OHSU

DNA Services Core: Sequencing, AFLP and Oligo Synthesis

The MMI DNA Services Core provides automated fluorescent "long read" capillary DNA sequence analysis, solid-phase oligonucleotide synthesis, and help with bioinformatics.

welcome

We perform DNA sequencing & genomic analysis and RNA/DNA (oligonucleotide) synthesis on a fee-for-service basis. We are happy to consult on your sequence assembly and analysis or  other data processing, informatics, and database needs as well.

DNA sequencing & fragment analysis is accomplished with our state-of-the-art, Applied Biosystems 3130xl, capillary fluorescence instrument. Several levels of service are available to match your needs and finances.

We provide oligo design assistance and trouble-shooting of applications using oligonucleotides. We act as a store front for several synthesis sources. By pooling our orders we can get the best prices and services. Batch orders of small scale oligo synthesis can be as low as 10¢ per base. Discounts on other products too. Check the Fees page for the new prices.

The Template Quality Challenge

As the saying goes, "GIGO". The reverse is also true, that is, the cleaner the template, the cleaner and longer the read.

The CE run giving the highest quality read, based on parameters indicating good template quality (signal strength, signal to noise, clear length read (Q > 20), etc.) will get a voucher for $54 of free sequencing! 

We are now offering two prizes: one for "best" plasmid template and one for "best" PCR product template.

[Fineprint: You must purify the template yourself to qualify. And for the pros out there: You can only win once a year.]

Heads up ...

Richard Jones Hall / CROET building

As of Jan, 2012, we have negotiated improved pricing for oligos.

Simply choose the outside synthesis service provider on the work-request form on-line ordering The oligos will be delivered to OHSU and we will contact you for either pickup or delivery to your lab. We can help with design and troubleshooting.

What will be the last 'Sanger' genome? (be sure to read the comments)

As we attempt to break even as a University Shared Resource, we may need to raise fees when expenses increase. Check About/Fees for our current rates.


Work Requests
Workrequest Field Definitions and Information

And The Winner Is ...

  • Allison Whited in the Raj Solanki lab of the Biophysics Group at PSU for "Best plasmid template" with a contiguous read length of 998 with 958 high quality (>Q20) bases. Congratulations Allison!
  • Josiah Wagner in the J Podrabsky lab of the Biology Dept. at PSU for "Best PCR product template" with a contiguous read length of 714 with 693 high quality (>Q20) bases. Congratulations Josiah!

In December, we sequenced ~2300 templates, including fosmids, BACs or large plasmids, PCR products of various sizes and more than 2000 'normal' plasmids. Of the latter, >72% produced contiguous read lengths of 800 bases or more.

 

Holiday Schedule

We will be closed Monday (the 16th) for the Martin Luther King, Jr. Holiday. Please bring your sequencing templates to the Core Lab by the end of the day on Wednesday to be sure to get run on Thursday (data on Friday).

 

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