LOINC Code 92822-6: Genomic coordinate system Molgen Nom (Specimen)
92822-6 is a LOINC code used to identify Genomic coordinate system Molgen Nom (Specimen) in laboratory and clinical observation data. You may see this code in lab systems, lab reports, EHR exports, interoperability feeds, or other structured clinical data exchanges. LOINC codes identify tests, measurements, observations, survey items, and clinical questions in a standardized way. It is associated with the component Genomic coordinate system. It is commonly used with the system or sample type XXX.
LOINC codes identify tests, measurements, observations, survey items, and clinical questions in a standardized way. It is associated with the component Genomic coordinate system. It is commonly used with the system or sample type XXX.
When is it used?
Used in lab systems, EHRs, and clinical data exchange.
May identify a test, observation, survey item, or clinical document request rather than a diagnosis.
Status: ACTIVE
Order vs observation: Observation
Method: Molgen
What it does not mean
The code identifies the observation or test, not the actual result.
Key facts
Genomic coordinate system [Type]
Genomic coordinate system
A genomic coordinate is a position along a sequence. Coordinate systems can start counting from0-based interval counting - Used by: GA4GH API, ClinGen data model, BED & BAM files, UCSC files, HLM 1.0 and NCBI's SPDI conversion format - Akin to cursor positioning in modern text editors with cursor between characters - A bit unnatural for humans, easier for computers - Sequences have an inclusive start and exclusive end - Insertions always go in the interval between characters 0-based character counting - Used by: Genbank database & ASN files - Sequences have an inclusive start, exclusive end - Length = end - start - A bit unnatural for human reading, easier for computers - Sequences have an inclusive start and inclusive end - Insertions not defined because GenBank and ASN do not model insertions to records they contain (historically ASN did internal to NCBI). SPDI was developed in part because of this inability to model insertions. 1-based character counting - Used by: HGVS, VCF, NCBI's ClinVar (uses HGVS), Genbank files, IPD-IMGT/HLA, UCSC genome browser (note different from UCSC file, which uses 0-based interval counting) - Akin to approach used in the earliest text processors - Length = (end - start) + 1 - Sequences have inclusive start and inclusive end - More natural for humans - Insertions. Be careful in theory for 1-base, the insertion location could be defined in three ways: a) before position, b) after position, c) specify the di-nucleotide which where the insertion goes; but in practice there is only one way to do it per coordinate type. Distinctions for describing sub sequences with the three approaches with examples Consider ACGTAGTC as an example string and what nucleotides would be in the range 2-4 - 0-based interval counting (e.g..SPDI): GT - 0-based character counting (i.e. GenBank): GTA - 1-based character counting (i.e. VCF): CGT Distinctions regarding insertions with examples. Insertions can be tricky with character counting. Now consider that you want to describe an insertion between T&A (4th and 5th characters in the example string): - 0-based interval counting (i.e. SPDI) insert at position 4. - 0-based character counting. Insert between 3&4. Note: insertions are not supported in GenBank's model. - 1-based character counting. Insert between 4&5. Note: HGVS requires specification of the dinucleotide between which the insertion goes. For VCF, this would be represented as insert after 4 and does not require other information but the result is the same.
Genetic; Genetics; Genomic coord system; Misc; Miscellaneous; Molecular genetics; Molecular pathology; MOLPATH; Nominal; Other; PCR; Point in time; Random; Spec; To be specified in another part of the message; Typ; Unspecified
Where you may see this code
You may see this code in lab systems, lab reports, EHR exports, interoperability feeds, or other structured clinical data exchanges.
Common synonyms
Genomic coordinate system Molgen Nom (Specimen)Genomic coordinate system [Type]Genomic coord systemGenomic coordinate systemMOLPATHGenomic coordinate system, SpecimenType
Frequently asked questions
Code details
Code92822-6
SystemLOINC
Display nameGenomic coordinate system Molgen Nom (Specimen)
DescriptionGenomic coordinate system
Short nameGenomic coord system
ComponentGenomic coordinate system
PropertyType
TimingPt
System (specimen)XXX
ScaleNom
MethodMolgen
ClassMOLPATH
StatusACTIVE
Order/ObservationObservation
Flags
BillableNo
Valid clinical useNo
Source
SourceLOINC
Version2.82
Releasemain
First released2.66
Last changed2.72
Consumer names
Genomic coordinate system, Specimen
Part names
Genomic coordinate systemTypePtXXXNomMolgenPoint in time (spot)Molecular genetics
About this content
This page is prepared by HealthAssure's clinical team using official coding standards from LOINC. AI tools assist with drafting explanations, which are then reviewed and verified by healthcare professionals for accuracy. This content is for informational purposes and does not replace professional medical advice. Meet our team.
