Stanford Functional
Genomics Facility

Sample Preparation and Submission Checklist

  1. Review your project to determine if the Solexa system is best fit for the results you require. The Solexa sequencer supports short 36-100 base reads and generally requires a good sequence scaffold (template) to align the pipeline sequence.
  2. Review the library and sequencing options given by Illumina. A wide variety of resources and publications are available on the Illumina web site.
  3. Review pricing on our web site to fit your project need with any budget considerations.
  4. Contact Mike Collier to discuss your project needs and schedule.
  5. Details on informatics and data formats should be decided very early in your sequencing project. Decide on file format required: FASTA; FASTQ; ascii; other. Data is returned to you as a compressed tar.gz file. Complete data set sizes can range from 1-5+ Tb (Terabytes) if you require image and sequence data together, 400-800 Gb (Gigabytes) if sequence data alone.
  6. Prepare sample(s) according to the appropriate Illumina protocol. The SFGF core does not offer library creation services at this time. Library reagent kits can be ordered directly from Illumina or from Richard Graff. If you have any questions, contact us before ordering materials so we can assist with logistics or questions if necessary.
  7. Submit the sample(s) to get into the queue for sequencing.
  8. The customer should check the sequence data once the run is complete and transferred via ftp/portable drive by the SFGF to the customer. SFGF will delete data from the Solexa storage server after 10 business days. Verification of the data and/or images should be done during this grace period to ensure data fidelity and give time for duplicate transfer/storage.

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