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Table 4 Annotation of the non-coding part of the transcriptome

From: A transcriptional sketch of a primary human breast cancer by 454 deep sequencing

ncRNA class

Number of unique ncRNAs matching the breast cancer library4

Small RNAs:

24

   piRNAs

23

   scAluRNAs

1

Long regulatory RNAs1:

35

   Host genes2

11

   Imprinted transcripts

4

   Antisense transcripts

9

   Cancer associated transcripts

11

TUF

26

Expressed pseudogenes

11

Predicted conserved secondary structure 3

2

Total

98

  1. 1 The same regulatory RNA may belong to more than one subclass.
  2. 2 Both miRNA and snoRNA host transcripts are considered.
  3. 3 According to RNASearch predictions [61].
  4. 4 Known ncRNAs were retrieved from both RNAdb and NONCODE databases (see Methods)
  5. Abbreviations: piRNA, Piwi-associated small RNAs; scAluRNA, small cytoplasmic Alu-repeat RNAs; TUF, transcripts of unknown function.
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BMC Genomics

ISSN: 1471-2164

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