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Platform GPL14856 Query DataSets for GPL14856
Status Public on Nov 13, 2011
Title CombiMatrix Bovine 90K Array TM 1.0
Technology type in situ oligonucleotide
Distribution custom-commercial
Organism Bos taurus
Manufacturer University of Verona - Biotechnology Department - Functional Genomics Centre
Manufacture protocol Probes are directly synthesized on a 90k Combimatrix array by an in situ oligo synthesis system developed by CombiMatrix Corporation (Mukilteo, USA) using the CombiMatrix CustomArray synthesizer. Standard synthesis protocol provided by CombiMatrix was used
 
Description The Bovine array includes 43,822 probes designed using the program OligoArray 2.1 (Rouillard et al. 2003): 20,859 specific oligos (35-40mer) were designed on Ensembl release 50, 19,230 were designed on Bovine Unigene and 3,550 on Bovine EST database (Jul 2008), while 183 oligonucleotides sequences, provided by the manufacturer, were used as quality and negative controls. The 90K BovineArrayTM 1.0 was designed with two replicates of each probe randomly distributed across the array to allow measurement of the variability within the array. All the procedures provided were performed as indicated by CombiMatrix protocols available at the CombiMatrix website (www.combimatrix.com)
 
Web link http://ddlab.sci.univr.it/FunctionalGenomics/
Submission date Nov 08, 2011
Last update date Nov 13, 2011
Contact name Marcello Del Corvo
E-mail(s) marcello.delcorvo@tecnoparco.org
Phone 003903714662200
Fax 003903714662217
Organization name CNR-Ibba
Department Bioinformatics
Street address via Einstein - Loc. Cascina Codazza
City Lodi
ZIP/Postal code 26900
Country Italy
 
Samples (46) GSM838448, GSM838449, GSM838450, GSM838451, GSM838452, GSM838453 
Series (1)
GSE33894 Gene expression profiling in caprine milk somatic and white blood cells upon intramammary challenge with Staphylococcus aureus

Data table header descriptions
ID
SEQUENCE Oligo Sequence
SEQ_ACC Original Sequence Accession
SPOT_ID
GB_ACC GenBank accession number

Data table
ID SEQUENCE SEQ_ACC SPOT_ID GB_ACC
QC-oligoB-AS-3 GAGTTGCTGTTACATCAGCGAATGTGCATGGAACACACTT FactQualCtrl --FactQualCtrl
QC-3prime TGACTGACTGGACTGTGGGTGTGCGATACGTGTCC FactQualCtrl --FactQualCtrl
QC-5prime TGGGTGTGCGATACGTGTCCGACTGACTGACTGAC FactQualCtrl --FactQualCtrl
QC-LLD-1 AGATTTCTTCGGTTTCCCGTGGTTGGCGTCTGA FactQualCtrl --FactQualCtrl
QC-LLD-2 GGAGTATGTTCGGCTGCGCGAGAGCTATGATGCCG FactQualCtrl --FactQualCtrl
QC-LLD-3 GTGGCGATGTTAACCTCGGCTTATGGCGTCACCGG FactQualCtrl --FactQualCtrl
QC-LLD-4 CGAACATCCCAGGGTAACACGCA FactQualCtrl --FactQualCtrl
QC-LLD-5 ATCGCTTCGAATGATGTTACTCCGG FactQualCtrl --FactQualCtrl
NC-SP-phage-03-3 CACCGTAATTACTGTGAGCCATCATGACGCCGATG FactNegCtrl --FactNegCtrl
NC-SP-phage-03-7 GACGGTGATCGCATCGGTGCTGTTAACAAGTTCAT FactNegCtrl --FactNegCtrl
NC-SP-phage-03-8 AGTGGCTGAAACAGTTGTTGATTGAGTCTCTTTGG FactNegCtrl --FactNegCtrl
NC-SP-phage-05-2 CCATGATTACGCCAGTTGTACGGACACGAACTCAT FactNegCtrl --FactNegCtrl
NC-SP-phage-05-1 GGAGACGGGCAATCAGTTCATCTTTCGTCATGGAC FactNegCtrl --FactNegCtrl
NC-SP-phage-05-16 CCTGTCCGGCATAGCTGATATTTTCAGGGTCATCA FactNegCtrl --FactNegCtrl
NC-SP-phage-06-1 GACTCTCCGGATTAACTGGCGGTGACGGTAATTTC FactNegCtrl --FactNegCtrl
NC-SP-phage-06-8 TCATACATACCAGACAGCCGGTACACCACGTTTTC FactNegCtrl --FactNegCtrl
NC-SP-phage-06-14 GTCACACCGTTATGTTCAAATGATTCGGTTTTCAG FactNegCtrl --FactNegCtrl
NC-SP-phage-08-9 GTGACCATACCGTACAGGTTAGAAACCGTCAGCGT FactNegCtrl --FactNegCtrl
NC-SP-phage-08-10 GGATCGGCGTAACTGTTTCCGTTGACGAAGTTCAC FactNegCtrl --FactNegCtrl
NC-SP-phage-08-13 GGACAGAAAGCGTCACGCTGTACGTTTTCAGGTTG FactNegCtrl --FactNegCtrl

Total number of rows: 43822

Table truncated, full table size 4126 Kbytes.




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Supplementary data files not provided
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