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Richard Jang
rjang[--]uwaterloo.ca
519-888-4567 x37889
PhD Candidate.
CV available by request.
Research Interests
- Constrained combinatorial search problems in bioinformatics
using techniques from operations research and constraint programming
from the AI community
- Automated NMR drug screening
- Simplifying NMR assignment problems using prior available
knowledge to reduce the amount of experiments
- Combining techniques from protein structure prediction and
protein-ligand docking to accelerate structure and protein-ligand
complex determination by NMR
- Transmembrane protein structure prediction
Publications
- Jang, R., Gao, X. & Li, M.
Combining Ambiguous Chemical Shift Mapping with
Structure-Based Backbone and NOE Assignment from 15N-NOESY.
ACM BCB '11 Proceedings. Regular Paper.
To Appear in BCB special issue in BMC Bioinformatics.
- Jang, R., Gao, X. & Li, M.
Towards fully automated structure-based NMR resonance assignment of
15N-labeled proteins from automatically picked peaks.
J Comput Biol, 2011, 18, 347-363.
- Jang, R., Gao, X. & Li, M.
Towards Automated Structure-Based NMR Resonance Assignment.
Lecture Notes in Computer Science, 2010, 6044, 189-207.
- Jang, R., Gao, X. & Li, M.
Integer Programming Model for Automated Structure-based NMR Assignment.
Technical
Report CS-2009-32, 2009.
- My old research proposal on transmembrane proteins. Some of the background material might still be useful.
Software
- PeakWalker.
- Used for chemical shift mapping. Given a series of 15N-HSQC
peak lists, tracks the possible paths while allowing for ambiguity
(1-many mapping from multiple possible paths), overlapped peaks, noise,
missing peaks, and other errors.
- Webserver coming soon this Fall!
- PeakAssigner
- Used for structure-based resonance assignment. Given a
homologous structure, 15N-HSQC, 3D 15N-NOESY, a set of possible
residues for each HSQC peak (e.g. from PeakWalker), produces possible
1-1 mappings (both residue to HSQC peak and contact to NOESY peak).
- Webserver coming soon this Fall!
Other
Advice to Students
- Start planning your career early. Most likely you won't know what
you will want to be, so give yourself lots of time to explore all
possibilities.
- Identify things you enjoy doing, and then find avenues that will
let you make a living by learning as much as you can. Google, career
counsellors, and career fairs (you don't have to be applying for jobs
to attend a career fair)
are good places to learn. Contacting someone in the field is even
better. A lot of professionals are friendly and willing to spare 10
minutes, perhaps over coffee, to give advice to a nice young fellow.
Just come prepared with questions.
- Don't commit to a career path that you know nothing about (e.g.
because your parents want you to be a X). Make an informed decision by
learning as much as you can about it, and then decide. It's like
marriage; you wouldn't marry someone who you have not dated. Like
marriage, sometimes things don't work out, so it is best to get a
quick divorce and move on to something else.
- You don't need grand slam ideas to be successful in research and
business. You just need something for which people are willing to pay
you money (this includes the competition buying you out). For research,
you just need other researchers in similar fields who are interested in
the work, for instance, because it answers their questions or it
increases the exposure of their fields.
