambelli, Giulio Pavesi, Carmela Gissi, David S Horner and Graziano Pesole
Topics: Research Article
Publisher: BioMed Central
OAI identifier: oai:pubmedcentral.nih.gov:3091683
Provided by: PubMed Central

To submit an update or takedown request for this paper, please submit an Update/Correction/Removal Request.

Suggested articles

Citations

  1. (2008). A: Identifying protein domains with the Pfam database. Curr Protoc Bioinformatics
  2. (2008). A: Proteomics studies confirm the presence of alternative protein isoforms on a large scale. Genome Biol
  3. (2010). Alternative splicing and evolution: diversification, exon definition and function. Nat Rev Genet
  4. (2008). Ast G: Alternative splicing: current perspectives. Bioessays
  5. (2005). Blencowe BJ: Alternative splicing of conserved exons is frequently species-specific in human and mouse. Trends Genet
  6. (2008). Blencowe BJ: Deep surveying of alternative splicing complexity in the human transcriptome by high-throughput sequencing. Nat Genet
  7. (2007). Blencowe BJ: Global analysis of alternative splicing differences between humans and chimpanzees. Genes Dev
  8. (2008). CB: Alternative isoform regulation in human tissue transcriptomes. Nature
  9. (2007). CJ: Global analysis of exon creation versus loss and the role of alternative splicing in 17 vertebrate genomes. Rna
  10. (2009). D’Erchia AM: Identification and functional characterization of two new transcriptional variants of the human p63 gene. Nucleic Acids Res
  11. DR: NCBI reference sequences (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins.
  12. (2008). et al: A global view of gene activity and alternative splicing by deep sequencing of the human transcriptome. Science
  13. (2008). et al: ASPicDB: a database resource for alternative splicing analysis. Bioinformatics
  14. (2008). Exalign: a new method for comparative analysis of exon-intron gene structures. Nucleic Acids Res
  15. (2006). Genetics: what is a gene? Nature
  16. (2006). Genomewide comparative analysis of alternative splicing in plants.
  17. (2008). Mapping and quantifying mammalian transcriptomes by RNA-Seq. Nat Methods
  18. (2007). MS: Conserved and species-specific alternative splicing in mammalian genomes.
  19. (2006). MS: Evolution of exon-intron structure and alternative splicing in fruit flies and malarial mosquito genomes. Genome Res
  20. (2003). MS: Low conservation of alternative splicing patterns in the human and mouse genomes. Hum Mol Genet
  21. (2009). MS: Rodent-specific alternative exons are more frequent in rapidly evolving genes and in paralogs.
  22. (2008). ND: Cross-species EST alignments reveal novel and conserved alternative splicing events in legumes.
  23. (2010). Nucleic Acids Res
  24. (2007). p53 Family isoforms. Curr Pharm Biotechnol
  25. (2005). Pesole G: ASPIC: a novel method to predict the exonintron structure of a gene that is optimally compatible to a set of transcript sequences.
  26. (2006). Pesole G: ASPIC: a web resource for alternative splicing prediction and transcript isoforms characterization. Nucleic Acids Res
  27. (2009). Stochastic noise in splicing machinery.
  28. (2009). Structural implication of splicing stochastics.
  29. (2008). Sugano S, et al: Low conservation and species-specific evolution of alternative splicing in humans and mice: comparative genomics analysis using well-annotated full-length cDNAs. Nucleic Acids Res
  30. Sugano S: HDBAS: human-transcriptome database for alternative splicing: update
  31. (2008). SW: Spliceosomal introns as tools for genomic and evolutionary analysis. Nucleic Acids Res
  32. (2006). The evolution of spliceosomal introns: patterns, puzzles and progress. Nat Rev Genet
  33. (2008). The Mouse Genome Database (MGD): mouse biology and model systems.
  34. (2002). The role of caspases 9 and 9-short (9S) in death ligand- and drug-induced apoptosis in human astrocytoma cells. Brain Res Mol Brain Res
  35. (2010). Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation. Nat Biotechnol
  36. (2007). What is a gene, postENCODE? History and updated definition. Genome Res
  37. (2008). What is a gene? An updated operational definition. Gene