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XML for Bioinformatics

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XML for Bioinformatics Cover

 

Synopses & Reviews

Publisher Comments:

XML, or Extensible Markup Language, is rapidly becoming a critical tool in bioinformatics and biological data exchange. XML is currently used to represent a diverse set of biological data, from nucleotide and protein sequences to protein-protein interactions and signal transduction pathways. XML is also used in a wide array of bioinformatics applications, including stand-alone applications, federated database systems, distributed applications, and web services. The goal of XML for Bioinformatics is to provide a solid introduction to the emerging use of XML in the field of bioinformatics. It assumes no prior knowledge of XML, and illustrates all core concepts with specific bioinformatics examples and case studies. Core XML concepts include: fundamentals of XML, Document Type Definitions (DTDs), XML Namespaces, XML Schema, XML parsing in Perl and Java, web services and SOAP. Examples and case studies are drawn from a wide range of bioinformatics applications, including the Bioinformatic Sequence Markup Language (BSML), NCBI E-Fetch, the Distributed Annotation System (DAS), and the National Cancer Institute Cancer Bioinformatics Infrastructure Objects (caBIO) project. A companion web site, available at: http://www.xmlbio.org/, provides complete access to all examples in the book.

Synopsis:

XML for Bioinformatics aims to provide biologists, software engineers, and bioinformatics professionals with a comprehensive introduction to XML and current XML applications in bioinformatics. The book will assume no background in XML, and take readers from basic to intermediate XML concepts. Core topics will include: fundamentals of XML, creating XML grammars, web services via SOAP, and parsing XML documents in Perl and Java.

Synopsis:

XML for Bioinformatics aims to provide biologists, software engineers, and bioinformatics professionals with a comprehensive introduction to XML and current XML applications in bioinformatics. The book will assume no background in XML, and take readers from basic to intermediate XML concepts. Core topics will include: fundamentals of XML, creating XML grammars, web services via SOAP, and parsing XML documents in Perl and Java.

About the Author

Ethan Cerami is Senior Software Engineer at the Computational Biology Center, Memorial Sloan-Kettering Cancer Center, New York, NY. Since 1997 he has also been a member of the Adjunct Faculty in Computer Science at New York University.

Table of Contents

Introduction to XML for Bioinformatics.- Fundamentals of XML and BSML.- Fundamentals of DTDs and the NCBI TinySeq DTD.- Fundamentals of XML Schemas and PSI-MI.- Parsing PSI-MI Data in Perl.- The Distributed Annotation System (DAS).- Parsing DAS Data via SAX.- Parsing DAS Data via JDOM.- Using SOAP to Integrate Biological Data.

Product Details

ISBN:
9781441919984
Author:
Cerami, Ethan
Publisher:
Springer
Location:
New York, NY
Subject:
Programming Languages - General
Subject:
Programming Languages, Compilers, Interpreters
Subject:
Special Purpose and Application-Based Systems
Subject:
Computer Systems Organization and Communication Networks
Subject:
Coding and Information Theory
Subject:
Bioinformatics <P>&nbsp;</P> <P>XML for Bioinformatics aims to provide biologists, software engineers, and bioinformatics professionals with a comprehensive introduction to XML and current XML applications in bioinformatics. The book will assume no backgr
Subject:
Computer Languages-XML
Subject:
Bioinformatics
Subject:
Computer Science
Subject:
The Arts
Subject:
Software engineering
Subject:
Computer network architectures
Subject:
Coding theory
Copyright:
Edition Description:
Softcover reprint of hardcover 1st ed. 2005
Publication Date:
20101224
Binding:
TRADE PAPER
Language:
English
Pages:
320
Dimensions:
235 x 178 mm 555 gr

Related Subjects

Computers and Internet » Computer Languages » XML
Computers and Internet » Computers Reference » Bioinformatics
Computers and Internet » Computers Reference » General
Computers and Internet » Networking » General
Computers and Internet » Operating Systems » General
Computers and Internet » Software Engineering » Programming and Languages

XML for Bioinformatics New Trade Paper
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$130.25 In Stock
Product details 320 pages Not Avail - English 9781441919984 Reviews:
"Synopsis" by , XML for Bioinformatics aims to provide biologists, software engineers, and bioinformatics professionals with a comprehensive introduction to XML and current XML applications in bioinformatics. The book will assume no background in XML, and take readers from basic to intermediate XML concepts. Core topics will include: fundamentals of XML, creating XML grammars, web services via SOAP, and parsing XML documents in Perl and Java.
"Synopsis" by , XML for Bioinformatics aims to provide biologists, software engineers, and bioinformatics professionals with a comprehensive introduction to XML and current XML applications in bioinformatics. The book will assume no background in XML, and take readers from basic to intermediate XML concepts. Core topics will include: fundamentals of XML, creating XML grammars, web services via SOAP, and parsing XML documents in Perl and Java.
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