Hello,
My name is Nabeeh. I am one of two graduate research assistants working with the newly acquired Roche 454-FLX and lightcycler for our Biology Department at New Mexico State University.
We are interested in both bioinformatic development, refining and innovating wet lab protocols for the 454. Thus far, we are having issues with: i)system stability, one co-PI has his cluster setup on netBSD which seems to be problematic with the latest 454 software update (the system crashed during our last run analysis/assembly
); ii) issues of how to take the sequence output and get the sequence assembly data into GFF(3) format for a CHADO schema seems nontrivial without a formal protocol or prevalent approach existing; iii)the latest chemistry seems to have effected the bead recovery during sequencing.
So I hope that the community here is supportive and becomes a tremendous resource for upstarts like ourselves down here in Las Cruces, NM.
Best Regards,
Nabeeh Hasan
Graduate Assistant, II
Department of Biology
New Mexico State University
My name is Nabeeh. I am one of two graduate research assistants working with the newly acquired Roche 454-FLX and lightcycler for our Biology Department at New Mexico State University.
We are interested in both bioinformatic development, refining and innovating wet lab protocols for the 454. Thus far, we are having issues with: i)system stability, one co-PI has his cluster setup on netBSD which seems to be problematic with the latest 454 software update (the system crashed during our last run analysis/assembly
); ii) issues of how to take the sequence output and get the sequence assembly data into GFF(3) format for a CHADO schema seems nontrivial without a formal protocol or prevalent approach existing; iii)the latest chemistry seems to have effected the bead recovery during sequencing.So I hope that the community here is supportive and becomes a tremendous resource for upstarts like ourselves down here in Las Cruces, NM.
Best Regards,
Nabeeh Hasan
Graduate Assistant, II
Department of Biology
New Mexico State University