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  1. Article: New guidelines for the treatment of severe acute pancreatitis.

    Oland, Gabriel L / Hines, O Joe

    Hepatobiliary surgery and nutrition

    2022  Volume 11, Issue 6, Page(s) 913–916

    Language English
    Publishing date 2022-11-29
    Publishing country China (Republic : 1949- )
    Document type Editorial
    ZDB-ID 2812398-0
    ISSN 2304-389X ; 2304-3881
    ISSN (online) 2304-389X
    ISSN 2304-3881
    DOI 10.21037/hbsn-22-532
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  2. Article ; Online: Prospective clinical validation of 3D printed nasopharyngeal swabs for diagnosis of COVID-19.

    Oland, Gabriel / Garner, Omai / de St Maurice, Annabelle

    Diagnostic microbiology and infectious disease

    2020  Volume 99, Issue 3, Page(s) 115257

    Abstract: COVID-19 greatly disrupted the global supply chain of nasopharyngeal swabs, and thus new products have come to market with little data to support their use. In this prospective study, 2 new 3D printed nasopharyngeal swab designs were evaluated against ... ...

    Abstract COVID-19 greatly disrupted the global supply chain of nasopharyngeal swabs, and thus new products have come to market with little data to support their use. In this prospective study, 2 new 3D printed nasopharyngeal swab designs were evaluated against the standard, flocked nasopharyngeal swab for the diagnosis of COVID-19. Seventy adult patients (37 COVID-positive and 33 COVID-negative) underwent consecutive diagnostic reverse transcription polymerase chain reaction testing, with a flocked swab followed by one or two 3D printed swabs. The "Lattice Swab" (manufacturer Resolution Medical) demonstrated 93.3% sensitivity (95% CI, 77.9%-99.2%) and 96.8% specificity (83.3%-99.9%), yielding κ = 0.90 (0.85-0.96). The "Origin KXG" (manufacturer Origin Laboratories) demonstrated 83.9% sensitivity (66.3%-94.6%) and 100% specificity (88.8%-100.0%), yielding κ = 0.84 (0.77-0.91). Both 3D printed nasopharyngeal swab results have high concordance with the control swab results. The decision to use 3D printed nasopharyngeal swabs during the COVID-19 pandemic should be strongly considered by clinical and research laboratories.
    MeSH term(s) Adolescent ; Adult ; Aged ; Aged, 80 and over ; COVID-19/diagnosis ; COVID-19/virology ; COVID-19 Testing/instrumentation ; Female ; Humans ; Male ; Middle Aged ; Nasopharynx/virology ; Printing, Three-Dimensional/instrumentation ; SARS-CoV-2/isolation & purification ; Specimen Handling/instrumentation ; Specimen Handling/methods ; Young Adult
    Keywords covid19
    Language English
    Publishing date 2020-10-22
    Publishing country United States
    Document type Journal Article
    ZDB-ID 604920-5
    ISSN 1879-0070 ; 0732-8893
    ISSN (online) 1879-0070
    ISSN 0732-8893
    DOI 10.1016/j.diagmicrobio.2020.115257
    Database MEDical Literature Analysis and Retrieval System OnLINE

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    Zs.A 1845: Show issues Location:
    Je nach Verfügbarkeit (siehe Angabe bei Bestand)
    bis Jg. 1994: Bestellungen von Artikeln über das Online-Bestellformular
    Jg. 1995 - 2021: Lesesall (1.OG)
    ab Jg. 2022: Lesesaal (EG)

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  3. Article: Prospective Clinical Validation of 3D Printed Nasopharyngeal Swabs for Diagnosis of COVID-19

    Oland, Gabriel Garner Omai Maurice Annabelle de St

    Diagnostic Microbiology and Infectious Disease

    Abstract: COVID-19 greatly disrupted the global supply chain of nasopharyngeal swabs, and thus new products have come to market with little data to support their use In this prospective study, two new 3D printed nasopharyngeal swab designs were evaluated against ... ...

    Abstract COVID-19 greatly disrupted the global supply chain of nasopharyngeal swabs, and thus new products have come to market with little data to support their use In this prospective study, two new 3D printed nasopharyngeal swab designs were evaluated against the standard, flocked nasopharyngeal swab for the diagnosis of COVID-19 70 adult patients (37 COVID-positive and 33 COVID-negative) underwent consecutive diagnostic RT-PCR testing, with a flocked swab followed by one or two 3D printed swabs The “Lattice Swab” (manufacturer Resolution Medical) demonstrated 93 3% sensitivity (95% CI, 77 9-99 2%) and 96 8% specificity (83 3-99 9%), yielding κ = 0 90 (0 85-0 96) The “Origin KXG” (manufacturer Origin Laboratories) demonstrated 83 9% sensitivity (66 3-94 6%) and 100% specificity (88 8-100 0%), yielding κ = 0 84 (0 77-0 91) Both 3D printed nasopharyngeal swab results have high concordance with the control swab results The decision to use 3D printed nasopharyngeal swabs during the COVID-19 pandemic should be strongly considered by clinical and research laboratories
    Keywords covid19
    Publisher WHO
    Document type Article
    Note WHO #Covidence: #885248
    Database COVID19

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  4. Article ; Online: Prospective Clinical Validation of 3D Printed Nasopharyngeal Swabs for Diagnosis of COVID-19

    Oland, Gabriel / Garner, Omai / Maurice, Annabelle de St

    Diagnostic Microbiology and Infectious Disease

    2020  , Page(s) 115257

    Keywords Microbiology (medical) ; Infectious Diseases ; General Medicine ; covid19
    Language English
    Publisher Elsevier BV
    Publishing country us
    Document type Article ; Online
    ZDB-ID 604920-5
    ISSN 0732-8893
    ISSN 0732-8893
    DOI 10.1016/j.diagmicrobio.2020.115257
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    Zs.A 1845: Show issues Location:
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  5. Article ; Online: Postoperative Physician Phone Calls as a Method to Decrease Urgent Care and Emergency Department Returns After Ambulatory General Surgery.

    Massoumi, Roxanne L / Crain, Nikhil / Zhu, Catherine / Moore, Alexandra / Oland, Gabriel / Ghukasyan, Razmik / Lu, Yang / Ye, Linda / Hadaya, Joseph / Dacey, Michael / Schumm, Max / Oh, Nicholas / Mederos, Michael / Graham, Danielle / Aboulian, Armen

    The American surgeon

    2020  Volume 86, Issue 10, Page(s) 1373–1378

    Abstract: Unplanned returns after ambulatory surgery pose a burden to patients and health care providers alike. We hypothesized that a postoperative phone call by a physician would decrease avoidable returns to urgent care (UC) or the emergency department (ED) in ... ...

    Abstract Unplanned returns after ambulatory surgery pose a burden to patients and health care providers alike. We hypothesized that a postoperative phone call by a physician would decrease avoidable returns to urgent care (UC) or the emergency department (ED) in the week after anorectal (AR), laparoscopic cholecystectomy (LC), inguinal hernia repair (IHR), and umbilical hernia repair (UHR) operations. A retrospective analysis from 1/2011 to 12/2015 across 14 Kaiser hospitals was conducted to determine baseline UC/ED return rates of patients pre-call. Between 10/2017 and 06/2019, physicians placed phone calls to patients within postoperative days (PODs) 1-4. The cohorts were compared using chi-squared analysis with significance determined at
    MeSH term(s) Adult ; Aged ; Ambulatory Care/statistics & numerical data ; Ambulatory Surgical Procedures ; California/epidemiology ; Cholecystectomy, Laparoscopic ; Continuity of Patient Care ; Emergency Service, Hospital/statistics & numerical data ; Female ; Hernia, Inguinal/surgery ; Hernia, Umbilical/surgery ; Humans ; Male ; Middle Aged ; Physician-Patient Relations ; Postoperative Complications/epidemiology ; Postoperative Period ; Retrospective Studies ; Telephone
    Language English
    Publishing date 2020-10-25
    Publishing country United States
    Document type Journal Article
    ZDB-ID 202465-2
    ISSN 1555-9823 ; 0003-1348
    ISSN (online) 1555-9823
    ISSN 0003-1348
    DOI 10.1177/0003134820964463
    Database MEDical Literature Analysis and Retrieval System OnLINE

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    Uk I Zs.106: Show issues Location:
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    bis Jg. 2021: Bestellungen von Artikeln über das Online-Bestellformular
    ab Jg. 2022: Lesesaal (EG)

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  6. Article: Swab-Seq: A high-throughput platform for massively scaled up SARS-CoV-2 testing.

    Bloom, Joshua S / Sathe, Laila / Munugala, Chetan / Jones, Eric M / Gasperini, Molly / Lubock, Nathan B / Yarza, Fauna / Thompson, Erin M / Kovary, Kyle M / Park, Jimin / Marquette, Dawn / Kay, Stephania / Lucas, Mark / Love, TreQuan / Booeshaghi, A Sina / Brandenberg, Oliver F / Guo, Longhua / Boocock, James / Hochman, Myles /
    Simpkins, Scott W / Lin, Isabella / LaPierre, Nathan / Hong, Duke / Zhang, Yi / Oland, Gabriel / Choe, Bianca Judy / Chandrasekaran, Sukantha / Hilt, Evann E / Butte, Manish J / Damoiseaux, Robert / Kravit, Clifford / Cooper, Aaron R / Yin, Yi / Pachter, Lior / Garner, Omai B / Flint, Jonathan / Eskin, Eleazar / Luo, Chongyuan / Kosuri, Sriram / Kruglyak, Leonid / Arboleda, Valerie A

    medRxiv : the preprint server for health sciences

    2021  

    Abstract: The rapid spread of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is due to the high rates of transmission by individuals who are asymptomatic at the time of ... ...

    Abstract The rapid spread of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is due to the high rates of transmission by individuals who are asymptomatic at the time of transmission
    Keywords covid19
    Language English
    Publishing date 2021-03-09
    Publishing country United States
    Document type Preprint
    DOI 10.1101/2020.08.04.20167874
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  7. Article ; Online: Massively scaled-up testing for SARS-CoV-2 RNA via next-generation sequencing of pooled and barcoded nasal and saliva samples.

    Bloom, Joshua S / Sathe, Laila / Munugala, Chetan / Jones, Eric M / Gasperini, Molly / Lubock, Nathan B / Yarza, Fauna / Thompson, Erin M / Kovary, Kyle M / Park, Jimin / Marquette, Dawn / Kay, Stephania / Lucas, Mark / Love, TreQuan / Sina Booeshaghi, A / Brandenberg, Oliver F / Guo, Longhua / Boocock, James / Hochman, Myles /
    Simpkins, Scott W / Lin, Isabella / LaPierre, Nathan / Hong, Duke / Zhang, Yi / Oland, Gabriel / Choe, Bianca Judy / Chandrasekaran, Sukantha / Hilt, Evann E / Butte, Manish J / Damoiseaux, Robert / Kravit, Clifford / Cooper, Aaron R / Yin, Yi / Pachter, Lior / Garner, Omai B / Flint, Jonathan / Eskin, Eleazar / Luo, Chongyuan / Kosuri, Sriram / Kruglyak, Leonid / Arboleda, Valerie A

    Nature biomedical engineering

    2021  Volume 5, Issue 7, Page(s) 657–665

    Abstract: Frequent and widespread testing of members of the population who are asymptomatic for severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is essential for the mitigation of the transmission of the virus. Despite the recent increases in testing ... ...

    Abstract Frequent and widespread testing of members of the population who are asymptomatic for severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is essential for the mitigation of the transmission of the virus. Despite the recent increases in testing capacity, tests based on quantitative polymerase chain reaction (qPCR) assays cannot be easily deployed at the scale required for population-wide screening. Here, we show that next-generation sequencing of pooled samples tagged with sample-specific molecular barcodes enables the testing of thousands of nasal or saliva samples for SARS-CoV-2 RNA in a single run without the need for RNA extraction. The assay, which we named SwabSeq, incorporates a synthetic RNA standard that facilitates end-point quantification and the calling of true negatives, and that reduces the requirements for automation, purification and sample-to-sample normalization. We used SwabSeq to perform 80,000 tests, with an analytical sensitivity and specificity comparable to or better than traditional qPCR tests, in less than two months with turnaround times of less than 24 h. SwabSeq could be rapidly adapted for the detection of other pathogens.
    MeSH term(s) High-Throughput Nucleotide Sequencing ; Humans ; RNA, Viral/genetics ; SARS-CoV-2/genetics ; SARS-CoV-2/pathogenicity ; Saliva/virology ; Sensitivity and Specificity
    Chemical Substances RNA, Viral
    Language English
    Publishing date 2021-07-01
    Publishing country England
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ISSN 2157-846X
    ISSN (online) 2157-846X
    DOI 10.1038/s41551-021-00754-5
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  8. Article ; Online: Swab-Seq: A high-throughput platform for massively scaled up SARS-CoV-2 testing

    Bloom, Joshua S. / Jones, Eric M. / Gasperini, Molly / Lubock, Nathan B. / Sathe, Laila / Munugala, Chetan / Booeshaghi, A. Sina / Brandenberg, Oliver F. / Guo, Longhua / Simpkins, Scott W. / Lin, Isabella / LaPierre, Nathan / Hong, Duke / Zhang, Yi / Oland, Gabriel / Choe, Bianca Judy / Chandrasekaran, Sukantha / Hilt, Evann E. / Butte, Manish J. /
    Damoiseaux, Robert / Cooper, Aaron R. / Yin, Yi / Pachter, Lior / Garner, Omai B. / Flint, Jonathan / Eskin, Eleazar / Luo, Chongyuan / Kosuri, Sriram / Kruglyak, Leonid / Arboleda, Valerie A.

    medRxiv

    Abstract: The rapid spread of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is due to the high rates of transmission by individuals who are asymptomatic at the time of transmission. Frequent, widespread testing of the asymptomatic population for ... ...

    Abstract The rapid spread of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is due to the high rates of transmission by individuals who are asymptomatic at the time of transmission. Frequent, widespread testing of the asymptomatic population for SARS-CoV-2 is essential to suppress viral transmission and is a key element in safely reopening society. Despite increases in testing capacity, multiple challenges remain in deploying traditional reverse transcription and quantitative PCR (RT-qPCR) tests at the scale required for population screening of asymptomatic individuals. We have developed SwabSeq, a high-throughput testing platform for SARS-CoV-2 that uses next-generation sequencing as a readout. SwabSeq employs sample-specific molecular barcodes to enable thousands of samples to be combined and simultaneously analyzed for the presence or absence of SARS-CoV-2 in a single run. Importantly, SwabSeq incorporates an in vitro RNA standard that mimics the viral amplicon, but can be distinguished by sequencing. This standard allows for end-point rather than quantitative PCR, improves quantitation, reduces requirements for automation and sample-to-sample normalization, enables purification-free detection, and gives better ability to call true negatives. We show that SwabSeq can test nasal and oral specimens for SARS-CoV-2 with or without RNA extraction while maintaining analytical sensitivity better than or comparable to that of fluorescence-based RT-qPCR tests. SwabSeq is simple, sensitive, flexible, rapidly scalable, inexpensive enough to test widely and frequently, and can provide a turn around time of 12 to 24 hours.
    Keywords covid19
    Language English
    Publishing date 2020-08-06
    Publisher Cold Spring Harbor Laboratory Press
    Document type Article ; Online
    DOI 10.1101/2020.08.04.20167874
    Database COVID19

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  9. Article ; Online: Swab-Seq

    Bloom, Joshua / Jones, Eric / Gasperini, Molly / Lubock, Nathan / Sathe, Laila / Munugala, Chetan / Booeshaghi, Sina / Brandenberg, Oliver / Guo, Longhua / Boocock, James / Simpkins, Scott / Lin, Isabella / LaPierre, Nathan / Hong, Duke / Zhang, Yi / Oland, Gabriel / Choe, Bianca Judy / Chandrasekaran, Sukantha / Hilt, Evann /
    Butte, Manish / Damoiseaux, Robert / Cooper, Aaron / Yin, Yi / Pachter, Lior / Garner, Omai / Flint, Jonathan / Eskin, Eleazar / Luo, Chongyuan / Kosuri, Sriram / Kruglyak, Leonid / Arboleda, Valerie

    A high-throughput platform for massively scaled up SARS-CoV-2 testing

    2020  

    Abstract: The rapid spread of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is due to the high rates of transmission by individuals who are asymptomatic at the time of transmission. Frequent, widespread testing of the asymptomatic population for ... ...

    Abstract The rapid spread of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is due to the high rates of transmission by individuals who are asymptomatic at the time of transmission. Frequent, widespread testing of the asymptomatic population for SARS-CoV-2 is essential to suppress viral transmission and is a key element in safely reopening society. Despite increases in testing capacity, multiple challenges remain in deploying traditional reverse transcription and quantitative PCR (RT-qPCR) tests at the scale required for population screening of asymptomatic individuals. We have developed SwabSeq, a high-throughput testing platform for SARS-CoV-2 that uses next-generation sequencing as a readout. SwabSeq employs sample-specific molecular barcodes to enable thousands of samples to be combined and simultaneously analyzed for the presence or absence of SARS-CoV-2 in a single run. Importantly, SwabSeq incorporates an in vitro RNA standard that mimics the viral amplicon, but can be distinguished by sequencing. This standard allows for end-point rather than quantitative PCR, improves quantitation, reduces requirements for automation and sample-to-sample normalization, enables purification-free detection, and gives better ability to call true negatives. We show that SwabSeq can test nasal and oral specimens for SARS-CoV-2 with or without RNA extraction while maintaining analytical sensitivity better than or comparable to that of fluorescence-based RT-qPCR tests. SwabSeq is simple, sensitive, flexible, rapidly scalable, inexpensive enough to test widely and frequently, and can provide a turn around time of 12 to 24 hours.
    Keywords covid19
    Publishing date 2020-08-06
    Publisher eScholarship, University of California
    Publishing country us
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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