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Mathematics and Bioinformatics

Mathematics and Bioinformatics - Bioinformatics

Mathematics and Bioinformatics - Have questions about bioinformatic tools or databases? Post questions here. Discuss and post interesting bioinformatics information.


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Old 10-22-2010, 12:43 PM
Pipette Filler
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Default Mathematics and Bioinformatics



Hello Everyone,

I have recently completed my Ph.D. in applied mathematics and I would like to do my research in bioinformatics. I am not sure which part of this field should I start with that is close to my skills. I have following skills:

1. Mathematical modeling
2. simulation using various numerical techniques
3. Intermediate background in Statistics
4. Parallel processing using MPI and OpenMP
5. Very strong programming skills of various languages
6. No biological knowledge (but ready to learn and need direction)

If some one could point me a direction where I could apply these skills, would be great.

Thanks for reading.

Nasim
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Old 11-06-2010, 09:16 PM
Pipette Filler
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Default Re: Mathematics and Bioinformatics

There are a lot of analysis tools that are slow because they are not able to use parallel processing or GPU capabilities. Their computational speeds can be increased by many folds if that happens.

An example, ftp://selab.janelia.org/pub/software.../Userguide.pdf
That's a pdf tutorial for a tool called HMMer3. It uses profile markov models.
Go to page # 10/78 to start with, it explains this parallel processing issue.

You could contact the developers of these tools.

And there is a need for this to be done in a lot of tools with huge amounts of data coming in each day.

Doing this, you would need minimal knowledge of biology.

Best of luck!
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