LitCovid-sentences  

PMC:7558333 / 4515-8506 JSONTXT 11 Projects

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Id Subject Object Predicate Lexical cue
T34 0-2 Sentence denotes 2.
T35 3-24 Sentence denotes Materials and Methods
T36 26-30 Sentence denotes 2.1.
T37 31-53 Sentence denotes Population of Patients
T38 54-267 Sentence denotes Forty-five intubated and mechanically ventilated patients hospitalized in a “COVID-19 ICU” of Rennes teaching hospital were screened for this study and benefited from a systematic monitoring to detect Aspergillus.
T39 268-356 Sentence denotes The hospital’s ethics committee (N 20-56 obtained the 30 April 2020) approved the study.
T40 357-539 Sentence denotes The presence of SARS-CoV-2 in respiratory specimens (nasal and pharyngeal swabs or sputum) was detected by real time reverse transcription-polymerase chain reaction (RT-PCR) methods.
T41 540-880 Sentence denotes The following data were recorded: age, patient’s preexisting condition (current smoking, diabetes, hypertension, cardiovascular disease, pulmonary disease, and kidney disease), body mass index, ICU length of stay, duration of mechanical ventilation, ventilator-free days at day 28, need for prone position ventilation, and death in the ICU.
T42 881-976 Sentence denotes Initial clinical laboratory workup included a complete blood count and serum biochemical tests.
T43 977-1038 Sentence denotes Chest CT scans were performed during the ICU hospitalization.
T44 1039-1241 Sentence denotes The Simplified Acute Physiology Score (SAPS II) and the Sepsis-Related Organ Failure Assessment (SOFA) score at admission in ICU, at day 7 and 14 days after admission were used to assess severity [7,8].
T45 1243-1247 Sentence denotes 2.2.
T46 1248-1269 Sentence denotes Aspergillus Detection
T47 1270-1541 Sentence denotes Respiratory samples, either bronchial or endotracheal aspirates or bronchoalveolar lavages, were systematic twice weekly and Aspergillus detection was performed using culture and real-time quantitative PCR, but GM was not performed to avoid any risk of lab contamination.
T48 1542-1646 Sentence denotes Briefly, respiratory samples were first digested using v/v digestEUR (Eurobio) for 30 min under shaking.
T49 1647-1859 Sentence denotes Mycological culture were performed after centrifugation of fluidified samples by inoculation of 100–200 µL of pellet on Sabouraud-Chloramphenicol dextrose Agar plates, and incubated for 7 days at 30 °C and 37 °C.
T50 1860-2105 Sentence denotes Mold identification at genus or species complex level was performed microscopically, and confirmed at species level using MALDI-ToF mass spectrometry (MALDI Biotyper, Bruker France, Marne-la-Vallée, France), after fungal material extraction [9].
T51 2106-2269 Sentence denotes Spectrum profiles were then submitted to the Mass Spectrometry Identification (MSI) online database for definitive identification (https://msi.happy-dev.fr/ [10]).
T52 2270-2574 Sentence denotes For molecular detection, 200 µL of plain fluidified respiratory sample underwent immediate SARS-CoV-2 inactivation by heating at 56 °C overnight in ATL Lysis buffer (Qiagen, Saint-Quentin Fallavier, France), before DNA extraction using the EZ1 DSP virus kit (Qiagen) on a EZ1 Advanced XL device (Qiagen).
T53 2575-2695 Sentence denotes Molecular detection of A. fumigatus was done using a 28S rDNA Aspergillus-targeted PCR, as previously published [11,12].
T54 2696-3045 Sentence denotes In case of Aspergillus positive culture and/or positive PCR in respiratory samples, additional tests were performed on serum, i.e., detection of GM (Platelia GM Aspergillus, Biorad, Marnes-la-Coquette, France), Aspergillus PCR and detection of anti-Aspergillus antibody by ELISA (Platelia IgG Aspergillus, Biorad) and in-house immunoelectrophoresis.
T55 3046-3280 Sentence denotes Briefly, Aspergillus PCR was performed on 1 mL of serum extracted using MagNA Pure 24 Total NA Isolation kit (Roche diagnostics, Meylan, France) on a MagNA Pure 24 device (Roche diagnostics), according to manufacturer recommendations.
T56 3281-3317 Sentence denotes DNA was eluted in a volume of 50 µL.
T57 3319-3323 Sentence denotes 2.3.
T58 3324-3344 Sentence denotes Statistical Analysis
T59 3345-3493 Sentence denotes Continuous variables were expressed as median (interquartile range, IQR) and compared using the nonparametric Mann–Whitney U or Kruskal–Wallis test.
T60 3494-3572 Sentence denotes Dunn’s correction tests were performed if multiple comparisons were requested.
T61 3573-3626 Sentence denotes Qualitative data were compared using Chi-square test.
T62 3627-3690 Sentence denotes Tests were two-sided with significance set at α less than 0.05.
T63 3691-3841 Sentence denotes Concordance between categorical results from diagnostic tests was performed using the percent agreement coefficient and Cohen’s kappa coefficient (κ).
T64 3842-3904 Sentence denotes When comparing quantitative data, an ANOVA test was performed.
T65 3905-3991 Sentence denotes All data were analyzed with GraphPad Prism 8.4 (GraphPad Software, La Jolla, CA, USA).