title: Agilent-036353 S.solea_v2 array (Feature Number version)
status: Public on Sep 20 2013
contact.city: Legnaro (PD)
contact.first: Serena
contact.last: Ferraresso
contact.email: serena.ferraresso@unipd.it
contact.state: Padova
contact.address: Viale dell'Università
contact.department: Dept of Comparative Biomedicine and Food Science
contact.country: Italy
contact.institute: University of Padova
contact.phone: +39 049 8272506
organism: Solea solea
description: GE 8x15k oligo microarray that covers 12,836 annotated transcripts (Isotigs) of the common sole (Solea solea). Roche 454 sequence reads were produced from a normalized cDNA library constructed using a mixture of RNAs from whole larvae (1-4-6-11-13-18-20-33 days posth hatching) and adult tissues (liver and intestine). All 454 sequences were then assembled into Isotigs, representing putative transcripts, by using Newbler 2.6 software with default settings. All Isotigs are stored in the public database Transcriptome Shotgun Assembly Sequence Database (TSA, http://www.ncbi.nlm.nih.gov/genbank/tsa) under accession number GAAQ00000000 (To be made publicly available after paper publication), transcripts sequences can be retrieved by using IsotigName as search criteria. One probe for annotated sequences with known orientation (10,987) was designed while, whenever possible, two probes with both orientations were designed for Isotigs with unknown/ambiguous orientation (1,849 indicated by Isotig ID plus prefix S_ or AS_ ). A total of 14,674 oligonucleotide probes (60 nt) were in situ synthesized onto the array, using Agilent non-contact ink-jet technology (8 x 15K format, including default positive and negative controls).  Probe ID on the array corresponds to IsotigName.
  In situ long-oligonucleotide microarray.
manufacture_protocol: See SurePrint Technology at manufacturer's web site http://agilent.com/