Details

Autor(en) / Beteiligte

• Kampa, Dione
• Cheng, Jill
• Kapranov, Philipp
• Yamanaka, Mark
• Brubaker, Shane
• Cawley, Simon
• Drenkow, Jorg
• Piccolboni, Antonio
• Bekiranov, Stefan
• Helt, Gregg
• Tammana, Hari
• Gingeras, Thomas R

Titel

Novel RNAs identified from an in-depth analysis of the transcriptome of human chromosomes 21 and 22

Ist Teil von

• Genome research, 2004-03, Vol.14 (3), p.331-342

Ort / Verlag

United States

Erscheinungsjahr

2004

Quelle

MEDLINE

Beschreibungen/Notizen

• In this report, we have achieved a richer view of the transcriptome for Chromosomes 21 and 22 by using high-density oligonucleotide arrays on cytosolic poly(A)(+) RNA. Conservatively, only 31.4% of the observed transcribed nucleotides correspond to well-annotated genes, whereas an additional 4.8% and 14.7% correspond to mRNAs and ESTs, respectively. Approximately 85% of the known exons were detected, and up to 21% of known genes have only a single isoform based on exon-skipping alternative expression. Overall, the expression of the well-characterized exons falls predominately into two categories, uniquely or ubiquitously expressed with an identifiable proportion of antisense transcripts. The remaining observed transcription (49.0%) was outside of any known annotation. These novel transcripts appear to be more cell-line-specific and have lower and less variation in expression than the well-characterized genes. Novel transcripts were further characterized based on their distance to annotations, transcript size, coding capacity, and identification as antisense to intronic sequences. By RT-PCR, 126 novel transcripts were independently verified, resulting in a 65% verification rate. These observations strongly support the argument for a re-evaluation of the total number of human genes and an alternative term for "gene" to encompass these growing, novel classes of RNA transcripts in the human genome.