生物信息学

Abbreviations
Preface
SectionA-Overviewofbioinformatics
A1Thescoeofbioinformatics
A2BioinformaticsandtheInternet
A3UsefulbioinformaticssitesontheWWW
SectionB-Dataacquisition
B1SequencingDNA,RNAandproteins
B2Determinationofproteinstructure
B3Geneandproteinexpressiondata
B4Proteininteractiondata
SectionC-Databases-contents,structureandannotation
C1Fileformats
C2Annotatedsequencedatabases
C3Genomeandorganism-specificdatabases
C4Miscellaneousdatabases
SectionD-Retrievalofbiologicaldata
D1DataretrievalwithEntrezandDBGET/LinkDB
D2DataretrievalwithSRS(sequenceretrievalsystem)
SectionE-Searchingsequencedatabasesbysequence
E1Sequencesimilaritysearches
E2Aminoacidsubstitutionmatrices
E3Databasessearches:FASTAandBLAST
E4Sequencefilters
E5IterativedatabasesearchesandPSI-BLAST
SectionF-Multiplesequencealignmentandfamilyrelationships
F1Multiplesequencealignmentandfamilyrelationships
F2Proteinfamiliesandpatterndatabases
F3Proteindomainfamilies
SectionG-Phylogenetics
G1Phylogenetics,cladisticsandontology
G2Buildingphylogenetictrees
G3Evolutionofmacromolecularsequences
SectionH-Sequenceannotation
H1Principlesofgenomeannotation
H2Annotationtoolsandresources
SectionI-Structuralbioinformatics
I1Conceptualmodelsofproteinstructure
I2Therelationshipofproteinthree-dimensionalstructuretoproteinfunction
I3Theevolutionofproteinstructureandfunction
I4Obtaining,viewingandanalyzingstructuraldata
I5Structuralalignment
I6Classificationofproteinsofknownthree-dimensionalstructure:CATHandSCOP
I7Introductiontoproteinstructureprediction
I8Structurepredictionbycomparativemodeling
I9Secondarystructureprediction
I10Adnancedproteinstructurepredictionandpredictionstrategies
SectionJ-Microarraydataanalysis
J1Microarraydata:analysismethods
J2Microarraydata:toolsandresources
J3SequencesamplingandSAGE
SectionK-Proteomicdataanalysis
K1Analyzingdatafrom2D-PAGEgels
K2Analyzingproteinmassspectrometrydata
SectionL-Higher-ordersystems
L1Modelingandreconstructingmolecularpathways
L2Proteininteractioninformatics
L3Higher-ordermodels
SectionM-Cheminformaticsinbiology
M1Conventionsforrepresentingmolecularpathways
M2Cheminformaticsresources
SectionN-Bioinformaticsinthepharmaceuticalindustry
N1Bioinformaticsanddrugdiscovery
N2Pharmainformaticsresources
SectionO-Basicprinciplesofcomputinginbioinformatics
O1Runningcomputersoftware
O2Computeroperatingsystems
O3Softwaredownloadingandinstallation
O4Databasemanagement
Furtherreading
Glossary
Index