{"caseSensitive":true,"concept":[{"code":"bam","display":"BAM"},{"code":"bed","display":"BED"},{"code":"bedpe","display":"BEDPE"},{"code":"bedgraph","display":"BedGraph"},{"code":"bigbed","display":"bigBed"},{"code":"bigWig","display":"bigWig"},{"code":"birdsuite-files","display":"Birdsuite-Files"},{"code":"broadpeak","display":"broadPeak"},{"code":"cbs","display":"CBS"},{"code":"chemical-reactivity-probing-profiles","display":"Chemical-Reactivity-Probing-Profiles"},{"code":"chrom-sizes","display":"chrom-sizes"},{"code":"cn","display":"CN"},{"code":"custom-file-formats","display":"Custom-File-Formats"},{"code":"cytoband","display":"Cytoband"},{"code":"fasta","display":"FASTA"},{"code":"gct","display":"GCT"},{"code":"cram","display":"CRAM"},{"code":"genepred","display":"genePred"},{"code":"gff-gtf","display":"GFF/GTF"},{"code":"gistic","display":"GISTIC"},{"code":"goby","display":"Goby"},{"code":"gwas","display":"GWAS"},{"code":"igv","display":"IGV"},{"code":"loh","display":"LOH"},{"code":"maf-multiple-alignment-format","display":"MAF-Multiple Alignment Format"},{"code":"maf-mutation-annotation-format","display":"MAF-Mutation-Annotation-Format"},{"code":"merged-bam-file","display":"Merged BAM File"},{"code":"mut","display":"MUT"},{"code":"narrowpeak","display":"narrowPeak"},{"code":"psl","display":"PSL"},{"code":"res","display":"RES"},{"code":"rna-secondary-structure-formats","display":"RNA-Secondary-Structure-Formats"},{"code":"sam","display":"SAM"},{"code":"sample-info-attributes-file","display":"Sample-Info-Attributes-file"},{"code":"seg","display":"SEG"},{"code":"tdf","display":"TDF"},{"code":"track-line","display":"Track Line"},{"code":"type-line","display":"Type Line"},{"code":"vcf","display":"VCF"},{"code":"wig","display":"WIG"}],"contact":[{"telecom":[{"system":"url","value":"http://hl7.org/fhir"},{"system":"email","value":"fhir@lists.hl7.org"}]}],"content":"complete","date":"2022-08-17T14:49:24-05:00","description":"The data format relevant to genomics. These formats and relevant codes were pulled from [Integrative Genomics Viewer Documentation](https://software.broadinstitute.org/software/igv/FileFormats) by Broad Institute.","experimental":true,"extension":[{"url":"http://hl7.org/fhir/StructureDefinition/structuredefinition-wg","valueCode":"cg"},{"url":"http://hl7.org/fhir/StructureDefinition/structuredefinition-standards-status","valueCode":"trial-use"},{"url":"http://hl7.org/fhir/StructureDefinition/structuredefinition-fmm","valueInteger":0}],"id":"genomicstudy-dataformat","identifier":[{"system":"urn:ietf:rfc:3986","value":"urn:oid:2.16.840.1.113883.4.642.4.1978"}],"jurisdiction":[{"coding":[{"code":"001","display":"World","system":"http://unstats.un.org/unsd/methods/m49/m49.htm"}]}],"meta":{"lastUpdated":"2022-12-14T07:12:54.019+11:00","profile":["http://hl7.org/fhir/StructureDefinition/shareablecodesystem"]},"name":"GenomicStudyDataFormat","publisher":"HL7 (FHIR Project)","resourceType":"CodeSystem","status":"active","text":{"div":"

This code system http://hl7.org/fhir/genomicstudy-dataformat defines the following codes:

CodeDisplay
bam BAM
bed BED
bedpe BEDPE
bedgraph BedGraph
bigbed bigBed
bigWig bigWig
birdsuite-files Birdsuite-Files
broadpeak broadPeak
cbs CBS
chemical-reactivity-probing-profiles Chemical-Reactivity-Probing-Profiles
chrom-sizes chrom-sizes
cn CN
custom-file-formats Custom-File-Formats
cytoband Cytoband
fasta FASTA
gct GCT
cram CRAM
genepred genePred
gff-gtf GFF/GTF
gistic GISTIC
goby Goby
gwas GWAS
igv IGV
loh LOH
maf-multiple-alignment-format MAF-Multiple Alignment Format
maf-mutation-annotation-format MAF-Mutation-Annotation-Format
merged-bam-file Merged BAM File
mut MUT
narrowpeak narrowPeak
psl PSL
res RES
rna-secondary-structure-formats RNA-Secondary-Structure-Formats
sam SAM
sample-info-attributes-file Sample-Info-Attributes-file
seg SEG
tdf TDF
track-line Track Line
type-line Type Line
vcf VCF
wig WIG
","status":"generated"},"title":"GenomicStudyDataFormat","url":"http://hl7.org/fhir/genomicstudy-dataformat","valueSet":"http://hl7.org/fhir/ValueSet/genomicstudy-dataformat","version":"5.0.0-snapshot3"}