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  1. Article ; Online: A Data-Driven Rationale for High-Throughput SARS-CoV-2 Mass Screening Programs.

    Pilcher, Christopher D

    JAMA network open

    2020  Volume 3, Issue 12, Page(s) e2031577

    MeSH term(s) COVID-19 ; COVID-19 Testing ; High-Throughput Screening Assays ; Humans ; Mass Screening ; SARS-CoV-2
    Language English
    Publishing date 2020-12-01
    Publishing country United States
    Document type Journal Article ; Comment
    ISSN 2574-3805
    ISSN (online) 2574-3805
    DOI 10.1001/jamanetworkopen.2020.31577
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: Group Testing for Severe Acute Respiratory Syndrome- Coronavirus 2 to Enable Rapid Scale-up of Testing and Real-Time Surveillance of Incidence.

    Pilcher, Christopher D / Westreich, Daniel / Hudgens, Michael G

    The Journal of infectious diseases

    2020  Volume 222, Issue 6, Page(s) 903–909

    Abstract: High-throughput molecular testing for severe acute respiratory syndrome-coronavirus 2 (SARS-CoV-2) may be enabled by group testing in which pools of specimens are screened, and individual specimens tested only after a pool tests positive. Several ... ...

    Abstract High-throughput molecular testing for severe acute respiratory syndrome-coronavirus 2 (SARS-CoV-2) may be enabled by group testing in which pools of specimens are screened, and individual specimens tested only after a pool tests positive. Several laboratories have recently published examples of pooling strategies applied to SARS-CoV-2 specimens, but overall guidance on efficient pooling strategies is lacking. Therefore we developed a model of the efficiency and accuracy of specimen pooling algorithms based on available data on SAR-CoV-2 viral dynamics. For a fixed number of tests, we estimate that programs using group testing could screen 2-20 times as many specimens compared with individual testing, increase the total number of true positive infections identified, and improve the positive predictive value of results. We compare outcomes that may be expected in different testing situations and provide general recommendations for group testing implementation. A free, publicly-available Web calculator is provided to help inform laboratory decisions on SARS-CoV-2 pooling algorithms.
    MeSH term(s) Algorithms ; Betacoronavirus/genetics ; Betacoronavirus/isolation & purification ; COVID-19 ; COVID-19 Testing ; Clinical Laboratory Techniques/methods ; Coronavirus Infections/diagnosis ; Coronavirus Infections/epidemiology ; Humans ; Incidence ; Pandemics ; Pneumonia, Viral/diagnosis ; Pneumonia, Viral/epidemiology ; Predictive Value of Tests ; RNA, Viral/genetics ; RNA, Viral/isolation & purification ; Reverse Transcriptase Polymerase Chain Reaction ; SARS-CoV-2 ; Sensitivity and Specificity ; Specimen Handling/methods ; Viral Load/methods
    Chemical Substances RNA, Viral
    Keywords covid19
    Language English
    Publishing date 2020-06-26
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural
    ZDB-ID 3019-3
    ISSN 1537-6613 ; 0022-1899
    ISSN (online) 1537-6613
    ISSN 0022-1899
    DOI 10.1093/infdis/jiaa378
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: Impact of frailty on clinical outcomes in patients with and without COVID-19 pneumonitis admitted to intensive care units in Australia and New Zealand: a retrospective registry data analysis.

    Subramaniam, Ashwin / Shekar, Kiran / Anstey, Christopher / Tiruvoipati, Ravindranath / Pilcher, David

    Critical care (London, England)

    2022  Volume 26, Issue 1, Page(s) 301

    Abstract: Background: It is unclear if the impact of frailty on mortality differs between patients with viral pneumonitis due to COVID-19 or other causes. We aimed to determine if a difference exists between patients with and without COVID-19 pneumonitis.: ... ...

    Abstract Background: It is unclear if the impact of frailty on mortality differs between patients with viral pneumonitis due to COVID-19 or other causes. We aimed to determine if a difference exists between patients with and without COVID-19 pneumonitis.
    Methods: This multicentre, retrospective, cohort study using the Australian and New Zealand Intensive Care Society Adult Patient Database included patients aged ≥ 16 years admitted to 153 ICUs between 01/012020 and 12/31/2021 with admission diagnostic codes for viral pneumonia or acute respiratory distress syndrome, and Clinical Frailty Scale (CFS). The primary outcome was hospital mortality.
    Results: A total of 4620 patients were studied, and 3077 (66.6%) had COVID-19. The patients with COVID-19 were younger (median [IQR] 57.0 [44.7-68.3] vs. 66.1 [52.0-76.2]; p < 0.001) and less frail (median [IQR] CFS 3 [2-4] vs. 4 [3-5]; p < 0.001) than non-COVID-19 patients. The overall hospital mortality was similar between the patients with and without COVID-19 (14.7% vs. 14.9%; p = 0.82). Frailty alone as a predictor of mortality showed only moderate discrimination in differentiating survivors from those who died but was similar between patients with and without COVID-19 (AUROC 0.68 vs. 0.66; p = 0.42). Increasing frailty scores were associated with hospital mortality, after adjusting for Australian and New Zealand Risk of Death score and sex. However, the effect of frailty was similar in patients with and without COVID-19 (OR = 1.29; 95% CI: 1.19-1.41 vs. OR = 1.24; 95% CI: 1.11-1.37).
    Conclusion: The presence of frailty was an independent risk factor for mortality. However, the impact of frailty on outcomes was similar in COVID-19 patients compared to other causes of viral pneumonitis.
    MeSH term(s) Adult ; Australia/epidemiology ; COVID-19 ; Cohort Studies ; Data Analysis ; Frailty/complications ; Frailty/diagnosis ; Hospital Mortality ; Humans ; Intensive Care Units ; New Zealand/epidemiology ; Pneumonia, Viral/complications ; Pneumonia, Viral/therapy ; Registries ; Retrospective Studies
    Language English
    Publishing date 2022-10-03
    Publishing country England
    Document type Journal Article ; Multicenter Study
    ZDB-ID 2041406-7
    ISSN 1466-609X ; 1364-8535
    ISSN (online) 1466-609X
    ISSN 1364-8535
    DOI 10.1186/s13054-022-04177-9
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article: Group Testing for Severe Acute Respiratory Syndrome- Coronavirus 2 to Enable Rapid Scale-up of Testing and Real-Time Surveillance of Incidence

    Pilcher, Christopher D / Westreich, Daniel / Hudgens, Michael G

    J Infect Dis

    Abstract: High-throughput molecular testing for severe acute respiratory syndrome-coronavirus 2 (SARS-CoV-2) may be enabled by group testing in which pools of specimens are screened, and individual specimens tested only after a pool tests positive. Several ... ...

    Abstract High-throughput molecular testing for severe acute respiratory syndrome-coronavirus 2 (SARS-CoV-2) may be enabled by group testing in which pools of specimens are screened, and individual specimens tested only after a pool tests positive. Several laboratories have recently published examples of pooling strategies applied to SARS-CoV-2 specimens, but overall guidance on efficient pooling strategies is lacking. Therefore we developed a model of the efficiency and accuracy of specimen pooling algorithms based on available data on SAR-CoV-2 viral dynamics. For a fixed number of tests, we estimate that programs using group testing could screen 2-20 times as many specimens compared with individual testing, increase the total number of true positive infections identified, and improve the positive predictive value of results. We compare outcomes that may be expected in different testing situations and provide general recommendations for group testing implementation. A free, publicly-available Web calculator is provided to help inform laboratory decisions on SARS-CoV-2 pooling algorithms.
    Keywords covid19
    Publisher WHO
    Document type Article
    Note WHO #Covidence: #726096
    Database COVID19

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  5. Article ; Online: Group Testing for Severe Acute Respiratory Syndrome– Coronavirus 2 to Enable Rapid Scale-up of Testing and Real-Time Surveillance of Incidence

    Pilcher, Christopher D / Westreich, Daniel / Hudgens, Michael G

    The Journal of Infectious Diseases

    2020  Volume 222, Issue 6, Page(s) 903–909

    Abstract: Abstract High-throughput molecular testing for severe acute respiratory syndrome–coronavirus 2 (SARS-CoV-2) may be enabled by group testing in which pools of specimens are screened, and individual specimens tested only after a pool tests positive. ... ...

    Abstract Abstract High-throughput molecular testing for severe acute respiratory syndrome–coronavirus 2 (SARS-CoV-2) may be enabled by group testing in which pools of specimens are screened, and individual specimens tested only after a pool tests positive. Several laboratories have recently published examples of pooling strategies applied to SARS-CoV-2 specimens, but overall guidance on efficient pooling strategies is lacking. Therefore we developed a model of the efficiency and accuracy of specimen pooling algorithms based on available data on SAR-CoV-2 viral dynamics. For a fixed number of tests, we estimate that programs using group testing could screen 2–20 times as many specimens compared with individual testing, increase the total number of true positive infections identified, and improve the positive predictive value of results. We compare outcomes that may be expected in different testing situations and provide general recommendations for group testing implementation. A free, publicly-available Web calculator is provided to help inform laboratory decisions on SARS-CoV-2 pooling algorithms.
    Keywords Immunology and Allergy ; Infectious Diseases ; covid19
    Language English
    Publisher Oxford University Press (OUP)
    Publishing country uk
    Document type Article ; Online
    ZDB-ID 3019-3
    ISSN 1537-6613 ; 0022-1899
    ISSN (online) 1537-6613
    ISSN 0022-1899
    DOI 10.1093/infdis/jiaa378
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  6. Article ; Online: Editorial Commentary: Timing Is Everything: Shortcomings of Current HIV Diagnostics in the Early Treatment Era.

    Keating, Sheila M / Pilcher, Christopher D / Busch, Michael P

    Clinical infectious diseases : an official publication of the Infectious Diseases Society of America

    2016  Volume 63, Issue 4, Page(s) 562–564

    MeSH term(s) Anti-HIV Agents ; Antiretroviral Therapy, Highly Active ; HIV Infections ; Humans
    Chemical Substances Anti-HIV Agents
    Language English
    Publishing date 2016--15
    Publishing country United States
    Document type Editorial ; Comment
    ZDB-ID 1099781-7
    ISSN 1537-6591 ; 1058-4838
    ISSN (online) 1537-6591
    ISSN 1058-4838
    DOI 10.1093/cid/ciw369
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  7. Article ; Online: Mortality and costs related to severe acute pancreatitis in the intensive care units of Australia and New Zealand (ANZ), 2003-2020.

    Barreto, Savio George / Kaambwa, Billingsley / Venkatesh, Karthik / Sasson, Sarah C / Andersen, Christopher / Delaney, Anthony / Bihari, Shailesh / Pilcher, David

    Pancreatology : official journal of the International Association of Pancreatology (IAP) ... [et al.

    2023  Volume 23, Issue 4, Page(s) 341–349

    Abstract: Background and objective: Comprehensive data on the burden of severe acute pancreatitis (SAP) in global intensive care units (ICUs) and trends over time are lacking. Our objective was to compare trends in hospital and ICU mortality, in-hospital and ICU ... ...

    Abstract Background and objective: Comprehensive data on the burden of severe acute pancreatitis (SAP) in global intensive care units (ICUs) and trends over time are lacking. Our objective was to compare trends in hospital and ICU mortality, in-hospital and ICU length of stay, and costs related to ICU admission in Australia and New Zealand (ANZ) for SAP.
    Methods: We performed a retrospective, observational, cohort study of ICU admissions reported to the ANZ Intensive Care Society Adult Patient Database over three consecutive six-year time periods from 2003 to 2020.
    Results: 12,635 patients with SAP from 189 ICUs in ANZ were analysed. No difference in adjusted hospital mortality (11.4% vs 11.5% vs 11.0%, p = 0.85) and ICU mortality rates (7.5% vs 8.0% vs 8.1%, p = 0.73) were noted over the study period. Median length of hospital admission reduced over time (13.9 days in 2003-08, 13.1 days in 2009-14 and 12.5 days in 2015-20; p < 0.01). No difference in length of ICU stay was noted over the study period (p = 0.13). The cost of managing SAP in ANZ ICUs remained constant over the three time periods.
    Conclusions: In critically-ill SAP patients in ANZ, no change in mortality has been noted over nearly two decades. There was a slight reduction in hospital stay (1 day), while the length of ICU stay remained unchanged. Given the significant costs related to care of patients with SAP in ICU, these findings highlight the need to prioritise resource allocation for healthcare delivery and targeted clinical research to identify treatments aimed at reducing mortality.
    MeSH term(s) Adult ; Humans ; Acute Disease ; Australia/epidemiology ; Cohort Studies ; Hospital Mortality ; Intensive Care Units ; Length of Stay ; New Zealand/epidemiology ; Pancreatitis/therapy ; Retrospective Studies
    Language English
    Publishing date 2023-04-21
    Publishing country Switzerland
    Document type Journal Article ; Observational Study
    ZDB-ID 2056680-3
    ISSN 1424-3911 ; 1424-3903
    ISSN (online) 1424-3911
    ISSN 1424-3903
    DOI 10.1016/j.pan.2023.04.006
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  8. Article ; Online: Challenges to the performance of current HIV diagnostic assays and the need for centralized specimen archives: a review of the Consortium for the Evaluation and Performance of HIV Incidence Assays (CEPHIA) repository.

    Facente, Shelley N / Busch, Michael P / Grebe, Eduard / Pilcher, Christopher D / Welte, Alex / Rice, Brian / Murphy, Gary

    Gates open research

    2019  Volume 3, Page(s) 1511

    Abstract: Background: ...

    Abstract Background:
    Language English
    Publishing date 2019-07-23
    Publishing country United States
    Document type Journal Article
    ISSN 2572-4754
    ISSN (online) 2572-4754
    DOI 10.12688/gatesopenres.13048.1
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  9. Article ; Online: Limitations of using the Lorenz curve framework to understand the distribution of population viral load: authors' reply.

    Christopoulos, Katerina A / Hartogensis, Wendy / Glidden, David V / Pilcher, Christopher D / Gandhi, Monica / Geng, Elvin H

    AIDS (London, England)

    2016  Volume 31, Issue 5, Page(s) 742–743

    MeSH term(s) HIV Infections ; Humans ; Viral Load
    Language English
    Publishing date 2016-12-12
    Publishing country England
    Document type Journal Article ; Comment
    ZDB-ID 639076-6
    ISSN 1473-5571 ; 0269-9370 ; 1350-2840
    ISSN (online) 1473-5571
    ISSN 0269-9370 ; 1350-2840
    DOI 10.1097/QAD.0000000000001407
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  10. Article ; Online: How can we better identify early HIV infections?

    Rosenberg, Nora E / Pilcher, Christopher D / Busch, Michael P / Cohen, Myron S

    Current opinion in HIV and AIDS

    2015  Volume 10, Issue 1, Page(s) 61–68

    Abstract: Purpose of review: Detection of early HIV infections (EHIs), including acute HIV infection (AHI), is important for individual health, prevention of HIV transmission, and measurement of HIV incidence. We describe markers of EHI, diagnostic strategies for ...

    Abstract Purpose of review: Detection of early HIV infections (EHIs), including acute HIV infection (AHI), is important for individual health, prevention of HIV transmission, and measurement of HIV incidence. We describe markers of EHI, diagnostic strategies for detecting these markers, and ways to incorporate these strategies into diagnostic and HIV incidence algorithms.
    Recent findings: For individual diagnosis in the USA and Europe, laboratory-based diagnostic algorithms increasingly incorporate fourth-generation HIV antigen tests, allowing for earlier detection. In some sub-Saharan African settings, symptom-based screening is being explored to identify subsets of persons at high risk for AHI. Point-of-care diagnostics designed for AHI detection are in the pipeline and, if validated, represent an opportunity for real-time AHI diagnosis. At the population level, multiassay algorithms are promising new strategies for estimating HIV incidence on the basis of several assays applied to cross-sectional samples. These algorithms can be developed to optimize performance, in addition to cost and logistical considerations.
    Summary: There are important recent advances in detection of EHIs at the individual and population levels. Applying optimal combinations of tests in diagnostic and HIV incidence algorithms is urgently needed to support the multiple goals derived from enhanced detection and discrimination of EHIs.
    MeSH term(s) Algorithms ; Biomarkers/analysis ; Delivery of Health Care ; Early Diagnosis ; HIV Infections/diagnosis ; HIV Infections/drug therapy ; HIV Infections/metabolism ; Humans ; Point-of-Care Systems
    Chemical Substances Biomarkers
    Language English
    Publishing date 2015-01
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't ; Review
    ZDB-ID 2502511-9
    ISSN 1746-6318 ; 1746-630X
    ISSN (online) 1746-6318
    ISSN 1746-630X
    DOI 10.1097/COH.0000000000000121
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