NASC has a 'can do...' approach:
- Any commercially available Affymetrix Chip (see: GeneChips).
- Any private consortium chip (you supply the chip / definition files).
- Any other species or chip that you are willing to try:
-
We have developed open source and free Xspecies software and transcriptomics techniques
(examples) for species with no current solution except expensive sequencing (e.g. Guinea pig, Bison, Horse, Tea, Coffee, Aloe, Oil palm etc...)
If you have any questions, please contact our Affymetrix team at affy@arabidopsis.info.
The Affymetrix service
Customers do not need to contact NASC before preparing samples although we will offer advice including hints on how to prepare samples and requirements (concentrations, etc.).
Complete list of GeneChips.
Lowest prices now £250 (€289*, $390*)
*approx. exchange rate [Nov 2011], prices are charged in pounds. Please add local tax
Service Procedure
All species / users:
- Order your Affymetrix chip service from our Affymetrix chip collection. During the ordering process you will fill in an application form describing your samples and experiment details (so have these available).
Arabidopsis users only:
Before sending, please fill in a sample submission form for each sample.
All plant users:
All chips processed at NASC with plant RNA may be made public (maximimum 1yr confidentiality). To release sooner: let us know or indicate on the appropriate forms.
Then send your samples
QC procedures
We will email you if the samples fail any of our quality control steps.
Data is finally FTP'd from our server.
Plant data only:
- Will be made available through NASCArrays after the confidentiality period has
expired. From here it can be picked up by meta analysis centres (e.g. BAR, ACT).
We prepare and donate the data in your name to GEO (as required by many journals).
NASCArrays
In NASCArrays- all data can be downloaded for free with no strings attached.
Donating data
NASC generates about 1000 chips per year in-house but we also host external data. If you want to donate data to us it will be incorporated into our database and made public for you. Please see our donating page.
NASC was a core part of the
Some analysis hints
The Arabidopsis Co-expression Tool (ACT) at the University of Leeds uses NASCArrays data to calculate gene co-expression patterns - useful for putting the role of each gene into a wider biological context of other co-expressed, cooperating or anti-correlated genes.
FREE analysis
- We recommend R/Bioconductor - free analysis software - for most users on a budget. We can help you get started with training documents and advice on request (although there is plenty on line already).
- NASC also uses and recommends the commercial analysis package: Partek
We can get involved in analysis of your data (on a collaboration basis). NASC staff are trained in Partek and Bioconductor but our numbers and high throughput do not permit assistance in analysis as a general part of the service. Most users are expected to know what to do with .CEL files.