title: febit-Hyphomonas neptunium15K v1.0
status: Public on Nov 24 2014
contact.city: Marburg
contact.first: Martin
contact.last: Thanbichler
contact.address: Hans-Meerwein-Straße 4
contact.country: Germany
contact.institute: Philipps University Marburg
organism: Hyphomonas neptunium ATCC 15444
manufacture_protocol: Probes were designed based on the published genome sequence of Hyphomonas neptunium ATCC 15444 (GenBank accession CP000158.1). Each gene was represented by up to four probes per array, resulting in up to four data points for each mRNA in the raw data file. For 181 genes, it was not possible to determine specific probes. The intensities of blank probes consisting of a single T nucleotide were used for background correction. Additional features were included as controls for the hybridization process and as positional cues. Blank and hybridization control probes were not included in the data analysis. The microarrays used in this study (Biochips) were generated on an activated three-dimensional reaction carrier consisting of a glass-silicon-glass sandwich. Features were generated by light-activated in-situ oligonucleotide synthesis employing the Geniom One platform (febit), using standard DNA synthesis reagents and 3'-phosphoramidites carrying a 5'-photolabile protective group. Prior to feature synthesis, the glass surface was activated by coating with a spacer to facilitate probe-target interaction and to avoid probe-probe interference.