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Table 2 Mapping ISA configurations to BiocViews

From: The Risa R/Bioconductor package: integrative data analysis from experimental metadata and back again

ISA Configuration File ISA measurement BiocViews ISA technology BiocViews
cellcount_flowcytometry cell counting   flow cytometry FlowCytometry
cellsorting_flowcyt cell sorting   flow cytometry FlowCytometry
clinical_chemistry clinical chemistry analysis    
copynumvariation_micro copy number variation profiling CopyNumberVariants DNA microarray Microarray, aCGH
dnamethylation_micro DNA methylation profiling DNAMethylation DNA microarray Microarray, ChIPchip, CpGIsland, Methylseq
dnamethylation_seq DNA methylation profiling DNAMethylation nucleotide sequencing Sequencing, ChIPseq, CpGIsland, Methylseq
envgen survey_seq environmental gene survey   nucleotide sequencing Sequencing
genome_seq genome sequencing   nucleotide sequencing Sequencing
hematology hematology    
heterozygosity_micro loss of heterozygosity profiling SNP, CopyNumber Variants DNA microarray Microarray
histology histology    
histonemodification_seq histone modification profiling Regulation nucleotide sequencing Sequencing, ChIPseq
metaboliteprofiling_ms metabolite profiling Metabolomics mass spectrometry MassSpectrometry
metaboliteprofiling_nmr metabolite profiling Metabolomics NMR spectroscopy  
metagenome_seq metagenome sequencing   nucleotide sequencing Sequencing
ppi_detection_micro protein-protein interaction detection   protein microarray Microarray
protein_dna_binding_ident_micro protein-DNA binding site identification Regulation DNA microarray Microarray, ChIPchip
protein_dna_binding_ident_seq protein-DNA binding site identification Regulation nucleotide sequencing Sequencing, ChIPseq
protein expression_ge protein expression profiling Proteomics gel electrophoresis  
protein expression_micro protein expression profiling Proteomics protein microarray Microarray
protein expression_ms protein expression profiling Proteomics mass spectrometry MassSpectrometry, Proteomics
proteinident_ms protein identification   mass spectrometry MassSpectrometry, Proteomics
snpanalysis_micro SNP analysis SNP DNA microarray Microarray, GeneticVariability
studySample     
tfbsident_micro transcription factor binding site identification Regulation DNA microarray Microarray, ChIPchip
tfbsident_seq transcription factor binding site identification Regulation nucleotide sequencing Sequencing, ChIPseq
transcription_micro transcription profiling Transcription, GeneExpression DNA microarray Microarray, DifferentialExpression, ExonArray
transcription_rtpcr transcription profiling Transcription, GeneExpression, DifferentialExpression real time PCR qPCR
transcription_seq transcription profiling Transcription, GeneExpression nucleotide sequencing Sequencing, DifferentialExpression, RNAseq