Gene Function Analysis

Editors:

ISBN: 978-1-58829-734-1 (Print) 978-1-59745-547-3 (Online)

Table of contents (17 protocols)

  1. Front Matter

    Pages i-xiv

  2. Computational Methods I

    1. Front Matter

      Pages n1-n1

    2. No Access

      Book Protocol

      Pages 1-18

      Gene Function Inference From Gene Expression of Deletion Mutants

    3. No Access

      Book Protocol

      Pages 19-33

      Association Analysis for Large-Scale Gene Set Data

    4. No Access

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      Pages 35-47

      Estimating Gene Function With Least Squares Nonnegative Matrix Factorization

    5. No Access

      Book Protocol

      Pages 49-68

      From Promoter Analysis to Transcriptional Regulatory Network Prediction Using PAINT

    6. No Access

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      Pages 69-92

      Prediction of Intrinsic Disorder and Its Use in Functional Proteomics

  3. Computational Methods II

    1. Front Matter

      Pages n2-n2

    2. No Access

      Book Protocol

      Pages 93-108

      Sybil: Methods and Software for Multiple Genome Comparison and Visualization

    3. No Access

      Book Protocol

      Pages 109-127

      Estimating Protein Function Using Protein-Protein Relationships

    4. No Access

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      Pages 129-151

      Bioinformatics Tools for Modeling Transcription Factor Target Genes and Epigenetic Changes

    5. No Access

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      Pages 153-169

      Mining Biomedical Data Using MetaMap Transfer (MMTx) and the Unified Medical Language System (UMLS)

    6. No Access

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      Pages 171-191

      Statistical Methods for Identifying Differentially Expressed Gene Combinations

  4. Experimental Methods

    1. Front Matter

      Pages 192-192

    2. No Access

      Book Protocol

      Pages 193-210

      Gene Function Analysis Using the Chicken B-Cell Line DT40

    3. No Access

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      Pages 211-221

      Design and Application of a shRNA-Based Gene Replacement Retrovirus

    4. No Access

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      Pages 223-241

      Construction of Simple and Efficient DNA Vector-Based Short Hairpin RNA Expression Systems for Specific Gene Silencing in Mammalian Cells

    5. No Access

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      Pages 243-255

      Selection of Recombinant Antibodies From Antibody Gene Libraries

    6. No Access

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      Pages 257-290

      A Bacterial/Yeast Merged Two-Hybrid System

    7. No Access

      Book Protocol

      Pages 291-315

      A Bacterial/Yeast Merged Two-Hybrid System

    8. No Access

      Book Protocol

      Pages 317-334

      Engineering Cys2His2 Zinc Finger Domains Using a Bacterial Cell-Based Two-Hybrid Selection System

  5. Back Matter

    Pages 335-337