| OMB Approved. 0920-XXXX Exp. Date XX/XX/2020 |
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| Public reporting burden of this collection of information is estimated to average 60 minutes per response, including the time for reviewing instructions, searching existing data sources, gathering and maintaining the data needed, and completing and reviewing the collection of information. An agency may not conduct or sponsor, and a person is not required to respond to a collection of information unless it displays a currently valid OMB Control Number. Send comments regarding this burden estimate or any other aspect of this collection of information, including suggestions for reducing this burden to CDC/ATSDR Reports Clearance Officer, 1600 Clifton Road NE, MS D-74, Atlanta, Georgia 30333; ATTN: PRA 0920-XXXX | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Legend | Abbreviations | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| field must be filled out | LN | LOINC | SCT | SNOMED CT | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| either one of the highlighted fields must be filled out | PLT | Public Health Lab Test | PLR | Public Health Lab Results | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| either one of the highlighted fields must be filled out | L | Local | HL70070 | Specimen type table from V2.3.1 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| either one of the highlighted fields must be filled out | HL70487 | Specimen type table from V2.5.1 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| either one of the highlighted fields must be filled out | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| either one of the highlighted fields must be filled out | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| either one of the highlighted fields must be filled out | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| section separators | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| YYYYMMDD[HHMMSS] | Date format where the first 4 (Y) are the year, the next 2 (M) the month, then next 2 (D) the day - to use for reporting dates; [] indicates optionality - so in this case the time is optional: the next 2 (H) the hour, the next 2 (M) the minutes, the next 2 (S) the seconds | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Row "Use of csv file": | Indicates if use is for CDC = CDC and PHA_ELR | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Row "Mapping to HL7": | Provides the mapping to the HL7 element, where it can be found based on V2.5.1 - mapping to other HL7 versions will be added at a later point in time | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Row "Sections": | Identifies the sections | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Row "Instructions": | Provides some instructions / allowed formats or values | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Row "CSV Column name": | CSV column headers and the only thing that will be in the upload file - see tab "csvFileHeadersOnly_CDC_COVID19" for CDC specific file | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Epi Questions | For each disease there will be a list of required / desired EPI questions that are of interest - the appropriate list should be provided accordingly - a few generic questions would be Patient_age_at_specimen_collection, or Illness_onset_date or pregnancy_status | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Use of csv file | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | CDC | ||||||||
| Mapping to HL7 | OBR-3 | SPM-2.2.1 (v2.5.1) | SPM-2.1.1 (v2.5.1) | SPM-2.1.2 (v2.5.1) | OBX-23.1 (v2.5.1) | OBX-23.10 (v2.5.1) | OBX-23.7 (v2.5.1) | OBX-24.1 (v2.5.1) | OBX-24.3 (v2.5.1) | OBX-24.4 (v2.5.1) | OBX-24.5 (v2.5.1) | PID-3.1 | PID-3.4 | PID-3.5 | PID-7 | PID-8 | PID-10.2 | PID-11.3 | PID-11.4 | PID-11.5 | PID-11.9 | PID-22.2 | OBX-5.1 if NM or OBX-5.2, if SN, where OBX-3.1 = 21612-7, 29553-5, 35659-2, 30525-0 OBX-6 should be years (not sure how to handle this given the bad HL7 I have seen, ideally we could use OBX-6.2, so maybe we need to add age unit for the HL7?! |
OBX-5, where OBX-3.1 = 11368-8 OBX-2 = DT |
OBX-2 = CE or CWE OBX-5.2, where OBX-3.1 = 82810-3, 11449-6 expected answers would be Yes: Y^Yes^HL70136 or 77386006^Patient currently pregnant^SCT or 102874004^Possible pregnancy^SCT No = N^No^HL70136 or 60001007^Not pregnant^SCT UNK^Unknown^NULLFL not sure what else - just take what we get |
OBX-2 = CE or CWE OBX-5.2, where OBX-3.1 = 75325-1, INV576(PHINQUESTION) expected answers: Y^Yes^HL70136 N^no^HL70136 UNK^Unknown^NULLFL not sure what else - just take what we get |
OBX-2 = CE or CWE OBX-5.2, , where OBX-3.1 = 56816-2, LAB330 (PHINQUESTION) expected answers: I^Inpatient^HL70004 or 44065400^Inpatient environment^SCT O^Outpatient^HL70004 309904001^Intensive Care Unit^SCT 282E00000X^Long Term Care Hospital^HCPT or 42665001^Nursing home^SCT not sure what else - just take what we get OR PV1-2 coded with I = Inpatient E = Emergency O = Outpatient |
NK1-11 may provide the job class code (NK1-5 = SEF for self, to give us information about the patient) OBX-2 = CE or CWE OBX-5.2, , but NOT SURE about the code they will use, if anyone even has this expected answers: Y^Yes^HL70136 N^no^HL70136 UNK^Unknown^NULLFL not sure what else - just take what we get |
OBX-2 = CX OBX-5.1 &OBX-5.4, where OBX-3.1 = 94659-0, or PLT248 AND OBX-5.5. = "PHC" - need to keep the assigning authority, if sent as well (just use the ^) |
SPM-4.1 (v2.5.1) OBR-15.1.1 (V2.3.1) |
SPM-4.2 (v2.5.1) OBR-15.1.2 (V2.3.1) |
SPM-4.3 (v2.5.1) OBR-15.1.3 (V2.3.1) |
SPM-4.9 (v2.5.1) OBR-15.3 (V2.3.1) |
OBR-7 SPM-17.1 (v2.5.1 only) |
OBR-14 SPM-18.1 (V2.5.1 only) |
ORC-12 / OBR-16 or ORC-21.1 |
ORC-12.2 / OBR-16.2 | ORC-12.3 / OBR-16.3 | ORC-24.1 | ORC-24.3 | ORC-24.4 | ORC-24.5 | ORC-21.1 | ORC-22.1 | ORC-22.3 | ORC-22.4 | ORC-22.5 | ORC-23 | OBR-25 | OBR-22 | OBR-4.1 | OBR-4.2 | OBR-4.3 | OBX-3.1 | OBX-3.2 | OBX-3.3 | OBX-5.1 CE or CWE | OBX-5.2 CE or CWE | OBX-5.3 CE or CWE | OBX-5.1 ST or TX or OBX-5.9 CWE (2.5.1) OBX-5.2 (2.3.1) |
OBX-5.1 SN | OBX-5.2 SN or OBX-5.1 NM | OBX-5.3 SN | OBX-5.4 SN | OBX-6 | OBX-7 | OBX-8 | OBX-17.5 or OBX-17.9 | OBX-11 | OBX-19.1 | MSH-4.1 | MSH-4.2 | MSH-3 | ||||||||
| Sections | Identifiers (will repeat across rows for each specimen / accession) | Patient Information (will repeat across rows for each patient, can span more than one specimen) | EPI Questions - pre-defined (will repeat across rows for each patient or specimen) | Specimen Information (will repeat across rows for each specimen) | Ordering Provider information (will repeat across rows for each order) | Ordering Facility Information (will repeat across rows for each specimen) | Order Information (will repeat across rows for each specimen) | Lab Test Information - 1 row per test - either it or the Epi information section will be populated | Meta-Data: (values will repeat across rows for all rows in this file) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Instructions | Must have either this or Testing_lab_specimen_ID valued order number assigned by the testing lab |
Must have either this or Testing_lab_accession_number valued (can have both) If not available: Use another unique laboratory ID from your system if available. If not, it is suggested to: Create unique ID by concatenating - Date/time initially entered (to millisecond) - Specimen collection date (if present) - SNOMED-CT of specimen type (if present) - Name of laboratory (if present) |
Name of the organization that created the specimen ID | Must have either this or Testing_lab_ID valued (can have both) If BOTH Testing_lab_ID and Testing_lab_name are unavailable, populate with the literal value 'NULL' |
Must have either this or Testing_lab_name valued (can have both) This can be CLIA, NPI or OID |
Expected values: CLIA NPI OID |
5 or 9 digits | Must have this valued This should uniquely identify the patient over time. Preferred IDs are from the submitter or the PHA, to allow linking with case data. Do NOT send SSI or Medical Record Number If not available: Use PH-Case ID or internal surveillance ID, or specimen ID/accession number. |
Name of the organization that created the patient ID | Expected values: PI = Patient Internal ID |
Format YYYYMMDD[HHMMSS] If this cannot be provided, please provide Patient age in EPI section |
Expected Values: (M) Male (F) Female (O) Other (U) Unknown (A) Ambiguous |
Expected Values: (1002-5) American Indian or Alaska Native (2028-9) Asian (2054-5) Black or African American (2076-8) Native Hawaiian or Other Pacific Islander (2106-3) White (U) Unknown Multiple race values are allowed and should be delimited using ";". |
Must have either this or Ordering_facility_state or Ordering_provider_state valued If not available: populate with the literal value 'NULL' |
5 or 9 digits | Expected values: (H) Hispanic (N) Not-Hispanic (U) Unknown |
Report in years | Expected answers: Yes No N/A |
Fever, cough, shortness of breath, fatigue Expected answers: Yes No |
Expected answers: (I) Hospitalized ICU Long term care (O) Outpatient (E) Emergency |
These are healthcare workers, first responders, essential serivces worker Expected answers: Yes No |
The case ID assigned by the PHA - ideally this woud be the NCOV-ID in the following format: ZZNNNNNN, where ZZ is the 2 letter state abbreviation and N is a numeric (e.g. : AR000001) | Must have either this or specimen_type_description or specimen_type_free_text valued (can have all three) If not available: populate with the literal value '119324002' (Specimen_type_code_system: SCT) |
Must have either this or specimen_type_code or specimen_type_free_text valued (can have all three) If not available: populate with the literal value 'Specimen of unknown material' |
Allowed values: HL70070 HL70487 SCT PLR L |
Must have either this or specimen_type_code or or specimen_type_description valued (can have all three) If not available: populate with the literal value 'Specimen of unknown material' |
Format YYYYMMDD[HHMMSS] If unknown populate with the literal value '0000' |
Format YYYYMMDDHHMM[SS] | Must have this or Ordering_facility_name or Ordering_provider_name valued If you capture only 1 instance of ordering provider information - regardless if person or facility - use this field If Ordering_facility_name, Ordering_entity_name, and Ordering_provider_name are ALL unavailable, populate with the literal value 'NULL' |
Must have this or Ordering_facility_name or Ordering_entity_name valued | Must have either this or Patient_state or Ordering_facility_state valued If not available: populate with the literal value 'NULL' |
5 or 9 digits | Must have either this or Ordering_provider_name or Ordering_entity_name valued | Must have either this or Patient_state or Ordering_provider_state valued If not available: populate with the literal value 'NULL' |
5 or 9 digits | Use format NNN-NNN-NNNN | Summary of all results under this order (this will only be different from Test_result_status for panels) For CDC allowed values: Final Corrected For PHA_ELR additionally allowed: Partial Preliminary |
Must have either this or Test_Date valued Expected Format YYYYMMDDHHMM[SS] |
code should be from LOINC | Expected values: LN = LOINC PLT = Public Health Lab Test L = Local |
Must have either this or Test_performed_description valued code should be from LOINC |
Must have either this or Test_performed_code valued | Expected values: LN = LOINC PLT = Public Health Lab Test L = Local |
Must have either this or Test_result_description or Test_result_free_text (can have all three) or Test_result_number valued | Must have either this or Test_result_coded or Test_result_free_text (can have all three) or Test_result_number valued | Expected Values: SCT = SNOMED CT PLR = Public Health Lab Results L = Local |
Must have either this or Test_result_description or Test_result_coded (can have all three) or Test_result_number valued If you are not differentiating between qualitative and quantitative results use this field |
Expected values: > < = <= >= |
Must have this or either Test_result_coded, Test_result_description or Test_result_free_text (can have all three) valued If you are not breaking out quantitative results into structured numerics (like less than / titers) and numbers, use this field for ANY quantitative result |
Expected values: - (use for ranges) : (use for titers) |
Include the kit name, if available | MUST have this valued For CDC expected Values: Final Corrected If not available: Populate with the literal value 'NULL' |
Must have either this or Results_Released_Date valued (can have both) Expected Format YYYYMMDD[HHMMSS] If BOTH Test_date and Date_result_released are unavailable AND specimen_collection_date_time is populated with a real date, not the literal value '0000' use the literal value '0000' |
Must have either this or Reporting_facility_ID valued If not available: Map to Testing_lab_name. Alternatively, can be populated with your own info in Reporting_facility_name as long as Testing_lab_name is populated. |
Must have either this or Reporting_facility_name valued If not available: Map to Testing_lab_ID |
This is a static entry - for this version populate with the literal value 'V2020-04-18' | |||||||||||||||||||||||||
| CSV Column name | Testing_lab_accession_number | Testing_lab_specimen_ID | Submitter_unique_sample_ID | Submitter_sample_ID_assigner | Testing_lab_name | Testing_lab_ID | Testing_lab_ID_type | Testing_lab_street_address | Testing_lab_city | Testing_lab_state | Testing_lab_zip_code | Patient_ID | Patient_ID_assigner | Patient_ID_type | Patient_DOB | Patient_gender | Patient_race |
Patient_city | Patient_state |
Patient_zip_code | Patient_county |
Patient_ethnicity |
Patient_Age | Illness_Onset_Date | Pregnant | Symptomatic_for_disease | Patient_location | Employed_in_high_risk_setting | Public_Health_Case_ID | Specimen_type_code | Specimen_type_description | Specimen_type_code_system | Specimen_type_free_text | Specimen_collection_date_time | Specimen_received_date_time | Ordering_entity_name | Ordering_provider_last_name | Ordering_provider_first_name | Ordering_provider_street | Ordering_provider_city | Ordering_provider_state | Ordering_provider_zip_code | Ordering_facility_name | Ordering_facility_street | Ordering_facility_city | Ordering_facility_state | Ordering_facility_zip_code | Ordering_facility_phone_number | Order_result_status | Date_result_released | Ordered_test_code | Ordered_test_description | Ordered_test_code_system | Test_performed_code | Test_performed_description | Test_performed_code_system | Test_result_coded | Test_result_description | Test_result_code_system | Test_Result_free_text | Test_result_comparator | Test_result_number | Test_result_number_separator | Test_result_number2 | Test_result_units | Reference_range | Abnormal_flag | Test_method_description |
Test_result_status | Test_date | Reporting_facility_name | Reporting_facility_ID | Report_facil_data_source_app | csv_file_version_no | |||||||
| Testing_lab_accession_number | Testing_lab_specimen_ID | Submitter_unique_sample_ID | Submitter_sample_ID_assigner | Testing_lab_name | Testing_lab_ID | Testing_lab_ID_type | Testing_lab_street_address | Testing_lab_city | Testing_lab_state | Testing_lab_zip_code | Patient_ID | Patient_ID_assigner | Patient_ID_type | Patient_DOB | Patient_gender | Patient_race | Patient_city | Patient_state | Patient_zip_code | Patient_county | Patient_ethnicity | Patient_Age | Illness_Onset_Date | Pregnant | Symptomatic_for_disease | Patient_location | Employed_in_high_risk_setting | Public_Health_Case_ID | Specimen_type_code | Specimen_type_description | Specimen_type_code_system | Specimen_type_free_text | Specimen_collection_date_time | Specimen_received_date_time | Ordering_entity_name | Ordering_provider_last_name | Ordering_provider_first_name | Ordering_provider_street | Ordering_provider_city | Ordering_provider_state | Ordering_provider_zip_code | Ordering_facility_name | Ordering_facility_street | Ordering_facility_city | Ordering_facility_state | Ordering_facility_zip_code | Ordering_facility_phone_number | Order_result_status | Date_result_released | Ordered_test_code | Ordered_test_description | Ordered_test_code_system | Test_performed_code | Test_performed_description | Test_performed_code_system | Test_result_coded | Test_result_description | Test_result_code_system | Test_Result_free_text | Test_result_comparator | Test_result_number | Test_result_number_separator | Test_result_number2 | Test_result_units | Reference_range | Abnormal_flag | Test_method_description | Test_result_status | Test_date | Reporting_facility_name | Reporting_facility_ID | Report_facil_data_source_app | csv_file_version_no |
| Testing_lab_accession_number | Testing_lab_specimen_ID | Submitter_unique_sample_ID | Submitter_sample_ID_assigner | Testing_lab_name | Testing_lab_ID | Testing_lab_ID_type | Testing_lab_street_address | Testing_lab_city | Testing_lab_state | Testing_lab_zip_code | Patient_ID | Patient_ID_assigner | Patient_ID_type | Patient_DOB | Patient_gender | Patient_race | Patient_city | Patient_state | Patient_zip_code | Patient_county | Patient_ethnicity | Patient_Age | Illness_Onset_Date | Pregnant | Symptomatic_for_disease | Patient_location | Employed_in_high_risk_setting | Public_Health_Case_ID | Specimen_type_code | Specimen_type_description | Specimen_type_code_system | Specimen_type_free_text | Specimen_collection_date_time | Specimen_received_date_time | Ordering_entity_name | Ordering_provider_last_name | Ordering_provider_first_name | Ordering_provider_street | Ordering_provider_city | Ordering_provider_state | Ordering_provider_zip_code | Ordering_facility_name | Ordering_facility_street | Ordering_facility_city | Ordering_facility_state | Ordering_facility_zip_code | Ordering_facility_phone_number | Order_result_status | Date_result_released | Ordered_test_code | Ordered_test_description | Ordered_test_code_system | Test_performed_code | Test_performed_description | Test_performed_code_system | Test_result_coded | Test_result_description | Test_result_code_system | Test_Result_free_text | Test_result_comparator | Test_result_number | Test_result_number_separator | Test_result_number2 | Test_result_units | Reference_range | Abnormal_flag | Test_method_description | Test_result_status | Test_date | Reporting_facility_name | Reporting_facility_ID | Report_facil_data_source_app | csv_file_version_no |
| M00000594-231 | M00000595 | 100031 | Arkansas Heart Hospital | Public Health Laboratory, AR | 04D1044169 | CLIA | 202 South Monroe | Little Rock | AR | 72205 | 234567 | STARLIMS.AR.Prod | PI | 19540622 | Female | White | Indianapolis | IN | 46203 | Marion County | Hispanic or Latino | 66 | 20200105 | No | Yes | ICU | No | AR000002 | 430238007 | Specimen from nasal sinus (specimen) | SCT | nasal swab | 202002051800-0600 | 202002060707-0600 | Everman | Anna | 1701 S. Shackleford Suite 203 | Little Rock | AR | 72205 | Arkansas Heart Hospital | 1701 S. Shackleford | Little Rock | AR | 72205 | 501^2197386 | M | 20200206073248-0603 | 94306-8 | 2019-nCoV RNA Pnl XXX NAA+probe | LN | 94307-6 | Probe.amp.tar.primer-probe set N1 | LN | 260373001 | Detected | SCT | Detected | not detected | A | CDC 2019-nCoV RT-PCR | F | 202002060715-0600 | Public Health Laboratory, AR | 04D1044169 | STARLIMS.AR.STAG | V2020-04-18 | ||||||
| M00000594-231 | M00000595 | 100031 | Arkansas Heart Hospital | Public Health Laboratory, AR | 04D1044169 | CLIA | 202 South Monroe | Little Rock | AR | 72205 | 234567 | STARLIMS.AR.Prod | PI | 19540622 | Female | White | Indianapolis | IN | 46203 | Marion County | Hispanic or Latino | 66 | 20200105 | No | Yes | ICU | No | AR000002 | 430238007 | Specimen from nasal sinus (specimen) | SCT | nasal swab | 202002051800-0600 | 202002060707-0600 | Everman | Anna | 1701 S. Shackleford Suite 203 | Little Rock | AR | 72205 | Arkansas Heart Hospital | 1701 S. Shackleford | Little Rock | AR | 72205 | 501^2197386 | M | 20200206073248-0604 | 94306-8 | 2019-nCoV RNA Pnl XXX NAA+probe | LN | 94308-4 | 2019 Novel Coronavirus N gene | LN | 260373001 | Detected | SCT | Detected | not detected | A | CDC 2019-nCoV RT-PCR | F | 202002060715-0600 | Public Health Laboratory, AR | 04D1044169 | STARLIMS.AR.STAG | V2020-04-18 | ||||||
| M00000594-231 | M00000595 | 100031 | Arkansas Heart Hospital | Public Health Laboratory, AR | 04D1044169 | CLIA | 202 South Monroe | Little Rock | AR | 72205 | 234567 | STARLIMS.AR.Prod | PI | 19540622 | Female | White | Indianapolis | IN | 46203 | Marion County | Hispanic or Latino | 66 | 20200105 | No | Yes | ICU | No | AR000002 | 430238007 | Specimen from nasal sinus (specimen) | SCT | nasal swab | 202002051800-0600 | 202002060707-0600 | Everman | Anna | 1701 S. Shackleford Suite 203 | Little Rock | AR | 72205 | Arkansas Heart Hospital | 1701 S. Shackleford | Little Rock | AR | 72205 | 501^2197386 | M | 20200206073248-0605 | 94306-8 | 2019-nCoV RNA Pnl XXX NAA+probe | LN | 68993-5 | Human RNase P RNA | LN | 260373001 | Detected | SCT | Detected | detected | N | CDC 2019-nCoV RT-PCR | F | 202002060715-0600 | Public Health Laboratory, AR | 04D1044169 | STARLIMS.AR.STAG | V2020-04-18 | ||||||
| M00000594-231 | M00000595 | 100031 | Arkansas Heart Hospital | Public Health Laboratory, AR | 04D1044169 | CLIA | 202 South Monroe | Little Rock | AR | 72205 | 234567 | STARLIMS.AR.Prod | PI | 19540622 | Female | White | Indianapolis | IN | 46203 | Marion County | Hispanic or Latino | 66 | 20200105 | No | Yes | ICU | No | AR000002 | 430238007 | Specimen from nasal sinus (specimen) | SCT | nasal swab | 202002051800-0600 | 202002060707-0600 | Everman | Anna | 1701 S. Shackleford Suite 203 | Little Rock | AR | 72205 | Arkansas Heart Hospital | 1701 S. Shackleford | Little Rock | AR | 72205 | 501^2197386 | M | 20200206073248-0606 | 94306-8 | 2019-nCoV RNA Pnl XXX NAA+probe | LN | 94309-2 | 2019 Novel Coronavirus RNA | LN | 260373001 | Detected | SCT | Detected | not detected | A | CDC 2019-nCoV RT-PCR | F | 202002060715-0600 | Public Health Laboratory, AR | 04D1044169 | STARLIMS.AR.STAG | V2020-04-18 | ||||||
| M00000594-231 | M00000595 | 100031 | Arkansas Heart Hospital | Public Health Laboratory, AR | 04D1044169 | CLIA | 202 South Monroe | Little Rock | AR | 72205 | 234567 | STARLIMS.AR.Prod | PI | 19540622 | Female | White | Indianapolis | IN | 46203 | Marion County | Hispanic or Latino | 66 | 20200105 | No | Yes | ICU | No | AR000002 | 430238007 | Specimen from nasal sinus (specimen) | SCT | nasal swab | 202002051800-0600 | 202002060707-0600 | Everman | Anna | 1701 S. Shackleford Suite 203 | Little Rock | AR | 72205 | Arkansas Heart Hospital | 1701 S. Shackleford | Little Rock | AR | 72205 | 501^2197386 | M | 20200206073248-0603 | 94306-8 | 2019-nCoV RNA Pnl XXX NAA+probe | LN | 94307-6 | Probe.amp.tar.primer-probe set N1 | LN | 260373001 | Detected | SCT | Detected | not detected | A | CDC 2019-nCoV RT-PCR | F | 202002060715-0600 | Public Health Laboratory, AR | 04D1044169 | STARLIMS.AR.STAG | V2020-04-18 | ||||||
| M00000594-231 | M00000595 | 100031 | Arkansas Heart Hospital | Public Health Laboratory, AR | 04D1044169 | CLIA | 202 South Monroe | Little Rock | AR | 72205 | 234567 | STARLIMS.AR.Prod | PI | 19540622 | Female | White | Indianapolis | IN | 46203 | Marion County | Hispanic or Latino | 66 | 20200105 | No | Yes | ICU | No | AR000002 | 430238007 | Specimen from nasal sinus (specimen) | SCT | nasal swab | 202002051800-0600 | 202002060707-0600 | Everman | Anna | 1701 S. Shackleford Suite 203 | Little Rock | AR | 72205 | Arkansas Heart Hospital | 1701 S. Shackleford | Little Rock | AR | 72205 | 501^2197386 | M | 20200206073248-0604 | 94306-8 | 2019-nCoV RNA Pnl XXX NAA+probe | LN | 94308-4 | 2019 Novel Coronavirus N gene | LN | 260373001 | Detected | SCT | Detected | not detected | A | CDC 2019-nCoV RT-PCR | F | 202002060715-0600 | Public Health Laboratory, AR | 04D1044169 | STARLIMS.AR.STAG | V2020-04-18 | ||||||
| M00000594-231 | M00000595 | 100031 | Arkansas Heart Hospital | Public Health Laboratory, AR | 04D1044169 | CLIA | 202 South Monroe | Little Rock | AR | 72205 | 234567 | STARLIMS.AR.Prod | PI | 19540622 | Female | White | Indianapolis | IN | 46203 | Marion County | Hispanic or Latino | 66 | 20200105 | No | Yes | ICU | No | AR000002 | 430238007 | Specimen from nasal sinus (specimen) | SCT | nasal swab | 202002051800-0600 | 202002060707-0600 | Everman | Anna | 1701 S. Shackleford Suite 203 | Little Rock | AR | 72205 | Arkansas Heart Hospital | 1701 S. Shackleford | Little Rock | AR | 72205 | 501^2197386 | M | 20200206073248-0605 | 94306-8 | 2019-nCoV RNA Pnl XXX NAA+probe | LN | 68993-5 | Human RNase P RNA | LN | 260373001 | Detected | SCT | Detected | detected | N | CDC 2019-nCoV RT-PCR | F | 202002060715-0600 | Public Health Laboratory, AR | 04D1044169 | STARLIMS.AR.STAG | V2020-04-18 | ||||||
| M00000594-231 | M00000595 | 100031 | Arkansas Heart Hospital | Public Health Laboratory, AR | 04D1044169 | CLIA | 202 South Monroe | Little Rock | AR | 72205 | 234567 | STARLIMS.AR.Prod | PI | 19540622 | Female | White | Indianapolis | IN | 46203 | Marion County | Hispanic or Latino | 66 | 20200105 | No | Yes | ICU | No | AR000002 | 430238007 | Specimen from nasal sinus (specimen) | SCT | nasal swab | 202002051800-0600 | 202002060707-0600 | Everman | Anna | 1701 S. Shackleford Suite 203 | Little Rock | AR | 72205 | Arkansas Heart Hospital | 1701 S. Shackleford | Little Rock | AR | 72205 | 501^2197386 | M | 20200206073248-0606 | 94306-8 | 2019-nCoV RNA Pnl XXX NAA+probe | LN | 94309-2 | 2019 Novel Coronavirus RNA | LN | 260373001 | Detected | SCT | Detected | not detected | A | CDC 2019-nCoV RT-PCR | F | 202002060715-0600 | Public Health Laboratory, AR | 04D1044169 | STARLIMS.AR.STAG | V2020-04-18 | ||||||
| M00000594-999 | M00000999 | Public Health Laboratory, AR | 04D1044169 | CLIA | 202 South Monroe | Little Rock | AR | 72205 | 234567 | STARLIMS.AR.Prod | PI | 19540622 | Female | White | Indianapolis | IN | 46203 | Marion County | Hispanic or Latino | 66 | 20200105 | No | 430238007 | Specimen from nasal sinus (specimen) | SCT | 202002051800-0600 | 202002060707-0600 | Everman | Anna | Arkansas Heart Hospital | 1701 S. Shackleford | Little Rock | AR | 72205 | 501^2197386 | M | 20200206073248-0603 | 94306-8 | 2019-nCoV RNA Pnl XXX NAA+probe | LN | 94307-6 | Probe.amp.tar.primer-probe set N1 | LN | 260373001 | Detected | SCT | Detected | PCR | F | 202002060715-0600 | Public Health Laboratory, AR | AR.LittleRock.SPHL | STARLIMS.AR.STAG | V2020-04-18 | |||||||||||||||||||
| M00000594-999 | M00000999 | Public Health Laboratory, AR | 04D1044169 | CLIA | 202 South Monroe | Little Rock | AR | 72205 | 234567 | STARLIMS.AR.Prod | PI | 19540622 | Female | White | Indianapolis | IN | 46203 | Marion County | Hispanic or Latino | 66 | 20200105 | No | 430238007 | Specimen from nasal sinus (specimen) | SCT | 202002051800-0600 | 202002060707-0600 | Everman | Anna | Arkansas Heart Hospital | 1701 S. Shackleford | Little Rock | AR | 72205 | 501^2197386 | M | 20200206073248-0604 | 94306-8 | 2019-nCoV RNA Pnl XXX NAA+probe | LN | 94308-4 | 2019 Novel Coronavirus N gene | LN | 260373001 | Detected | SCT | Detected | PCR | F | 202002060715-0600 | Public Health Laboratory, AR | AR.LittleRock.SPHL | STARLIMS.AR.STAG | V2020-04-18 | |||||||||||||||||||
| M00000594-999 | M00000999 | Public Health Laboratory, AR | 04D1044169 | CLIA | 202 South Monroe | Little Rock | AR | 72205 | 234567 | STARLIMS.AR.Prod | PI | 19540622 | Female | White | Indianapolis | IN | 46203 | Marion County | Hispanic or Latino | 66 | 20200105 | No | 430238007 | Specimen from nasal sinus (specimen) | SCT | 202002051800-0600 | 202002060707-0600 | Everman | Anna | Arkansas Heart Hospital | 1701 S. Shackleford | Little Rock | AR | 72205 | 501^2197386 | M | 20200206073248-0605 | 94306-8 | 2019-nCoV RNA Pnl XXX NAA+probe | LN | 68993-5 | Human RNase P RNA | LN | 260373001 | Detected | SCT | Detected | PCR | F | 202002060715-0600 | Public Health Laboratory, AR | AR.LittleRock.SPHL | STARLIMS.AR.STAG | V2020-04-18 | |||||||||||||||||||
| M00000594-999 | M00000999 | Public Health Laboratory, AR | 04D1044169 | CLIA | 202 South Monroe | Little Rock | AR | 72205 | 234567 | STARLIMS.AR.Prod | PI | 19540622 | Female | White | Indianapolis | IN | 46203 | Marion County | Hispanic or Latino | 66 | 20200105 | No | 430238007 | Specimen from nasal sinus (specimen) | SCT | 202002051800-0600 | 202002060707-0600 | Everman | Anna | Arkansas Heart Hospital | 1701 S. Shackleford | Little Rock | AR | 72205 | 501^2197386 | M | 20200206073248-0606 | 94306-8 | 2019-nCoV RNA Pnl XXX NAA+probe | LN | 94309-2 | 2019 Novel Coronavirus RNA | LN | 260415000 | Not Detected | SCT | Not Detected | PCR | F | 202002060715-0600 | Public Health Laboratory, AR | AR.LittleRock.SPHL | STARLIMS.AR.STAG | V2020-04-18 | |||||||||||||||||||
| M00000594-231 | M00000595 | Public Health Laboratory, AR | 04D1044169 | CLIA | 202 South Monroe | Little Rock | AR | 72205 | 234568 | STARLIMS.AR.Prod | PI | 19640630 | Male | Asian | Beech Grove | IN | 46203 | Marion County | Not Hispanic or Latino | 56 | 20200331 | No | 258500001 | Nasopharyngeal swab (specimen) | SCT | 20200402 | 20200404104700 | Everman | Anna | Arkansas Heart Hospital | 1701 S. Shackleford | Little Rock | AR | 72205 | 501^2197386 | M | 20200406073248-0603 | 94306-8 | 2019-nCoV RNA Pnl XXX NAA+probe | LN | 94311-8 | SARS-CoV-2 N gene Ct XXX Qn NAA N1 | LN | 20 | CrossingThreshold | F | 202004060715-0600 | Public Health Laboratory, AR | AR.LittleRock.SPHL | STARLIMS.AR.STAG | V2020-04-18 | ||||||||||||||||||||||
| M00000594-231 | M00000595 | Public Health Laboratory, AR | 04D1044169 | CLIA | 202 South Monroe | Little Rock | AR | 72205 | 234568 | STARLIMS.AR.Prod | PI | 19640630 | Male | Asian | Beech Grove | IN | 46203 | Marion County | Not Hispanic or Latino | 56 | 20200331 | No | 258500001 | Nasopharyngeal swab (specimen) | SCT | 20200402 | 20200404104700 | Everman | Anna | Arkansas Heart Hospital | 1701 S. Shackleford | Little Rock | AR | 72205 | 501^2197386 | M | 20200318 | 94500-6 | SARS-CoV-2 RNA Resp Ql NAA+probe | LN | 94500-6 | SARS-CoV-2 RNA Resp Ql NAA+probe | LN | 419984006 | Inconclusive | SCT | A | Cepheid Xpert Xpress SARS-CoV-2 | F | 20200318 | Public Health Laboratory, AR | AR.LittleRock.SPHL | STARLIMS.AR.STAG | V2020-04-18 | |||||||||||||||||||
| M00000594-231 | M00000595 | Public Health Laboratory, AR | 04D1044169 | CLIA | 202 South Monroe | Little Rock | AR | 72205 | 234568 | STARLIMS.AR.Prod | PI | 19640630 | Male | Asian | Beech Grove | IN | 46203 | Marion County | Not Hispanic or Latino | 56 | 20200331 | No | 258500001 | Nasopharyngeal swab (specimen) | SCT | 20200402 | 20200404104700 | Everman | Anna | Arkansas Heart Hospital | 1701 S. Shackleford | Little Rock | AR | 72205 | 501^2197386 | M | 20200206073248-0605 | 94306-8 | 2019-nCoV RNA Pnl XXX NAA+probe | LN | 68993-5 | Human RNase P RNA | LN | 260373001 | Detected | SCT | Detected | F | 202004060715-0600 | Public Health Laboratory, AR | AR.LittleRock.SPHL | STARLIMS.AR.STAG | V2020-04-18 | ||||||||||||||||||||
| M00000594-231 | M00000595 | Public Health Laboratory, AR | 04D1044169 | CLIA | 202 South Monroe | Little Rock | AR | 72205 | 234568 | STARLIMS.AR.Prod | PI | 19640630 | Male | Asian | Beech Grove | IN | 46203 | Marion County | Not Hispanic or Latino | 56 | 20200331 | No | 258500001 | Nasopharyngeal swab (specimen) | SCT | 20200402 | 20200404104700 | Everman | Anna | Arkansas Heart Hospital | 1701 S. Shackleford | Little Rock | AR | 72205 | 501^2197386 | M | 20200206073248-0606 | 94306-8 | 2019-nCoV RNA Pnl XXX NAA+probe | LN | 94309-2 | 2019 Novel Coronavirus RNA | LN | 260415000 | Not Detected | SCT | Not Detected | A | Cepheid Xpert Xpress SARS-CoV-2 | F | 20200318 | Public Health Laboratory, AR | AR.LittleRock.SPHL | STARLIMS.AR.STAG | V2020-04-18 | ||||||||||||||||||
| M00000594-555 | M00000795 | Public Health Laboratory, AR | 04D1044169 | CLIA | 202 South Monroe | Little Rock | AR | 72205 | 234569 | STARLIMS.AR.Prod | PI | 19740630 | Female | Black | Indianapolis | IN | 46203 | Marion County | Hispanic or Latino | 46 | 20200315 | No | 430238007 | Specimen from nasal sinus (specimen) | SCT | 20200320 | 20200331104700 | Everman | Anna | Arkansas Heart Hospital | 1701 S. Shackleford | Little Rock | AR | 72205 | 501^2197386 | M | 20200206073248-0603 | 94306-8 | 2019-nCoV RNA Pnl XXX NAA+probe | LN | 94307-6 | Probe.amp.tar.primer-probe set N1 | LN | 260373001 | Detected | SCT | Detected | F | 202004060715-0600 | Public Health Laboratory, AR | AR.LittleRock.SPHL | STARLIMS.AR.STAG | V2020-04-18 | ||||||||||||||||||||
| M00000594-555 | M00000795 | Public Health Laboratory, AR | 04D1044169 | CLIA | 202 South Monroe | Little Rock | AR | 72205 | 234569 | STARLIMS.AR.Prod | PI | 19740630 | Female | Black | Indianapolis | IN | 46203 | Marion County | Hispanic or Latino | 46 | 20200315 | No | 430238007 | Specimen from nasal sinus (specimen) | SCT | 20200320 | 20200331104700 | Everman | Anna | Arkansas Heart Hospital | 1701 S. Shackleford | Little Rock | AR | 72205 | 501^2197386 | M | 20200206073248-0604 | 94306-8 | 2019-nCoV RNA Pnl XXX NAA+probe | LN | 94308-4 | 2019 Novel Coronavirus N gene | LN | 260373001 | Detected | SCT | Detected | A | Cepheid Xpert Xpress SARS-CoV-2 | F | 20200318 | Public Health Laboratory, AR | AR.LittleRock.SPHL | STARLIMS.AR.STAG | V2020-04-18 | ||||||||||||||||||
| M00000594-555 | M00000795 | Public Health Laboratory, AR | 04D1044169 | CLIA | 202 South Monroe | Little Rock | AR | 72205 | 234569 | STARLIMS.AR.Prod | PI | 19740630 | Female | Black | Indianapolis | IN | 46203 | Marion County | Hispanic or Latino | 46 | 20200315 | No | 430238007 | Specimen from nasal sinus (specimen) | SCT | 20200320 | 20200331104700 | Everman | Anna | Arkansas Heart Hospital | 1701 S. Shackleford | Little Rock | AR | 72205 | 501^2197386 | M | 20200406073248-0603 | 94306-8 | 2019-nCoV RNA Pnl XXX NAA+probe | LN | 94311-8 | SARS-CoV-2 N gene Ct XXX Qn NAA N1 | LN | 20 | CrossingThreshold | F | 202004060715-0600 | Public Health Laboratory, AR | AR.LittleRock.SPHL | STARLIMS.AR.STAG | V2020-04-18 | ||||||||||||||||||||||
| M00000594-555 | M00000795 | Public Health Laboratory, AR | 04D1044169 | CLIA | 202 South Monroe | Little Rock | AR | 72205 | 234569 | STARLIMS.AR.Prod | PI | 19740630 | Female | Black | Indianapolis | IN | 46203 | Marion County | Hispanic or Latino | 46 | 20200315 | No | 430238007 | Specimen from nasal sinus (specimen) | SCT | 20200320 | 20200331104700 | Everman | Anna | Arkansas Heart Hospital | 1701 S. Shackleford | Little Rock | AR | 72205 | 501^2197386 | M | 20200318 | 94500-6 | SARS-CoV-2 RNA Resp Ql NAA+probe | LN | 94500-6 | SARS-CoV-2 RNA Resp Ql NAA+probe | LN | 419984006 | Inconclusive | SCT | A | Cepheid Xpert Xpress SARS-CoV-2 | F | 20200318 | Public Health Laboratory, AR | AR.LittleRock.SPHL | STARLIMS.AR.STAG | V2020-04-18 |
| Field Name | HL7 Segment (if using HL7) | Riki Notes |
| Sending application | MSH-3 | mapped to Reporting _facility_data_source_application |
| Sending Facility | MSH-4 | mapped to Reporting _facility_name and Reporting_facility_ID |
| Receiving Application | MSH-5 | no need to map for csv |
| Receiving Facility | MSH-6 | mapped to Program_or_pathogen |
| Date Time of Message | MSH-7 | mapped to Date_time_of_file_creation |
| Message Type | MSH-9 | no need to map for csv |
| Message Control ID | MSH-10 | no need to map for csv |
| Processing ID indicating these are production messages | MSH-11 | no need to map for csv |
| Version ID | MSH-12 | no need to map for csv |
| Patient Identifier | PID 3 | mapped to Patient_ID and Patient_ID_Assigner and Patient_ID_Type |
| Date Time of Birth | PID-7 | mapped to Patient_DOB |
| Administrative Sex | PID-8 | mapped to Patient_Sex |
| Zip Code | PID-11.5 | mapped to Patient_zip_code |
| Race | PID-10 | mapped to Patient_race |
| Ethnicity | PID-22 | mapped to Patient_ethnicity |
| County or parish | PID-11.9 | mapped to Patient_county |
| Ordering Facility Name | ORC-21 | mapped to Ordering_facility_name |
| Ordering Facility Address | ORC-22 | mapped to Ordering_facility_street and Ordering_facility_city and Ordering_facility_state and Ordering_facility_zipcode |
| Ordering Facility Phone Number | ORC-23 | mapped to Ordering_facility_phone_number |
| Ordering Provider | OBR-16 | mapped to Ordering_provider_last_name and Ordering_provider_first_name and Ordering_provider_ID and Ordering_provider_ID_Assigner |
| Ordering Provider Address | ORC-24 | mapped to Ordering_provider_street and Ordering_provider_city and Ordering_provider_state and Ordering_provider_zipcode |
| Filler Order Number / Accession number | OBR-3 | mapped to Testing_lab_accession_number |
| Ordered Test | OBR-4 | mapped to Ordered_test_code and Ordered_test_name and Ordered_test_code_system |
| Observation Date Time | OBR 7 / 8 for 2.3.1 SPM 17 for ver 2.5.1 |
mapped to Specimen_collection_date |
| Specimen Type | OBR-15 for ver 2.3.1 and | mapped to Specimen_type_code and Specimen_type_description and Specimen_type_code_system and Specimen_type_free_text |
| SPM 4 for ver 2.5.1 | ||
| Specimen Received date and time | OBR 14 for ver 2.3.1 | mapped to Specimen_received_date |
| SPM 18 for ver 2.5.1 | ||
| Result Status indicating these are final results | OBR-25 | mapped to Order_result_status |
| Observation Result Segment Set ID | OBX-1 | no need to map for csv |
| Value Type | OBX-2 | no need to map for csv |
| Observation Identifier | OBX-3 | mapped to Test__performed_code and Test__performed_name and Test__performed_code_system |
| Observation Sub ID | OBX-4 | no need to map for csv??? |
| Observation Value | OBX-5 | mapped to Test_Result_Coded and Test_Result_Description and Test_Result_code_system and Test_Result_Free_Text and Test_Result_Comparator and Test_Result_Number and Test_Result_Number_Separator and Test_Result_Number2 |
| Units | OBX-6 | mapped to Test_units |
| Reference Range | OBX-7 | mapped to Reference_range |
| Abnormal flags | OBX-8 | mapped to Abnormal_flag |
| Observation Result Status | OBX-11 | mapped to Test_result_status |
| Date Time of the Observation | OBX-14 - is actually OBX-19 | mapped to Test_date |
| Performing organization name including the CLIA number | OBX-23 | mapped to Testing_lab_name and Testing_lab_ID and Testing_lab_ID_type |
| File Type | application/vnd.openxmlformats-officedocument.spreadsheetml.sheet |
| File Modified | 0000-00-00 |
| File Created | 0000-00-00 |