Query Output | Description |
Columns | Output | |
A | AMR Gene Target | AMR gene reported by Acuitas AMR Gene Panel. |
B | Organism | Organism tested by Acuitas AMR Gene Panel. |
C-D | Detection of AMR Gene Target by AMR Gene Panel versus Whole Genome
Sequencing, Combined Clinical Device Performance - Stock and Prospective Isolates (from K191288) | Percent positive/negative agreement (PPA, NPA) for detection of AMR gene
by Acuitas AMR Gene Panel versus genome sequencing for stock and
prospective isolates from clinical study (K191288). Some stock isolates
tested in replicate. Results include numbers of true/false positives and
true/false negatives with 95% confidence intervals. |
E | Antimicrobial | Antibiotic |
F-I | Detection of AMR Gene Target by AMR Gene Panel vs AST Non-Susceptibility,
Combined Clinical Device Performance - Stock and Prospective Isolates
(from K191288) including only unique isolates (no replicates) | PPA, NPA and positive/negative predictive values (PPV, NPV) for detection
of AMR gene by Acuitas AMR Gene Panel versus AST non-susceptibility for
unique stock and prospective isolates from clinical study (K191288).
Results include numbers of true/false positives and true/false negatives
with 95% confidence intervals. |
J-N | Detection of AMR Gene Target versus AST Non-Susceptibility in OpGen's
SMART Study | PPA, NPA, PPV and NPV for detection of AMR gene by PCR versus AST
non-susceptibility from OpGenās SMART Study including numbers of
true/false positives and true/false negatives with 95% confidence
intervals. Column N reports percentage of study organisms positive for
AMR genes including numbers of total positives and total isolates with
95% confidence intervals. Results indicate representative AMR gene
variants detected by assay(s) reported as AAC, AAD, ANT, APH, CMY and
DFR by Acuitas AMR Gene Panel; refer to columns A and J-N for the
detailed relationship between gene tests contained in the Acuitas AMR
Gene Panel and the name under which they are reported. |
O | % Organisms with AMR Gene Target in NCBI Pathogen Database (2019) | Percentages of organisms in NCBI Pathogen Database (2019) with AMR gene
along with total number of isolates. Results indicate representative AMR
gene variants detected by assay(s) reported as AAC, AAD, ANT, APH, CMY
and DFR by Acuitas AMR Gene Panel; refer to columns A and O for the
detailed relationship between gene tests contained in the Acuitas AMR
Gene Panel and the name under which they are reported. |
P | AMR Gene Associated with AST Non-Susceptibility? | Whether organism/AMR gene associated with AST non-susceptibility in
clinical study (K191288). |
Q | Notes | General notes and reasons why organism/AMR gene did not associate with
AST non-susceptibility in clinical study (K191288) including (a)
intrinsic resistance, AST not evaluated, (b) PPV < 80%, (c)
insufficient number of non-susceptible isolates by AST, (d) may have
elevated MIC to imipenem due to mechanisms other than carbapenemases,
and (e) OXA-9 is active against cephalosporins and penicillins according
to the Comprehensive Antibiotic Resistance Database (CARD); refer to https://card.mcmaster.ca/ontology/37804. |
Abbreviations: blank entry (-), intrinsic resistance (IR),
not-a-number/divide-by-zero (NaN), test not performed (Not Evaluated),
and result not reported (NR). |