The DNA Sequencing Core will provide a Quote for Core Processing fees, which is based on the Estimation of theCore Technician hours to complete the project and Illumina BeadChip Kit costs. Core Tech Hours can vary based on the purity of the samples and whether they need additional purification using the Agencourt RNACleanXP bead protocol.
The cost per project is based on an hourly rate of $86/hour and the number of Technician Hours to complete the project.
External projects are charged a 29% surcharge for Core Processing fees. We request the Client purchase kits directly from Illumina and ship them to the DNA Sequencing Core as we would need to charge a 29% surcharge for the cost of the kits. Please contact Susan Dagenais (firstname.lastname@example.org) for shipping information.
Core Services Billing:
Core service fees can only be bill after the work is completed. We cannot pre-bill for core services for clients wanting to spend expiring grant funds.
Illumina Kit Reagent Billing:
The Client will be billed for the cost of the entire Whole Genome GeneExpression BeadChip kit (Illumina, Inc) plus shipping costs.
For human, >47,000 probes are analyzed to generate a GeneExpression Profile. Illumina offers two GeneExpression Analysis products for mice: 1). >25,000 RefSeq probes analyzed and 2). > 45,000 probes designed from RefSeq, the MEEBO set and the RIKEN FANTOM2 database. For generating Gene Expression Profiles, the iScan is set to record data that can be used with the Illumna GenomeStudio data analysis software package as well as other software such as Bioconductor, GeneSpring, and ArrayExpress.
Sample Submission: Contact Susan Dagenais (email@example.com) and request a Project Quote. Please indicate the number of samples to be assayed and which Illumina BeadChip kit you would like used for the assay. We will e-mail you a Quote for the Illumina Kit costs and estimated Core Processing fees. Once we a signed Quote, we will place an order with Ilumina, assign a Core Project Number, and you will be sent a BeadArray submission form for sample submission.
Quantity: We request 100ng/ul (25ul). If you do not have this concentration, please contact Susan Dagenais (firstname.lastname@example.org)
Quality: NanoDrop – the manufacturer of the Illumina TotalPrep RNA Amplification kit recommends that the 260/280 and 260/230 ratios should be >2.0 for best results in generating labled cRNA. A 260/280 ratio <1.8 indicates protein in the prep and a 260/230 ratio <1.5 suggest there is an excess of salts, which may affect amplification.
It is important that the total RNA is free of genomic DNA contamination.
BioAnalyzer – Request that RNAs have a RIN value >8.0 as RNA degradation can lead to incorrect conclusions of the expression data. RNA samples isolated using TRIzol® should be further cleaned by the Qiagen RNA cleanup procedure or the Agencourt RNAClean XP procedure.
RNA QC for quantity and quality is required BEFORE Illumina Whole Genome Gene Expression kit will be ordered.
Typical turnaround time is 2-4 weeks.