Bioinformatics FAQ (Frequently Asked Questions) - Newbie getting started
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Protein (bio)chemistry
Protein (bio)chemistry is experiencing a revival. Proteins are
still more delicate and fussy than nucleic acids. The same advice
that applies to molecular biology applies to protein biochemistry.
That stuff bioinformatics people refer to as "wet lab science" is
much harder than it looks.
You might find it more difficult to get access to a good
protein lab than a good molecular biology lab and do protein
science with real wizards, but the very least you can do is read
about the theoretical aspects of the subject.
For insights into the principles of proteins structure, try,
for example, Carl Branden and John Tooze's "Introduction to
Protein Structure" [Garland ISBN 0-8153-2305-0]. Physicists in
particular might find the lack of general unifying principles in
this area overwhelming. Unfortunately there's no substitute for
acquiring a "feel" from the subject by examining a lot of
examples. Still the most critical stages in the successful
prediction of protein structure from sequence are those requiring
human intervention.
Thomas E. Creighton has been responsible for a range of
standard texts on protein chemistry. If you are working in a
protein lab you are likely to come across his "Protein Function :
A Practical Approach" [ISBN 019963615X] and the rather more
expensive and theoretical "Proteins : Structures and Molecular
Properties" [ISBN 071677030X]
Evolutionary biology
It's a worn quote, but worth repeating:
"The mechanisms that bring evolution about certainly need
study and clarification. There are no alternatives to evolution
as history that can withstand critical examination. Yet we are
constantly learning new and important facts about evolutionary
mechanisms. Nothing in biology makes sense except in the
light of evolution."
Theodosius Dobzhansky in "American Biology Teacher"
vol.35
Darwin's theory is one of the simplest and most misunderstood
in science. Start with a good layperson's introduction, Richard
Dawkin's "The Selfish Gene" (and remember: it's a
metaphor, stupid) or Steve Jones' paraphrasing of
Darwin's original "The Origin of the Species" "Almost Like a
Whale". All biologists agree on the underlying principles, but
they are nearly ready to kill one another over the details. After
reading a decent book on evolutionary biology you should have at
least a handful of good questions. Now you are ready to take a
class in the subject. Take your questions with you. You'll
probably start an argument---or a fight.
You might also like to peruse Cynthia Gibas's answers
to similar questions from computational scientists on the O'Reilly Web site.
These damned biologists are making me use Word instead of LaTeX
to write up---what can I do?
Try this.
More
general advice
Use the software
Get access to an installation of EMBOSS and/or Staden and get
someone to lead you through the tools available. RasMol is a simple,
but powerful and elegant molecular imaging program which can teach
you a great deal about biological macromolecules; try a tutorial.
Get out on the Web and do some productive surfing for a
change :-) . The best starting point is the Human Genome Mapping
Project Resource Centre's "GenomeWeb". There's
so much stuff out there -- and most of it is free to
academics.
Where can I find Bioinformatics
jobs?
Start here at Bioinformatics.Org's Job
Announcements Homepage...
Then move on to the appointments / careers sections of the the
major scientific journals, or, better, search their Web jobs pages
with "bioinformatics":
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