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J Am Med Inform Assoc 6:374-392 doi:10.1136/jamia.1999.0060374
  • Original Investigation

Automated Diagnosis of Data-Model Conflicts Using Metadata

Table 1

List of Metadata Features for a Basic BLAST Search*

Metadata Feature Ancestor Class Possible Values Description Significance
User_Experience Operator Extensive, moderate, very_little The experience level of the person doing the search If it is extensive, the probability of error should be lower.
User_Occupation Operator Undergraduate, graduate, research-assistant, post-doc, professor, professional The occupation of person doing the analysis Possible correlation with outcome.
User_Name Operator any string The name of the person carrying out the search Possible correlation with outcome.
Number_of_Input_Data_Sources Filter Operator One, more_than_one The number of data sources being searched Possible correlation with outcome.
Number_of_User_Set_Parameters Search Operator One, 1_to_3, 3_to_10, greater_than_10 The number of search criteria that are set by the user Possible correlation with outcome.
Search_Defaults_Changed Search Operator Yes, no This feature records whether the search criteria have been changed from their default values If the user experience is high but the search defaults have not been changed, then there is greater possibility of error. If the user is relatively inexperienced but has changed the default settings, then there is a greater probability of error.
BLAST_version BLAST Search Operator Version_1.0, version_2.0 The version of BLAST used Possible correlation with outcome
Program Basic BLAST Search Operator Blastn, Blastp, Blastx, Tblastn, Tblastx Parameter that must be set for a basic BLAST search Possible correlation with outcome
Database Basic BLAST Search Operator Nr, Month, Swissprot, Dbest, Dbsts, Mouse_ests, Human_ests, Other_ests, Pdb Parameter that must be set for a basic BLAST search Possible correlation with outcome
Ungapped_Alignment Basic BLAST Search Operator Yes, no Parameter that must be set for a basic BLAST search Possible correlation with outcome
Data_Format Basic BLAST Search Operator Fasta, Accension_Or_Gi Parameter that must be set for a basic BLAST search Possible correlation with outcome
  • * A basic BLAST search is a common operation performed by computational biologists when searching for a specific DNA sequence. The first column shows the complete list of metadata features for a basic BLAST search. This list is the union of all the metadata features of its ancestors. The second column identifies the ancestors of the basic BLAST search operator (in the process components ontology) from which the metadata features were inherited. Some of the metadata properties listed in the table are considered correlative features. The correlations found between those features and the occurrence of data-model conflicts can be used as diagnostic evidence.

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