title: USC/ACUIGEN-Ruditapes philippinarum-8 × 15 k-designID: 072098
status: Public on May 13 2019
contact.city: LUGO
contact.first: Belen
contact.middle: G
contact.last: Pardo
contact.email: belen.gomez@usc.es
contact.state: LUGO
contact.address: Avda. Carballo Calero s/n
contact.department: Zoology, Genetics and Physical Anthropology
contact.country: Spain
contact.institute: University of Santiago de Compostela
contact.phone: +34 982822428
organism: Ruditapes philippinarum
manufacture_protocol: A total of  14,615 oligo-probes corresponding to 11,288 different Manila clam transcripts, 10,987 of them (97.9%) annotated. A total of 9,094 oligo-probes came from the HS-transcriptome, while 5,521 oligo-probes were from MR- and ML-transcriptomes. Among the HS-transcriptome probes, 5,770 corresponded to consistently annotated transcripts in the NCBI nr protein database and 236 DE to non-annotated transcripts, but showing a high DE between infected and control clams  (Hasanuzzamann et al., 2017). This latter set consisted in 472 probes since forward and reverse oligo-probes were necessary. Finally, 2,852 transcripts annotated to well-known proteins were replicated. Regarding the other two reported transcriptomes, a total of 3,627 oligo-probes corresponded to the MR-transcriptome (584 of them associated with immune response), 1,605 to the ML-transcriptome, and 289 were common to both MR and ML transcriptomes.The probes were synthesized in a random layout using the Agilent methodology.