Book Description

Probablistic models are becoming increasingly important in analyzing the huge amount of data being produced by large-scale DNA-sequencing efforts such as the Human Genome Project.For example, hidden Markov models are used for analyzing biological sequences, linguistic-grammar-based probabilistic models for identifying RNA secondary structure, and probabilistic evolutionary models for inferring phylogenies of sequences from different organisms. This book gives a unified, up-to-date and self-contained account, with a Bayesian slant, of such methods, and more generally to probabilistic methods of sequence analysis. Written by an interdisciplinary team of authors, it is accessible to molecular biologists, computer scientists, and mathematicians with no formal knowledge of the other fields, and at the same time presents the state of the art in this new and important field. ... Read more

Reviews (11)

Excellent overview of probabilistic computational biology
This book is a very well written overview to hidden Markov models and context-free grammar methods in computational biology. The authors have written a book that is useful to both biologists and mathematicians. Biologists with a background in probability theory equivalent to a senior-level course should be able to follow along without any trouble. The approach the author's take in the book is very intuitive and they motivate the concepts with elementary examples before moving on to the more abstract definitions. Exercises also abound in the book, and they are straightforward enough to work out, and should be if one desires an in-depth understanding of the main text. In addition, there is a software package called HMMER, developed by one of the authors (Eddy) that is in the public domain and can be downloaded from the Internet. The package specifically uses hidden Markov models to perform sequence analysis using the methods outlined in the book.

Probabilistic modeling has been applied to many different areas, including speech recognition, network performance analysis, and computational radiology. An overview of probabilistic modeling is given in the first chapter, and the authors effectively introduce the concepts without heavy abstract formalism, which for completeness they delegate to the last chapter of the book. Bayesian parameter estimation is introduced as well as maximum likelihood estimation. The authors take a pragmatic attitude in the utility of these different approaches, with both being developed in the book.

This is followed by a treatment of pairwise alignment in Chapter Two, which begins with substitution matrices. They point out, via some exercises, the role of physics in influencing particular alignments (hydrophobicity for example). Global alignment via the Gotoh algorithm and local alignment via the Smith-Waterman algorithm, are both discussed very effectively. Finite state machines with accompanying diagrams are used to discuss dynamic programming approaches to sequence alignment. The BLAST and FASTA packages are briefly discussed, along with the PAM and BLOSUM matrices.

Hidden Markov models are treated thoroughly in the next chapter with the Viterbi and Baum-Welch algorithms playing the central role. HIdden Markov models are then used in Chapter 4 for pairwise alignment. State diagrams are again used very effectively to illustrate the relevant ideas. Profile hidden Markov models which, according to the authors are the most popular application of hidden Markov models, are treated in detail in the next chapter. A very surprising application of Voronoi diagrams from computational geometry to weighting training sequences is given.

Several different approaches, such as Barton-Sternberg, CLUSTALW, Feng-Doolittle, MSA, simulated annealing, and Gibbs sampling are applied to multiple sequence alignment methods in Chapter 6. It is very well written, with the only disappointment being that only one exercise is given in the entire chapter. Phylogenetic trees are covered in Chapter 7, with emphasis placed on tree building algorithms using parsimony. The next chapter discusses the same topic from a probabilistic perspective. This to me was the most interesting part of the book as it connects the sequence alignment algorithms with evolutionary models.

The authors switch gears starting with the next chapter on transformational grammars. It is intriguing to see how concepts used in compiler construction can be generalized to the probabilistic case and then applied to computational biology. The PROSITE database is given as an example of the application of regular grammars to sequence matching. This chapter is fascinating reading, and there are some straightforward exercises illustrating the main points.

The last chapter covers RNA structure analysis, which introduces the concept of a pseudoknot. These are not to be confused with the usual knot constructions that can be applied to the topology of DNA, but instead result from the existence of non-nested base pairs in RNA sequences. The authors discuss many other techniques used in RNA sequence analysis and take care to point out which ones are more practical from a computational point of view. Surprisingly, genetic algorithms and algorithms based on Monte Carlo sampling are not discussed in the book, but the authors do give references for the interested reader.

The best attribute of this book is that the authors take a pragmatic point of view of how mathematics can be applied to problems in computational biology. They are not dogmatic about any particular approach, but instead fit the algorithm to the problem at hand.

Brief and clear
I keep coming back to this book for its readable, applicable summaries of basic algorithms.

One chapter covers the basics of dynamic programming for string matching: a staple of bioinformatics computing. The authors come back to it a number of times as they introduce new variations on the string-matching theme. They give about the clearest description of the Needleman-Wunsch and basic variants (including Smith-Waterman) of any book I know.

The bulk of the book is devoted to Hidden Markov Models (HMMs), as one might have guessed in a book with Eddy as co-author. It covers the basics of model construction, motif finding, and various uses for decoding. Again, it covers all the basics so clearly you'll want to start coding as soon as you read it.

The later sections of the book cover phylogeny and tree building, along with the relationships to multiple alignment. Good, solid, clear writing prepares the reader for texts that may be more specialized, but possibly less transparent.

The next-to-last chapter, on RNA folding, is weaker than the ones before, in my opinion. It ties to the other chapters reasonably well in terms of algorithms, but I don't think it does justice to the thermodynamic models of RNA folding. If there is any weakness in this chapter, though, it does not detract from the strengths elsewhere.

The final chapter, the "background on probability", is the one that I think needs the most support. If you don't already understand its topics, I doubt that this will help very much. (If you do understand them, you won 't need the help.) There's nothing inherently tricky about probability, but individual distributions carry many assumptions, and I did not see those spelled out well.

This shouldn't be the only book in your bioinformatics library. If you really want algorithms, though, it's a good book to have in the collection and one you'll keep coming back to.

Good bargain, but...
not suffciently precise for being an academic textbook. The definitions are sometimes incomplete, correctness proofs are missing, some exercises are incorrect. On the positive side, it does cover important topics, and brings good examples to illustrate main concepts and algorithms (which partially compemsates for the lack of precisenss).

Simply Excellent!
This book explained topics I was interested in above my personal expectations. All the mathematics and probabilistic models were explained in detail with a practical approach. I was even able to refine some of those models for specific needs without much previous experience nor knowledge. I highly recommend this book, it is one of the best I ever read.

Don't let the title mislead you.
Don't let the title fool you. This book is a great if you'd like to understand the algorithms used in any type of sequence analysis, for example speech recognition, speech synthesis, and natural language understanding.

I used this book for a bioinformatics class. The instructor's notes were basically a rehash of the textbook. This didn't bother me as there really is no way to improve on what's already in the text. Explanations of the different ways to use HMMs made it easy to write the genefinder we did for our final programming project.

I've also written natural language processing software (for text and speech) and I've found this book to be a great reference for probabilistic language modeling algorithms. The material is similar to that found in Jurafsky and Martin, or Manning and Schutz, but the presentation in DEKM provides more insight into how the algorithms work. This should come as no surprise, as the human genome project is perhaps the most successful artificial intelligence project ever undertaken and the authors were instrumental in creating the software used by the HGP.

The book by Gusfield is also great for sequence analysis, but there the emphasis is on deterministic modeling, which has it's place if one can't make a probabilistic sequence model.

Mining databases of text, image, and sound sequences is becoming more important as more data is available on the web. Books like DEKM are valuable algorithm resources for extracting knowledge all sorts of sequence data. ... Read more

Reviews (12)

Okay for the under-15 crowd but....
If you're looking for a livestock giftbook for a child under 15 years of age, buy this book. It is an easy read, full of excellent photos, and, here and there, it has some useful tips.

Otherwise, get Raising Meat Goats For Profit and/or Goat Husbandry.

A must for goat owners
This is an excellent manual for new owners of goats. Everything is in here from cradle to grave. I have raised goats my entire life and I even learned a couple of things from this wonderful book. While I had some minor disagreements with some things here and there, I felt that the book was 99% accurate in its content. While I don't eat goat meat myself, I am told that the recipes are excellent.

A nice little reference
The compact size of this book makes it easy to keep handy, and it is full of useful information. Some may (through personal experience) disagree with parts of it, but it will be invaluable to any new owner as it covers such an array of topics. The easily readable style doesn't talk down to you, but is as if you have a friend talking to you. I think it is excellent.

Aces
The New Goat Handbook updates and remedies most of the deficiencies of its predecessor, The Old Goat Handbook. While goats' housing, care and feeding needs have changed little since the days of Homer, recent veterinary research has made great strides in the field of goat health and fitness. The special new chapter on using goat milk, meat and hair offers useful and valuable information, but I object to the book's strictly utilitarian approach to goating. Goats are also beautiful, intelligent animals that make loving, loyal companions.

Top Trumps!
This has been a valuable resource over the years. My first goat was a 125cc model and with the help of this manual, i learnt all about the care and maintenance needed.
I plan, in the summer, to get another 125cc and then take them on a cross country trek through Romford via Stratford. Highly recommended is the section on the uses of the milk, meat and hair and the methods of reconstruction if any bits go missing. ... Read more

Reviews (1)

An Alternative View of Forests Based on Hard Science
Ever sense that television news is more about cosmetics, sound bites, and talk-show celebrity journalism than it is about digging for hard facts and verifying authentic sources? Misinformation about forests and forestry appears to be like that - superficial and unsubstantiated. The problem with lazy thinking like "where there's smoke, there's fire" is that any actual firefighter can tell you it is smoke that kills, almost never fire. Yet society sits in judgement amid great black clouds of speculation while never asking the experts about the true operating principles.

What is amazing is that Patrick Moore's highly educated and scientific position on forest management should be so widely assailed in the court of common knowledge and public opinion. There is very little examination of fact. Widespread untruths circulate freely, and every opposing viewpoint is demonized. Further reason to carefully consider Patrick Moore's contrarian view and verifyable science -- and note his incredible courage to put his personal reputation on the line, given the fact that his name is in the pantheon of great environmentalists of the 20th Century.

Eye-opening is an understatement. The facts presented in this book alone should warrant a careful reexamination of public opinion, government policy, and precipitate an audit of facts presented by various sides of environmental issues. Most people want to do the right thing to insure a vigorously healthy environment. What we don't need is to give over leadership of human destiny to extremist viewpoints which are founded on a belief that humans are a cancer on the face of the Earth, that technology and science are evil, and that the only solution is rolling back the clock 500 years to a pre-Columbian Garden of Eden.

Green Spirit has the courage to look at the environmental movement in a constructive way and say, "The Emperor Has No Clothes." On the issue of forests, it is as if some crazy Theodore Kaczynski is head environmental activist, public opinion trendsetter, and public policy oracle. Who can deny that the show is being run based on some kind of anti-human, anti-technology Unibomber manifesto? ... Read more

Book Description

Probabilistic reasoning, statistical methods, and measures of engineering judgment are combined to develop a quantified approach for analyzing and managing risks in civil engineering systems and the applied earth sciences. The resulting risk analysis approach described in this book reflects an emerging trend in geotechnical engineering, natural hazards mitigation, infrastructure protection, and other civil engineering fields to directly and quantitatively deal with uncertainty. Reliability and Statistics in Geotechnical Engineering offers a much needed state-of-the-art reference for risk analysis in geotechnical engineering and geology.

Integrating theory and practical applications, this book:

• Discusses the nature and philosophy of uncertainty in geological and geotechnical engineering.
• Addresses fundamentals and limits of probabilistic and statistical methods in the geological and geotechnical context.
• Develops statistical approaches to site characaterization decisions and for analyzing field and laboratory data.
• Explains traditional and emerging risk analysis methodologies and provides guidance for their use.
• Presents many applications of statistics, reliability, and risk techniques to practical problems.

Emphasizing both theoretical underpinnings and practical applications, this comprehensive text constitutes an invaluable reference for practising geotechnical engineers, geologists, university students, and civil engineers in general practice. ... Read more

Book Description

The Phylogenetic Handbook is a broad introduction to the theory and practice of nucleotide and amino acid phylogenetic analysis. As an unique feature of this book, each chapter contains an extensive practical section, in which step-by-step exercises on real data sets introduce the most widely used phylogeny software including CLUSTAL, PHYLIP, PAUP*, DAMBE, TREE-PUZZLE, TREECON, SplitsTree, TreeView, SimPlot, MEGA2, PAML and BOOTSCANNING. The book provides a strong background in basic topics: the use of sequence databases, alignment algorithms, tree-building methods, estimation of genetic distances, and testing models of evolution. ... Read more

Book Description

Based on the author's life-long practical experiences both in the industry and in research, this best-selling, state-of-the-art guide to the operation of commercial flower and vegetable greenhouses presents coverage in the order in which decision-making concerns occur. Exceptionally comprehensive—yet accessible—it provides detailed, step-by-step instructions in layman's terms for ALL aspects of the business—from the physical facilities, to the day-to-day operations, to business management and marketing.Specific chapter topics cover greenhouse construction, heating, and cooling; environmental control systems; root substrate; root substrate pasteurization; watering; fertilization; alternative cropping system; carbon dioxide fertilization; light and temperature; chemical growth regulation; insect control; disease control; postproduction quality; marketing; and business management.For individuals entering the greenhouse business. ... Read more

Reviews (1)

An excellent textbook
Nelson's text is probably the most widely used on college campuses offering greenhouse management. It is up to date, full of technical information, and the chapters are well-ordered.

My only complaint is that it is VERY badly formatted and so, difficult to read. Like the Biblical book of Numbers, it will have you sawing logs if read at bedtime. The publisher could learn alot from Boodley's The Commercial Greenhouse, which is much more readable. ... Read more

Book Description

Virtually all serious scientists accept the truth of Darwin's theory of evolution. While the fight for its acceptance has been a long and difficult one, after a century of struggle among the cognoscenti the battle is over. Biologists are now confident that their remaining questions, such as how life on Earth began, or how the Cambrian explosion could have produced so many new species in such a short time, will be found to have Darwinian answers. They, like most of the rest of us, accept Darwin's theory to be true.

But should we? What would happen if we found something that radically challenged the now-accepted wisdom? In Darwin's Black Box, Michael Behe argues that evidence of evolution's limits has been right under our noses -- but it is so small that we have only recently been able to see it. The field of biochemistry, begun when Watson and Crick discovered the double-helical shape of DNA, has unlocked the secrets of the cell. There, biochemists have unexpectedly discovered a world of Lilliputian complexity. As Belie engagingly demonstrates, using the examples of vision, bloodclotting, cellular transport, and more, the biochemical world comprises an arsenal of chemical machines, made up of finely calibrated, interdependent parts. For Darwinian evolution to be true, there must have been a series of mutations, each of which produced its own working machine, that led to the complexity we can now see. The more complex and interdependent each machine's parts are shown to be, the harder it is to envision Darwin's gradualistic paths, Behe surveys the professional science literature and shows that it is completely silent on the subject, stymied by the elegance of the foundation of life. Could it be that there is some greater force at work?

Michael Behe is not a creationist. He believes in the scientific method, and he does not look to religious dogma for answers to these questions. But he argues persuasively that biochemical machines must have been designed -- either by God, or by some other higher intelligence. For decades science has been frustrated, trying to reconcile the astonishing discoveries of modern biochemistry to a nineteenth-century theory that cannot accommodate them. With the publication of Darwin's Black Box, it is time for scientists to allow themselves to consider exciting new possibilities, and for the rest of us to watch closely. ... Read more

Reviews (425)

The Deathknell of Evolution as We Know It
Michael Behe's revelation of the profound flaw inherent in modern day evolutionary theory is nothing short of genius. He clearly illustrates his point in a manner so simple (as you can see by some of these reviews) he has left even the coolest evolutionary theorists babbling. This book has gained much attention and it is no wonder! With crippling reasoning, Behe exposes an area completely unknown to Darwin at the time he formed his theories - the microbiological level of life (Darwin used magnifying glasses!). Using examples of highly complex systems existing on this level, Behe clearly shows that such systems could not have developed in accordance with the theory of modern evolution - by gradual change over time. Evolutionary theory is based upon the principle of progressive change to form a more complex organism. Behe takes this principle to task by illustrating systems existing on the microbiological level (sometimes no bigger than a conglomeration of several cells) composed of multiple parts and functioning in highly specified ways. There is no possible way for such systems to have evolved, one, two, three, or even ten parts at a time, because without all elements functioning together, they are completely useless, or worse yet, harmful! Evolutionists cannot explain how such highly complex systems could have evolved. Such intricate and complex systems would have had to appear all at once in time. This is nothing short of a miracle - which diehard evolutionists, sadly, cannot accept. The logic in Behe's reasoning is airtight. To understand the beginning of the end of modern day evolutionary theory -- this book is a must read.

Darwinian Evolution is a Theory
As a molecular biochemist, physician and christian I found Dr. Behe's book accurate, well-written and fair. He neither preaches to those who are unbelievers, nor forces a concept of God onto the reader. Instead, he attempts to explain where and why Darwinian Evolution fails. I've gradually come to this same conclusion prior to reading his book. (As for the issue of the number of proteins in flagella, as discussed in one review, if you were to calculate even 20 proteins mutating simultaneously, using only a very short protein chain--as the likelihood is a function of protein chain length, the probability would be well over 10^50 power, in other words: impossible. I'd refer you to various Chuck Missler audio tapes for more details.)

A couple of areas where Dr. Behe did not elaborate, and perhaps would have calmed some irrate reviewers of this and his other book if he had, is the topic of micro-evolution. A perfect example of this phenomena is antibiotic resistance in bacteria. Creationism is not incompatible with this concept (and BTW, as one reviewer incorrectly stated, Scripture does not say the world is flat, nor to drink poison; a more careful reading would be in order).

Similarly, Dr. Behe did not discuss another concept of molecular evolution that also supports intelligent design: amino acid conservation. That is, the small differences between animal species with respect to amino acid substitution in hemoglobin is not necessarily an argument for microevolution, but an argument for a designer. A designer will tend to re-use parts rather than create whole new systems (eg, modular programming).

Aside from these minor topics that would further strengthen his book, Dr. Behe offers the lay reader an excellent discussion of why intelligent design is a compelling topic and needs to be placed along side of Darwinian evolution in the classroom. His discussion is definitely not a re-hash of the arguments put forth in the Scopes Monkey Trial (as in the movie "Inherit the Wind"). His logic is not poor, as one review suggested, and Dr. Behe encourages the reader to look for topics in other books. The problem is not that these books cannot be found, again as one reviewer suggested, but that the level of discussion is those books is meager at best and usually does not fully address the stated topic. In any event, you should read his book and decide for yourself.

Scientific Knowledge Shouldn't Be Decided By Popular Vote
I can appreciate that Michael Behe's supporters might fail to grasp the effectiveness of some of the more technical refutations of this book that have been presented. But I'd expect others - like those of cell biologist Kenneth R. Miller, for instance - to be readily understandable by anyone capable of following Behe's own rather difficult arguments.

Miller has won several awards for outstanding teaching, and is co-author of well-received high school and college textbooks. He can communicate. He's also a conscientious Roman Catholic, acutely aware of the conflicts that can arise when sincere religious convictions confront the sometimes disturbing and often counter-intuitive findings of modern science.

A little sampler from Miller's writings may hopefully stir the more conscientious among Behe's sympathizers to look into what Miller and other interested scientists have to say about the book and about the intelligent design argument in general.

In March 2002, Miller and physicist Lawrence Krauss took part in a debate before the Ohio Board of Education. Their opponents were Stephen Meyer and Jonathan Wells, senior fellows (as is Behe) at the Discovery Institute. The Institute, ID's home base, is a 'think tank' advocating what it calls "the renewal of science and culture". Its primary funding comes from wealthy conservative Christians, notably Christian Reconstructionists Roberta and Howard Ahmanson.

Miller wrote a blow-by-blow account after the debate (the full text is on his website), in which he recalls Krauss' insight that "the two-on-two format of this presentation wouldn't render a fair picture of the sentiment in the scientific community. A more reasonable arrangement .. would have one member of the Discovery Institute on one side, and ten thousand scientists on the other .. two of the Discovery Institute's nine senior fellows were the ID speakers who were there; if they had not been there, the only place to find more advocates for ID would be back at the Discovery Institute. If Krauss or I had not been there, however, we could have been replaced by scores of scientists from just about any college or university anywhere in the state of Ohio."

In another article, "Answering the Biochemical Argument From Design" (also on his website), Miller gives Behe credit for recognizing that "the mere existence of structures and pathways that have not yet been given step-by-step Darwinian explanation does not make much of a case against evolution. Critics of evolution have laid down such challenges before, only to see them backfire when new scientific work provided exactly the evidence they had demanded. Behe himself once made a similar claim when he challenged evolutionists to produce transitional fossils linking the first fossil whales with their supposed land-based ancestors. Ironically, not one, not two, but three transitional species between whales and land-dwelling Eocene mammals had been discovered by the end of 1994 when his challenge was published."

Darwin's theory states that "evolution produces complex organs though a series of fully-functional intermediate stages. If each of the intermediate stages can be favored by natural selection, then so can the whole pathway." Behe argues that due to the "irreducible complexity" of biochemical systems like those described in his book, there can be no fully-functional intermediate stages; all parts must be present for any function at all. Miller asks, "Is there something different about biochemistry, a reason why Darwin's answer would not apply to the molecular systems that Behe cites?

"In a word, no.

"In 1998, Siegfried Musser and Sunney Chan described the evolutionary development of the cytochrome c oxidase protein pump, a complex, multipart molecular machine that plays a key role in energy transformation by the cell. In human cells, the pump consists of six proteins, each of which is necessary for the pump to function properly. It would seem to be a perfect example of irreducible complexity. Take one part away from the pump, and it no longer works. And yet, these authors were able to produce, in impressive detail, "an evolutionary tree constructed using the notion that respiratory complexity and efficiency progressively increased throughout the evolutionary process".

"In 1996, Enrique Meléndez-Hevia and his colleagues published, in the Journal of Molecular Evolution, a paper entitled "The puzzle of the Krebs citric acid cycle: Assembling the pieces of chemically feasible reactions, and opportunism in the design of metabolic pathways during evolution" .. this paper does exactly what Behe says cannot be done, even in principle - it presents a feasible proposal for its evolution from simpler biochemical systems .. what all of this means, of course, is that two principal claims of the intelligent design movement are disproved, namely that it is impossible to present a Darwinian explanation for the evolution of a complex biochemical system, and that no such papers appear in the scientific literature. It is possible, and such papers do exist."

Miller shows in detail that even systems Behe proposes as "irreducibly complex" are not so. "Nature presents many examples of fully-functional cilia that are missing key parts .. this leaves us with two points to consider: First, a wide variety of motile systems exist that are missing parts of this supposedly irreducibly complex structure; and second, biologists have known for years that each of the major components of the cilium, including proteins tubulin, dynein, and actin have distinct functions elsewhere in the cell that are unrelated to ciliary motion .. what this means, of course, is that a selectable function exists for each of the major parts of the cilium, and therefore that the argument [for irreducible complexity] is wrong."

Miller demonstrates similar difficulties with Behe's claim regarding the bacterial flagellum. He concludes, "At least four key elements of the eubacterial flagellum have other selectable functions in the cell that are unrelated to motility .. by demonstrating the existence of such functions, even in just a handful of components, we have invalidated the argument".

Miller's verdict: "Prof. Behe argues that anti-religious bias is the reason the scientific community resists the explanation of design for his observations:
I would suggest that the actual reason is much simpler. The scientific community has not embraced the explanation of design because it is quite clear, on the basis of the evidence, that it is wrong."

Excellent Resource
The book that basically started it all, where whispers in the scientific community against neo-Darwinism became public discourse. Whether you're an IDist or a Darwinist, this is a good book to have on the shelf just as a reference point.

A lot of people on both sides just talk pass each other, and project their image of the "other" side the way they wish to see it. When Darwinists think of Intelligent Design, they think of 7-Day Creationists who want to burn scientists at the stake. When 7-Day Creationists think of evolution, they think of that athiest Joseph Stalin shoving Christians into Gulags (and Daniel Dennet apparently thinks religious people should be in cages, so maybe that assumption isn't very far off).

Behe's book is not about the Bible, or Christianity, or Creationism, or even anti-evolution. It is anti-aimless natural selection. Behe sets up many examples w/in biology and biochemistry that show how the human cell and its processes are dependent on complex plans that could not have developed gradually. Blood coagulation requires "knowledge" of the end result in order for the process to begin. The immune system requires separate parts to evolve at the same time to meet a common goal w/in the system. There are "blueprints" w/in life that mutation and natural selection cannot explain, especially w/in the timeframe of earth's development. Does this disprove evolution? No. Does it prove the existence of God? No, not necessarily, although you'd have to provide a funky explanation involving (gasp! oh no!) metaphysics. The Power of "Life" as the Grand Unified Theory of Physics, or something. So this book does prove the need for a new explanation that is going to have to account for the borderline miraculous development of life, since life is so "irreducibly complex". Francis Crick, probably seeing the writing on the wall because of his analysis of DNA, jumped on the panspermia bandwagon early on. I always wondered why he did so, because in High School and College I was never told of the weaknesses w/in Darwinism, and here comes Crick w/ this funky idea of panspermia. Why, I thought? Crick's obviously a genius, wasn't he aware that natural selection is flawless and infallible? Now I know why. Of course, panspermia has its own problems, as it just pushes the problems of chaotic life ex nihilo back a couple of galaxies and epochs.

Behe also shows how many of the arguments against Intelligent Design are Strawmen fallacies, such as "Well, God wouldn't have done it that way!" Well, why not? That's not an observation of nature, but a metaphysical argument, and one that comes from Sartrian "bad faith". Behe takes from the bottom up, and shows how the observation of cells and cellular mechanisms leads to planning and design. The identity and characteristics of the Designer--is he perfectly Good or does he have a mean side, is he Deistic or Theistic, would he make the universe perfect from a human perspective or would he make the universe glaring w/ imperfections--is for another book and another time. Like a good Belisarius (the Byzantine commmander who ushered in the strategy of defensive warfare), Behe merely stakes out a sound corner w/in science that orthodox scientific opinion cannot explain (irreducible complexity), and he sits there, secure.

Good Argument, So-So Writing
Behe presents a solid challenge to a Darwinian view of how life started on Earth (though he leaves the question of how it could begin elsewhere unchallenged). Unfortunately to do this, he relies on several esoteric biochemical processes (though i think that is the only sort of biochemical processes available to a neophyte like myself). The first half of the book reads as several iterations of the same argument, though delivered with increasing amounts of sarcasm. The second half of the book, in which he delivers his answer to the questions raised earlier, seems rushed. So if you tire of the seemingly endless stream of enzymes and proteins, skip to the second part -- it's much easier reading for the layperson.

Though to say that this book disproves or even dismisses evolution and natural selection as viable scientific theories is disingenuous at best, and dishonest at worst. Behe even says that beyond a limited set of structures that appear to be evidence of intelligent design, there are many structures that are not clearly designed (and most likely aren't, he admits). To explain these structures and organisms, he gives a variety of options, ending with what is clearly natural selection, though he declines to name it as such. Finally, while criticising evolutionary proponents for attacking a straw man (the watchmaker for darwinists, Richard Dawkins for intelligent design-ists), this is exactly what he does -- since Darwin's followers haven't demonstrated a valid argument/scenario for the basic structures of the cell, then entire theory is invalid (including portions that have been experimentally shown true on an organism level).

Finally, Behe doesn't give any sort of explanation or theory for how some basic structures of the cell are evidence of design, but others are not. He implies that those not showing evidence of design could have evolved, but does not explain why some more complicated structures could be designed before other more basic structures evolved.

Enjoy this book and the questions it opens, but it is far from the final word on the origins and progression of life on Earth (just as Dawkins' books aren't, either). ... Read more

Book Description

Biochemistry: The Chemical Reactions of Living Cells is a well-integrated, up-to-date reference for basic biochemistry, associated chemistry, and underlying biological phenomena. Biochemistry is a comprehensive account of the chemical basis of life, describing the amazingly complex structures of the compounds that make up cells, the forces that hold them together, and the chemical reactions that allow for recognition, signaling, and movement. This book contains information on the human body, its genome, and the action of muscles, eyes, and the brain.

*Thousands of literature references provide introduction to current research as well as historical background
*Contains twice the number of chapters of the first edition
*Each chapter contains boxes of information on topics of general interest ... Read more

Book Description

Completely re-written with two new co-authors who provide expertise in physical chemistry and engineering, the Sixth Edition of this textbook/reference explores the entire scope of the ice cream industry, from the chemical, physical, engineering and biological principles of the production process, to the marketing and distribution of the finished product.

This Sixth Edition builds on the strengths of previous editions with its coverage of the history, production and consumption, composition, ingredients, calculation and preparation of mixes, equipment, processing, freezing, hardening, storage, distribution, regulations, cleaning and sanitizing, safety, and quality of ice cream and related frozen desserts.

Specifically, the chapters on composition and properties, ingredients, calculations, freezing, refrigeration, analyzing frozen desserts, and microbiological quality and safety are expanded. SI units have been incorporated throughout, also with easy reference to US equivalents, where appropriate. The Sixth Edition includes a more thorough treatment of industrial production, incorporating the latest research reports and the newest equipment produced by the supplying industry. Data on the composition of typical frozen desserts is presented, including more than 50 formulas and 85 special recipes.

Outstanding in its breadth and coherence, Ice Cream, Sixth Edition continues to serve as a primary educational authority for students in food science and dairy science, as well as an authoritative resource for all aspects of the ice cream industry. ... Read more

Reviews (1)

Ice Cream by Arbuckle
Its a really nice book which says about al the things an ice cream firm needs....It shows the different types and is amazing. ... Read more

Book Description

Thinking of opening your own small brewery or improving your existing brewing operation?Get the expert advice you need to make your brewing operation a success from the completely revised second edition of the Brewery Planner.This all-new edition brings brewing professionals to you, sharing their secrets and offering advice.Chapter after chapter, you'll learn how to build your business successfully and avoid costly mistakes. ... Read more

Reviews (4)

Save Your Money
Vague, vague and vague. Did I mention there's few specifics in this book? Certainly not worth $80.

Its helpful!
That first review, dont worry about it. This book is helpful your not going to find any prices in this book on purpose, because prices on things change so much. If thats all your concerned about than this book isnt for you. This book is extreamly helpful and lots of information on how other breweries did it. It also includes a sample business plan. This is well worth the money!

Brewery Planning
This book lacked specific details on opening a small brewery. Now that I rexamine the title it states it is only a guide, and I found it to be a cursory overview at best. I wanted a book with start-up costs, equipiment costs and the like. Also costs for bulk malt and yeasts would be helful. I wanted to get a feel for costs I was not thinking about. Better coverage of state specific wholeseller/retail laws would be important. Coverage of state alcohol laws and the process of obtaining permits would be benificial. ...

More than I had hoped for.
An in-depth look into what it takes to open your own brewery or brewpub. Much more than I had dreamed of, and well worth the 60-odd bucks. It is put together like a text-book, broken into the various chapters/steps in opening. Not a good book for those who want light reading about brewing. I would only recommend it to those who are in or WANT to be in the brewing business. Top Notch. ... Read more

Book Description

Long considered the bible for professional horticulturists and hobbyists alike, this classic gardener’s text offers a comprehensive grafting course, accompanied by line drawings and photographs that provide a vivid visual reference. Topics include using rootstocks from seed and cuttings, identifying viruses, and grafting established trees.
... Read more

Reviews (3)

a propagator bible
An excellent text, written with passages about the width of some garden rows wide enough for work horses. Tt is written for the self reliant gardener, with recipes for grafting wax, and descriptions of tools used in grafting. Only one short fall, it is written for seasons and weather in england, and has limited information on specific plants. A book that always will be close at hand.

Excellent and very thorough coverage of grafting.
Aimed at the serious amateur or professional. Covers a broad range of grafting techniques and issues. As a person who taught myself grafting by reading books, I found this book to contain a lot of useful information and be interesting to read.

Truth in Advertising
Just what a beginner would need to start in the esoteric field of grafting. Short on specific advice for types of trees, which would take a much longer work ... Read more

Book Description

Technology today allows the collection of biological information at an unprecedented level of detail and in increasingly vast quantities. To reap real knowledge from the mountains of data produced, however, requires interdisciplinary skills-a background not only in biology but also in computer science and the tools and techniques of data analysis.To help meet the challenges of DNA research, Data Analysis Tools for DNA Microarrays builds the foundation in the statistics and data analysis tools needed by biologists and provides the overview of microarrays needed by computer scientists. It first presents the basics of microarray technology and more importantly, the specific problems the technology poses from the data analysis perspective. It then introduces the fundamentals of statistics and the details of the techniques most commonly used to analyze microarray data. The final chapter focuses on commercial applications with sections exploring various software packages from BioDiscovery, Insightful, SAS, and Spotfire. The book is richly illustrated with more than 230 figures in full color and comes with a CD-ROM containingfull-feature trial versions of software for image analysis (ImaGene, BioDiscovery Inc.) and data analysis (GeneSight, BioDiscovery Inc. and S-Plus Array Analyzer, Insightful Inc.).Written in simple language and illustrated in full color, Data Analysis Tools for DNA Microarrays lowers the communication barrier between life scientists and analytical scientists. It prepares those charged with analyzing microarray data to make informed choices about the techniques to use in a given situation and contribute to further advances in the field. ... Read more

Reviews (4)

Far from superficial...
When entering the minefields of microarray data analysis, one has to understand and keep up with state-of-the-art technologies and interdisciplinary literatures. A background in molecular biology is clearly not enough to evaluate the pro and cons of the various statistical methods for selecting truly modulated candidate genes in a given experimental biological system. Choosing between the available analysis software's is not an easy task either. Draghici presents a complete visit of the microarray underworld by initiating the reader to all the facettes of this domain. From the fundamentals of slide production and target hybridization to image processing, statistical analysis, experimental design, data management and biological interpretation, all aspects treated herein are described with pertinent details. Draghici slowly, but successfully, tames the reticent molecular biologist to the arid world of statistics and even entertains the reader with anecdotes and humoristic citations.
Clearly written, with appropriate mathematical examples for each topic, this book even includes exercises at the end of some chapters, for the zealous student sleeping in all of us. It constitutes a very good didactic tool and the included CD's allow a good peek in some of the available image/data analysis software's on the market.
As a core facility manager and eternal student, I strongly recommend Draghici's book to life scientists and students who are struggling with statistical analysis and data mining techniques.

Brigitte Malette, Ph. D.
Project Leader, Microarray Platform
Centre for Structural and Functional Genomics
Concordia University
Montreal

Detailed and understandable
Draghici managed to write a manual on applying microarray (data) with a great feeling for explanation of hard issues. The book is relatively easy to read, very complete and covers most, if not all, analysis techniques that are currently around for microarrays.

Highly recommendable!

Good Overview of Microarray Technology
I have had the book for about a month now and I consult it quite frequently. Great coverage of Microarray Data Anlysis. It manages to be thourough without being dry or using excessive jargon. It's very readable and useful for both novices and experienced readers.

It's main strength lies in the use of excellent examples that show the main pitfalls encountered in analyzing microarray data. It has great coverage of statistics and their potential misuse and misunderstanding when they are applied to gene expression data sets. The experimental design section is especially helpful for researchers that are designing a project.

The graphics are excellent and the book is printed on good quality paper.

The book includes two CD's with demo versions of several commercial software packages.

Overall a great buy.

Data Analysis Tools for DNA Microarrays
A much needed book for the biologist interested in using DNA/protein microarrays. Examples are specific for microarrays. The material starts from ground zero and begins
with image analysis. All major methods for analysis are discussed.
Well worth the cost, quality graphics, includes software (have not used as yet).
A must read before discussing experimetnal design with your stats person. ... Read more

Book Description

Intended for the one- or two-term introductory biochemistry course taught at the junior/senior level, this beautifully and consistently illustrated text gives science majors the most current presentation of biochemistry available. Written by a chemist and a biologist, the book presents biochemistry from balanced perspectives. ... Read more

Reviews (7)

Obnoxious Clown Man writes book!
This man likes to laugh at his own jokes! Do you want to be TAUGHT by a BOOK by a man that laughs at his own JOKES! He plays the banjo! There was a picture of him playing banjo, which happened to be the most interesting thing in the book, but he removed it, so be sure to get an old version.

Outstanding professor
I took the Comparative Biochemistry at UVa taught by Prof. Garrett and it was the best class I took at UVa. He had an amazing way of organizing lectures so that I kept wanting to learn more and more as the hour went by. I didn't even have to take a lot of notes, because he made things clear and it all sunk in. I was really inspired to do a good job on our research papers and really learned alot because of the types of things he taught us to think about. I was a terrible student, had awful grades especially in chemistry and biology but this class really stuck out. Oh, and I got an A too. Unlike alot of professors, he didn't have a loud or condescending tone. While I didn't pursue biochemistry any further, I sometimes wonder what would have happened if I had because he was such a great professor and I enjoyed his class so much.

All in all, most suitable for a general audience
Undergraduate biochem at my school is taught by the biochem department (not surprising). However, as a result, we have all sorts of people taking the course from prospective chemists (me) to premeds and general bio sci majors. So the dept. uses this book and it's probably the best compromise out there. Voet and Voet would be perfect if the course was taught exclusively for chemists, Stryer if the course was loaded up with premeds (horrifying thought, I know :) ) But Garrett and Grisham have managed to write a rather well balanced text (one is in UVA's bio dept., the other UVA's chem dept) with plenty of both chemical insight and medical relevance. Based on (I'm sure) similar experiences they've had teaching biochem to a mixed audience, and knowing that most undergrad biochem courses tend to be taught to similar groups of students nationwide, this is the best book for a case like that. (However, I'm getting Voet and Voet as a reference for me personally one of these days.)

A Well Written Reference
This book provided invaluable reference information to me for a one year course in biochemistry. It was designed in a manner so that the class or student can learn topics in depth or get a broad overview of the subject. It also has lots of interesting historical perspectives and useful graphics. I am definately keeping this book for a reference as I continue my studies.

An excellent improvement from the first edition
I have Biochemistry texts by Garrett and Grisham in both editions. First,I found the 1st edition a very bad text since the fiugures and language presented in the text were extremely vague and unclear. However, the 2nd edition seems to be much better than the first version. The context is clear, organization great, pictures are perfect. The idea that authors combine two books in one (i.e biochemistry and Cell biology approach) is nice, making this book become one of the good texts to have on the shelf. I am sure that anyone who wants to learn more about biochemistry, this book can be a good tool. ... Read more

Book Description

Commonly referred to as "Beard's Bible," after Dr. James B. Beard, the internationally recognized turfgrass agronomist who wrote it, the first edition of this essential work sold over 50,000. Since then, Dr. Beard has spent 16 years compiling his scientific research to update his original best-seller, which is written in conjunction with the entire USGA Green Section and covers every practical and technical aspect of turfgrass management, maintenance, and operation. This new edition also boasts hundreds of new color photographs, color drawings, and useful tables that illustrate Dr. Beard's research-proven techniques. Now you can put Dr. Beard's three-decades of experience, and the collective field experience of the USGA Green Section, on your desk in the most complete, most detailed, and most useful manual-of-practice ever published. ... Read more

Reviews (2)

This is simply a good book
I use this book at school for a class called "golf course organization and maintenace." It is geared directly to golf courses. The fact of the matter is that it covers every imaginable aspect of golf course maintenance and operations, and I do mean everything. In my opinion there is no other book more valuable for persons training to be golf course superintendents. If your already a superintendent I'm sure it would still be a wise decision to purchase this book.

better turf management !!
this book will heip even the greats turf managers around the world, ... Read more

Reviews (6)

Not worth the time
This book was not helpful to me studying for Step 1. It contains too much unnecessary detail while it lacks clinically relevant information. 1st aid was sufficient + Lippincott for its nice charts.

An Excellent Source for Step 1
When I was preparing for step 1, I bought this book as an alternative to "Lippincott's Illustrated Biochemistry". I did not have enough time for that book and other books were too short. At first I was skeptical, but when I started reading the book, everything changed. I studied it in 5 days and I could not believe how well prepared I was. I had no problem during the test. This book gives you a very good understanding of biochemistry as a whole picture. It has some unnecessary chemistry details that you can skip. Also questions are not clinically oriented, so try to use another test book. The author of the book has done a terrific job in summarizing and choosing subjects that are important for test. It has good illustrations that help you visually remember material.

BRS Biochemistry
Dr. Marks' biochemistry board review series is quite informative. It gives a good foundation for those who have never had a biochemistry class and provides great review for those who have. It is a great supplemental text that helps to clarify and test the student's knowledge of the information. The book often helped to provide a guideline by which studying could be approached for the course. However, students should understand that the book is not meant to substitute their syllabi or their texts.

great review
This is a concise review of biochem for the boards. Dr. Marks explains things and is able to put them in an outline form so you are not reading endless text. The questions at the end of each section are really helpful.

Some words about Dawn Marks
I just want to say that I knew Dawn Marks. I was part of the last class she taught at Temple University School of Medicine. She died on Spet 6, 2000. She was one of the best teachers I've ever had. She worked tirelessly for her students... Giving organized review sessions, impromptu reviews for any student with a biochemistry problem, and overall a way of making us understand. This is echoed by Temple's performance each year on the USMLE in biochem. She will be missed by not only her family, friends, and students, but by medical students across the country. ... Read more

Book Description

The scientist in the kitchen tells us more about what makes our foods tick.

This sequel to the best-selling What Einstein Told His Cook continues Bob Wolke's investigations into the science behind our foods—from the farm or factory to the market, and through the kitchen to the table. In response to ongoing questions from the readers of his nationally syndicated Washington Post column, "Food 101," Wolke continues to debunk misconceptions with reliable, commonsense answers. He has also added a new feature for curious cooks and budding scientists, "Sidebar Science," which details the chemical processes that underlie food and cooking.

In the same plain language that made the first book a hit with both techies and foodies, Wolke combines the authority, clarity, and wit of a renowned research scientist, writer, and teacher. All those who cook, or for that matter go to the market and eat, will become wiser consumers, better cooks, and happier gastronomes for understanding their food. 20 illustrations. ... Read more

Reviews (3)

Entertaining Foodie Read plus Superior Explanations.
`What Einstein Told His Cook 2, The Sequel' by retired chemistry professor and columnist, Robert Wolke is in the same format as the first volume, of which I said:

"This book of what science can tell us about working with food. It is one answer to my wish that every TV chef who is attempting to teach cooking to us foodies take a two semester course in chemistry. The book is not a rigorous approach to the chemistry of sugars, salt, fats, chemical leavenings, heat, acids, bases, and the like. Rather, it is a collection of enhanced answers to questions posed to the author in a regular newspaper column. This makes the book more interesting to read, if a little less available as a resource to applying its teachings to new situations."

This statement is equally true of the second volume. And, I must believe Professor Wolke has read this comment in my review or elsewhere. In his introduction he recognizes that his little columns are all answers to specific questions; however, science, by its nature, is `all tied together' in theories which enable its predictive and explanatory powers. Thus, Wolke says that in order to explain the answer to two related questions, we may find him repeating himself now and then, as he does over and over when he invokes how proteins denature by unwinding themselves and wrapping themselves into tight knots, leading to, for example, cooked eggs or tough cooked meat. I have absolutely no problem with that within the context of his format of question and answer.

On the other hand, this format does not lend itself to be used as a source for looking up specific answers to questions that were not asked by the people writing into Dr. Wolke at the Washington Post. This is a small but real problem, made all the more frustrating because buried in the answers to some questions are some real gems of wisdom such as Table 5 on page 222 which gives the best kinds of sauces for various shapes of hard pasta. As good as the battalions of Italian cookbook writers are in covering their field, none of them has, to my recollection, put things quite so succinctly. This illustrates that genius in writing about cooking is not so much in what science you use, but in how well you present the answer. And, with a few small reservations, it is in this talent where Professor Wolke is a champion. While I may still vote for Alton Brown as my favorite TV foodie, Wolke has mastered the connection between Science, English, Food, and his audience.

One of my favorite examples of how Wolke successfully addresses an issue is on the matter of cutting onions and tears. For starters, he corrects Alton Brown's error in attributing the tearing to sulfur trioxide dissolving in the moisture in your eyes, thus creating a weak sulfuric acid solution. In fact, if any sulfur oxide gas is involved, it is much more likely to be sulfur dioxide which, when dissolved in water, creates the much weaker sulfurous acid. Wolke goes on to say that the phenomena is due to a number of different causes, which makes absolute sense, because if there were a single cause, then the chances of finding relief would be much higher. Wolke goes on to show the problems with all the various remedies. He and Alton agree on the importance of a sharp knife, although I use an extremely sharp Japanese vegetable knife when dicing onions, and I tear like a two-year-old on a jag. Sticking with onions, Wolke gives an excellent explanation of the French vintner's notion of `terroir' and how it relates to the lower bite of Vidalia onions. And, he correctly points out that it is fewer nasty compounds rather than more sugars which make the Vidalia and its cousins milder.

There are three general areas where Wolke could stand some improvement. While I was a journeyman chemist, I was an expert on linguistics and linguistic philosophy so, first, I find Wolke is occasionally a bit inconsistent in his use of works such as alkali (the opposite of acid). Early in the book, he says that alkali should be reserved for the extremely strong bases such as sodium hydroxide and potassium hydroxide, yet I see him frequently using `alkali' for things that are just a tad over pH 7. The second quibble is that while science and the arts have long ago come to a détente and science and religion seem to be at an armed truce, Wolke constantly takes potshots at aspects of legal and political practice. It in incredibly easy for someone schooled in the doctrines of science to take pleasure at the apparent foibles of political practice, yet the people in the political world have problems of entirely different nature than either science or art, so cheap shots at food regulations, for example, are just that, cheap. The last problem I see is with Wolke's humor, especially in his little `Foodie's Fictionary' blurbs. I'm afraid I found not one of them very funny. Sorry. I think most of the humor in his main text is pretty basic and certainly welcome, but Alton Brown does not need to fear his position as the leading culinary class clown. The book would have been just a wee bit better with a good bibliography on food science references.

New in this sequel are sidebars on various scientific issues. Most of the really valuable reference stuff is in these sidebars. What you may wish to do is stick some of those cute little post it note tabs on the sidebarred pages and write a word describing the topic.

This is a really great book to take to your armchair and read from cover to cover. If you liked the first, you will definitely like this one as well or better. If you have read neither and you have an interest in food, buy both now!

What Einstein Told His Cook #2
If you are looking for useful information to cooking questions you've always wondered about, look elsewhere.Harold McGee's "On Food & Cooking" and Shirley Corriher's "Cookwise" are both full of useful and interesting stuff.Wolke tries to be cute, and some may like his sophomoric style, but I couldn't get past the first chapter.Now who do I know who is dumb enough to like this drivel?

Worthy Sucessor to the first book!
As a big fan of the first book in this series, I was glad to see another one pop up and quickly put it on my wish list. I was also glad to see that it was even longer than volume 1, with an extra 110 pages. The style is great -- well paced, well laid out, with the 'harder' science very skimmable and yet approachable to non-chemists. I particularly like the way he challenges conventionally held assumptions by, in many cases, doing simple experiments that seem to answer things conclusively. The inlined recipes (by his wife, Marlene Parrish) look delicious and provide a nice break to the flow of questions. Some of my favorite answers:
Why does iced tea turn cloudy? Will coffee stay hotter if I put the cream in right away or only when I'm ready to drink it? Why are there sulfites in wine? How can I get a red wine stain out of a tablecloth? Why do onions really make me cry? Why are "sweet" onions sweet? When an banana ripes and gets sweeter, does it contain more calories? What is a free radical? What makes mashed potatoes gluey? How can I best match a pasta shape with a sauce? Does marinating work? (suprising!) What's the difference between browning and caramelizing? Why do we cook with wine?

And so on. If you like cooking and like knowing more about what's going on inside the pan and aren't afraid of a few polysyllabic words (mmmm, alpha-galactosidase... don't worry, they are defined in context) then grab this book. I couldn't put it down! ... Read more

Book Description

Reviews of the Second Edition

"In this book, Andy Baxevanis and Francis Ouellette . . . have undertaken the difficult task of organizing the knowledge in this field in a logical progression and presenting it in a digestible form. And they have done an excellent job. This fine text will make a major impact on biological research and, in turn, on progress in biomedicine. We are all in their debt."
--Eric Lander, from the Foreword to the Second Edition

"The editors and the chapter authors of this book are to be applauded for providing biologists with lucid and comprehensive descriptions of essential topics in bioinformatics. This book is easy to read, highly informative, and certainly timely. It is most highly recommended for students and for established investigators alike, for anyone who needs to know how to access and use the information derived in and from genomic sequencing projects."
--Trends in Genetics

"It is an excellent general bioinformatics text and reference, perhaps even the best currently available . . . Congratulations to the authors, editors, and publisher for producing a weighty, authoritative, readable, and attractive book."
--Briefings in Bioinformatics

"This book, written by the top scientists in the field of bioinformatics, is the perfect choice for every molecular biology laboratory."
--The Quarterly Review of Biology

This fully revised version of a world-renowned bestseller provides readers with a practical guide covering the full scope of key concepts in bioinformatics, from databases to predictive and comparative algorithms. Using relevant biological examples, the book provides background on and strategies for using many of the most powerful and commonly used computational approaches for biological discovery. This Third Edition reinforces key concepts that have stood the test of time while making the reader aware of new and important developments in this fast-moving field. With a new full-color and enlarged page design, Bioinformatics, Third Edition offers the most readable, up-to-date, and thorough introduction to the field for biologists.

This new edition features:

• New chapters on genomic databases, predictive methods using RNA sequences, sequence polymorphisms, protein structure prediction, intermolecular interactions, and proteomic approaches for protein identification
• Detailed worked examples illustrating the strategic use of the concepts presented in each chapter, along with a collection of expanded,more rigorous problem sets suitable for classroom use
• Special topic boxes and appendices highlighting experimental strategies and advanced concepts
• Annotated reference lists, comprehensive lists of relevant Web resources, and an extensive glossary of commonly used terms in bioinformatics, genomics, and proteomics

Reviews (13)

Great book, easy to follow, expert authors
Five stars, a great place for people like me (trained as a biochemist) to start in a field that I know is going to be more and more important as to how I do my work in the future. I've been able to use basic things like BLAST more effectively, and finally understand that there are other ways to look at sequence besides BLAST and how to apply those tools to my own sequences. I really like the Entrez chapter, since Entrez does so much more than I ever realized it could do! I haven't ventured into the advanced territory yet (like microarrays), but at least I understand what I'm hearing in seminars now and what all those red and green spots actually represent.

I read the review by "a reader in Cambridge, MA", and don't understand what their beef is with this title. The authors have tried (and have succeeded) in pointing the readers to the best PUBLIC DOMAIN software out there, augmenting documentation that's