title: Agilent-028465/UniversityPadova Ruditapes decussatus 4x44K v1.0 (Feature Number version)
status: Public on Aug 01 2012
contact.city: Legnaro
contact.first: Massimo
contact.last: Milan
contact.email: massimo.milan@unipd.it
contact.state: PD
contact.address: Viale dell'Università 16
contact.department: Dept. of Department of Public Health, Comparative Pathology,and Veterinary Hygiene
contact.country: Italy
contact.institute: University of Padova
contact.phone: +39 0498272941
organism: Ruditapes decussatus
description: Target sequences to be included in the R.decussatus microarray were obtained from the assembly of two sets of libraries (MGE011, 122,471 reads; cDN18 327,209  reads) making a  total of 449,680 reads were sequenced  using  normalized cDNA libraries constructed with a mixture of adult tissues and another containing gonadal tissue and larvaes. The same libraries were been used to obtain 2434 and 2077 ESTs with traditional Sanger sequencing respectively. Assembly perfromed by MIRA3 grouped these seqeunces and reads into 41,119 contigs. The array included all annotated sequences with a blast hit to vertebrates and invertebrates.Probe design started with selection of target sequences to be represented onto the R. philippinarum microarray. All annotated entries (12,479) were included whereas non annotated transcripts were considered only if sequence length was ≥400 bp and average Phred sequence quality was ≥31, yielding 21,900 target sequences. For each contigs two probes with opposite orientation (sense and antisense) were designed. A total of 43,758 out of 43,800 (99.9%) probes were successfully obtained, representing 21,887 R. decussatus transcripts.
manufacture_protocol: See SurePrint Technology at manufacturer's web site http://agilent.com/