Transcriptomics,Multiomics

Dataset Information

152

GENCODE PCR-Seq Batch M1


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 high-throughput sequencing. The experiment targets are manually annotated transcripts with novel or putative status, non-pseudogene biotype and unique splice junctions which have not been validated previously and are not supported by mouse RNAseq data from the ENCODE project. In Batch M1, which is the first GENCODE validation experiment in mouse, 3148 splice junctions from GENCODE version M2 (released in December 2013) were chosen for experimental verification.

OTHER RELATED OMICS DATASETS IN: E-MTAB-4644

INSTRUMENT(S): Illumina HiSeq 2000

ORGANISM(S): Mus musculus  

SUBMITTER: Jen Harrow  Jose M Gonzalez  Roderic Guigo  Alexandre Reymond         

PROVIDER: E-MTAB-3261 | ArrayExpress| 2015-01-22

SECONDARY ACCESSION(S): ERP009351

REPOSITORIES: ArrayExpress, ENA

altmetric image

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

Similar Datasets

2016-05-10 | E-MTAB-4644 | ArrayExpress
2016-05-13 | E-MTAB-4644 | ExpressionAtlas
2014-12-15 | E-MTAB-3168 | ArrayExpress
2014-11-25 | E-MTAB-3122 | ArrayExpress
2017-02-28 | E-MTAB-5527 | ArrayExpress
2014-12-15 | E-MTAB-3169 | ArrayExpress
2012-11-06 | E-MTAB-1310 | ArrayExpress
2013-02-18 | E-MTAB-1505 | ArrayExpress
2012-11-06 | E-MTAB-1309 | ArrayExpress
2012-11-06 | E-MTAB-935 | ArrayExpress