Table 1.

Extracted classes and related attribute sets from each step of clinico-genomic context for the Entity-Attribute model.

Seq.	Class			Related Attribute	Entity
	Action	Collected Data	Tool/Processor
1	Sample Collection			Institution Identifier Subject Identifier Test Identifier (Order ID or Accession No)	Linkage Identifier to Clinical Information
				Submission Date	Timeline Information
				Medical Institution	Actor Information
				Clinician
2		Specimen
3	Machine Sequencing			Test Description	Experiment Related Information
				Type of Sequence
				Platform technology
				Sequencer
				Collection Date	Timeline Information
				Sequencing Institution	Actor Information
				Experimenter
4		Read File
5	Alignment			Position Reference allele Alternative allele Chromosome	Physical(Location) information according to coordinate system
				Analytics Institution	Actor Information
				Bioinformatician
6		Initial Alignment File
7	InDel Realignment			Position’	Physical(Location) information according to coordinate system
	/			Reference allele’
	Base Recalibration			Alternative allele’
				Chromosome’
				Base quality(>Q20)	Quality Check information
				(Average) Depth of coverage
				Mapping Quality (%Mapped reads)
				Received Date	Timeline Information
				Analytics Institution	Actor Information
				Bioinformatician
8		Adjusted Alignment File
9	Variant Calling			Hetero-/Homozygosity	Genotype Expressions
				Phasing information
				Missing
				Analytics Institution	Actor Information
				Bioinformatician
10			Variant Caller	Tool	Pipeline information
				Step
				Parameter
				Origin	Data source
				Version
				Build
				Parameter
11		Variant File
12	Sequence Annotation			Gene (HGNC Gene Symbol, Entrez ID, Ensembl ID)	Variant Descriptive Expressions
				Variant (HGVS(genomic, coding, protein change + version), dbSNP, dbVar)
				Cytogenetic location	Physical(Location) information according to coordinate system
				Codon
				Exon
				ClinVar, COSMIC ID	Functional Annotation
				Molecular Effect
				Variant Type
				Functional Domain
				Analytics Institution	Actor Information
				Bioinformatician
13			Annotator	Tool	Pipeline information
				Step
				Parameter
				Origin	Data source
				Version
				Build
14		Annotated Variant File
15	Clinical Annotation			ACMG actionable genes	Clinical Annotation
				FDA qualified biomarkers
				User-defined biomarkers
				Analytics Institution	Actor Information
				Bioinformatician
				Documentation Date	Timeline Information

The processes in the clinico-genomic workflow shown in Fig. 2 are listed in order and associated with the classes, related attribute sets for each process. This table is an intermediate result between the result of FMEA and the final logical model. Derived related attributes are abstracted within each class and grouped into entities.