About me
My research aims to find the genetic code of bipolar, schizophrenia, and autism spectrum disorder.
I'm still active in developing algorithms for genome assembly and comparative genomics.
Address: 4445 Eastgate Mall, San Diego, CA 92121, USA.
Email: kspham@eng.ucsd.edu
Curriculum vitae
Educations
The opportunity to teach, be it lecturing or mentoring students, is an important reason why I want to pursue my career in academia. Below is my coursera video lectures with Pavel Pevzner and Phillip Compeau (with more than 200.000 students registered for the last 2 years)...
Research
My research interest includes:
- Neuroscience
- Graph Theory
- Bioinformatics
The highlights of my research can be seen in my publications:
A full list of my recent publications is available here. You may also check the following databases:
Events|News
My former student Ilia Minkin got the best poster award at RECOMB2016,
Congratulations!
Ragout2: Pseudo-chromosome assembly of large and complex genomes using
multiple references will be presented in RECOMB 2016. Poster is
available here.
Our post-mortem neuron single cell paper appeared in Nature Protocol.
Our paper about Bipolar Disease appeared in Nature, Volume 527 Number 7576 pp7-128 , 5 November 2015.
“Ragout2: a reference-assisted tool for mammalian genome assembly” has been chosen as a default pipeline for Sanger/UCSC to assemble 22 mouse wild-strains into complete chromosomes. (Mikhail Kolmogorov, Brian Raney, Duncan Odom, Paul Flicek, David Thybert, Benedict Paten, and Son Pham).
The source code
is now available under GPL license.
"Ragout: a reference-assisted assembly tool for bacterial genomes" has been accepted to ISMB 2014, Bioinformatics 2014 and featured by Genomeweb.
A useful guide for writng a figure legend
Genomic Medicine 2015 conference in Vietnam.
I am the organizer and program chair of Genomic Medicine 2015, and also
served as a Program Committee Member for: RECOMB-BE 2009, RECOMB-BE 2010,
RECOMB-BE 2011; Referee for Bioinformatics, BMC Bioinformatics,
Nucleic Acids Research, Frontiers in Bioinformatics,
IEEE/ACM Transactions on Computational Biology and Bioinformatics; Sub-reviewer for Nature, Nature Communication, Cell.