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| By: Kenneth Baclawski, Tianhua Niu ISBN: 0262025914 Publisher: The MIT Press Release Date: 01 October, 2005 Bioscience book rank: 456812 | One of the most clearly written books I have found on the topic. I agree with a previous reviewer that some areas were not covered, but the ones that were are well described.
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<br />I would love to see a follow-on that reviews major ontology works in progress and explains when and how to use them and how to effectively map from one domain or specialty to another. I have been working on Model Driven Architecture, Meta-data driven software, Modeling tools and Ontology for over 4 years. I have also implemented a suite of software supporting MDA and Ontologies. The material that this books covered just speaks my words out. Now, I can easily articulate my MDA/Ontology problems out with this book. Life is so easy with the help of a book which is in line of my work. Hooray! I was disappointed in this book in the lack of depth or breadth on a couple of key areas as follows: <br /> <br />Item 1 - It appeared to me that ontologies were not explained in sufficient detail to help "newbies" determine exactly why a specific ontology was created and the specific functions it is designed to support. I'm considering the UMLS to prototype a search engine because it is a compilation of a number of ontologies. However, this provides numerous options for subsetting the UMLS; for those relatively new to these ontologies it is not clear which ontology subsets are the most important (i.e., which play a pivotal or lesser role for my intended use). For example, I can include SNOMED and HL7 subsets, but do they provide redundant concepts for my needs and if so, in which areas? It is not practical for me to learn then all, so I was hoping to obtain this information from this book. Unfortunately I was unable to do so quickly and have to dig more on my own (which was the reason to buy the book.....). <br /> <br />Item 2 - I noticed a couple of areas that may be missing for those more interested in the tools and process of using ontologies. For example, I did not see the Protege and LexGrid tools for visualization, from Stanford and Mayo Clinic respectively, in the index (I had located them in prior web search). In a more general sense, as I've been working with ontologies more and more, I've noticed that platform selection and interoperability seem to be stumbling blocks. This topic was not a major focus in the book. <br /> <br />Due to the breadth and complexity of the platforms and tools needed to effectively use ontologies, and the complexity and size of the ontologies themselves, addressing both of these large subjects in sufficient detail in one book may be very difficult. Perhaps this is the reason that this book did not reach the 5 stars potential. Perhaps it would if it had addressed one or the other, but not both. <br /> <br />Perhaps if the description and title clarified the focus of the book, I would have gotten a better idea of the content before purchasing (and unfortunately, returning). <br /> <br />Keep in mind that I'm relatively new to using ontologies. | |
| By: Shoba Ranganathan ISBN: 1584884185 Publisher: Chapman & Hall/CRC Release Date: 26 June, 2009 Bioscience book rank: 2514880 | ||
| By: Karuna Sree Kakollu ISBN: 8178884682 Publisher: Laurier Books Ltd. /AES Release Date: 15 June, 2007 Bioscience book rank: 3239897 | ||
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| By: Stephen Misener, Stephen A. Krawetz ISBN: 0896037320 Publisher: Humana Press Release Date: 15 January, 2000 Bioscience book rank: 702052 | Not a bad book for Bioinformatics users who want to see what is around but this kind of information dates very rapidly.<p>Not a very good book for people interested in developing for bioinformatics (although it may prevent you from reinventing the wheel) This book gives an overview of the powerful suite of software tools available for various computer applications of molecular biology. The initial chapters talk about many programs(comparisons, Database searching, sequence analysis, Gene Finding, pattern recognition, etc.) and web-based interfaces in addition to the utilities for sequences, databases etc., packed in Wisconsin package apart from short briefs of how to use these tools in a desktop environment. Also this book gives the details of sequence analysis tool called Omiga and its diverse functionalities. <p>Biological Sequence analysis software like MacVector and Lasergene gets enough attention in this book. Also sequence type-dependent and platform-independen tools like PepTool and GeneTool are also explained in detail. <p>Two important applications in molecular biology, gene identification and biological pattern detection have received a greater significance here. There is also a chapter about network computing for biologists.<p>This book lists out a set of free molecular biology software available in different web servers. A lot of relevant information about the journals online, research institutions and organisations and biological information repositories with their web site details and references are also accommodated. There are separate chapters for web-based resources for NCBI(National Center for Biotechnology Information)and EBI(European Bioinformatics Institute) besides a number of computing resources for geneticists. <p>In contrast to the notion of using mathematical and computational methods for solving different problems in modern biology, there is a chapter on computing with DNA, which talks about using chemical properties of DNA sequences to design a universally programmable molecular computer.<p>The editors have taken greater efforts in covering almost all vital tools and packages like Staden package, FASTA3 package, CLUSTAL programs, Primer3 on the WWW and Genotator in addition to phylogenetic Analysis using PHYLIP and low cost gel analysis.<p>On the other hand, the editors could have asked for a couple of more chapters on designing CORBA servers towards true interoperability of diverse biological databases, wrapping of legacy applications , integrating various biological software tools and desiging user-friendly graphical user interfaces using the new entrants like Java and CORBA. <p>Still this is a very good book for those with a thought of plunging into this ever-growing field of Bioinformatics. | |
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| By: Yi-Ping Phoebe Chen ISBN: 3540208739 Publisher: Springer Release Date: 24 May, 2005 Bioscience book rank: 1803949 | ||
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| By: Stephen T. C. Wong, Xiaobo Zhou ISBN: 9812707042 Publisher: World Scientific Publishing Company Release Date: 30 April, 2008 Bioscience book rank: 3660836 | ||
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| By: Rita Casadio, Gene Myers ISBN: 3540290087 Publisher: Springer Release Date: 14 November, 2005 Bioscience book rank: 3734669 | ||
| By: UNKNOWN ISBN: 0769519075 Publisher: Ieee Release Date: March, 2003 Bioscience book rank: | ||
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| By: H.-W. Mewes, H. Seidel, B. Weiss ISBN: 3540428933 Publisher: Springer Release Date: 25 June, 2003 Bioscience book rank: 2839397 | ||
| By: Kumar ISBN: 0471650994 Publisher: John Wiley & Sons Inc Release Date: 19 September, 2008 Bioscience book rank: | ||
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bioinformatics, computational biology, sequence analysis, protein structure, data mining, biostatistics
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