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Old 04-07-2008, 12:09 PM   #1
ECO
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Location: SF Bay Area, CA, USA

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Posts: 1,358
Default OpGen: Optical Restriction Mapping as replacement for Mate Pair Sequencing?

Just saw this article over at In Sequence, and wanted to see what people thought about it as I'd never heard of this company.

The company is OpGen, and they have a patent suite concerned with methods to produce "optical restriction maps" of microbial genomes. From briefly perusing a couple of the main patents...

http://www.patentstorm.us/patents/6174671.html
http://www.patentstorm.us/patents/6294136.html

...they basically can generate high resolution (and/or single molecule) restriction maps of small genomes. With the appropriate mix of restriction enzymes, this can act as fine structural mapping necessary to properly finish most genome sequencing projects. They are concentrating on small genomes as there are undoubtedly limits to the technology as genome size increases.
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Old 04-28-2008, 11:09 PM   #2
ScottC
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Location: Monash University, Melbourne, Australia.

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Yeah, there's a few papers about using optical mapping:

http://www.hubmed.org/display.cgi?uids=18356192
http://www.hubmed.org/display.cgi?uids=17868451
http://www.hubmed.org/display.cgi?uids=17697381

etc. A search of the term finds more.
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Old 09-30-2010, 07:00 AM   #3
lskatz
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What is everyone's opinion about Opgen? I believe their mapping software is called MapIt. I have been asked to use Opgen data with 454 and am wondering what everyone's experience is before I go using it.
  • How does Opgen data look?
  • How do MapIt results turn out? Is it good software?
  • Has anyone combined Opgen with an assembly or especially 454 data? How?
Thank you.
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