Activation of Intracellular Complement in Lungs of Patients With Severe COVID-19 Disease Decreases T-Cell Activity in the Lungs중증 COVID-19 질환 환자의 폐에서 세포내 보체의 활성화는 폐의 T-세포 활성을 감소시킵니다Immunology Published on 2021-11-242022-09-11 Journal: Frontiers in Immunology [Category] MERS, SARS, 유전자 메커니즘, 진단, [키워드] Activation activity acute respiratory syndrome coronavirus alleviate Asymptomatic bioinformatics cellular and molecular Cellular and molecular mechanisms classical complement Complement activation conducted coronavirus coronavirus 2 COVID-19 COVID-19 patients decrease disease pathology disease severity downregulation Effect examined help Ingenuity Pathway Analysis Intracellular knowledge lung lung cell lung cells Lung pathology Lungs mechanical ventilator mechanism modulation multi-organ failure Novel coronavirus potential mechanisms proinflammatory reduce respiratory respiratory distress responsible RNA sequencing data SARS-CoV-2 SARS-COV-2 infection sequencing data severe acute respiratory syndrome Coronavirus severe acute respiratory syndrome coronavirus 2 severe COVID-19 disease severe COVID-19 patients Severe respiratory distress Support survival T-cell T-cells Treatment upregulation [DOI] 10.3389/fimmu.2021.700705 PMC 바로가기 [Article Type] Immunology
Intestinal Collinsella may mitigate infection and exacerbation of COVID-19 by producing ursodeoxycholateResearch Article Published on 2021-11-232022-10-28 Journal: PLoS ONE [Category] COVID-19, MERS, SARS, [키워드] 16S rRNA acute respiratory distress alveolar fluid clearance Angiotensin-converting enzyme anti-apoptotic antioxidant binding country COVID-19 COVID-19 infection COVID-19 mortality Cytokine storm syndrome database FIVE Generalized linear model GLM gut microbiota healthy subject IL-1β IL-2 IL-4 Infection inhibit mechanism mitigate mortality rate P -value predict predicted Prevent pro-inflammatory cytokine produced producing Region reported SARS-CoV-2 sequencing data subject suppress syndrome TNF-α Unsupervised clustering ursodeoxycholate [DOI] 10.1371/journal.pone.0260451 PMC 바로가기 [Article Type] Research Article
ENNAVIA is a novel method which employs neural networks for antiviral and anti-coronavirus activity prediction for therapeutic peptidesEnnavia는 치료 펩티드에 대한 항 바이러스 및 항 코로나 바이러스 활성 예측에 대한 신경망을 사용하는 새로운 방법입니다.Problem Solving Protocol Published on 2021-11-232022-09-10 Journal: Briefings in Bioinformatics [Category] MERS, SARS, 치료제, [키워드] Accuracy activities an area anti-coronavirus activity Antiviral antiviral activities antiviral activity antiviral drug antiviral drugs Area biological activity Candidates Cheminformatics class Classifier Community correlation coefficient Curve dataset deep learning Health in silico in silico screening machine learning Neural network novel antiviral drugs novel sequence outperform peptide peptides quantity Research sequencing data therapeutic threat Toxicity viruses web server [DOI] 10.1093/bib/bbab258 PMC 바로가기 [Article Type] Problem Solving Protocol
Transcriptional Profiling and Machine Learning Unveil a Concordant Biosignature of Type I Interferon-Inducible Host Response Across Nasal Swab and Pulmonary Tissue for COVID-19 Diagnosis전사 프로파일링 및 기계 학습, COVID-19 진단을 위한 비강 면봉 및 폐 조직 전반에 걸쳐 I형 인터페론 유도성 숙주 반응의 일치하는 생체특징 공개Immunology Published on 2021-11-222022-09-11 Journal: Frontiers in Immunology [Category] MERS, SARS, 유전자 메커니즘, 진단, 치료기술, [키워드] adjusted adopted Analysis approach biosignature BST2 caused complementary computational analysis concordant conserved COVID-19 COVID-19 diagnosis data interpretation dataset Diagnosis Diagnostic method embedding Factor false-negative Genes geometric global pandemic GSE147507 heterogeneous high mortality homological Host host response IFIT1 IFIT2 IFIT3 IFITM1 IFN-I IFN-I signaling infection control Interferome interferon involved ISG15 Limited lung tissue machine learning morbidity MX1 MX2 nasal swab NCBI-GEO network OAS1 OAS2 OAS3 OASL objective other respiratory infections outcome Profiling pulmonary respiratory respiratory infections response Result retrieved RNA-seq data RNA-sequencing RSAD2 RT-PCR SARS-CoV-2 SARS-CoV-2 virus sequencing data severity of COVID-19 similarity Stat1 stochastic stratified transcriptional transcriptional level transcriptomics Type type I interferon virus was used WGCNA [DOI] 10.3389/fimmu.2021.733171 PMC 바로가기 [Article Type] Immunology
Evaluating the potential for respiratory metagenomics to improve treatment of secondary infection and detection of nosocomial transmission on expanded COVID-19 intensive care units확장된 COVID-19 중환자실에서 2차 감염 치료 및 병원 전파 감지를 개선하기 위한 호흡기 메타유전체학의 잠재력 평가Research Published on 2021-11-172022-09-10 Journal: Genome Medicine [Category] MERS, SARS, 유전자 메커니즘, 진단, 치료기술, 치료제, [키워드] 95% CI absence added Antibiotic resistance Antibiotics approach Aspergillus fumigatus Bacterial carried clinical clinical assessment COVID-19 COVID-19 pandemic Critical care Culture detect evaluated Evaluating expansion Genome genomic Genomic surveillance ICU ICUs IMPROVE increased risk Infection infection control infections initial intensive care unit intubated patient Laboratory MDR modify Nanopore nanopore sequencing nosocomial Nosocomial transmission outbreak pathogen pathogen detection Pathogens Patient pneumoniae positive presence or absence provide quantitative PCR reported Research respiratory respiratory sample Respiratory samples Result SARS-CoV-2 pandemic Secondary infection Sequencing sequencing data Seven supplementary material Surveillance translated Transmission Treatment [DOI] 10.1186/s13073-021-00991-y PMC 바로가기 [Article Type] Research
Observed Antibody Space: A diverse database of cleaned, annotated, and translated unpaired and paired antibody sequencesTools for Protein Science Published on 2021-10-292022-10-28 Journal: Protein Science : A Publication of the Protein Soc [Category] COVID-19, MERS, SARS, [키워드] acute respiratory syndrome Amino acid annotated antibody sequences annotation antibody antibody database antibody repertoire antibody sequence available data B‐cell BCR‐seq coronavirus database disease driven by FASTQ files group increasingly individual nucleotide OAS Observed Observed Antibody Space (OAS) offer parameter problem provide receptor repertoire researcher sequence Sequencing sequencing data Space therapeutic translated vaccine responses Volume [DOI] 10.1002/pro.4205 PMC 바로가기 [Article Type] Tools for Protein Science
Plasma Gradient of Soluble Urokinase-Type Plasminogen Activator Receptor Is Linked to Pathogenic Plasma Proteome and Immune Transcriptome and Stratifies Outcomes in Severe COVID-19가용성 Urokinase-Type Plasminogen Activator Receptor의 혈장 구배는 병원성 Plasma Proteome 및 면역 전사체와 연결되어 심각한 COVID-19의 결과를 계층화합니다Immunology Published on 2021-10-282022-09-11 Journal: Frontiers in Immunology [Category] MERS, SARS, 임상, [키워드] 95% confidence interval Activation acute respiratory distress acute respiratory distress syndrome Analysis analyzed ARDS benefit Biomarker caused characteristic circulating Clinical outcome clinical outcomes coagulation disorder coagulation disorders Cohort complement Complement activation coronavirus COVID-19 COVID-19 disease COVID-19 patients Critical care Cutoff cutoff value cytokine Cytokines Cytometry differential expression disease effective expressed faster Flow flow cytometry Gradient hazard ratio hyper-inflammation hypercoagulable Hypercoagulable state hyperinflammation immune mass spectrometry morbidity and mortality Mortality myeloid cell myeloid cells Next-generation sequencing Odds ratio operator pathogenic patient cohort performed Peripheral blood peripheral blood cell peripheral blood cells plasma plasma sample plasma samples plasma suPAR Plaur predict Prognosis proteome proteomics receiver receptor respiratory distress risk stratification SARS-CoV-2 coronavirus Sequencing sequencing data severe COVID-19 disease severe COVID-19 patient severe COVID-19 patients Single-cell RNA sequencing soluble uPAR statistical analyses suPAR survival syndrome systemic hyper-inflammation systemic hyperinflammation Transcriptome urokinase Urokinase-Type Plasminogen Activator was done were measured [DOI] 10.3389/fimmu.2021.738093 PMC 바로가기 [Article Type] Immunology
Effect of SARS-CoV-2 infection on host competing endogenous RNA and miRNA networkBioinformatics Published on 2021-10-202022-10-28 Journal: PeerJ [Category] COVID-19, [키워드] affected approaches association Cell cellular competing Competitive endogenous RNA networks computation contribute COVID-19-related symptom Critical dysfunction Effect explained functions heart failure Host host miRNAs infected cell Interaction investigated large-scale analysis Metabolic diseases miRNA miRNA targets Perspective recent Regulation Regulatory reported RNA SARS-CoV-2 SARS-CoV-2 human miRNA interaction SARS-COV-2 infection SARS-CoV-2 RNA sequencing data single-cell target the SARS-CoV-2 genome transcript Viral RNA [DOI] 10.7717/peerj.12370 PMC 바로가기 [Article Type] Bioinformatics
Strategy and Performance Evaluation of Low-Frequency Variant Calling for SARS-CoV-2 Using Targeted Deep Illumina SequencingMicrobiology Published on 2021-10-132022-10-31 Journal: Frontiers in Microbiology [Category] COVID-19, [키워드] allelic Alpha Analysis anticipated approach caused circulating Co-infection competent consensus genome Continuous Coverage COVID-19 pandemic criteria curtail deep detect develop diagnostic epidemiological evaluated frequencies Frequency genomic Health Illumina Immune escape in silico Infection Lineage B.1.1.7 measure mutant Mutation NGS occur pathogenicity performance provide quantification Quasispecies quasispecy raw sequencing data recommendation SARS-CoV-2 SARS-CoV-2 sequencing SARS-CoV-2 variant sensitivity sequence Sequencing sequencing coverage sequencing data strain Strategy Surveillance the SARS-CoV-2 Transmissibility Variability variant variant of concern variants of concern Variation virus virus spread wastewater surveillance WGS whole genome wild-type [DOI] 10.3389/fmicb.2021.747458 PMC 바로가기 [Article Type] Microbiology
Utilizing the VirIdAl Pipeline to Search for Viruses in the Metagenomic Data of Bat SamplesArticle Published on 2021-10-062022-10-28 Journal: Viruses [Category] Coronavirus, [키워드] addition Alpha applied approaches bat bats beta coronavirus bioinformatics biological sample collected coronavirus database develop estimates genomes genomic heterogeneity High-throughput sequencing identify impede in viral indicate Insects less loci NGS nucleotide organism plants proportion Protozoa reservoir Sample sequencing data shown utility variety viral pathogen viral pathogens virus viruses [DOI] 10.3390/v13102006 PMC 바로가기 [Article Type] Article