| daily_mbperf |
PATHOGEN TESTING: Only complete under the 'Discharge/Death' column in REDCap. Details of pathogen testing and sample type (this is a repeating instrument, include as many as necessary) |
yesno |
Pathogen testing done |
1, Yes ; 0, No |
| llimsno_bnum |
|
text |
LIMS number |
|
| mbdat |
|
text (date_dmy) |
Collection Date |
|
| mbspec |
|
dropdown |
Bio specimen type |
1, Nasal / NP swab ; 2, Throat swab ; 3, Combined nasal / NP + throat swab ; 4, Sputum ; 5, Bronchoalveolar Lavage (BAL) ; 6, ETA ; 7, CSF ; 8, SAM ; 9, Urine ; 10, Faeces / rectal swab ; 11, Blood serum ; 12, Blood EDTA ; 13, Blood RNA ; 15, Blood ; 14, Other |
| other_mbspec |
|
text |
If OTHER; Specify |
|
| mbmethod |
|
dropdown |
Laboratory Test Method |
1, PCR ; 2, Culture ; 3, Other |
| other_mbmethod |
|
text |
If Other Laboratory test method; Specify |
|
| mborres |
|
radio |
Result |
1, Positive ; 2, Negative ; 3, N/A |
| mbtestcd |
|
text |
Pathogen Detected (full name without abbreviations) |
|
| mbspec_v2 |
(Please record the details of all test carried out during this illness episode below - including the details of the tests indicated above) |
dropdown |
Type of test (for V9.9 CRF onwards there is no need to record Urine, CSF or Faeces (stool)) |
7, Nasal / and or throat swab ; 1, Blood culture ; 2, Sputum ; 3, Deep respiratory sample (BAL/ETA) ; 4, Urine ; 5, Cerebrospinal fluid (CSF) ; 6, Faeces (stool) |
| mborres_v2 |
|
dropdown |
Test result, select one: |
1, Obtained: positive ; 2, Obtained, negative ; 3, Not obtained |
| mbtestcd_nsth |
|
dropdown |
Organism - Nasal and / or throat swab |
1, SARS-CoV-2 (COVID-19) ; 2, Influenza - A/H3N2 ; 3, Influenza - A/H1N1pdm09 ; 4, Influenza - A/H7N9 ; 5, Influenza - type B ; 6, Influenza - type C ; 7, Influenza - untyped ; 8, Respiratory Syncytial virus (RSV) ; 9, Adenovirus ; 10, Bocavirus ; 11, Bordetella ; parapertussis ; 12, Bordetella pertussis ; 13, Chlamydophila pneumoniae ; 14, Coronavirus 229E ; 15, Coronavirus HKU1 ; 16, Coronavirus OC43 ; 17, Coronavirus NL63 ; 18, CoronaVirus (Mers-CoV) ; 19, Human Metapneumovirus ; 20, Human Rhinovirus/Enterovirus ; 21, Metapneumovirus ; 22, Middle East Respiratory Syndrome ; 23, Mycoplasma pneumoniae (L. pneumophila or L. longbeachae) ; 24, Parainfluenza 1 Parainfluenza 2 ; 25, Parainfluenza 3 ; 26, Parainfluenza 4 ; 27, Severe Acute Respiratory Syndrome ; 40, Other - specify |
| mbtestcd_nstho |
|
text |
Other Nasal and / or throat swab organism - specify |
|
| mbtestcd_bc |
|
dropdown |
Organism - Blood culture |
1, Staphylococcus aureus ; 2, Staphylococcus species (NOT "aureus" or "lugdunensis") ; 3, Escherichia coli ; 4, Klebsiella pneumoniae ; 5, Klebsiella aerogenes ; 6, Klebsiella oxytoca ; 7, Enterococcus faecium ; 8, Enterococcus faecalis ; 9, Candida species (NOT "yeasts") ; 10, Pseudomonas aeruginosa ; 11, Streptococcus pneumoniae ; 12, Enterobacter cloacae ; 13, Proteus mirabilis ; 14, Streptococcus pyogenes (Group A Streptococcus) ; 15, Streptococcus agalactiae (Group B Streptococcus) ; 16, Streptococcus anginosus or constellatus or intermedius ; 17, Streptococcus bovis or gallolyticus ; 18, Streptococcus dysgalactiae ; 19, Streptococcus viridans or gordonii or mitis or oralis or parasanguinis or salivarius or sanguinis ; 20, Citrobacter koseri ; 21, Serratia marcescens ; 22, Acinetobacter baumannii ; 23, Morganella morganii ; 24, Stenotrophomonas maltophilia ; 25, Staphylococcus lugdunensis ; 40, Other (do not record microscopy/gram stain only results) |
| mbtestcd_bco |
|
text |
Other Blood Culture organism |
|
| mbtestcd_sp |
|
dropdown |
Organism - Sputum |
1, Staphylococcus aureus ; 2, Escherichia coli ; 3, Pseudomonas aeruginosa ; 4, Klebsiella pneumoniae ; 5, Klebsiella aerogenes ; 6, Klebsiella oxytoca ; 7, Haemophilus influenzae ; 8, Moraxella catarrhalis ; 9, Serratia marcescens ; 10, Enterobacter cloacae ; 11, Citrobacter koseri ; 12, Stenotrophomonas maltophilia ; 13, Streptococcus pneumoniae ; 14, Proteus mirabilis ; 15, Acinetobacter baumannii ; 16, Morganella morganii ; 17, Aspergillus fumigatus ; 18, Aspergillus sp (NOT "fumigatus") ; 19, Enterococcus faecium ; 20, Enterococcus faecalis ; 21, Candida species (NOT "yeasts") ; 22, Streptococcus pyogenes (Group AStreptococcus) ; 23, Streptococcus agalactiae (Group B Streptococcus) ; 24, Streptococcus anginosus or constellatus or intermedius ; 25, Staphylococcus lugdunensis ; 26, Staphylococcus species (NOT "aureus" or "lugdunensis") ; 27, Mycobacterium tuberculosis ; 28, Other Mycobacteria (NOT "tuberculosis") ; 40, Other (do not record microscopy/gram stain only results) |
| mbtestcd_spo |
|
text |
Other Sputum organism |
|
| mbtestcd_drs |
|
dropdown |
Organism - Deep respiratory sample |
1, Staphylococcus aureus ; 2, Escherichia coli ; 3, Pseudomonas aeruginosa ; 4, Klebsiella pneumoniae ; 5, Klebsiella aerogenes ; 6, Klebsiella oxytoca ; 7, Haemophilus influenzae ; 8, Moraxella catarrhalis ; 9, Serratia marcescens ; 10, Enterobacter cloacae ; 11, Citrobacter koseri ; 12, Stenotrophomonas maltophilia ; 13, Streptococcus pneumoniae ; 14, Proteus mirabilis ; 15, Acinetobacter baumannii ; 16, Morganella morganii ; 17, Aspergillus fumigatus ; 18, Aspergillus sp (NOT "fumigatus") ; 19, Enterococcus faecium ; 20, Enterococcus faecalis ; 21, Candida species (NOT "yeasts") ; 22, Streptococcus pyogenes (Group AStreptococcus) ; 23, Streptococcus agalactiae (Group B Streptococcus) ; 24, Streptococcus anginosus or constellatus or intermedius ; 25, Staphylococcus lugdunensis ; 26, Staphylococcus species (NOT "aureus" or "lugdunensis") ; 27, Mycobacterium tuberculosis ; 28, Other Mycobacteria (NOT "tuberculosis") ; 40, Other (do not record microscopy/gram stain only results) |
| mbtestcd_drso |
|
text |
Other Deep respiratory sample organism |
|
| mbtestcd_ur |
|
dropdown |
Organism - Urine |
1, Escherichia coli ; 2, Escherichia coli ; 3, Klebsiella pneumoniae ; 4, Klebsiella aerogenes ; 5, Klebsiella oxytoca ; 6, Pseudomonas aeruginosa ; 7, Serratia marcescens ; 8, Enterobacter cloacae ; 9, Enterococcus faecium ; 10, Enterococcus faecalis ; 11, Staphylococcus aureus ; 12, Staphylococcus saprophyticus ; 13, Staphylococcus species (NOT "aureus" or "saprophyticus") ; 14, Candida species (NOT "yeasts") ; 40, Other (do not record microscopy/gram stain only results) |
| mbtestcd_uro |
|
text |
Other Urine organism |
|
| mbtestcd_csf |
|
dropdown |
Organism - Cerebrospinal |
1, Neisseria meningitidis ; 2, Streptococcus pneumoniae ; 3, Listeria monocytogenes ; 4 Haemophilus influenzae ; 5 Herpes simplex virus ; 6, Enterovirus ; 7, Varicella zoster virus ; 40, Other |
| mbtestcd_csfo |
|
text |
Other Cerebrospinal |
|
| mbtestcd_fst |
|
dropdown |
Organism - Faeces (stool) |
1, Clostridium difficile (ONLY if "toxin positive") ; 2, Strongyloides stercoralis ; 3, Salmonella species ; 4, Shigella species ; 5, Campylobacter species ; 40, Other |
| mbtestcd_fsto |
|
text |
Other Faeces (stool) organism |
|
| mbdat_v2 |
|
text (date_dmy) |
Date sample obtained |
|
| mbspec_v3 |
|
dropdown |
Other sample type with Positive results: Sample type This does not need to be recorded for V9.9 of the CRF onwards |
1, Abdominopelvic ; 2, Vascular access tip ; 3, Catheter urine ; 4, Abscess aspirate ; 10, Other |
| mbtestcd_v3 |
|
text |
Other sample type with Positive results: Organism |
|
| mbdat_v3 |
|
text (date_dmy) |
Other sample type with Positive results : Date sample obtained |
|
| infectious_respiratory_disease_pathogen_testing_complete |
Form Status |
dropdown |
Infectious Respiratory Disease Pathogen Testing section complete? |
0, Incomplete ; 1, Unverified ; 2, Complete |