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Scientific Inference (click on title for reviews on Amazon)
RL Winkler:
An
introduction to Bayesian Inference and Decision (2nd
Ed, 2010)
Exceptionally well written and readable introduction to general probability and Bayesian
inference. Assumes no previous expertise in probability thepory and
math, and connects all the parts I was only able to touch in my Chapter
7. A must read imho. DS Sivia:
Data Analysis- A Bayesian Tutorial (1996)
A most readable primer to Likelihood and Bayesian
inference. Easy to understand examples, derivations.
Sir Harold Jeffreys:
Scientific
Inference (3rd edition, 1973, 2010 paperback reprint)
Excellent introduction into the methods and pitfalls of scientific
inference; Bayes; inverse probability; examples
AWF
Edwards:
Likelihood - An Account of the Statistical Concept of
Likelihood and Its Application to Scientific Inference
(1992)
Most lucid introduction into the concepts of
likelihood and support; Bayes ratio; likelihood ratio, CLT
ET Jaynes:
Probability Theory: The Logic of Science
(2003 collection of earlier work)
Heavy stuff complementing the previous books, focus
on probabilistic interpretation. General introductory texts
(click on title for reviews on Amazon)
Bernhard Rupp:
Biomolecular Crystallography: Principles, Practice and Application
to Structural Biology (2009)
Most comprehensive and modern monography currently
available. Chapter one alone gives a comprehensive overview of the field
and is a good rpeparation for further study.
For table of contents click here.
Liljas,
Liljas, Piskur,
Lindblom, Nissen and
Kjeldgaard:
Textbook of Structural Biology (2009)More comprehensive than the older (but still excellent) Branden and
Tooze. A reasonably good extension beyond my Chapter 2 for those
interested in further biological examples of protein structure, viruses,
and nucleic acid complex structures. Not much crystallography.
David Blow:
Outline of Crystallography for Biologists
(2002)
Very readable introduction, somewhat more comprehensive and mathematical
than Rhodes, less intense than Drenth.
Walker and Ripley:
Molecular Biomethods Handbook (2008)
Collection of review articles on methods,
including one by me and Katherine Kantardjieff about Protein
Crystallography. Very quick and concise introductory overview.
Gale Rhodes:
Crystallography made crystal clear (2000)
A useful little text, particularly for the user of
macromolecular structures. Basic structure interpretation and what to
look for when analyzing a protein structure paper. Less appropriate for
the practicing structural biologist.
Jenny Glusker and Ken Trueblood:
Crystal structure analysis (1985)
Classical short primer on crystallography, also
useful for protein crystallography. Nice but a tad old-fashioned due to
age.
Therese Bergfors (Ed):
Protein Crystallization (1999)
A collection of useful tips and
laboratory practice for the beginner in in protein crystallization.
New edition in 2008, with my chapter about crystallization basics and
and likelihood-based crystallization strategies.
Branden and Tooze:
Introduction to protein structure (1999)
Excellent introduction to protein structure and function. Great examples
of structure-function relationships, beautiful hand-colored protein
structure images.
Alberts, Johnson, Lewis, Raff, Roberts, Walter:
Molecular biology of the cell (2002)
Most comprehensive introduction to molecular biology, function, and
structure. Modern layout and excellent figures.
Alan Fersht:
Structure and mechanism in protein structure (1999)
An excellent guide to enzyme catalysis and protein folding; particularly
useful when working on enzyme structures.
Robert Weinberg:
Biology of cancer (2006)
Fantastic modern treatise oft molecular structural biology of cancer.
Full with beautiful examples of structure-based mechanisms explaining
the action of oncotherapeutics - a must for everyone working in
this field.
Graham L. Patrick:
An introduction to medicinal chemistry (2005)
If you plan to work in structure based drug discovery, this is a very good introduction
to medicinal and organic chemistry of drug action with strong emphasis on structure based methods
Advanced macromolecular crystallography texts
Bernhard Rupp:
Biomolecular Crystallography: Principles, Practice and Application
to Structural Biology (2009)
Most comprehensive and modern monography currently
available. Full treatment of the subject, starting from easy conceptual
presentations to full treatment of modern likelihood based methods.
For table of contents click here.
Sir Thomas Blundell &
Dame Louise N. Johnson:
Protein crystallography (1976)
The classic. If you can get it for a reasonable price, buy it. Despite
its age (1976), lucid and a pleasure to read. The swine who stole mine
shall know when I lay my vengeance upon him. Ezekiel 25-17.
Jan Drenth:
Protein crystallography (2006)
If you already practice crystallography but were unsure about the
mathematical background, this might be for you. Definitely not a 'how to
do' book. For practical work and crystallization, better get a specific
text.
Sundstrom et al (Eds):
Structural genomics & high throughput structural biology (2005)
A compilation of texts by leaders in structural genomics outlining the objectives and tangible
benefits of high throughput methods. My chapter about fundamentals of HT
protein crystallography might be generally useful for a quick review.
G. Giacovazzo (Ed):
Fundamentals of Crystallography (2002)
Probably the best comprehensive and consistent treatise of general and
macromolecular crystallography available today. If you hate math, this
text is not for you - it is not a to-do picture book, does require some
ease at mathematics.
Rossmann and Arnold (Eds):
ITC Volume F: Macromolecular crystallography (2001)
A compilation of articles representing the state of the art of
macromolecular crystallography at the turn of the millennium. Excellent
reference for advanced practitioners of protein crystallography, but not
as introductory lecture.
Carter, Sweet, Wyckoff et al (Eds): Meth. Enzymology
114,
115,
276,
277,
368,
374
Advanced, hard-core multi-author collections, written by leaders in the
field representing the state of knowledge at the date of publication
(1985, 1985, 1997, 1997, 2003, 2003)
Crystallization and protein production
Bernhard Rupp:
Biomolecular Crystallography: Principles, Practice and Application
to Structural Biology (2009)
Most comprehensive and modern monography currently
available. Chapters 3 and 4 treat crystallization and protein production
from a crystallographers's point of view, with
emphasis on targeted protein engineering and many examples and how-to sections.
For table of contents click here.
Alexander McPherson:
Crystallization of Biological Macromolecules (1999)
The undisputed classic text in protein crystallization. Contains
historic background,
physical chemistry, and practical tips.
Therese Bergfors (Ed):
Protein Crystallization (2nd
edition, 2009)
A collection of useful tips and
laboratory practice for the beginner in in protein crystallization. New
edition in 2008, with my chapter about crystallization basics and
likelihood-based crystallization strategies.
Naomi Chayen (Ed):
Protein crystallization strategies for structural
genomics (2007)
Useful strategies for the implementation of robotics and automated procedures in the
crystallization laboratory. Includes my (cautionary tale) guide
to deployment of automated crystallization robotics.
Sylvie Doublie (Ed):
Preparation and Crystallization of Macromolecules (2007)
A multi-author, practical guide with some useful protocols for protein preparation and crystallization
How-to texts
Duncan McRee:
Practical protein crystallography (1999)
Largely a user's guide to XtalView/Xfit, a popular crystallographic
model building package that is available now as MIFit.
Sylvie Doublie (Ed):
Structure determination (2007)
A multi-author, practical guide outlining the major steps in
practical structrue determination.
Mark Sanderson and Jane Skelly (Eds):
Macromolecular crystallography (2007)
A multi-author, practical guide providing an overview of modern protocols for protein structure determination.
Membrane proteins
So Iwata (Ed):
Methods and results in crystallization of membrane proteins (2003)
Multi-author compilation of protocols in membrane crystallization, with many useful tables of detergents, CMCs,
etc.
Carola Hunte et al (Eds):
Membrane Protein Purification and Crystallization (2002)
Compilation of practice-oriented protocols in membrane crystallization, alternative and complementary to above.
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Great annotated compilation of early key papers in protein
crystallography.