title: Agilent-018561 C. elegans 15k gene expression microarray
status: Public on Dec 31 2011
contact.city: Haifa
contact.first: Itai
contact.last: Yanai
contact.email: yanai@technion.ac.il
contact.address: Technion City
contact.department: Biology
contact.country: Israel
contact.institute: Technion - Israel Institute of Technology
organism: Caenorhabditis elegans
description: We designed a custom 15K C. elegans microarray which was then manufactured by Agilent. The 60-mer probes were determined using OligoWiz2 to target the coding region based the following factors: upon melting temperature, position along the transcript, folding potential, low-complexity in the sequence, and cross-hybridization to other coding sequences. The probes were also restricted against spanning splice junctions to avoid missing transcripts due to errors in gene structure predictions. For each gene, the best scoring probe with no significant match in other coding sequences (E-value < 0.001) was selected. This procedure yielded 16,831 gene-specific probes out of the total 20,074 genes searched. We then selected the 15,208 best scoring probes for the microarray.
manufacture_protocol: Standard Agilent oligo in situ protocol