diff --git a/template/canada_covid19/data.js b/template/canada_covid19/data.js index 84eb9ec6..c5884038 100644 --- a/template/canada_covid19/data.js +++ b/template/canada_covid19/data.js @@ -3978,7 +3978,7 @@ var DATA = [ "exportField": { "NML_LIMS": [ { - "value": "MALE" + "value": "FEMALE" } ] } @@ -3987,7 +3987,7 @@ var DATA = [ "exportField": { "NML_LIMS": [ { - "value": "FEMALE" + "value": "MALE" } ] } @@ -6916,6 +6916,11 @@ var DATA = [ { "field": "Gene Target 3" } + ], + "NML_LIMS": [ + { + "field": "RESULT - CANCOGEN_SUBMITTED_RESLT_3" + } ] }, "schema:ItemList": {} @@ -6952,6 +6957,11 @@ var DATA = [ { "field": "Gene Target 3 CT Value" } + ], + "NML_LIMS": [ + { + "field": "RESULT - CANCOGEN_SUBMITTED_RESLT_3CT" + } ] } } diff --git a/template/canada_covid19/data.tsv b/template/canada_covid19/data.tsv index e175b080..c85d1b73 100644 --- a/template/canada_covid19/data.tsv +++ b/template/canada_covid19/data.tsv @@ -142,9 +142,9 @@ ID SC % Pathogen diagnostic testing gene name 2 select gene name 1 Not Applicable; Missing; Not Collected; Not Provided; Restricted Access The name of the gene used in the diagnostic RT-PCR test. Provide the full name of another gene used in an RT-PCR test. The gene symbol (short form of gene name) can also be provided. Standardized gene names and symbols can be found in the Gene Ontology using this look-up service: https://bit.ly/2Sq1LbI nsp12 (RdRp) Gene Target 2 RESULT - CANCOGEN_SUBMITTED_RESLT_2 gene_name_2 Pathogen diagnostic testing diagnostic pcr protocol 2 xs:token The name and version number of the protocol used for diagnostic marker amplification. The name and version number of the protocol used for carrying out a second diagnostic PCR test. This information can be compared to sequence data for evaluation of performance and quality control. RdRpGenePCRTest 3 Pathogen diagnostic testing diagnostic pcr Ct value 2 xs:token The Ct value result from a diagnostic SARS-CoV-2 RT-PCR test. Provide the CT value of the sample from the second diagnostic RT-PCR test. 36 Gene Target 2 CT Value RESULT - CANCOGEN_SUBMITTED_RESLT_2CT diagnostic_PCR_CT_value_2 - Pathogen diagnostic testing gene name 3 select gene name 1 Not Applicable; Missing; Not Collected; Not Provided; Restricted Access The name of the gene used in the diagnostic RT-PCR test. Provide the full name of another gene used in an RT-PCR test. The gene symbol (short form of gene name) can also be provided. Standardized gene names and symbols can be found in the Gene Ontology using this look-up service: https://bit.ly/2Sq1LbI nsp12 (RdRp) Gene Target 3 + Pathogen diagnostic testing gene name 3 select gene name 1 Not Applicable; Missing; Not Collected; Not Provided; Restricted Access The name of the gene used in the diagnostic RT-PCR test. Provide the full name of another gene used in an RT-PCR test. The gene symbol (short form of gene name) can also be provided. Standardized gene names and symbols can be found in the Gene Ontology using this look-up service: https://bit.ly/2Sq1LbI nsp12 (RdRp) Gene Target 3 RESULT - CANCOGEN_SUBMITTED_RESLT_3 Pathogen diagnostic testing diagnostic pcr protocol 3 xs:token The name and version number of the protocol used for diagnostic marker amplification. The name and version number of the protocol used for carrying out a second diagnostic PCR test. This information can be compared to sequence data for evaluation of performance and quality control. RdRpGenePCRTest 3 - Pathogen diagnostic testing diagnostic pcr Ct value 3 xs:token The Ct value result from a diagnostic SARS-CoV-2 RT-PCR test. Provide the CT value of the sample from the second diagnostic RT-PCR test. 30 Gene Target 3 CT Value + Pathogen diagnostic testing diagnostic pcr Ct value 3 xs:token The Ct value result from a diagnostic SARS-CoV-2 RT-PCR test. Provide the CT value of the sample from the second diagnostic RT-PCR test. 30 Gene Target 3 CT Value RESULT - CANCOGEN_SUBMITTED_RESLT_3CT Contributor acknowledgement Contributor acknowledgement authors xs:token recommended Names of individuals contributing to the processes of sample collection, sequence generation, analysis, and data submission. Include the first and last names of all individuals that should be attributed, separated by a comma. Tejinder Singh, Fei Hu, Joe Blogs Authors Authors PH_CANCOGEN_AUTHORS Contributor acknowledgement DataHarmonizer provenance provenance DataHarmonizer provenance Additional Comments HC_COMMENTS @@ -753,8 +753,8 @@ BTO:0004755 lab host Vero E6 cell line host age bin 90 - 99 host age bin 100+ -OMRSE:00000009? host gender Female MALE -OMRSE:00000008? host gender Male FEMALE +OMRSE:00000009? host gender Female FEMALE +OMRSE:00000008? host gender Male MALE host gender Non-binary gender NON_BINARY_GENDER host gender Transgender (Male to Female) TRANSGENDER host gender Transgender (Female to Male) TRANSGENDER @@ -829,7 +829,7 @@ OMRSE:00000008? host gender Male FEMALE Human Exposure Person with Fever and/or Cough Human Exposure Person who Recently Travelled exposure setting Occupational or Residency Exposure - Occupational or Residency Exposure Abbatoir +ECTO_1000033 Occupational or Residency Exposure Abbatoir Occupational or Residency Exposure Animal Rescue Occupational or Residency Exposure Childcare Childcare Daycare @@ -843,10 +843,10 @@ OMRSE:00000008? host gender Male FEMALE Occupational or Residency Exposure Community Service Centre Occupational or Residency Exposure Correctional Facility Occupational or Residency Exposure Dormitory - Occupational or Residency Exposure Farm +ECTO_1000034 Occupational or Residency Exposure Farm Occupational or Residency Exposure First Nations Reserve Occupational or Residency Exposure Group Home - Occupational or Residency Exposure Healthcare Setting +ECTO_1000035 Occupational or Residency Exposure Healthcare Setting Healthcare Setting Ambulance Healthcare Setting Acute Care Facility Healthcare Setting Clinic @@ -855,12 +855,12 @@ OMRSE:00000008? host gender Male FEMALE Hospital Emergency Department Hospital ICU Hospital Ward - Healthcare Setting Laboratory +ECTO_1000036 Healthcare Setting Laboratory Healthcare Setting Long-Term Care Facility Healthcare Setting Pharmacy Healthcare Setting Physician's Office Occupational or Residency Exposure Insecure Housing (Homeless) - Occupational or Residency Exposure Office +ECTO:1000037 Occupational or Residency Exposure Office Occupational or Residency Exposure Outdoors Outdoors Camp/camping Outdoors Hiking @@ -1261,4 +1261,6 @@ GAZ_00009572 geo_loc_name (country) West Bank GAZ_00000564 geo_loc_name (country) Western Sahara GAZ_00005284 geo_loc_name (country) Yemen GAZ_00001107 geo_loc_name (country) Zambia -GAZ_00001106 geo_loc_name (country) Zimbabwe \ No newline at end of file +GAZ_00001106 geo_loc_name (country) Zimbabwe + + \ No newline at end of file