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GENCODE PCR-Seq Batch IV

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 followed by sequencing. This is batch IV, based on chromosome 3, 4 and 5 annotations from Gencode 4 (January 2010). The sequences in this submission were obtained from two different RNA amplifications of the same original RNA for each tissue (called cdna1 and cdna2 in the assay names). In addition testis cDNA1 and lung cDNA2 were sequenced twice (rep1, rep2), and sequences originated from a new dilution of brain and testis cDNA1 (newdil) have also been included.

ORGANISM(S): Homo sapiens

SUBMITTER: Jose Gonzalez

PROVIDER: E-MTAB-684 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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GENCODE: producing a reference annotation for ENCODE.

Harrow Jennifer J Denoeud France F Frankish Adam A Reymond Alexandre A Chen Chao-Kung CK Chrast Jacqueline J Lagarde Julien J Gilbert James G R JG Storey Roy R Swarbreck David D Rossier Colette C Ucla Catherine C Hubbard Tim T Antonarakis Stylianos E SE Guigo Roderic R

Genome biology 20060807

<h4>Background</h4>The GENCODE consortium was formed to identify and map all protein-coding genes within the ENCODE regions. This was achieved by a combination of initial manual annotation by the HAVANA team, experimental validation by the GENCODE consortium and a refinement of the annotation based on these experimental results.<h4>Results</h4>The GENCODE gene features are divided into eight different categories of which only the first two (known and novel coding sequence) are confidently predic ...[more]

PMID: 16925838

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