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Old 03-15-2011, 02:39 PM   #1
amaer
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Default Rapid Identification of Microorganisms in Solexa samples

My company (ICx Biosystems) has developed a Rapid Analysis Pipeline for Identification of bacteria and viruses in Solexa reads samples (RAPID). The software is ultra-fast and much more accurate than BLAST in identifying species and even the closest sequenced strains of the organisms in a complex Solexa sample. It does not requires prior assembly of the reads. Currently it can identify close to a hundred pathogens in a matter of minutes on a ordinary laptop but it can be expanded to do so with any and all bacteria or viruses.

In addition we have also developed techniques for clutter mitigation to make the identification more sensitive.

We would like to see if there are entities that will be interested to use this kind of pipeline. Please PM me if you are interested.

Thanks for your interest.
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Old 03-26-2012, 04:13 AM   #2
colindaven
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Can you deal with SOLiD data ?

If so we might be interested in trialling it in a few months.
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Old 03-26-2012, 09:21 AM   #3
amaer
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Hello,

Currently we are not handling directly SOLiD data, but if we convert the reads from color space to plain nucleotide (A,C,G,T, etc.) sequences the pipeline should be able to handle it. We have expanded the pipeline now to detect all bacteria and viruses and even fungi, so it can be used as metagenomics analysis pipeline.

Please let me know.

thanks,
Andreia

Last edited by amaer; 05-02-2012 at 01:12 PM. Reason: Update
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Old 07-02-2012, 05:33 PM   #4
capsicum
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Are there any publications for this software? Any test data?
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