Data mining techniques for the life sciences

DOI10.1007/978-1-4939-3572-7zbMath1353.92002OpenAlexW563867710MaRDI QIDQ293808

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Publication date: 9 June 2016

Published in: Methods in Molecular Biology (Search for Journal in Brave)

Full work available at URL: https://doi.org/10.1007/978-1-4939-3572-7

zbMATH Keywords

data miningfunctional analysisprotein structureRNA-seqontology3D protein domain interactionaligned homologous proteinsbacterial genomic data analysisCHIP-Seqconformational disorderconservation of substrate binding residuesCryo-EM density mapsdrug-target interaction predictionefficient amino-acid substitution matrixgenomic databasehigh-throughput assayhomology based annotationlatent regular structuresmacromolecular structuremetabolomics datametagenomeMIntAct projectmolecular interaction databasenon-synonimious variantsplant genomicsplant proteomicsprotein crystalizabilityprotein mutant stabilityprotein residue contactsprotein sequence-based function predictionprotein thermodynamic database

Mathematics Subject Classification ID

Applications of statistics to biology and medical sciences; meta analysis (62P10) General biostatistics (92B15) Introductory exposition (textbooks, tutorial papers, etc.) pertaining to statistics (62-01) Biochemistry, molecular biology (92C40) Introductory exposition (textbooks, tutorial papers, etc.) pertaining to biology (92-01)

Uses Software

• Prokka
• Prodigal
• RNAmmer
• ARAGORN
• Infernal
• SnpEff
• OMERO
• VelvetOptimiser
• SPAdes
• MIND-BEST
• STITCH
• ncPred
• CONFOLD
• APOLLO
• PSICOV
• PconsFold
• MetaPSICOV
• NNcon
• CCMpred
• FreeContact
• ANNIE
• HPMV
• dissectHMMER
• antiSMASH
• dbCAN
• ELM
• eggNOG
• PlantTFDB
• Mugsy
• R
• MIRA
• STAR
• Bioconductor
• GlobPlot
• Biopython
• tRNAscan-SE
• MAFFT
• Soap
• EMan
• PyMOL
• HMMER
• bioperl
• Sweave
• EMBOSS
• AUGUSTUS
• SOPRA
• MUSCLE
• GAGE
• flowCore
• Samtools
• Jmol
• Plotly
• ANNOTATOR
• LIGPLOT
• NUCPLOT
• MATRAS
• DBAli tools
• PISCES
• pKNOT
• SCOP2
• ESyPred3D
• CUPSAT
• AUTO-MUTE
• PoPMuSiC
• ENCoM
• DUET
• mCSM
• MAESTRO
• PDB_REDO
• PROCHECK
• OBSTRUCT
• Cd-hit
• SFCHECK
• SUPERFAMILY
• HHblits
• BLAT
• MOTIF-EM
• ADP_EM
• FUGUE
• GenePattern
• OpenCyto
• rmarkdown
• HTSeq
• VaZyMolO
• MeDor
• MetaDisorder
• PreDisorder
• MFDp2
• PONDR-FIT
• PROFbval
• StrBioLib
• DNdisorder
• DISOPRED
• RONN
• Porter
• ESpritz
• SPINE-D
• PrDOS
• POODLE-I
• IUPred
• FoldUnfold
• ANCHOR
• PROMALS3D
• VNTRseek
• ParCrys
• CRYSTALP2
• PredPPCrys
• SSpro
• PROFEAT
• XtalPred
• XANNpred
• Galaxy
• Ontobee
• Aber-OWL
• FUNC
• IntelliGO
• PhenomeNET
• DOSE
• GOSemSim
• HPOSim
• Brain
• iPath
• MSEA
• MetaboLights
• Orione
• SSAKE
• SEQuel
• CISA

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