I am a scientific programmer and web-designer.
I am an unstoppable reader.
I write occassionally, mostly on this blog, and of which, these are the most popular posts:
- A Sign, a Flipped Structure, and a Scientific Flameout of Epic Proportions
- The 2 billion dollar protein sequencing error
- Some reflections on programming in D, and why it kicks serious ass over C++, leaving it dead and broken on the sidewalk
I love developing web stuff, much of it learnt on this blog, which is now built with my static web-generator embellish.
I strive towards minimalist user interfaces for messy real-world data:
- Human Gene Parade - browser for the human genome.
- Jolecule - molecular viewer of proteins and DNA.
- Jennifer Hale Photography - a photography website.
- Annotatr - a commenting machup for academic articles.
I now work mainly as a scientific programmer.
Computational Structural Biology
warning: scientific jargon coming up
Before that, I spent about 10 years studying computational structural biology. For many years, I focused on the backbone structure of protein molecules:
- the stereochemistry of the β-sheet
- the structure of the Ramachandran plot
- the geometrical solution of the proline ring
Over the years, I've written several useful primers on computational biology:
- Notes to a young computational biologist
- A Decade in Computational Structural Biology
- RMSD: Root Mean Square Deviation
- Calculating the solvent Accessible Surface Area
The great thing about working in science is that I got to work all around the world:
- 2011-present, Proteomics Facility, Monash, Melbourne.
- 2010, Michael Lappe, Max Plank, Berlin.
- 2006-2009, David Agard, UCSF, San Francisco.
- 2004-2005, Ken Dill, UCSF, San Francisco.
- 2002-2003, Robert Brasseur, FSAGx, Gembloux, Belgium.
- 1997-2001, PhD, Paul Curmi, UNSW, Sydney.
And no academic biography is complete without a list of peer-reviewed publications:
Identification of new, well-populated amino-acid sidechain rotamers involving hydroxyl-hydrogen atoms and sulfhydryl-hydrogen atoms (2008)
Bosco K. Ho and David A Agard
BMC Structural Biology 8:41 [pdf - link]
Conserved Tertiary Couplings Stabilize Elements in the PDZ fold, leading to Characteristic Patterns of Domain Conformational Flexibility (2010)
Bosco K. Ho and David A. Agard
Protein Science 19:398-411 [pdf - link]
Unfolding Simulations Reveal the Mechanism of Extreme Unfolding Cooperativity in the Kinetically Stable α-Lytic Protease (2010)
Neema L. Salimi, Bosco K. Ho and David A. Agard
PLOS Computational Biology 6(2):e10000689 [pdf - link]
An improved strategy for generating forces in steered molecular dynamics: the mechanical unfolding of titin, e2lip3 and ubiquitin (2010) Bosco K. Ho and David A. Agard
PLoS ONE 5(9):e13068 [pdf - link].
Hybrid approaches to molecular simulation (2012)
Bosco K Ho, David Perahia and Ashley M Buckle
Current Opinion in Structural Biology 22:1-8 [pdf].
Proteomic Characterization of a Natural Host-Pathogen Interaction: Repertoire of in vivo Expressed Bacterial and Host Surface Associated Proteins (2014)
Megan Anne Rees, Oded Kleifeld, Paul K Crellin, Bosco Ho, Timothy P Stinear, A Ian Smith, Ross Leon Coppel Journal of Proteome Research DOI:10.1021/pr5010086 [link]