Case Study: Prolonged Infectious SARS-CoV-2 Shedding from an Asymptomatic Immunocompromised Individual with Cancer.
Victoria A. Avanzato,Victoria A. Avanzato,M. Jeremiah Matson,M. Jeremiah Matson,Stephanie N. Seifert,Rhys Pryce,Brandi N. Williamson,Sarah L. Anzick,Kent D. Barbian,Seth D. Judson,Elizabeth R. Fischer,Craig Martens,Thomas A. Bowden,Emmie de Wit,Francis X. Riedo,Vincent J. Munster +15 more
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TLDR
The data indicate that certain immunocompromised patients may shed infectious virus for longer durations than previously recognized, and detection of subgenomic RNA is recommended in persistently SARS-CoV-2 positive individuals as a proxy for shedding of infectious virus.About:
This article is published in Cell.The article was published on 2020-12-23 and is currently open access. It has received 573 citations till now.read more
Citations
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Cytotoxic CD8-positive T-lymphocyte infiltration in the lungs as a histological pattern of SARS-CoV-2 pneumonitis
TL;DR: Puzyrenko et al. as discussed by the authors presented detailed histopathological findings on cryotransbronchial biopsy in patients with persistent (range 31-182 days) pneumonitis and severe interstitial inflammatory infiltration in the lungs due to SARS-CoV-2 infection.
Journal ArticleDOI
SARS-CoV-2 may affect the immune response via direct inhibition of T cell receptor: Mechanistic hypothesis and rationale.
TL;DR: In this article, the authors hypothesize that SARS-CoV-2 may use a similar "disarm the alarm" strategy to suppress immune responses and discuss the implications of this hypothesis for better understanding coronavirus disease 2019 (COVID-19) pathology.
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Case report: Nocardial brain abscess in a persistently SARS-CoV-2 PCR positive patient with systemic lupus erythematosus
Jelena Velickovic,Tatjana Adzic Vukicevic,Aleksandra Radovanović Spurnić,Igor Lazic,Bojana Popovic,Ivan Bogdanovic,Savo Raičević,D. Marić,Ivana Berisavac +8 more
TL;DR: A case of a patient with a history of systemic lupus erythematosus who has been persistently SARS-CoV-2 PCR positive for 9 months, with multiple thromboembolic complications, and development of nocardial brain abscess successfully treated with surgery and antibiotics is reported.
Journal ArticleDOI
Cytotoxic CD8 positive T-lymphocyte infiltration in the lungs as a histological pattern of SARS-CoV-2 pneumonitis
Andrii Puzyrenko,Faïz El Mamoune,Juan C. Felix,Nathan A. Ledeboer,Yunguang Sun,Hallgeir Rui,Yuri Sheinin +6 more
TL;DR: In this article, the authors describe a lung injury pattern associated with SARS-CoV-2 pneumonitis, which manifests as a marked interstitial CD8-positive T-cell lymphocytic infiltration.
Journal ArticleDOI
Humoral immunity after second dose of BNT162b2 vaccine in Japanese communities: an observational cross-sectional study, Fukushima Vaccination Community Survey
Yurie Kobashi,Takeshi Kawamura,Yuzo Shimazu,Tianchen Zhao,Akira Sugiyama,Aya Nakayama,Y. Kaneko,Yoshitaka Nishikawa,Fumiya Omata,Morihito Takita,C. Yamamoto,Makoto Yoshida,Makoto Kosaka,Anju Murayama,Sota Sugiura,Manato Tanaka,Moe Kawashima,Yuna Uchi,Joji Shindo,Tomoyoshi Oikawa,Kenji Shibuya,Tatsuhiko Kodama,Masaharu Tsubokura +22 more
TL;DR: In this paper , the authors report waning humoral immunity after second-dose BNT162b2 vaccinations in a rural Japanese community and determine factors affecting antibody titers, including age, male sex, increased time from second vaccination, smoking, steroids, immunosuppression and comorbidities.
References
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Journal ArticleDOI
The Sequence Alignment/Map format and SAMtools
Heng Li,Bob Handsaker,Alec Wysoker,T. J. Fennell,Jue Ruan,Nils Homer,Gabor T. Marth,Gonçalo R. Abecasis,Richard Durbin +8 more
TL;DR: SAMtools as discussed by the authors implements various utilities for post-processing alignments in the SAM format, such as indexing, variant caller and alignment viewer, and thus provides universal tools for processing read alignments.
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Fast gapped-read alignment with Bowtie 2
TL;DR: Bowtie 2 combines the strengths of the full-text minute index with the flexibility and speed of hardware-accelerated dynamic programming algorithms to achieve a combination of high speed, sensitivity and accuracy.
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MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability
Kazutaka Katoh,Daron M. Standley +1 more
TL;DR: This version of MAFFT has several new features, including options for adding unaligned sequences into an existing alignment, adjustment of direction in nucleotide alignment, constrained alignment and parallel processing, which were implemented after the previous major update.
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The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data
Aaron McKenna,Matthew Hanna,Eric Banks,Andrey Sivachenko,Kristian Cibulskis,Andrew Kernytsky,Kiran V. Garimella,David Altshuler,Stacey Gabriel,Mark J. Daly,Mark A. DePristo +10 more
TL;DR: The GATK programming framework enables developers and analysts to quickly and easily write efficient and robust NGS tools, many of which have already been incorporated into large-scale sequencing projects like the 1000 Genomes Project and The Cancer Genome Atlas.
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Cutadapt removes adapter sequences from high-throughput sequencing reads
TL;DR: The command-line tool cutadapt is developed, which supports 454, Illumina and SOLiD (color space) data, offers two adapter trimming algorithms, and has other useful features.
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