Using CliniClue to Explore SNOMED Clinical Terms

Transcription

1 Using CliniClue to Explore SNOMED Clinical Terms Web-based tutorial (abbreviated version) David Markwell The Clinical Information Consultancy Ltd (CIC Ltd) / Copyright The Clinical Information Consultancy Ltd 1

2 Outline What is CliniClue? Browser window overview Searching SNOMED CT Filtering searches Language and dialect support Hierarchy view Details view Alternative layouts and views Editing layouts and customising views Other CliniClue tools and features Copyright The Clinical Information Consultancy Ltd 2

3 This is not a SNOMED CT tutorial CliniClue allows access to many SNOMED CT features Subtype hierarchy Defining relationships Post-coordinated expressions Transformation of expressions to normal forms Subtype testing Subsets and reference sets Language subsets and reference sets Alternative hierarchies Cross maps to statistical classifications (e.g. ICD10) These features are mentioned but not explained This tutorial focuses on CliniClue not SNOMED CT itself CIC Ltd offers SNOMED CT courses Copyright The Clinical Information Consultancy Ltd 3

4 What is CliniClue? A set of terminology tools provided by CIC Ltd Including the CliniClue Browser Designed to provide easy access to SNOMED CT CliniClue Browser is freeware Download and install from Register for a free validation key to allow uninterrupted use Freeware license is as found CIC accepts no liability for errors CIC Ltd does not provide free support CliniClue is not intended for live clinical use CliniClue requires SNOMED CT in ClueData format SNOMED CT International Release is freely available in this format from Use of SNOMED CT is subject to IHTSDO licence conditions Copyright The Clinical Information Consultancy Ltd 4

5 Using CliniClue Browser overview Copyright The Clinical Information Consultancy Ltd 5

6 Browser window overview The window is divided into frames which provide different views of the terminology Selection Search Details Hierarchy Copyright The Clinical Information Consultancy Ltd 6

7 Browser window overview These frames can be resized by dragging the separating lines Selection Search Details Hierarchy Copyright The Clinical Information Consultancy Ltd 7

8 Using CliniClue Searching SNOMED CT Copyright The Clinical Information Consultancy Ltd 8

9 Searching SNOMED CT Words - any order is the default search mode The more you type the less matches appear Parts of words can be typed instead of whole words Word order does not matter Results are sorted with shortest matching phrases first Copyright The Clinical Information Consultancy Ltd 9

10 CliniClue search view Description icons Fully Specified Name Preferred Term Synonym Not used in this language or dialect Notes These settings are language/dialect dependent Red Concept status icons way appear in search view for Descriptions attached to inactive Concepts Copyright The Clinical Information Consultancy Ltd 10

11 Searching SNOMED CT Searches Start automatically Refresh as new characters are typed Progress bar Shows how many of the potential matches have been processed Copyright The Clinical Information Consultancy Ltd 11

12 Searching SNOMED CT Searches Can be paused and resumed using the pause button in the search frame toolbar Copyright The Clinical Information Consultancy Ltd 12

13 Searching SNOMED CT There are several alternative search modes Words any order Identical terms Phrase match Starts with Ends with Copyright The Clinical Information Consultancy Ltd 13

14 Searching SNOMED CT An alternative display mode Shows search results in a hierarchical form Copyright The Clinical Information Consultancy Ltd 14

15 Searching SNOMED CT Search results can be filtered by subtype hierarchy using the browser tool bar For example: Findings Procedures Body structures etc Copyright The Clinical Information Consultancy Ltd 15

16 Searching SNOMED CT Search results can be modified by language/dialect using the flags in the browser tool bar Copyright The Clinical Information Consultancy Ltd 16

17 Searching SNOMED CT Search results can be modified subsets chosen from the browser menu Copyright The Clinical Information Consultancy Ltd 17

18 Additional search filters Flexible search filters can be specified based on many criteria using a menu accessed from the filter button in search frame toolbar Copyright The Clinical Information Consultancy Ltd 18

19 Using CliniClue Selected Concept view Copyright The Clinical Information Consultancy Ltd 19

20 Select view Select view shows SNOMED CT Identifiers of the selected Concept and associated Description The term of the selected Description The name of a top-level concept of which the selected concept is a subtype E.g. clinical finding, procedure, etc. Copyright The Clinical Information Consultancy Ltd 20

21 Select view Drop down button in select view allows the last few selected concepts to be seen and selected Copyright The Clinical Information Consultancy Ltd 21

22 Using CliniClue Hierarchical view Copyright The Clinical Information Consultancy Ltd 22

23 Hierarchy view For the selected concept shows Supertype concepts (parents) E.g. Urolithiasis Kidney disease Subtype concepts (chidren) E.g. Calcium renal stone Calculus in renal pelvis etc Copyright The Clinical Information Consultancy Ltd 23

24 Hierarchy view Subtypes can be expanded by clicking the + symbol Collapsed by clicking the - symbol Copyright The Clinical Information Consultancy Ltd 24

25 Hierarchy view Supertype concepts can be traced back towards the root concept by double clicking Copyright The Clinical Information Consultancy Ltd 25

26 Hierarchy view The root of the hierarchy can be displayed by double-clicking the caption on the control E.g. the word Hierarchy Copyright The Clinical Information Consultancy Ltd 26

27 Navigational hierarchy views Alternative navigation hierarchies can be selected There is also an option to display concepts that have a defining relationship with the selected concept Copyright The Clinical Information Consultancy Ltd 27

28 Navigational hierarchy views A navigational hierarchy is displayed in the same way as the subtype hierarchy It is also possible to include subtype children for concept nodes that do not have any navigational children Copyright The Clinical Information Consultancy Ltd 28

29 CliniClue hierarchy and detail view Concept icons Current concept (active) Limited or classification concept (active) Pending move to another namespace (active) Duplicate Concept (inactive) Ambiguous Concept (inactive) Erroneous Concept (inactive) Obsolete or outdated Concept (inactive) Moved to another namespace (inactive) Retired Concept no reason given (inactive) Copyright The Clinical Information Consultancy Ltd 29

30 Using CliniClue Detail view Copyright The Clinical Information Consultancy Ltd 30

31 Details view - overview For the selected concept shows Concept Status E.g. if the concept is current or inactive Descriptions Defining Relationships Qualifiers Legacy codes Copyright The Clinical Information Consultancy Ltd 31

32 CliniClue detail view Description icons Fully Specified Name Preferred Term Synonym Not used in this language or dialect Notes These settings are language/dialect dependent Copyright The Clinical Information Consultancy Ltd 32

33 Details view - Descriptions Language settings alter the display of descriptions Preferred and synonymous terms may differ Some terms used in one language/dialect are not used in other languages or dialects (unspecified) Copyright The Clinical Information Consultancy Ltd 33

34 Details view defining relationships Each defining relationship shows A relationship type E.g. Is a Method Procedure site The value of the relationship E.g. Excision action Appendix structure Copyright The Clinical Information Consultancy Ltd 34

35 Details view qualifying relationships Each qualifying relationship shows A relationship type E.g. Access Priorities Possible values of the relationship E.g. subtypes of Surgical access values Priorities Copyright The Clinical Information Consultancy Ltd 35

36 CliniClue detail view Relationship icons Defining Relationships Qualifying Relationships Additional Relationships Historical Relationships Copyright The Clinical Information Consultancy Ltd 36

37 Using CliniClue Alternative layouts and views Copyright The Clinical Information Consultancy Ltd 37

38 Alternative layouts and views Other layouts can be loaded Layouts can be edited and customised and saved Copyright The Clinical Information Consultancy Ltd 38

39 Refine view Refine view allows post coordinated expressions to be constructed by refining concept Copyright The Clinical Information Consultancy Ltd 39

40 Refine view Refinements can be added by double-clicking the value in the relevant hierarchy When a refinement is added it is shown in the expression in the lower frame A refinement can be removed by double clicking the relationship type name in the upper frame Copyright The Clinical Information Consultancy Ltd 40

41 Refine view Refinements can also be added using a constrained search Select the relationship type then click Find value (or F3) to initiate the search Copyright The Clinical Information Consultancy Ltd 41

42 Refine view - rendering Refine view can render the same expression in different ways SNOMED Compositional Grammar HL7 CD datatype XML Human readable text Copyright The Clinical Information Consultancy Ltd 42

43 Refine view - rendering Refine view can transform an expression into its normal form This form allows logical comparisons to be made between different ways of expressing the same idea Copyright The Clinical Information Consultancy Ltd 43

44 Refine view - context The refine view can also be used to express contextual information such as family history Copyright The Clinical Information Consultancy Ltd 44

45 Mapping view Shows maps for selected concept Note: This view requires an additional database containing the mapping data. Copyright The Clinical Information Consultancy Ltd 45

46 Editing layouts to create customised views Copyright The Clinical Information Consultancy Ltd 46

47 Using CliniClue Additional Tools Copyright The Clinical Information Consultancy Ltd 47

48 Other CliniClue tools and features Graphic view Hierarchical ancestor Expressions Expression transformer Compares post-coordinated expressions Drag and drop options from CliniClue Results depend on whether shift of control key is pressed Configurable via the layout editor CliniClue API MS Excel and HTML Samples in the assist subfolder of the CliniClue installed folder Copyright The Clinical Information Consultancy Ltd 48

49 Graphic view - expression Copyright The Clinical Information Consultancy Ltd 49

50 Graphic view - hierarchy Copyright The Clinical Information Consultancy Ltd 50

51 Graphic view can be exported to PowerPoint SNOMED CT Concept Clinical finding Finding by site Disease Finding of body region Finding of trunk structure Disorder by body site General finding of abdomen Disorder of trunk Finding of pelvic structure Disorder of body system Viscus structure finding Disorder of body cavity Disorder of abdomen Urogenital finding Disorder of pelvis Urinary system finding Disorder of the genitourinary system Abdominal organ finding Disorder of the urinary system Kidney finding Kidney disease Urolithiasis Kidney stone Copyright The Clinical Information Consultancy Ltd 51

52 Expression transformer comparing alternative input expressions Copyright The Clinical Information Consultancy Ltd 52

53 Using CliniClue Setup & Installation Web-based tutorial (abbreviated version) David Markwell The Clinical Information Consultancy Ltd (CIC Ltd) / Copyright The Clinical Information Consultancy Ltd 53

54 Using CliniClue Setting up CliniClue Copyright The Clinical Information Consultancy Ltd 54

55 Click Click the the Software menu menu option to to find find CliniClue software downloads Copyright The Clinical Information Consultancy Ltd 55

56 Click Click download now nowto to obtain the the CliniClue installation file file Copyright The Clinical Information Consultancy Ltd 56

57 CliniClue setup - Installation files SNOMED CT International release in ClueData format CliniClue installation program Copyright The Clinical Information Consultancy Ltd 57

58 CliniClue setup Installing the software Copyright The Clinical Information Consultancy Ltd 58

59 Using CliniClue Running CliniClue for the first time Copyright The Clinical Information Consultancy Ltd 59

60 CliniClue setup Running the browser Copyright The Clinical Information Consultancy Ltd 60

61 Click Click Register to to find find the the CliniClue registration form form Complete the the form form and and click click Send Send request --you you will will be be ed a validation key key within within a few few minutes Copyright The Clinical Information Consultancy Ltd 61

62 CliniClue setup Validation key entry Copyright The Clinical Information Consultancy Ltd 62

63 CliniClue setup Validation key entry Copyright The Clinical Information Consultancy Ltd 63

64 CliniClue setup Validation key entry Copyright The Clinical Information Consultancy Ltd 64

65 Using CliniClue ClueData installation and SNOMED CT Edition selection Copyright The Clinical Information Consultancy Ltd 65

66 Click Click ClueData to to find find the the data data files files you you require Copyright The Clinical Information Consultancy Ltd 66

67 Scroll Scroll down down to to find find the the ClueData files files Read Read the the information about about downloads and and conditions of of use use Copyright The Clinical Information Consultancy Ltd 67

68 Click Click the the relevant link link to to download the the required ClueData file file Copyright The Clinical Information Consultancy Ltd 68

69 CliniClue setup ClueData installation Copyright The Clinical Information Consultancy Ltd 69

70 CliniClue setup ClueData installation Copyright The Clinical Information Consultancy Ltd 70

71 CliniClue setup ClueData installation Copyright The Clinical Information Consultancy Ltd 71

72 CliniClue setup ClueData installation Copyright The Clinical Information Consultancy Ltd 72

73 CliniClue setup ClueData installation Copyright The Clinical Information Consultancy Ltd 73

74 CliniClue - SNOMED CT Edition selection Copyright The Clinical Information Consultancy Ltd 74

75 Using CliniClue Optional Database Connections Copyright The Clinical Information Consultancy Ltd 75

76 CliniClue External database connections (optional) Enable CliniClue to access additional information Copyright The Clinical Information Consultancy Ltd 76

77 CliniClue External database connections (optional) Select an MS Access database; or Enter a valid database connection string Copyright The Clinical Information Consultancy Ltd 77

78 CliniClue External database connections (optional) CliniClue validates the connection and checks the database contains relevant tables Copyright The Clinical Information Consultancy Ltd 78

79 CliniClue External database connections (optional) Check Auto-connect so CliniClue opens this database automatically each time the browser is loaded Copyright The Clinical Information Consultancy Ltd 79

80 Trademark Acknowledgements CliniClue is a Registered Trademark of the Clinical Information Consultancy Ltd SNOMED, SNOMED CT, SNOMED Clinical Terms and IHTSDO are Registered Trademarks of the International Health Terminology Standards Development Organisation MS Access and MS Excel are Registered Trademarks of Microsoft Corporation Copyright The Clinical Information Consultancy Ltd 80