Transcriptomics

Dataset Information

592

RT-PCR of eight different human tissues (GENCODE PCR-Seq Batch XI)


ABSTRACT: As part of the ENCODE consortium the GENCODE project is producing a reference gene set through manual and automated gene prediction. Selected transcript models are verified experimentally by RT-PCR amplification of at least one of their unique splice junctions followed by sequencing. The experiment targets are manually annotated transcripts with novel or putative status, non-pseudogene biotype and unique splice junctions not validated previously. For Batch XI 966 splice junctions from GENCODE13 (released July 2012) and 640 splice junctions from GENCODE14 (released October 2012) were chosen for experimental verification.

INSTRUMENT(S): Illumina HiSeq 2000

ORGANISM(S): Homo sapiens  

SUBMITTER: Tim Hubbard   Jose M Gonzalez   Roderic Guigo   Alexandre Reymond  

PROVIDER: E-MTAB-1505 | ArrayExpress | 2013-02-19

SECONDARY ACCESSION(S): ERP002245

REPOSITORIES: ArrayExpress, ENA

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Publications


Within the ENCODE Consortium, GENCODE aimed to accurately annotate all protein-coding genes, pseudogenes, and noncoding transcribed loci in the human genome through manual curation and computational methods. Annotated transcript structures were assessed, and less well-supported loci were systematically, experimentally validated. Predicted exon-exon junctions were evaluated by RT-PCR amplification followed by highly multiplexed sequencing readout, a method we called RT-PCR-seq. Seventy-nine perce  ...[more]

Publication: 1/2

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