CP1733 Add Primary Anatomic Structure Context Group

34 CP-1733 - Add Primary Anatomic Structure Context Group for Anatomic Pathology Page 1 1 Status Assigned 2 Date of Last Update 2019/10/27 3 Person Assigned David Clunie 4 mailto:[email protected] 5 Submitter Name David Clunie 6 mailto:[email protected] 7 Submission Date 2017/08/19 8 Correction Number CP-1733 9 Log Summary: Add Primary Anatomic Structure Context Group for Anatomic Pathology 10 Name of Standard 11 PS3.3, PS3.6, PS3.16 12 Rationale for Correction: 13 The Whole Slide Imaging (and other IODs) use the Specimen Module, which includes Primary Anatomic Structure without specifying 14 a Context Group to use. 15 Specify an appropriate Context Group. Use it as Baseline rather than Defined to allow the use of other coding schemes for the same 16 concepts. 17 [Ed.Note.: A first pass at populating the necessary codes for histopathology was made by taking all the topography sites mentioned 18 in ICD-O-2 and canonicalizing, sorting and unifying them. These have not yet been matched to existing codes used in the standard 19 or other sources, but will be, pending feedback on each concepts appropriateness in the list (or otherwise). In addition, "umbilical 20 cord" was added manually. and used to illustrate a potential mapping.] 21 [Ed.Note.: We probably do not want to just reuse, as opposed to include, CID 4031 Common Anatomic Regions, since there will be 22 specific structures that are commonly sampled but not used as radiology imaging regions. Conversely, there may be may regions 23 in CID 4031 that are radiology-specific and we might not want to re-use. Initially let's focus on producing exhaustive lists of (a) what 24 Anatomic Pathology needs and (b) what is inappropriate for Anatomic Pathology and we can deal with the appropriate refactoring 25 of existing context groups in a later step. The entire Annex L is include for the time being as a reference for (most of) the SNOMED 26 anatomic codes used in DICOM.] 27 [Ed.Note.: The name "Anatomic Pathology" is used for the Context Group in order to include gross as well as histopathology, and 28 to include surgical as well as cytopathology, and forensic and animal applications, yet narrow the context to not include all types of 29 clinical pathology specimens, i.e., exclude blood counts, biochemistry specimens, etc.] 30 [Ed.Note.: Consider reviewing with and/or cross-reference to relevant LOINC procedure codes and the LOINC parts that correspond.] 31 [Ed.Note.: Add to SNOMED Subset: 29870000 (Request ID xxxxx).] 32 Correction Wording: 33 - Assigned - 48 CP-1733 - Add Primary Anatomic Structure Context Group for Anatomic Pathology Page 2 1 Amend DICOM PS3.3 as follows (changes to existing text are bold and underlined for additions and struckthrough for removals): 2 Table 10-8. Primary Anatomic Structure Macro Attributes 3 Attribute Name Tag Type Attribute Description 4 Primary Anatomic Structure (0008,2228) 3 Sequence of Items that identifies the primary anatomic 5 Sequence structure(s) of interest in this Instance. 6 One or more Items are permitted in this Sequence. 87 >Include Table 8.8-1 "Code Sequence Macro Attributes" Context ID may be defined in the macro invocation. 9 >Primary Anatomic Structure (0008,2230) 3 Sequence of Items that modifies the primary anatomic 10 Modifier Sequence structure of interest in this Instance. 11 One or more Items are permitted in this Sequence. 12 >>Include Table 8.8-1 "Code Sequence Macro Attributes" Defined CID 2 “Anatomic Modifier”. 13 Table C.7.6.22-2. Specimen Macro Attributes 14 Attribute Name Tag Type Attribute Description 15 ... ... ... ... 16 Specimen Description (0040,0560) 1 Sequence of identifiers and detailed description of the specimen(s) 17 Sequence being imaged. 18 One or more Items shall be included in this Sequence. 19 Each specimen imaged in the Pixel Data shall be identified by an Item 20 in this Sequence. Other specimens in/on the container, but not imaged 21 in the Pixel Data, may also be identified by Items in this Sequence. 22 ... ... ... ... 2823 >Include Table 10-8 "Primary Anatomic Structure Macro Original anatomic location in patient of specimen. This location may 2924 Attributes" be identical to that of the parent specimen, may be further refined by 25 modifiers depending on the sampling procedure for this specimen, or 26 may be a distinct concept. 27 Baseline CID ccc1 Anatomic Structures for Anatomic Pathology. 30 ... ... ... ... 31 Amend DICOM PS3.16 as follows (changes to existing text are bold and underlined for additions and struckthrough for removals): 32 CID ccc1 Anatomic Structures for Anatomic Pathology 3433 Type: Extensible 3635 Version: yyyymmdd 3837 UID: 1.2.840.10008.6.1.uuu1 39 Table CID ccc1. Anatomic Structures for Anatomic Pathology 40 Coding Code Value Code Meaning SNOMED-CT UMLS Concept 41 Scheme Concept ID Unique ID 42 Designator 43 abdomen 44 abdominal aorta 45 abdominal esophagus 46 abdominal lymph node 47 - Assigned - 45 CP-1733 - Add Primary Anatomic Structure Context Group for Anatomic Pathology Page 3 1 Coding Code Value Code Meaning SNOMED-CT UMLS Concept 2 Scheme Concept ID Unique ID 3 Designator 4 abdominal vena cava 5 abdominal wall 6 abdominal wall muscle 7 abducens nerve 8 accessory nasal sinus 9 accessory nerve 10 accessory sinus 11 accessory sinuses 12 acetabulum 13 acoustic nerve 14 acromioclavicular joint 15 adenoid 16 adipose tissue 17 adnexa 18 adrenal 19 adrenal gland 20 ala nasi 21 alveolar mucosa 22 alveolar ridge mucosa 23 alveolus 24 ampulla of vater 25 anal canal 26 anal sphincter 27 and rectosigmoid junction 28 ankle 29 ankle joint 30 anorectal junction 31 anorectum 32 antecubital space 33 anterior 2/3 of tongue 34 anterior 2/3 of tongue dorsal surface 35 anterior 2/3 of tongue ventral surface 36 anterior cranial fossa 37 anterior floor of mouth 38 anterior mediastinum 39 anterior surface of epiglottis 40 anterior tongue 41 anterior wall of bladder 42 anterior wall of nasopharynx 43 anterior wall of stomach 44 - Assigned - 45 CP-1733 - Add Primary Anatomic Structure Context Group for Anatomic Pathology Page 4 1 Coding Code Value Code Meaning SNOMED-CT UMLS Concept 2 Scheme Concept ID Unique ID 3 Designator 4 antrum 5 antrum of stomach 6 anus 7 anus and anal canal 8 aorta 9 aortic body and other paraganglia 10 aortic lymph node 11 aponeurosis 12 appendix 13 arachnoid 14 areola 15 arm 16 artery 17 articular cartilage 18 articular cartilage of limb 19 aryepiglottic fold 20 arytenoid cartilage 21 arytenoid fold 22 ascending colon 23 atlas 24 auditory canal 25 auditory tube 26 auricle 27 auricular canal 28 auricular cartilage 29 auricular lymph node 30 autonomic nervous system 31 autonomic nervous system of orbit 32 axilla 33 axillary artery 34 axillary lymph node 35 axillary tail of breast 36 axis 37 back 38 bartholin gland 39 basal ganglia 40 base of tongue 41 basis pedunculi 42 biceps brachii muscle 43 biceps femoris muscle 44 - Assigned - 45 CP-1733 - Add Primary Anatomic Structure Context Group for Anatomic Pathology Page 5 1 Coding Code Value Code Meaning SNOMED-CT UMLS Concept 2 Scheme Concept ID Unique ID 3 Designator 4 bile duct 5 biliary canaliculus 6 biliary duct 7 biliary tract 8 bladder 9 bladder neck 10 bladder wall 11 blood 12 blood vessel 13 body of pancreas 14 body of penis 15 body of stomach 16 body of uterus 17 bone 18 bone marrow 19 bone of ankle 20 bone of arm 21 bone of back 22 bone of finger 23 bone of foot 24 bone of forearm 25 bone of hand 26 bone of heel 27 bone of hip 28 bone of leg 29 bone of limb 30 bone of shoulder 31 bone of thumb 32 bone of toe 33 bone of wrist 34 bones joints and articular cartilage 35 bones joints and articular cartilage of limbs 36 bones of skull and face and associated joints 37 border of tongue 38 bowel 39 brachialis muscle 40 brachial lymph node 41 brachial nerve 42 brachial plexus 43 brain 44 - Assigned - 45 CP-1733 - Add Primary Anatomic Structure Context Group for Anatomic Pathology Page 6 1 Coding Code Value Code Meaning SNOMED-CT UMLS Concept 2 Scheme Concept ID Unique ID 3 Designator 4 brain and central nervous system 5 brain stem 6 branchial cleft 7 breast 8 broad ligament 9 bronchial lymph node 10 bronchiole 11 bronchogenic 12 bronchopulmonary lymph node 13 bronchus 14 bronchus and lung 15 brow 16 buccal cavity 17 buccal mucosa 18 buccal sulcus 19 bursa 20 buttock 21 calf 22 calvarium 23 canthus 24 cardia 25 cardiac atrium 26 cardiac ventricle 27 cardioesophageal junction 28 carina 29 carotid artery 30 carotid body 31 carpal bone 32 cartilage 33 cartilage of ear 34 cartilage of limb 35 cauda equina 36 cecum 37 celiac artery 38 celiac lymph node 39 central nervous system 40 central portion of breast 41 central white matter 42 cerebellopontine angle 43 cerebellum 44 - Assigned - 45 CP-1733 - Add Primary Anatomic Structure Context Group for Anatomic Pathology Page 7 1 Coding Code Value Code Meaning SNOMED-CT UMLS Concept 2 Scheme Concept ID Unique ID 3 Designator 4 cerebral cortex 5 cerebral hemisphere 6 cerebral meninges 7 cerebral peduncle 8 cerebral ventricle 9 cerebral white matter 10 cerebrum 11 ceruminal gland 12 cervical canal 13 cervical cord 14 cervical esophagus 15 cervical lymph node 16 cervical plexus 17 cervical region 18 cervical stump 19 cervix

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