Fast and accurate variant identification tool for sequencing-based studies by Gaston, Jeffry M., Alm, Eric J., Zhang, An-Ni

“…This accuracy extends to variant identification in virus samples, including SARS-CoV-2, particularly with significantly fewer false negative indels than bcftools. …”
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Site-specific chemical and topological modifications to augment mRNA therapeutic potential by Aditham, Abhishek J.

“…Despite clinical demonstrations of mRNA for SARS-CoV-2 vaccines, mRNAs remain limited in application by their susceptibility to nucleases and overall short expression lifetime in vivo. …”
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The Pandemic EVIDENCE Collaboration Pillar 1: diagnostics and transmission by Conly, J, Plüddemann, A, Jefferson, T, Rosca, C, Heneghan, C

“…The evidence produced to support the optimal deployment of NPIs to reduce transmission of SARS-CoV-2 was often of poor quality, and decisions were made without considering the wealth of previous research on respiratory virus transmission from human challenge studies. …”

The Pandemic EVIDENCE Collaboration Pillar 2: interventions and evidence by Fretheim, A, Onakpoya, I, Bartoszko, J, Jones, M, Gandini, S

“…The use of non-pharmacological interventions (NPIs) on a global scale to reduce the transmission of SARS-CoV-2 was unprecedented. However, there was a lack of high-quality evidence to fully understand the benefits and harms of these interventions. …”

The IDentif.AI-x pandemic readiness platform: rapid prioritization of optimized COVID-19 combination therapy regimens by Blasiak, Agata, Truong, Anh T. L., Remus, Alexandria, Hooi, Lissa, Seah, Shirley Gek Kheng, Wang, Peter, Chye, De Hoe, Lim, Angeline Pei Chiew, Ng, Kim Tien, Teo, Swee Teng, Tan, Yee-Joo, Allen, David Michael, Chai, Louis Yi Ann, Chng, Wee Joo, Lin, Raymond T. P., Lye, David C., Wong, John Eu-Li, Tan, Gladys Gek-Yen, Chan, Conrad En Zuo, Chow, Edward Kai-Hua, Ho, Dean

“…IDentif.AI-x, a clinically actionable artificial intelligence platform, was used to rapidly pinpoint and prioritize optimal combination therapies against COVID-19 by pairing a prospective, experimental validation of multi-drug efficacy on a SARS-CoV-2 live virus and Vero E6 assay with a quadratic optimization workflow. …”
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The relationship between viral clearance rates and disease progression in early symptomatic COVID-19: a systematic review and meta-regression analysis by Singh, S, Boyd, S, Schilling, WHK, Watson, JA, Mukaka, M, White, NJ

“…Treatment benefit was defined clinically as the relative risk of hospitalization/death during follow-up (≥14 days), and virologically as the SARS-CoV-2 viral clearance rate ratio (VCRR). The VCRR is the ratio of viral clearance rates between the intervention and control arms. …”

Multicenter diagnostic evaluation of onsite COVID-19 Rapid Test (CTK Biotech) among symptomatic individuals in Brazil and the United Kingdom by Thompson, CR, Torres, PM, Kontogianni, K, Byrne, RL, LSTM Diagnostic group, Noguera, SV, Luna-Muschi, A, Marchi, AP, Andrade, PS, Dos Santos Barboza, A, Nishikawara, M, CONDOR steering group, Body, R, de Vos, M, Escadafal, C, Adams, E, Figueiredo Costa, S, Cubas-Atienzar, AI

“…Concurrently, analytical evaluation of the Ag-RDT was assessed using direct culture supernatant of SARS-CoV-2 strains from wild-type (WT), Alpha, Delta, Gamma, and Omicron lineages. …”

Wastewater-based epidemiology for preventing outbreaks and epidemics in Latin America - lessons from the past and a look to the future by Prado, Tatiana, Rey-Benito, Gloria, Miagostovich, Marize Pereira, Sato, Maria Inês Zanoli, Rajal, Veronica Beatriz, Filho, Cesar Rossas Mota, Pereira, Alyne Duarte, Barbosa, Mikaela Renata Funada, Mannarino, Camille Ferreira, da Silva, Agnes Soares

“…Despite the historical uses of this approach, particularly in the Global Polio Eradication Initiative, and for other pathogens, it was during the COVID-19 pandemic that occurred an exponential increase in environmental surveillance programs for SARS-CoV-2 in wastewater, with many experiences and developments in the field of public health using data for decision making and prioritizing actions to control the pandemic. …”
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Cost-utility analysis of molnupiravir plus usual care versus usual care alone as early treatment for community-based adults with COVID-19 and increased risk of adverse outcomes in... by Png, ME, Harris, V, Grabey, J, Hart, ND, Jani, BD, Butler, D, Carson-Stevens, A, Coates, M, Cureton, L, Dobson, M, Dorward, J, Evans, P, Francis, N, Gbinigie, OA, Hayward, G, Holmes, J, Hood, K, Khoo, S, Ahmed, H, Lown, M, McKenna, M, Mort, S, Nguyen-Van-Tam, J, Rahman, N, Richards, DB, Thomas, N, van Hecke, O, Hobbs, FR, Little, P, Yu, L-M, Butler, CC, Petrou, S

“…<p><strong>Background </p></strong>The cost-effectiveness of molnupiravir, an oral antiviral for early treatment of SARS-CoV-2, has not been established in vaccinated populations. …”

A comparative analysis of ENCODE and Cistrome in the context of TF binding signal by Perna, Stefano, Pinoli, Pietro, Ceri, Stefano, Wong, Limsoon

“…Moreover, the output format of the processing (BED narrowPeak) exposes a feature, the signalValue, which is seldom used in consistency checks, but can offer valuable insight on the quality of the data. …”
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Environmental contamination in a coronavirus disease 2019 (COVID-19) intensive care unit—what is the risk? by Ong, Sean Wei Xiang, Lee, Pei Hua, Tan, Yian Kim, Ling, Li Min, Ho, Benjamin Choon Heng, Ng, Ching Ging, Wang, Dong Ling, Tan, Boon Huan, Leo, Yee Sin, Ng, Oon Tek, Wong, Michelle Su Yen, Marimuthu, Kalisvar

“…The risk of environmental contamination by severe acute respiratory coronavirus virus 2 (SARS-CoV-2) in the intensive care unit (ICU) is unclear. …”
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Rapid electrochemical detection of COVID-19 genomic sequence with dual-function graphene nanocolloids based biosensor by Ang, Wei Li, Lim, Rachel Rui Xia, Ambrosi, Adriano, Bonanni, Alessandra

“…Discovered in December 2019, the Severe Acute Respiratory Syndrome Coronavirus 2 (aka SARS-CoV-2 or 2019-nCoV) has attracted worldwide attention and concerns due to its high transmissibility and the severe health consequences experienced upon its infection, particularly by elderly people. …”
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The determinants of COVID-19 morbidity and mortality across countries by Chang, Dianna, Chang, Xin, He, Yu, Tan, Kelvin Jui Keng

“…For healthcare factors, SARS (severe acute respiratory syndrome) experience and healthcare infrastructure help countries perform better in combating the pandemic.…”
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Essays on development economics by Wang, Wen

“…The estimation results remain robust when subjected to further checks and sensitivity tests. In addition, we consider alternative channels including pathogen stress, historical population density and colonization, which may also influence the degree of institutionalized democracy via the cultural dimension of collectivism / individualism. …”
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Membrane cholesterol modulates oligomeric status and peptide-membrane interaction of severe acute respiratory syndrome coronavirus fusion peptide by Meher, Geetanjali, Bhattacharjya, Surajit, Chakraborty, Hirak

“…The N-terminal fusion peptide (residues 770-788) of an S2 glycoprotein of the severe acute respiratory syndrome coronavirus (SARS-CoV), exposed upon receptor binding, is crucial for virus entry into the host cell. …”
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Best practices for ports and shipping companies to build resilience against pandemics by Tan, Hui En

“…The maritime industry has experienced similar kinds of pandemic outbreaks (SARS and Avian Flu), but they still faltered in the face of COVID-19. …”
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Strategies to increase response rate and reduce non-response bias in population health research: a series of randomised controlled trials during a large COVID-19 study by Atchison, CJ, Gilby, N, Pantelidou, G, Clemens, S, Pickering, K, Chadeau-Hyam, M, Ashby, D, Barclay, WS, Cooke, G, Darzi, A, Riley, S, Donnelly, C, Ward, H, Elliott, P

“…</p> <br> <p><strong>Methods:</strong> Over 19 rounds, a random sample of individuals aged 5 years and older from the general population in England were invited by mail to complete an online questionnaire and return a swab for SARS-CoV-2 testing. We carried out several nested randomised controlled experiments to measure the impact on response rates of different interventions, including (1) variations in invitation and reminder letters and text messages, and (2) the offer of a conditional monetary incentive to return a swab, reporting absolute changes in response and relative response rate (RRR with 95% Confidence Intervals).…”

Diagnostic performance of GENEDIA W and ActiveXpress+ COVID-19 antigens tests among symptomatic individuals in Peru and The United Kingdom by Palomino-Padilla, S, Finch, L, de Vos, M, Savage, H, Villa-Castillo, L, Hayward, G, Cook, E, LSTM diagnostics group, UTB-IMTAvH group, CONDOR steering group, Escadafal, C, Body, R, Adams, ER, Ugarte-Gil, C, Cubas-Atienzar, AI

“…Analytical evaluation of both Ag-RDTs was assessed using serial dilutions of direct culture supernatant of a clinical SARS-CoV-2 isolate from the B.1.1.7 lineage.</p> <p><strong>Results: </strong>For GENEDIA brand, the values of overall sensitivity and specificity were 60.4% [95% CI 52.4–67.9%], and 99.2% [95% CI 97.6–99.7%] respectively; and for Active Xpress+ the overall values of sensitivity and specificity were 66.2% [95% CI 54.0–76.5%], and 99.6% [95% CI 97.9–99.9%] respectively. …”

Interaction-mediating sequences within class I viral fusion glycoproteins : their roles in viral infection and in applications by Zhang, Simin

“…In Paper I, peptide array scanning identified 34 spike (S) protein-derived peptides that bound to the S protein of severe acute respiratory syndrome-associated coronavirus (SARS-CoV). These putative self-binding peptides contain five core octapeptide consensus sequences, among which the octapeptide GINITNFR was predicted to form β-zipper-mediated amyloid-like fibrils. …”
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100 UMPSA athletes to compete in 10 events at the 2024 SUKUM Championship by Siti Nur Azwin, Zulkapri

“…PEKAN, 6 August 2024 – The enthusiastic cheers of “UMPSA! Minda Juara!” echoed as 100 athletes, comprising 65 men and 35 women from Universiti Malaysia Pahang Al-Sultan Abdullah (UMPSA), prepared to represent their university in the upcoming 2024 SUKUM Championship.…”
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