Annotating New Genes

From in Silico Screening to Experimental Validation

AvShizuka Uchida

Inbunden, Engelska, 2012

Del i serien Woodhead Publishing Series in Biomedicine

1 523 kr

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Beskrivning

In recent years, a number of academic and commercial software packages and databases have been developed for the analysis and screening of biological data; however, the usability of these data is compromised by so-called novel genes to which no biological function is assigned. Annotating new genes outlines an approach to the analysis of evolutionary-conserved, heart-enriched genes with unknown functions, offering a step-by-step description of the procedure from screening to validation. The book begins by offering an introduction to the databases and software available, before moving on to cover programming guidelines, including a specific case study on the use of C-It for in silico screening. The second half of the book offers a step-by-step guide to experimental validation concepts and procedures, as well as an overview of additional potential applications of this approach in the field of stem cells and tissue regeneration, before a concluding chapter summarises the concepts and theories presented.

Focuses not only on screening but also on biological validations
Provides details of databases and software (web interface) products for biologists with minimal computation skills
Offers a step-by-step outline of the procedure involved

Produktinformation

Utgivningsdatum:2012-08-06
Mått:156 x 234 x undefined mm
Vikt:580 g
Format:Inbunden
Språk:Engelska
Serie:Woodhead Publishing Series in Biomedicine
Antal sidor:196
Förlag:Elsevier Science
ISBN:9781907568688

Utforska kategorier

Biovetenskap inom Naturvetenskap och teknik
Biokemi inom Naturvetenskap och teknik
Biologi inom Naturvetenskap och teknik

Mer om författaren

Shizuka Uchida is a group leader in the Max-Planck Institute for Heart and Lung Research in Bad Nauheim, Germany. He is a trained bioinformatician and a developmental biologist with a specific focus on adult stem cell research, and has extensive experience in combining the power of computers and data mining methods with state-of-the-art experimental techniques.

Innehållsförteckning

List of figures and tablesAcknowledgementsAbout the authorChapter 1: IntroductionChapter 2: Databases and software to make your research life easierAbstract:2.1 Introduction2.2 Primary databases2.3 Secondary databases2.4 Datasets to keep an eye out for2.5 ConclusionChapter 3: How to program like a bioinformatician?Abstract:3.1 Introduction3.2 Setting up an environment3.3 Writing Perl scripts3.4 ConclusionChapter 4: Case study: C-It, knowledge database for screening evolutionarily conserved, tissue-enriched, uncharacterized genesAbstract:4.1 Introduction4.2 Concept of in silico screening4.3 Case study: C-ItChapter 5: Experimental validation: concepts and practiceAbstract:5.1 Introduction5.2 Proposed experimental strategy5.3 Step 1: validation of expression patterns5.4 Step 2: phenotypic analysis5.5 Step 3: molecular interactions5.6 Other experiments5.7 ConclusionChapter 6: Further application: adult stem cells and tissue regenerationsAbstract:6.1 Introduction6.2 Cell types in heart and their lineages6.3 Current status of cardiac stem cells6.4 ConclusionChapter 7: ConclusionIndex