Pathogens: Difference between revisions

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In ICD10 Pathogens are coded as their own diagnosis codes:

The [[ICD10 Diagnosis List]] contains specific codes for a number of different bacteria, viruses, fungi/yeast, mycobacteria and miscellaneous types of organisms. The entire list can be found in category and subcategories:

Pathogens are coded as their own diagnosis codes:

~~== The 5 day post discharge rule for culture report follow up ==~~

They are always entered as [[Combined ICD10 codes]] with an [[Infections in ICD10|infection]], but not all infections require pathogens. See [[Template:ICD10 Guideline Infection]], [[Infections in ICD10]] for more info.

~~Follow up all culture reports up to 5 days after discharge from unit. If pathogen is still not available then, enter~~ [[~~Unknown Pathogen~~]].

~~Waiting for lab microbiology results:(5 days usual for blood cultures, 2 week for Cadham)~~

*Blood product collection process to include those given during Plasmaphoresis and Dialysis.

~~=== Special Codes ===~~

* [[~~Not an Infection (ICD10 pathogen alternative)]]~~

* {{ICD10|~~needs review}} We used to have a code [[No Culture Sent or Resulted~~]] ~~; if we want cross-checks requiring this to be filled in we will need some sort of counterpart to that~~. ~~Ttenbergen 20:03, 2017 December 3 (CST)~~

* [[Infectious disease NOS OR for buglist organism NOS]]

~~=={{CCMDB Data Integrity Checks|needs review}}==~~

~~Will need review with move to~~ [[ICD10]]~~. {{ICD10|needs review}}~~

~~See~~ [[~~Check~~ Infections ~~must have pathogens]]~~

~~[[Category:~~ ICD10]]

Information about pathogens can be found in the patient's chart's [[Lab and culture reports]]; see that page for specific use instructions.

= ~~Old coding~~ =

== NOS pathogens ==

~~The '''pathogens'''~~ are a list of ~~possible entries that make up the sub-~~code for ~~diagnoses categorized as~~ [[~~:Category: Infection | Infection~~]].

*In each of those categories there are a number of specific bugs with their own codes (e.g. B95.3 is Strep pneumoniae)

*~~Refer to:~~ [[~~UPL~~]] - [[~~Universal Pathogen List~~]], ~~for a list~~ of ~~"bugs" we track.~~

*But obviously we can't list every bug of any type, so for each of those categories there is also a "wastebasket" code for "NOS". For example, if the bug is a specific bacteria but it's not in our list, then use [[Bacteria, NOS]], etc. These are:

**[[Bacteria, NOS]]

**[[Virus, NOS]]

**[[Fungus or yeast, NOS]]

**[[Nontuberculous mycobacteria]]

**[[Other type of infectious organism, NOS]]

*~~The pathogen subcodes are drawn~~ from the '''[[~~table S_Pathogens~~]]''' ~~table in [[CCMDB.mdb]]~~.

=== NOS vs Unknown in the context of pathogens ===

*We must distinguish '''NOS''' from '''unknown'''.

**''NOS'' means that we do know the bug, but it's not in our list of specific pathogens

**''[[Infectious organism, unknown]]'' means we assume that there IS in fact a pathogen, but we have no idea about it's actual identity.

=== Special Codes ===

*[[~~No Culture Sent or Resulted~~]]

* [[Not an Infection (ICD10 pathogen alternative)]] - included for [[cross check]]s when entering [[:Category:Potential infection]]s

*[[~~Unknown Pathogen~~]]

* [[Infectious organism, unknown]] - eg for negative culture

Could someone please fill in specifics about how or when these are to be used? Specifically, if we know specific bugs, are there any that should be coded implicitly even if there are others (ie precedence rules)?

~~== Coding when antibiotics are given but no cultures ==~~

~~If there is evidence of an ongoing infection, even if no further culture code the previous pathogen.~~

~~If no culture is sent then we choose the subcode [[No Culture Sent or Resulted]]~~

== Related Articles ==

[[Category: ~~UPL~~]]

[[Category:ICD10]]

[[Category: ~~Infection~~|*]]

[[Category:Pathogens| *]]

[[Category: ~~Diagnosis Coding~~]]

[[Category:Infectious disease| *]]

@@ Line 1: / Line 1: @@
-In ICD10 Pathogens are coded as their own diagnosis codes:
+The [[ICD10 Diagnosis List]] contains specific codes for a number of different bacteria, viruses, fungi/yeast, mycobacteria and miscellaneous types of organisms. The entire list can be found in category and subcategories:
+{{subcat collapsible|supercategory = Pathogens}}
+Pathogens are coded as their own diagnosis codes:
 {{ListICD10Category | categoryName = Pathogens}}
-== The 5 day post discharge rule for culture report follow up ==
+They are always entered as [[Combined ICD10 codes]] with an [[Infections in ICD10|infection]], but not all infections require pathogens. See [[Template:ICD10 Guideline Infection]], [[Infections in ICD10]] for more info.
-Follow up all culture reports up to 5 days after discharge from unit. If pathogen is still not available then, enter [[Unknown Pathogen]].
-Waiting for lab microbiology results:(5 days usual for blood cultures, 2 week for Cadham)
-*Blood product collection process to include those given during Plasmaphoresis and Dialysis.
-=== Special Codes ===
-* [[Not an Infection (ICD10 pathogen alternative)]]
-* {{ICD10|needs review}} We used to have a code [[No Culture Sent or Resulted]] ; if we want cross-checks requiring this to be filled in we will need some sort of counterpart to that. Ttenbergen 20:03, 2017 December 3 (CST)
-* [[Infectious disease NOS OR for buglist organism NOS]]
-=={{CCMDB Data Integrity Checks|needs review}}==
-Will need review with move to [[ICD10]]. {{ICD10|needs review}}
-See [[Check Infections must have pathogens]]
-[[Category: ICD10]]
+Information about pathogens can be found in the patient's chart's [[Lab and culture reports]]; see that page for specific use instructions.
-= Old coding =
+== NOS pathogens ==
-The '''pathogens''' are a list of possible entries that make up the sub-code for diagnoses categorized as [[:Category: Infection | Infection]].
+*In each of those categories there are a number of specific bugs with their own codes (e.g. B95.3 is Strep pneumoniae)
-*Refer to: [[UPL]] - [[Universal Pathogen List]], for a list of "bugs" we track.
+*But obviously we can't list every bug of any type, so for each of those categories there is also a "wastebasket" code for "NOS".  For example, if the bug is a specific bacteria but it's not in our list, then use [[Bacteria, NOS]], etc.  These are:
+**[[Bacteria, NOS]]
+**[[Virus, NOS]]
+**[[Fungus or yeast, NOS]]
+**[[Nontuberculous mycobacteria]]
+**[[Other type of infectious organism, NOS]]
-*The pathogen subcodes are drawn from the '''[[table S_Pathogens]]''' table in [[CCMDB.mdb]].
+=== NOS vs Unknown in the context of pathogens  ===
+*We must distinguish '''NOS''' from '''unknown'''.
+**''NOS'' means that we do know the bug, but it's not in our list of specific pathogens
+**''[[Infectious organism, unknown]]'' means we assume that there IS in fact a pathogen, but we have no idea about it's actual identity.
 === Special Codes ===
-*[[No Culture Sent or Resulted]]
+* [[Not an Infection (ICD10 pathogen alternative)]] - included for [[cross check]]s when entering [[:Category:Potential infection]]s
-*[[Unknown Pathogen]]
+* [[Infectious organism, unknown]] - eg for negative culture
-Could someone please fill in specifics about how or when these are to be used? Specifically, if we know specific bugs, are there any that should be coded implicitly even if there are others (ie precedence rules)?
-== Coding when antibiotics are given but no cultures ==
+{{Data Integrity Check List}}
-If there is evidence of an ongoing infection, even if no further culture code the previous pathogen.
-If no culture is sent then we choose the subcode [[No Culture Sent or Resulted]]
+== Related Articles ==
+{{Related Articles}}
-[[Category: UPL]]
+[[Category:ICD10]]
-[[Category: Infection|*]]
+[[Category:Pathogens| *]]
-[[Category: Diagnosis Coding]]
+[[Category:Infectious disease| *]]