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SpliceNest: Tissue & Tumor Specificity prediction


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GLOSSARY: A description of different columns of the output file.

  • Unigene ID: EST-cluster ID used to link to GeneNest or SpliceNest while searching for genes and transcripts respectively.

  • Gene Symbol: (Frequently) HUGO gene symbols extracted from original EMBL entries.

  • Annotation: Annotation extracted from original EMBL entries.

  • Tissue: Tissue(s) that was either selected or for which appropriate EST data exists.

  • Chr: The chromosome number.

  • AS Type: Type of the alternative splice event (Skipped exon / Multiple skipped exon / Retained intron / Alternative donor or acceptor site).

  • Specific Exon: The tissue-specific intron-junction or exon linked to GeneNest database.
      In parenthesis, specific ESTs vs Total ESTs.
  • Reference Exon: The intron-junction or exon alternative to the specific one, linked to GeneNest visualization.
      In parenthesis, number of ESTs covering the exon.
  • Specific Pattern: Indicating whether the presence or the absence of alternative sequence is specific to a certain tissue.
      (Sequence -> Specific extra region; Junction -> Specific intron boundary.)

    Shobhit Gupta