Current Protocols in Bioinformatics

Current Protocols in Bioinformatics

Online ISBN: 9780471250951

DOI: 10.1002/0471250953

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  1. Bioinformatics
  2. Bioinformatics
    1. Bioinformatics Fundamentals
    2. Biological Databases
      1. Access Guide to Human Proteinpedia
      2. Administering GBrowse Sites with WebGBrowse
      3. Creating Databases for Biological Information: An Introduction
      4. Using the DFCI Gene Index Databases for Biological Discovery
      5. DNA Motif Databases and Their Uses
      6. Exploring Genetic, Genomic, and Phenotypic Data at the Rat Genome Database
      7. Exploring Zebrafish Genomic, Functional and Phenotypic Data Using ZFIN
      8. Extracting Biological Meaning from Large Gene Lists with DAVID
      9. Human Mutation Databases
      10. Identifying Functional Sites Based on Prediction of Charged Group Behavior
      11. Installing a Local Copy of the Reactome Web Site and Knowledgebase
      12. Installing and Configuring CMap
      13. Investigating Protein Structure and Evolution with SCOP2
      14. You have free access to this content
        MalaCards: A Comprehensive Automatically-Mined Database of Human Diseases
      15. MetaboLights: An Open-Access Database Repository for Metabolomics Data
      16. Metaproteomics: Extracting and Mining Proteome Information to Characterize Metabolic Activities in Microbial Communities
      17. miRBase: microRNA Sequences and Annotation
      18. Modeling Biology Using Relational Databases
      19. mtDNA Variation and Analysis Using Mitomap and Mitomaster
      20. Using the NCBI Map Viewer to Browse Genomic Sequence Data
      21. PharmGKB: An Integrated Resource of Pharmacogenomic Data and Knowledge
      22. PubSearch and PubFetch: A Simple Management System for Semiautomated Retrieval and Annotation of Biological Information from the Literature
      23. Searching and Navigating UniProt Databases
      24. Searching the Mouse Genome Informatics (MGI) Resources for Information on Mouse Biology from Genotype to Phenotype
      25. You have free access to this content
        Searching NCBI Databases Using Entrez
      26. Searching NCBI's dbSNP Database
      27. Searching Online Mendelian Inheritance in Man (OMIM) for Information on Genetic Loci Involved in Human Disease
      28. Searching WormBase for Information about Caenorhabditis elegans
      29. Setting Up the JBrowse Genome Browser
      30. Structured Query Language (SQL) Fundamentals
      31. Searching, Viewing, and Visualizing Data in the Biomolecular Interaction Network Database (BIND)
      32. The Human Gene Mutation Database (HGMD) and Its Exploitation in the Fields of Personalized Genomics and Molecular Evolution
      33. The Importance of Biological Databases in Biological Discovery
      34. The UCSC Genome Browser
      35. Using Apollo to Browse and Edit Genome Annotations
      36. Using CATH-Gene3D to Analyze the Sequence, Structure, and Function of Proteins
      37. Using Chado to Store Genome Annotation Data
      38. Using EMBL-EBI Services via Web Interface and Programmatically via Web Services
      39. Using the Ensembl Genome Server to Browse Genomic Sequence Data
      40. Using the Generic Genome Browser (GBrowse)
      41. Using the Generic Synteny Browser (GBrowse_syn)
      42. Using the MetaCyc Pathway Database and the BioCyc Database Collection
      43. Using Relational Databases for Improved Sequence Similarity Searching and Large-Scale Genomic Analyses
      44. Using The Arabidopsis Information Resource (TAIR) to Find Information About Arabidopsis Genes
      45. Using the iHOP Information Resource to Mine the Biomedical Literature on Genes, Proteins, and Chemical Compounds
      46. Using the iPlant Collaborative Discovery Environment
      47. Using the KEGG Database Resource
      48. Using the MEROPS Database for Proteolytic Enzymes and Their Inhibitors and Substrates
      49. Using the Reactome Database
      50. Using the Saccharomyces Genome Database (SGD) for Analysis of Genomic Information
      51. Using the Structure-Function Linkage Database to Characterize Functional Domains in Enzymes
      52. Using the Tools and Resources of the RCSB Protein Data Bank
    3. Cheminformatics
    4. DNA Analysis
    5. Expression Patterns
    6. Finding Genes
    7. Finding Similarities and Inferring Homologies
    8. Genome Variation
    9. Modeling Structure from Sequence
    10. Molecular Modeling
    11. Phylogenetic Trees
    12. Protein Analysis
    13. Proteomics
    14. Recognizing Functional Domains
    15. RNA Analysis
    16. Sequence Mapping and Assembly
  3. Cell Biology
  4. Chemical Biology
  5. Gene Expression
  6. Genetics and Genomics
  7. Genetics and Genomics
  8. Intermolecular Interactions
  9. Intermolecular Interactions
  10. Microbiology
  11. Molecular Biology
  12. Nucleic Acid Chemistry
  13. Pharmacology and Drug Discovery
  14. Protein Production, Purification, and Analysis
  15. Proteomics
  16. RNA
  17. Structural Analysis of Biomolecules
  18. Supporting Lab Techniques