scholarly journals Flow Cytometry in Detecting Resistant E. Coli Strains

2017 ◽  
Vol 5 (5) ◽  
pp. 592-594
Author(s):  
Lyudmila Akhmaltdinova ◽  
Alyona Lavrinenko ◽  
Ilya Belyayev
Keyword(s):  
Flow Cytometry ◽  
Fluorescent Dyes ◽  
Antibiotic Sensitivity ◽  
Relative Accuracy ◽  
Diagnostic Methods ◽  
Cohen’S Kappa ◽  
E Coli ◽  
Kappa Test ◽  
Cohen's Kappa ◽  
Relative Specificity

Antibacterial drugs are the most consumed group of drugs in the modern hospitals. Standard methods of antibiotic sensitivity are labour and time-consuming, taking up to 24 hours after the pure culture is isolated (the analysis typically lasts up to 72 hours). Working out express diagnostic methods is of importance, and studies are made in various directions. Flow cytometry in detecting resistant E.coli strains was used. Flow cytometry fluorescent dyes were used to stain viable and dead cells. For method validation, relative accuracy, relative susceptibility, relative specificity and Cohen’s kappa test were determined compared to the delusion test. Cytometry method showed acceptable results on the model of E.coli. Relative accuracy comprised 88.8%, sensitivity - 85.7%, specificity was 88.8%, Cohen’s kappa test showed value 0.524, which is a medium agreement between the measurements by different methods.

scholarly journals Kesesuaian Hasil Pemeriksaan RT PCR, RDT NS1, dan RDT IgM Pasien Penyakit Dengue

2016 ◽  
Vol 2 (2) ◽  
pp. 56
Author(s):  
Paisal Paisal ◽  
Mukhlis Zuardi ◽  
Reni Herman
Keyword(s):  
Mortality Rate ◽  
Rt Pcr ◽  
Laboratory Examination ◽  
Cohen’S Kappa ◽  
Dengue Disease ◽  
Kappa Test ◽  
Cohen's Kappa ◽  
The World ◽  
Aceh Province ◽  
Test Result

<p style="text-align: justify;">The incidence of dengue disease in the world is estimated at 390 million cases per year. In Indonesia, during 2013 there were 35-40 cases per 100.000 population, with a mortality rate of 0.73%. This study aimed to determine the suitability and the percentage of RT-PCR, RDT NS1, and RDT IgM detection examination. Samples were obtained from hospitals in Aceh province during 2012. The research samples reached 100 collected samples, it was only 82 samples that fulfill the analysis criteria. Cohen’s Kappa test result showed there was moderate suitability between RT-PCR and RDT NS1 (K=0,404, p = 0,000), and weak suitability between RT-PCR began RDT IgM (K=0,139, p = 0,046). While the percentage of detection for RT-PCR, RDT NS1, dan RDT IgM were 16%, 10%, and 60%. RDT IgM is the best alternative for laboratory examination in the hospital.

scholarly journals Evaluation of the similarity between drought indices by correlation analysis and Cohen's Kappa test in a Mediterranean area

2021 ◽  
Author(s):  
L. Vergni ◽  
F. Todisco ◽  
B. Di Lena
Keyword(s):  
Correlation Analysis ◽  
Pearson Correlation ◽  
Central Italy ◽  
Meteorological Drought ◽  
Drought Indices ◽  
Drought Severity ◽  
Cohen’S Kappa ◽  
Kappa Test ◽  
Cohen's Kappa ◽  
Standardised Precipitation Index

AbstractIn the literature, numerous papers report comparative analyses of drought indices. In these types of studies, the similarity between drought indices is usually evaluated using the Pearson correlation coefficient, r, calculated between corresponding severity time series. However, it is well known that the correlation does not describe the strength of agreement between two variables. Two drought indices can exhibit a high degree of correlation but can, at the same time, disagree substantially, for example, if one index is consistently higher than the other. From an operational point of view, two indices can be considered in agreement when they indicate the same severity category for a given period (e.g. moderate drought). In this work, we compared six meteorological drought indices based on both correlation analysis and Cohen's Kappa test. This test is typically used in medical or social sciences to obtain a quantitative assessment of the degree of agreement between different methods or analysts. The indices considered are five timescale-dependent indices, i.e. the Percent of Normal Index, the Deciles Index, the Percentile Index, the Rainfall Anomaly Index, and the Standardised Precipitation Index, computed at the 1-, 3-, and 6-month timescales, and the Effective Drought Index, a relatively new index, which has a self-defined timescale. The indices were calculated for 15 stations in the Abruzzo region (central Italy) during 1951–2018. We found that the strength of agreement depends on both the criteria of drought severity classification and the different indices' calculation method. The Cohen's Kappa test indicates a prevailing moderate or fair agreement among the indices considered, despite the generally very high correlation between the corresponding severity times series. The results demonstrate that the Cohen's Kappa test is more effective than the correlation analysis in discriminating the actual strength of agreement/disagreement between drought indices.

scholarly journals Lung Ultrasound Is More Sensitive for Hospitalized Consolidated Pneumonia Diagnosis Compared to CXR in Children

Children ◽  
2021 ◽  
Vol 8 (8) ◽  
pp. 659
Author(s):  
Ioana Mihaiela Ciuca ◽  
Mihaela Dediu ◽  
Monica Steluta Marc ◽  
Mirabela Lukic ◽  
Delia Ioana Horhat ◽  
...  
Keyword(s):  
Sensitivity And Specificity ◽  
Lung Ultrasound ◽  
Clinical Suspicion ◽  
Cohen’S Kappa ◽  
Perfect Agreement ◽  
Kappa Test ◽  
Cohen's Kappa ◽  
Child Pneumonia ◽  
Chest X Ray ◽  
Pneumonia Diagnosis

Background: Pneumonia is the leading cause of death among children; thus, a correct early diagnosis would be ideal. The imagistic diagnosis still uses chest X-ray (CXR), but lung ultrasound (LUS) proves to be reliable for pneumonia diagnosis. The aim of our study was to evaluate the sensitivity and specificity of LUS compared to CXR in consolidated pneumonia. Methods: Children with clinical suspicion of bacterial pneumonia were screened by LUS for pneumonia, followed by CXR. The agreement relation between LUS and CXR regarding the detection of consolidation was evaluated by Cohen’s kappa test. Results: A total of 128 patients with clinical suspicion of pneumonia were evaluated; 74 of them were confirmed by imagery and biological inflammatory markers. The highest frequency of pneumonia was in the 0–3 years age group (37.83%). Statistical estimation of the agreement between LUS and CXR in detection of the consolidation found an almost perfect agreement, with a Cohen’s kappa coefficient of K = 0.89 ± 0.04 SD, p = 0.000. Sensitivity of LUS was superior to CXR in detection of consolidations. Conclusion: Lung ultrasound is a reliable method for the detection of pneumonia consolidation in hospitalized children, with sensitivity and specificity superior to CXR. LUS should be used for rapid and safe evaluation of child pneumonia.

scholarly journals Diagnostic study on an immunochromatographic rapid test for schistosomiasis: comparison between use on serum and on blood spot from fingerprick

BMJ Open ◽  
2018 ◽  
Vol 8 (3) ◽  
pp. e019228
Author(s):  
Dora Buonfrate ◽  
Paola Rodari ◽  
Daniele Brunelli ◽  
Monica Degani ◽  
Andrea Ragusa ◽  
...  
Keyword(s):  
Rapid Test ◽  
High Sensitivity ◽  
Diagnostic Methods ◽  
Diagnostic Study ◽  
Tropical Diseases ◽  
Cohen’S Kappa ◽  
Cohen's Kappa ◽  
Included Patient ◽  
Epidemiological Risk ◽  
Refusal To Participate

BackgroundAn immunochromatographic rapid test (ICT; Schistosoma ICT IgG-IgM, LDBIO Diagnostics) demonstrated high sensitivity (96%) in the diagnosis ofSchistosoma mansoniandS. haematobium. To date, the test has been validated for use on serum only, but in the absence of lab equipment, blood drop from fingerprick could be a useful option. This method is acquiring more interest because of the high flow of migrants rapidly moving across Italy and other European countries.ObjectiveThe aim of this prospective study was to evaluate the use of ICT on whole blood obtained from fingerprick.SettingCentre for Tropical Diseases (CTD), Sacro Cuore Don Calabria Hospital, Negrar, Verona, Italy.ParticipantsThe inclusion criteria were African migrants aged ≥18 years with epidemiological risk of infection. The exclusion criteria were refusal to participate in the study and impossibility of execution of one of the two study methods, for any reason. Seventy of the 72 eligible patients completed the study, 79% of whom were male.InterventionsThe ICT was performed twice for each included patient: one on blood drop (by the research nurses, in the ward) and one on serum (by staff of CTD lab). The primary outcome was the concordance between the two methods, assessed by Cohen’s kappa.ResultsCohen’s kappa was 0.45 (95% CI 27.0 to 63.6), indicating moderate agreement between the ICT on serum and the ICT on blood drop. Assuming the results on serum as reference standard for diagnosis, the sensitivity and specificity of ICT on blood drop were 55% (95% CI 40 to 69) and 93% (95% CI 79 to 98), respectively.ConclusionsThe agreement between the two diagnostic methods is too low to support the alternative one. Implementation of the kit for using blood drop instead of the serum and/or further studies aimed to identify easy-to-use tests for schistosomiasis feasible outside referral centres for tropical diseases are needed.

scholarly journals Lateral throat form classification using a customized gauge and Neil’s method – a comparative study

2018 ◽  
Vol 8 (4) ◽  
pp. 54-57
Author(s):  
Sabina Poudel ◽  
Minu Dhungana ◽  
Rajani Karki ◽  
Prabhat Shrestha
Keyword(s):  
Geriatric Patients ◽  
Observer Variation ◽  
Observer Agreement ◽  
Cohen’S Kappa ◽  
Kappa Test ◽  
Cohen's Kappa ◽  
Kappa Value ◽  
Edentulous Patients ◽  
Observer Accuracy ◽  
Good Agreement

Introduction: Lateral throat form (LTF) is the critical area which has to be recorded properly for obtaining proper retention and stability in complete denture especially in geriatric patients with resorbed ridges. Popular method used for determining LTF is Neil’s method which depends on the forces applied by the floor of mouth when the tongues protrude out. Since the perception of the forces differs among different operators, there are high chances of error in the classification. So, customized instrument was fabricated to prevent this inter-observer variation. The aim of the study was to compare the inter-observer accuracy between Neil’s method of classifi­cation and classification done by customized gauze. Methods and methodology: Total 30 edentulous patients were taken. Two observers measured the LTF depth by customized tool and also by Neil’s method. Cohen’s kappa test was used to evaluate the agreement between two operators in two different classifications. Result: The agreement between the two observers was evaluated by means of Cohen’s kappa value. There was good agreement between observers in proposed classification done by customized tool with kappa value 0.658 and fair inter-observer agreement with kappa value 0.0492. Conclusion: The method of measuring the depth of LTF with fabricated instrument was more accurate and reliable than Neil’s method.

scholarly journals Developing geriatric face makeup enrichment book for students of Skin Beauty program in vocational high school

2020 ◽  
Vol 10 (2) ◽  
Author(s):  
Pramesti Adika Ratri ◽  
Siti Hamidah
Keyword(s):  
High School ◽  
Kappa Coefficient ◽  
Vocational High School ◽  
Cohen’S Kappa ◽  
Ability Test ◽  
Gain Score ◽  
Kappa Test ◽  
Cohen's Kappa ◽  
Cohen’S Kappa Coefficient

This research aims to: (1) produce a Geriatric Makeup Enrichment book as a teaching material of geriatric makeup for students of Purworejo 3 Vocational High School majoring in Beauty that is feasible and effective . This research is research and development applying the four-D. The product feasibility tests were carried out by two material experts and two media experts by validated the enrichment book through a questionnaire using a Likert scale was analyzed using conversion scores into four quantitative categories then tested the agreement between experts through the Cohen's Kappa test and its effectiveness was tested with a one-group case study technique and analyzed with gain scores. The subjects of this research trial were students of class XI Beauty in Purworejo 3 Vocational High School The data collection instruments used are observation guidelines, interview guidelines, experts’ validation questionnaire, teachers’ response questionnaire, students’ response questionnaire and ability test The research results are as follows. The enrichment book developed met the feasibility criteria according to material experts with a score of 3.59 (excellent) and there was agreement between material expert with a Cohen’s Kappa coefficient of 0.64 (good) Tthen, met the feasibility criteria according to media experts with a score of 3.70 (excellent) and there was an agreement between media with a Cohen’s Kappa coefficient value of 1.00 (excellent). Enrichment book developed was declared effective for use in XI grade students of Purworejo 3 Vocational High School majoring in Beauty and was included in medium category for value understanding with the gain score 0.5 and in a high category in skill value with the gain score 0.71.

scholarly journals Evaluation of the Efficacy of Flow Cytometry in Detecting Bacterial Contamination in Platelets

2019 ◽  
pp. 1-9
Author(s):  
Maryam Habibi Ziari ◽  
Farhad Razjou ◽  
Shahram Vaeli ◽  
Fatemeh Abedi Poshtiri ◽  
Abolfazl Dabirmoghadam
Keyword(s):  
Flow Cytometry ◽  
Staphylococcus Epidermidis ◽  
Bacterial Contamination ◽  
Storage Conditions ◽  
Negative Control ◽  
Diagnostic Methods ◽  
E Coli ◽  
Low Concentrations ◽  
Minimum Interval ◽  
Short Time

Introduction: Bacterial contamination of platelet products is a major risk of infections in blood transfusion. Due to their storage conditions at room temperatures (22 to 24°C), cases of septicemia and even death caused by platelet injection have been reported. Therefore, use of appropriate diagnostic methods can improve the health of this product. In this study, flow cytometry was used to detect contaminated platelet units. Methods: This study was a diagnostic interventional type. 15 units of platelet concentrate was prepared at a minimum interval time after production. Staphylococcus epidermidis and Escherichia coli (E. coli) bacteria were each added to 6 platelet bags, with a concentration of 10 CFU / ml, while 3 bags were used as negative control. Platelets were stored in a shaking incubator at 22 - 24°C, for 0, 6, 24 and 48 hour-intervals after inoculation. Samples were then taken at 1 ml volume and evaluated by flow cytometry. Results: The sensitivity of the flow cytometry method to detect contaminated platelet units in infections with both Staphylococcus epidermidis and E. coli, in a 1 ml volume in all samples at 0, 6, 22 and 24 hours after inoculation, was 100%, and the number of bacteria increased in 24 hours of incubation, except for E. coli that decreased after 24 hours. Conclusion: This study shows that flow cytometry can be a useful method for detecting bacterial contamination in platelets, and can detect low concentrations (10 CFU / ml) of bacteria in small volumes of sample (ml) in a short time.

DEVELOPMENT OF MULTIPLEX REAL-TIME PCR ASSAY FOR SIX PATHOGENS: RAPID TOOL FOR DIAGNOSIS OF BACTERIAL MENINGITIS

2019 ◽  
pp. 60-66
Author(s):  
Viet Quynh Tram Ngo ◽  
Thi Ti Na Nguyen ◽  
Hoang Bach Nguyen ◽  
Thi Tuyet Ngoc Tran ◽  
Thi Nam Lien Nguyen ◽  
...  
Keyword(s):  
Bacterial Meningitis ◽  
Real Time ◽  
Real Time Pcr ◽  
Diagnostic Methods ◽  
Type B ◽  
E Coli ◽  
Pcr Assays ◽  
Set Up ◽  
Etiological Agents ◽  
Suis Serotype

Introduction: Bacterial meningitis is an acute central nervous infection with high mortality or permanent neurological sequelae if remained undiagnosed. However, traditional diagnostic methods for bacterial meningitis pose challenge in prompt and precise identification of causative agents. Aims: The present study will therefore aim to set up in-house PCR assays for diagnosis of six pathogens causing the disease including H. influenzae type b, S. pneumoniae, N. meningitidis, S. suis serotype 2, E. coli and S. aureus. Methods: inhouse PCR assays for detecting six above-mentioned bacteria were optimized after specific pairs of primers and probes collected from the reliable literature resources and then were performed for cerebrospinal fluid (CSF) samples from patients with suspected meningitis in Hue Hospitals. Results: The set of four PCR assays was developed including a multiplex real-time PCR for S. suis serotype 2, H. influenzae type b and N. meningitides; three monoplex real-time PCRs for E. coli, S. aureus and S. pneumoniae. Application of the in-house PCRs for 116 CSF samples, the results indicated that 48 (39.7%) cases were positive with S. suis serotype 2; one case was positive with H. influenzae type b; 4 cases were positive with E. coli; pneumococcal meningitis were 19 (16.4%) cases, meningitis with S. aureus and N. meningitidis were not observed in any CSF samples in this study. Conclusion: our in-house real-time PCR assays are rapid, sensitive and specific tools for routine diagnosis to detect six mentioned above meningitis etiological agents. Key words: Bacterial meningitis, etiological agents, multiplex real-time PCR

Bacteria and Viral Profile of Severe Acute Respiratory Infections of Children Attending Yangon Children’s Hospital and Yankin Children’s Hospital

2019 ◽  
Vol 31 (1) ◽  
pp. 44-51
Keyword(s):  
Influenza A ◽  
Respiratory Infections ◽  
Antibiotic Sensitivity ◽  
Parainfluenza Virus ◽  
Sensitivity Testing ◽  
E Coli ◽  
Children's Hospital ◽  
Severe Acute Respiratory Infection ◽  
Children’S Hospital ◽  
Syncytial Virus

Objectives of study are (1) to reinforce the national capacity for diagnosis and antibiogram of some infectious diseases causing severe acute respiratory infection (SARI) and (2) to build a network between hospital and laboratory for the diagnosis and surveillance of SARI in Yangon. This study is a crosssectional hospital- and laboratory-based descriptive study. A total of 825 samples including respiratory samples and blood samples from 511 children attending Yangon Children’s Hospital and Yankin Children’s Hospital from December 2014 to April 2016 for treatment of SARI were included. Identification and antibiotic sensitivity testing were done using Vitek 2. Out of 129 gram-negative bacilli (GNB), K. pneumoniae 32%, P. aeruginosa 18%, A. baumannii 13%, E. coli 9% were mostly isolated. Among 35 gram-positive cocci (GPC), S. aureus 42% and S. pneumoniae 6% were mostly isolated. Multidrug resistance rates were E. coli 100%, K. pneumoniae 95%, A. baumanii 82% and P. aeruginosa 17%. Extended-spectrum beta-latamase (ESBL)-producing K. pneumoniae and E. coli was 6 out of 10 tested organisms. Carbarpenemase-producing GNB and methicillin-resistant Staphylococcus aureus (MRSA) were 21% and 33%, respectively. Virology section tested 529 samples of 490 patients using the FTD33 Multiplex PCR method which can detect 33 pathogens including 20 viruses, 12 bacteria and 1 fungus. Out of 490 patients, 374 were PCR positive. Different types of samples including nasopharyngeal, throat, endotracheal and laryngeal swab, tracheal secretion and bronchoalveolar lavage, were tested. Out of 566 viruses, respiratory syncytial virus (RSV) (19.3%), rhinovirus (17.0%), parechovirus (14.3%), bocavirus (11.1%), adenovirus (10.2%), metapneumo-virus A and B (10.2%), parainfluenza virus (5.7%), enterovirus (3.0%), influenza A virus (2.8%), coronavirus (4%), parainfluenza virus (0.9%) and influenza C virus (0.4%) were detected. This study highlighted the etiological agents of bacteria, viruses and drug-resistant bacterial pathogens in SARI.

scholarly journals An update on image forming methods: structure analysis and Gestalt evaluation of images from rocket lettuce with shading, N supply, organic or mineral fertilization, and biodynamic preparations

2021 ◽  
Author(s):  
Miriam Athmann ◽  
Roya Bornhütter ◽  
Nicolaas Busscher ◽  
Paul Doesburg ◽  
Uwe Geier ◽  
...  
Keyword(s):  
Copper Chloride ◽  
Organic Fertilizer ◽  
Structural Features ◽  
Fertilizer Treatment ◽  
Friedman Test ◽  
Mineral Fertilization ◽  
Cohen’S Kappa ◽  
N Supply ◽  
Cohen's Kappa ◽  
Forming Methods

AbstractIn the image forming methods, copper chloride crystallization (CCCryst), capillary dynamolysis (CapDyn), and circular chromatography (CChrom), characteristic patterns emerge in response to different food extracts. These patterns reflect the resistance to decomposition as an aspect of resilience and are therefore used in product quality assessment complementary to chemical analyses. In the presented study, rocket lettuce from a field trial with different radiation intensities, nitrogen supply, biodynamic, organic and mineral fertilization, and with or without horn silica application was investigated with all three image forming methods. The main objective was to compare two different evaluation approaches, differing in the type of image forming method leading the evaluation, the amount of factors analyzed, and the deployed perceptual strategy: Firstly, image evaluation of samples from all four experimental factors simultaneously by two individual evaluators was based mainly on analyzing structural features in CapDyn (analytical perception). Secondly, a panel of eight evaluators applied a Gestalt evaluation imbued with a kinesthetic engagement of CCCryst patterns from either fertilization treatments or horn silica treatments, followed by a confirmatory analysis of individual structural features. With the analytical approach, samples from different radiation intensities and N supply levels were identified correctly in two out of two sample sets with groups of five samples per treatment each (Cohen’s kappa, p = 0.0079), and the two organic fertilizer treatments were differentiated from the mineral fertilizer treatment in eight out of eight sample sets with groups of three manure and two minerally fertilized samples each (Cohen’s kappa, p = 0.0048). With the panel approach based on Gestalt evaluation, biodynamic fertilization was differentiated from organic and mineral fertilization in two out of two exams with 16 comparisons each (Friedman test, p < 0.001), and samples with horn silica application were successfully identified in two out of two exams with 32 comparisons each (Friedman test, p < 0.001). Further research will show which properties of the food decisive for resistance to decomposition are reflected by analytical and Gestalt criteria, respectively, in CCCryst and CapDyn images.

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