Soon after joining the Kingsford group I began talking with Guillaume Marçais about his work on minimizer schemes. This year I contributed to the most recent publication in this line of work which describes the asymptotic bounds for the densities of these schemes. This work was accepted for presentation at ISMB 2018 in Chicago, IL. A preprint of the manuscript is on bioRxiv (see Publications).
The ISCB-SC Education and Internships committee do great work including running the internships program. Each year the EIC matches students in developing countries with willing labs in Europe or Australia. With the introduction of the Anna Tramontano fellowship they will start to have the financial support needed to increase this program. The paper we published in PLOS Computational Biology describes the program but the committee is happy to answer any questions. Also if you have room in your laboratory for an intern, the program is always looking for willing PIs.
Student Council Symposium-Africa 2017
Every other year the ISCB-SC runs four Student Council Symposia, US (co-located with ISMB), Europe (co0located with ECCB), Latin America (co-located with ISCB-LA) and most recently Africa (co-located with ISCB-Africa). I had the pleasure of helping to organize this year’s SCS-Africa meeting. The symposium was a great success and details about the talks held can be found in the conference highlights that we published in F1000Research.
During the IGERT problems course in 2012 our project was to analyze and annotate a newly discovered and sequenced snake fungal pathogen, Ophidiomyces ophiodiicola. At the time we just called it the “snake fungus”. Recently, thanks to the the hard work of Manna Ohkura and her PhD advisor Marc Orbach, we published our results in ASM’s Genome Announcements. The full list of co-authors and a link to the open access paper can be found on the Publications page.
The journal version of my WABI paper has been accepted for publication in the Algorithms for Molecular Biology journal and will appear there soon. This extended version includes many of the algorithmic details that were left out of the original paper WABI publication as well as an expanded results section. A pre-publication version of the submission is available on my Publications page.