E-MTAB-1505 - RT-PCR of eight different human tissues (GENCODE PCR-Seq Batch XI)

Last updated on 18 February 2013, released on 19 February 2013
Homo sapiens
Samples (8)
Protocols (6)
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.
Experiment types
genotyping by high throughput sequencing, co-expression, organism part comparison, reference
GENCODE: The reference human genome annotation for The ENCODE project. Harrow J, Frankish A, Gonzalez JM, Tapanari E, Diekhans M, Kokocinski F, Aken B, Barrell D, Zadissa A, Searle S, Barnes I, Bignell A, Boychenko V, Hunt T, Kay M, Mukherjee G, Rajan J, Despacio-Reyes G, Saunders G, Steward C, Harte R, Lin M, Howald C, Tanzer A, Derrien T, Chrast J, Walters N , Balasubramanian S, Pei B, Tress M, Rodriguez JM, Ezkurdia I, van Baren J , Brent M, Haussler D, Kellis M, Valencia A, Reymond A, Gerstein M, Guigo R, Hubbard T.
Combining RT-PCR-seq and RNA-seq to catalog all genic elements encoded in the human genome. Howald C, Tanzer A, Chrast J, Kokocinski F, Derrien T, Walters N, Gonzalez JM, Frankish A, Aken BL, Hourlier T, Vogel JH, White S, Searle SMJ, Harrow J, Hubbard T, Guigo R, Reymond A.
Exp. designProtocolsVariablesProcessedSeq. reads
Investigation descriptionE-MTAB-1505.idf.txt
Sample and data relationshipE-MTAB-1505.sdrf.txt