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Merge pull request #275 from nf-osi/patch/updatedataType
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Patch/updatedata type
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cconrad8 authored Mar 29, 2023
2 parents d1e625f + 0c6b783 commit f3ced33
Showing 1 changed file with 2 additions and 1 deletion.
3 changes: 2 additions & 1 deletion NF.csv
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Expand Up @@ -276,6 +276,7 @@ image,Biological or biomedical data that has been rendered into an image.,"",ass
geneExpression,The analysis of levels and patterns of synthesis of gene products (proteins and functional RNA) including interpretation in functional terms of gene expression data.,"",assay,FALSE,https://www.ebi.ac.uk/ols/ontologies/edam/terms?iri=http%3A%2F%2Fedamontology.org%2Ftopic_0203,dataType,,"","",Gene_Expression,Class,Data,Data_Class,"","","",""
isoformExpression,Expression of protien isoforms formed from alternative splicings or other post-translational modifications of a single gene through RNA splicing mechanisms.,"",assay,FALSE,https://en.wikipedia.org/wiki/Protein_isoform,dataType,,"","",Isoform_Expression,Class,Data,Data_Class,"","","",""
proteomics,"Protein and peptide identification, especially in the study of whole proteomes of organisms.","",assay,FALSE,https://www.ebi.ac.uk/ols/ontologies/edam/terms?iri=http%3A%2F%2Fedamontology.org%2Ftopic_0121,dataType,,"","",Proteomics,Class,Data,Data_Class,"","","",""
particle characterization,"A series of analytical methods that provide information about entities such as composition, structure and defects. ",,assay,FALSE,https://ontobee.org/ontology/NCIT?iri=http://purl.obolibrary.org/obo/NCIT_C62317,dataType,,,,Particle_Characterization,Class,Data,Data_Class,"","","",""
kinomics,Kinomics is the study of protein kinases and protein kinase signaling.,"",assay,FALSE,http://www.kinomecore.com/what-is-kinomics/,dataType,,"","",Kinomics,Class,Data,Data_Class,"","","",""
drugScreen,Information on drug sensitivity and molecular markers of drug response,"",assay,FALSE,https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3531057/,dataType,,"","",Drug_Screen,Class,Data,Data_Class,"","","",""
drugCombinationScreen,Information on drug sensitivity of more than one compound,"","",FALSE,https://www.ncbi.nlm.nih.gov/pubmed/29344898,dataType,,"","",Drug_Combination_Screen,Class,Data,Data_Class,"","","",""
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dataSubtype,"Further qualification of dataType, which may be used to indicate the state of processing of the data, aggregation of the data, or presence of metadata.","normalized, dataMatrix, raw, processed, metadata, representative",,TRUE,,experimentalData,,,,dataSubtype,Property,Data,annotationProperty,,Data_Level,one,
metadataType,"For files of dataSubtype: metadata, a description of the type of metadata in the file.","individual, biospecimen, assay, data dictionary, manifest, protocol",,FALSE,,experimentalData,,,,metadataType,Property,Data,annotationProperty,,,,
dataType,"A type of experimental, clinical, or other data. This typically refers to a high-level data type that can be related to an assay type. For example, a file of dataType `genomicVariants` might have an assay value of `whole genome sequencing`.","Volume, Weight, Pharmacokinetic Study, genomicVariants,behavior process, metabolomics, image, geneExpression, isoformExpression, proteomics, particle characterization, kinomics, drugScreen, drugCombinationScreen, cellularPhysiology, chromatinActivity, surveyData, network, clinical, immunoassay, electrophysiology, raw counts, mask image,AlignedReads,SomaticVariants,AnnotatedSomaticVariants,StructuralVariants,GermlineVariants,AnnotatedGermlineVariants,characteristic",dataSubtype,TRUE,,experimentalData,,,,dataType,Property,Data,annotationProperty,,Data,one,
expressionUnit,Measure used for transcript expression quantification,"TPM,RPKM,FPKM,Counts,Other",,TRUE,,experimentalData,,,,expressionUnit,DataProperty,Data,annotationProperty,,,,
expressionUnit,Measure used for transcript expression quantification,"TPM,RPKM,FPKM,Counts,Other",,TRUE,,experimentalData,,,,expressionUnit,DataProperty,Data,annotationProperty,,,
failedQC,"Whether the sample or data failed QC checks (Yes, No)","Yes, No",,TRUE,,experimentalData,,,,failedQC,DataProperty,Data,annotationProperty,,,
Filename,The name of the file.,,"entityId,fileFormat",TRUE,Sage Bionetworks,NF,,,,fileName,Class,Data,annotationProperty,fileName,,one,Automatically filled when using the curator app.
programmingLanguage,A computer programming language,"Python, R, MATLAB, Java, C, C++, C#, Javascript, bash",,FALSE,Sage Bionetworks,,,,,programmingLanguage,Property,Data,annotationProperty,ngsParameter,,,
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