diff --git a/docs/Approach.html b/docs/Approach.html new file mode 100644 index 0000000..0a397a2 --- /dev/null +++ b/docs/Approach.html @@ -0,0 +1,720 @@ + + + + + + + + + + + + + +Medical Imaging Extension Model + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
+ + + +
+
+
+
+
+ +
+ + + + + + + + + +


The medical imaging extension proposal represents imaging +characteristics through two new tables—Image_occurrence and +Image_features.

+


+
+

Representation

+


+
+

Image_occurrence

+


Table Description

+

The Image_occurrence table describes imaging events and provides data +lineage to the imaging study stored in DICOM format.

+


User Guide

+

Each row in Image_occurrence represents a collection of images +acquired on an imaging modality using a contiguous imaging technique. +This is referred to as a DICOM series. Each DICOM series can be an +independent modality and acquisition technique grouped within a DICOM +study (e.g., PET/CT scan).

+


+ +++++++ + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
cdmTableNamecdmFieldNameisRequiredcdmDatatypeuserGuidance
image_occurrenceimage_occurrence_idYesintegerThe unique key is given to an imaging study record +(often referred to as the accession number or imaging order number)
image_occurrenceperson_idYesintegerThe person_id of the Person for whom the procedure is +recorded. This can be a system-generated code or adopted from original +source.
image_occurrenceprocedure_occurrence_idYesintegerThe unique key is given to a procedure record for a +person. Link to the Procedure_occurrence table.
image_occurrencevisit_occurrence_idNointegerThe unique key is given to the visit record for a +person. Link to the Visit_occurrence table.
image_occurrenceanatomic_site_concept_idNointegerAnatomical location of the imaging procedure by the +medical acquisition device (gross anatomy). It maps the +ANATOMIC_SITE_SOURCE_VALUE to a Standard Concept in the Spec Anatomic +Site domain. This should be coded at the lowest level of +granularity.
image_occurrencewadors_uriNovarchar (max)A Web Access to DICOM Objects via Restful Web Services +Uniform Resource Identifier on study level.
image_occurrencelocal_pathYesvarchar (max)“Universal Naming Convention (UNC) path to the folder +containing the image object file access via a storage block access +protocol. (e.g., \Server)”
image_occurrenceimage_occurrence_dateYesdateThe date the imaging procedure occurred.
image_occurrenceimage_study_UIDYesvarchar (250)DICOM Study UID
image_occurrenceimage_series_UIDYesvarchar (250)DICOM Series UID
image_occurrencemodalityYesvarchar (250)“DICOM-defined value (e.g., US, CT, MR, PT, DR, CR, +NM)”
+


+
+
+

Image_feature

+


Table Description

+

Imaging features are comprised of segmentation algorithm results +executed on the images, image acquisition parameters, and structured +radiology reports. The Image_feature table describes the characteristics +of the images and their provenance.

+


+

User Guide

+

Each row will contain a uniquely identified feature with links to the +source imaging as well as the clinical domain table the feature is +located in. The image_feature_type_concept_id will describe the method +used to create that feature (e.g., machine learning algorithm, DICOM +structured report). Image acquisition parameters will also be stored in +the clinical domain tables and linked to the source images through the +image feature table. This allows the cardinality to include multiple +acquisition parameters as well as the benefit of being able to query +them with existing tooling in the OHDSI platform.

+


+ +++++++ + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + +
cdmTableNamecdmFieldNameisRequiredcdmDatatypeuserGuidance
image_featureimage_feature_idYesintegerThe unique key is given to an imaging feature.
image_featureperson_idYesintegerThe person_id of the Person table for whom the the +procedure is recorded. This can be a system-generated code or adopted +from original source.
image_featureimage_occurrence_idYesintegerThe unique key of the Image_occurrence table.
image_featuretable_concept_idYesinteger“The concept_id of the domain table that feature is +stored in Measurement, Observation, etc. This concept should be used +with the table_row_id.”
image_featuretable_row_idYesintegerThe row_id of the domain table that feature is +stored.
image_featureimage_feature_concept_idYesintegerConcept_id of standard vocabulary—often a LOINC or +RadLex of image features
image_featureimage_feature_type_concept_idYesinteger“This field can be used to determine the provenance of +the imaging features (e.g., DICOM SR, algorithms used on images)”
image_featureimage_finding_concept_idNointeger“RadLex or other terms of the groupings of image +feature (e.g., nodule)”
image_featureimage_finding_idNointegerInteger for linking related image features. It should +not be interpreted as an order of clinical relevance.
image_featureanatomic_site_concept_idNointegerThis is the site on the body where the feature was +found. It maps the ANATOMIC_SITE_SOURCE_VALUE to a Standard Concept in +the Spec Anatomic Site domain.
image_featurealg_systemNovarchar(max)“URI of the algorithm that extracted features, +including version information”
image_featurealg_datetimeNodatetimeThe date and time of the algorithm processing.
+
+
+ + + +
+
+ +
+ + + + + + + + + + + + + + + + diff --git a/docs/background.html b/docs/background.html index 055c047..c166fef 100644 --- a/docs/background.html +++ b/docs/background.html @@ -29,9 +29,6 @@ h6 {font-size: 12px;} code {color: inherit; background-color: rgba(0, 0, 0, 0.04);} pre:not([class]) { background-color: white } - - - @@ -226,75 +223,6 @@ - - - @@ -304,16 +232,6 @@
- -
-
-
-
-
- -
- - -
@@ -475,35 +344,6 @@

test4

-