Genomic Analysis of the Suspicious SARS-CoV-2 Sequences in the Public Sequencing Databasearticle Published on 2023-01-092024-09-05 Journal: Microbiology Spectrum [Category] update2024, [키워드] evolutionary relationship inference metagenomics progenitor SARS-CoV-2 sequencing data [DOI] 10.1128/spectrum.03426-22 PMC 바로가기 [Article Type] article
SARS-CoV-2 infection dynamics revealed by wastewater sequencing analysis and deconvolutionArticle Published on 2022-12-202022-11-15 Journal: The Science of the total environment [Category] COVID19(2023년), SARS, 변종, 치료기술, 치료제, [키워드] Accuracy analyses Analysis approach automated B.1.617.2 Berlin can be used changes in circulating computational analysis concern continuous monitoring COVID-19 COVID-19 surveillance Critical dataset detect develop effort environmental monitoring Health highlight identify in silico in-depth analysis include independent individual Infection infection rate Lineage MONITOR Mutation New York City pathogen proportion provide Public Public health risk raw data RBD RNA sequencing SARS-CoV-2 SARS-COV-2 infection sequenced Sequencing Sequencing analysis sequencing data sewage Sewage sampling. shown Support virus viruses VoC while [DOI] 10.1016/j.scitotenv.2022.158931 PMC 바로가기
Identification of the Hub Genes and the Signaling Pathways in Human iPSC-Cardiomyocytes Infected by SARS-CoV-2Article Published on 2022-12-012022-11-16 Journal: Biochemical Genetics [Category] COVID19(2023년), SARS, 유전자 메커니즘, [키워드] Analysis applied Bioinformatics analysis biological process Biomarker Brain caused component Cytoscape software database dataset DEGs differentially expressed gene direct infection down-regulated gene enrichment analysis function Gene Expression Omnibus gene expression profile Gene ontology Genes GEO GraphPad Prism software High-throughput sequencing hub genes Human Human iPSC-cardiomyocytes identification infected with SARS-CoV-2 intestine KEGG kidney Kyoto Ligand liver Lung injury mechanisms myocardial injury organ pathway Pathways PPI PPI network protein-protein interaction R software receptor Research respiratory respiratory symptom SARS-CoV-2 screened sequencing data signaling pathway single-stranded RNA virus statistical analysis statistically significant TNF signaling Type type I interferon up-regulated was obtained was performed website [DOI] 10.1007/s10528-022-10206-7 PMC 바로가기
Genome-wide detection of human variants that disrupt intronic branchpointsArticle Published on 2022-11-012022-11-16 Journal: Proceedings of the National Academy of Sciences of [Category] 변종, [키워드] Alter approach branchpoint Candidates characterized comparable COVID-19 Critical database demonstrated detect disease Disease genetics disrupt disrupting eight elements enzyme exonic feature heterozygous human gene human population identify initiated intron Intronic intronic variant ITPKB lymphoma machine-learning motif nucleotides upstream pathogenic Patient Pneumonia rare variant reported RNA sequencing RNA splicing sequencing data single-nucleotide Software splicing STAT2 utility variant variants Variation [DOI] 10.1073/pnas.2211194119 PMC 바로가기
Local monitoring of SARS-CoV-2 variants in two large California counties in 2021Article Published on 2022-10-112022-11-16 Journal: Scientific Reports [Category] COVID19(2023년), SARS, 변종, [키워드] acute respiratory syndrome Advarra Alpha variant analyzed approved carried caused changed changes in Cohort conducted confidence interval coronavirus COVID-19 Cycle threshold value Delta delta variant effort enrolled Enrollment Epidemiology genomic data Hispanic identify individual institutional review board Laboratory less Los Angele MONITOR Mutation nare nasal offered Older over participant Participants PCR polymerase chain positive Positive test Prevalence proportion public health resulting Sample SARS-CoV-2 SARS-CoV-2 lineage SARS-CoV-2 strain SARS-CoV-2 testing SARS-CoV-2 variant Sequencing sequencing data Spanish specimen specimens statistical study enrollment study period Surveillance swab specimen Symptom tested transported variant variants of concern women [DOI] 10.1038/s41598-022-21481-0 PMC 바로가기
Contrasting Distribution of SARS-CoV-2 Lineages across Multiple Rounds of Pandemic Waves in West Bengal, the Gateway of East and North-East States of IndiaArticle Published on 2022-08-312022-11-16 Journal: Microbiology Spectrum [Category] COVID19(2023년), SARS, 변종, [키워드] acute respiratory syndrome alteration Amino acid analyzed B.1.617.2 caused Characteristics comprehensive analysis coronavirus coronavirus disease country COVID19 Delta distribution East Epidemiology Evolution gateway genomic variation host miRNA hydrophobicity profile implication India Infection information Lineage miRNA molecular Multiple Mutation North nucleocapsid pandemic Predictive profile Region reveal SARS-CoV-2 SARS-CoV-2 genomes SARS-CoV-2 lineage sequencing data South state variant Viral protein Viral transmission viral variant virus genome Wave West West Bengal [DOI] 10.1128/spectrum.00914-22 PMC 바로가기
Novel insight on marker genes and pathogenic peripheral neutrophil subtypes in acute pancreatitisArticle Published on 2022-08-222022-11-15 Journal: Frontiers in Immunology [Category] 바이오마커, 유전자 메커니즘, [키워드] Activation acute pancreatitis addition Analysis analyzed bioinformatic analysis Biomarkers Combination coronavirus disease COVID-19 COVID-19 patients Critical expression data facilitate functional gene gastrointestinal disease Gene Expression investigated Local machine-learning marker gene mechanism morbidity neutrophil novel pathogenic pathway patients Peripheral blood peripheral blood cell predictor prognostic Research S100A12 S100A6 S100A9 Sequencing sequencing data single-cell single-cell sequencing subtype WGCNA [DOI] 10.3389/fimmu.2022.964622 PMC 바로가기
Early detection and surveillance of SARS-CoV-2 genomic variants in wastewater using COJACCOJAC을 사용한 폐수 내 SARS-CoV-2 게놈 변이체의 조기 탐지 및 감시Article Published on 2022-08-012022-09-11 Journal: Nature Microbiology [Category] COVID19(2023년), SARS, 변종, 유전자 메커니즘, 진단, 치료기술, [키워드] Alpha Alpha variant application B.1.1.7 B.1.351 Beta bioinformatics clinical samples computational analysis delta variant detect Early detection epidemiological epidemiological surveillance estimate fitness Gamma genomic sequencing genomic variant Local local spread MONITOR Mutation National outbreak P.1 population level Precision Prevalence quantification replicate reported robust SARS-CoV-2 SARS-CoV-2 variant SARS-CoV-2 variants Sequencing sequencing data Spread Surveillance Switzerland Transmission variant variants variants of interest variants of SARS-CoV-2 wastewater while [DOI] 10.1038/s41564-022-01185-x PMC 바로가기 [Article Type] Article
Reconstruction of transmission chains of SARS-CoV-2 amidst multiple outbreaks in a geriatric acute-care hospital: a combined retrospective epidemiological and genomic study노인 급성 치료 병원에서 여러 번 발생하는 SARS-CoV-2의 전염 사슬 재구성: 역학 및 게놈 결합 후향적 연구Article Published on 2022-07-192022-09-11 Journal: eLife [Category] COVID19(2023년), SARS, 유전자 메커니즘, [키워드] acute respiratory syndrome acute respiratory syndrome coronavirus acute respiratory syndrome coronavirus 2 attack rate attack rates Bayesian Cluster coronavirus coronavirus disease Coronavirus disease 2019 COVID-19 credible interval CrI determine Elderly patient elderly patients epidemiological evaluated event expected foundation Genetic genomic geriatric hospitals greater HCW HCWs healthcare worker Healthcare workers Healthcare-associated infection highlight hospital improvement Improvements Infection infection control Infection prevention Infectious disease involved late phase limit Medicine Microbiology MOST Non-COVID-19 patients nosocomial nosocomial COVID-19 nosocomial outbreak Nosocomial outbreaks Nosocomial transmission occurred outbreak pandemic Patient patients performed positive posterior probability proportion random ranged reconstructed reconstruction retrospective retrospective cohort study room SARS-CoV-2 SARS-CoV-2 RT-PCR Science secondary cases sequencing data severe acute respiratory syndrome Coronavirus spring statistically significant study period supported Transmission Transmission dynamics transmission pattern viruses ward [DOI] 10.7554/eLife.76854 PMC 바로가기 [Article Type] Article
Metagenomic pipeline for identifying co-infections among distinct SARS-CoV-2 variants of concern: study cases from Alpha to Omicron우려되는 별개의 SARS-CoV-2 변종 간의 공동 감염을 식별하기 위한 메타게놈 파이프라인: 알파에서 오미크론까지의 연구 사례Article Published on 2022-06-072022-09-11 Journal: Scientific Reports [Category] COVID19(2023년), SARS, 변종, [키워드] Accuracy addition Alpha Analysis appearance approach approaches Beta chance changes in Clinical outcome Co-infection combinations Concomitant concomitant infection COVID-19 COVID-19 case COVID-19 pandemic database Delta epidemiological epidemiological surveillance expected Gamma generate Genotype genotypes identify implementation Infection Inference metagenome metagenomic Misclassification molecular Occurrence omicron predict Recombination reported SARS-CoV-2 SARS-CoV-2 genomes SARS-CoV-2 variant sequence sequenced sample sequencing data Spread Surveillance transmissible variant variant variants of concern VoC VOCs was used whole-genome [DOI] 10.1038/s41598-022-13113-4 PMC 바로가기 [Article Type] Article