Pam Banning

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  • in reply to: Aspergillus fumigatus Ag #22734

    Pam Banning
    Participant

    Hello Maria,

    Does your assay happen to test for the galactomannan antigen, that is common across several fungi genus.  Here’s the RELMA definition : Galactomannan is a polysaccharide cell wall component in certain species of fungi. The assay is used for the early diagnosis of invasive aspergillosis in immunocompromised patients undergoing hematopoietic stem cell transplantation and in patients with hematological malignancy. Other fungal sources galactomannan include Alternaria, Penicillium and Paecilomyces species, but these fungi are rarely seen in invasive disease.

    This is the analyte I use in client mappings; there are several serum specimens available.

    Best regards,

    Pam

    in reply to: Codes for LOINC class #22687

    Pam Banning
    Participant

    Hi Maria,

    I was deferring to the HL7 CDA RMIM to define if there should be alphabetic strings or numeric code, pertaining to LOINC class. This was based on a premise that the reporting is taking place on assays with LOINC terms attached. It’s a “drill down” from the involved LOINC terms for each patient to have a table pull of the associated CLASS field in the LOINC database.

    As for the second question, each LOINC term only has one class assigned it in the database. In our experience the LOINC-assigned class serves as a baseline of organization, but it does not mimic the real world laboratory workstations/departments (which I am aligning with the “lab specialty” term being used).  For example, the PULM class blood gas measurements are often performed in a medical laboratory setting, rather than the pulmonary department. However, a medical laboratory will provide a variety of assays (described in their electronic Directory of Services [eDOS]) and these cross many LOINC classes.

    Perhaps I am not understanding the context of the word ‘CLASS’ in the original question.

    Pam

    in reply to: Codes for LOINC class #22685

    Pam Banning
    Participant

    Hi Maria!

    Not being familiar with Italian laws, but realizing HL7 CDA has the RMIM to identify source material; wouldn’t the HL7 CDA RMIM prescribe the format definition for the related lab specialty class? It seems the alpha character format of the CLASS field within the LOINC database (DRUGDOSE, DRUG/TOX, MOLPATH.MUT, etc) that is easily retrievable by the computer.

    Thanks for helping educate me,

    Happy Friday!

    Pam

    in reply to: LOINC Snomed link #22653

    Pam Banning
    Participant

    Hi Razina,

    Your question brought three scenarios to mind. Two of the scenarios have to do with answers encoded to SNOMED CT. Any of the microbiology LOINC terms with PRID property, such as 81655-3 Respiratory pathogens DNA and RNA identified in Respiratory specimen by NAA with probe detection, have an example answer lists containing types of organisms found, and each of them would have a SNOMED CT term. Example answers for 81655-3 are No organism(s) detected, Influenza A (H3N2), Adenovirus, Parechovirus, and much more. If more than one organism’s DNA is found, there are more than one SNOMED CT term in the answer.

    The second scenario is of post coordination of phrased answers.  LOINC term 36903-3 is testing for Chlamydia trachomatis & Neisseria gonorrhoeae DNA; example answers here are phrases: Chlamydia trachomatis detected; Chlamydia trachomatis not detected. Multiple SNOMED CT terms would need to be used for the organism and the qualifier.

    The third scenario pertains to the composition of the LOINC Parts to a single LOINC term. Translating each LOINC Part to its SNOMED CT counterpart brings up a post coordinated expression, of which there’s been two subset file releases for public review in recent years. More explanation of post coordinated expressions can be found at https://confluence.ihtsdotools.org/display/DOCSTART/7.+SNOMED+CT+Expressions

    With an abundance of possibilities, I’m not sure there’s an easy answer to your second question “what does that mean about the result.” Clinically, I wouldn’t be able to speculate. Theoretically in format, I would say it means the result has complexity.

    Have a great day, Hope this helps

    Pam

    in reply to: Codes for LOINC class #22645

    Pam Banning
    Participant

    Hi Maria!

    While not being certain what you’re asking your database/use case to achieve, I would recommend you let the loinc.csv class (ALLERGY, CHEM, etc) and classtype field starnd for themselves (1,2,3,4). Are you able to link the loinc table to your database fields and cross-check that way?

    Let me know what outcome you’re trying to derive, and I’ll try to help further.

    All the best,

    Pam

    in reply to: Deficiency Factor 10 #22605

    Pam Banning
    Participant

    Hello Maria!

    Hope all is well with you and yours. From the LOINC terms referenced, you have a molecular genetic assay for F10 gene targeted mutation analysis. I checked https://loinc.org/submissions/queue/ and didn’t find F10 or Factor X  in the search. A literature reference search found https://www.ncbi.nlm.nih.gov/gene/2159 ; and http://www.omim.org/entry/613872  .

    It seems totally suited for your next submission!

    All the best,

    Pam Banning


    Pam Banning
    Participant

    Hi Barry,

    It’s been my experience if you propose the specific genes where sequencing is being offered, Regenstrief does consider them. In June 2018 LOINC User’s Manual, section 3.9.4.2 calls out that sequencing as a particular method that will be called out. I know there are people within LabCorp, Quest Diagnostics, Mayo Medical Labs, and ARUP responsible for submissions from their test compendiums. We just never know where in their queues the sequencing assays reside. If you need any assistance in getting started on a submission, I’m happy to help direct.

    Best regards,

    Pam

    in reply to: Hepatitis A Panel #22477

    Pam Banning
    Participant

    Hi Tym!

    Your test message came through; all is well  At first glance, there is one panel established, 53775-3, with three required elements (53776-1 is an interpretation element of IgM and total).  Might it be suitable for your use?

    Kind regards,

    Pam

    in reply to: UCUM codes and LOINC Properties #21134

    Pam Banning
    Participant

    Hi Charles,
    I’m unaware of any table Regenstrief provides in this manner. The UCUM documents are descriptions and instructions on translation local unit displays to the standard UCUM format. There are example UCUM tied with terms in RELMA (and therefore extrapolation is possible). In early, early LOINC days, 3M had internally used synonyms of properties to our units of measure domain. Everyone’s foundation has matured with time, and toolsets along with them.
    Sorry to not help you more specifically.
    Pam Banning
    pdbanning@mmm.com


    Pam Banning
    Participant

    Hi Samuel,
    Once you have a good handle on the actual scope (number of terms; orders and results?; departments, etc), the benefactors internally (who will become your enablers if there are barriers), the projects competing for your resources and the desired timeline, it’s probably a good time to start a vendor search. Be sure and know your company’s contracting process, because that time needs to be included, as well as search time. 3M Health Information has stored on the Documents section of the LOINC website a sample project plan (internal or external). I have recently updated it, if you’d like a copy email me.
    Hope this helps,
    Pam Banning

    [Moderator’s note: the file to which Pam refers is available for download.]

    • This reply was modified 1 year ago by  Tim Briscoe. Reason: Added link to download
    in reply to: Properties #18470

    Pam Banning
    Participant

    Hello, please review the LOINC User’s Guide section 2.3 for the formal description. I like to think of this attribute as keeping numeric values in distinct aggregates (apples and apples vs apples and oranges). A value of 25 could be 25 mg/dL, 25 mmol/L, 25 IU/L; these are all very different in concentration basis. Having distinct LOINC codes allows the computers to recognize these are not to be placed on the same reference line, nor trend them together.

    Hope this helps!
    Pam

    • This reply was modified 1 year ago by  Pam Banning. Reason: grammar
    in reply to: RELMA search LOINC database not working #18157

    Pam Banning
    Participant

    Hi Julian,
    Use the first tab, labeled Search, instead of the second tab, Mapping Screen. You’ll have everything you need. If you need the style of the mapping search window, you can just type over the LMOF without incident.

    Have a happy and safe 4th of July.
    Pam Banning
    pdbanning@mmm.com

    in reply to: Order panel standardization #17929

    Pam Banning
    Participant

    Hi Vincent,

    I don’t know how I missed this, very sorry for the delay. Regenstrief has asked for feedback on a particular LOINC Order Panel through the Contact Us page under submissions. I have already turned in feedback on Electrolytes and Arterial Blood gases. They have not been addressed as yet.
    Best regards,
    Pam Banning
    3M Health Information Systems
    pdbanning@mmm.com


    Pam Banning
    Participant

    Hello, 3M staffers found this for your consideration:

    From the <span style=”text-decoration: underline;”>Manual of Clinical Microbiology, 8<sup>th</sup> Edition, 2003 pg. 1158-1159  </span>:

    “Methods that are commonly used to test rapidly growing aerobic and facultative anaerobic bacteria are, for a variety of reasons, unsuitable for testing most mycobacterial species.  For example, the conventional  disk diffusion method is not suitable for testing slowly growing mycobacteria because the drug diffuses throughout the medium before growth of the mycobacteria is significantly affected.  The methods generally accepted for determining the antimicrobial susceptibility of mycobacteria are based on the growth of the microorganisms on solid or in liquid medium containing a specified concentration of a single drug.”

    “Based on the current NCCLS guidelines, a rapid susceptibility testing method should be used in conjunction with rapid methods of primary culture and identification to allow the earliest possible detection of resistance.”

    Sorry for the ancient reference but it should suffice because organism growth rates still determine the testing method.  Generally, all susceptibility methods are used based on CLSI (formerly NCCLS) guidelines to which the public and IHTSDO do not have access.  They are a purchased set of guidelines.  The Mayo reference below is the best I can find as it actually references the CLSI guidelines.

    http://www.mayomedicallaboratories.com/articles/features/mycobacteria/clsi.html#rapidntm

    https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3197070/   Mtb testing, 2011 reference

    There are rapid methods for susceptibility testing on Mtbc (a slow-growing organism) now also based on other reading so if we ever get AFB drugs for mapping, it behooves us to ask the method of testing.

    Best regards,

    Pam & Elva

    in reply to: Sending textual comments #17442

    Pam Banning
    Participant

    Hi Craig,

    We use Annotation Comment  48767-8 for such a comment. The definition reads “This is an observation code indicating that a particular observation represents a free text annotation comment that can be appended to some other observation such as a lab result.”

    We like this better than the Service Comment series, because they can be used for a different intent in the receiving system than in your sending system, and the note could get misinterpreted.  Both sides using 48767-8 would understand that this is additional information.

    Hope this helps,

    Pam Banning, pdbanning@mmm.com

Viewing 15 posts - 1 through 15 (of 95 total)