Brenner S, Johnson M, Bridgham J, Golda G, Lloyd DH, Johnson D, Luo S, McCurdy S, Foy M, Ewan M, Roth R, George D, Eletr S, Albrecht G, Vermaas E, Williams SR, Moon K, Burcham T, Pallas M, DuBridge RB, Kirchner J, Fearon K, Mao J and Corcoran K. Gene expression analysis by massively parallel signature sequencing (MPSS) on microbead arrays. Nat Biotechnol 18:630–634, 2000. Brenner S, Williams SR, Vermaas EH, Storck T, Moon K, McCollum C, Mao JI, Luo S, Kirchner JJ, Eletr S, DuBridge RB, Burcham T and Albrecht G. In vitro cloning of complex mixtures of DNA on microbeads: physical separation of differentially expressed cDNAs. Proc Natl Acad Sci U S A 97(4):1665-70, 2000. Ruan Y, Le Ber P, Ng HH and Liu ET. Interrogating the transcriptome. Trends Biotechnol 22(1): 23-30, 2004.
Description
The generation of MPSS datasets in the gonad and PGCs samples was performed by Takara Biotechnology Cooperation (Shiga, Japan). Annotation Classe Table: Virtual Signature Class mRNA Orientation Poly-Adenylation Features Position Class PASa PATb Strand Position 1 yes yes Forward The first one 5’ to the PAS and PAT 2 yes no Forward The first one 5’to the PAS 3 no yes Forward The first one 5’ to the PAT 4 no no Forward The most 3’ signature of the sequence 5 yes/no yes/no Forward Not the most 3’ signature of the sequence 11 yes yes Reverse complement The first one 5’ to the PAS and PAT 12 yes no Reverse complement The first one 5’to the PAS 13 no yes Reverse complement The first one 5’ to the PAT 14 no no Reverse complement The most 3’ signature of the reverse complement strand of the cDNA sequence 15 yes/no yes/no Reverse complement Not the most 3’ signature of the reverse complement strand of the cDNA sequence 22 yes no unknown The first one 5’ to the polyA signal 23 no yes unknown The first one 5’ to the polyA tail 24 no no unknown The most 3’ signature of the sequence 25 yes/no yes/no unknown Not the most 3’ signature of the sequence 1000 NA NA Forward or reverse complement The signature has only chromosome matches 0 NA NA Forward or reverse complement The signature matches more than 100 chromosome loci
