Germline rare variants of lectin pathway genes predispose to asymptomatic SARS-CoV-2 infection in elderly individuals렉틴 경로 유전자의 생식선 희귀 변이체는 노인에서 무증상 SARS-CoV-2 감염을 일으키기 쉽습니다.Article Published on 2022-08-012022-09-11 Journal: Genetics in medicine : official journal of the Ame [Category] COVID19(2023년), SARS, 변종, [키워드] allelic variant allelic variants Asymptomatic Asymptomatic COVID-19 asymptomatic individual Asymptomatic individuals asymptomatic subject Cohort COLEC10 COLEC11 Collapsing complement complement system COVID-19 decreased activity decreased expression enrichment ES European Evidence exome sequencing data Genes Genetic genetic data Genome Aggregation Database germline Hospitalized hospitalized patient Hyperactivation individual individuals investigated lectin lectin pathway lung tissue MASP1 outcome performed phenotype predicted PROTECT prothrombin rare variant replicated SARS-CoV-2 SARS-COV-2 infection serum severe COVID-19 severe disease susceptible variant with COVID-19 [DOI] 10.1016/j.gim.2022.04.007 PMC 바로가기 [Article Type] Article
A Comparison of Bioinformatics Pipelines for Enrichment Illumina Next Generation Sequencing Systems in Detecting SARS-CoV-2 Virus StrainsSARS-CoV-2 바이러스 균주 검출 시 Illumina 차세대 시퀀싱 시스템 강화를 위한 생물정보학 파이프라인 비교Comparative Study Published on 2022-07-262022-09-11 Journal: Genes [Category] COVID19(2023년), SARS, 치료기술, 치료제, [키워드] acute respiratory syndrome coronavirus acute respiratory syndrome coronavirus 2 Algorithm Amino acid bioinformatics bioinformatics pipeline capture method characterization coronavirus 2 coronavirus disease Coronavirus disease 2019 Coverage COVID-19 Critical Deletion downstream enrichment enrichment. full-length SARS-CoV-2 genome Generation Hope Human genome Illumina Indonesia insertion limitation Major mapped mapping metagenomic mutations next generation sequencing NGS normal nucleotide nucleotide substitution nucleotide substitutions pandemic Panel Previous studies previous study reads respiratory respiratory virus respiratory viruses SARS-CoV-2 SARS-CoV-2 genome SARS-CoV-2 strain SARS-CoV-2 strains sequence Severe acute respiratory syndrome severe acute respiratory syndrome Coronavirus situation SNPs strain Strains System table the SARS-CoV-2 genome utilization Variation virus worldwide pandemic worsening [DOI] 10.3390/genes13081330 PMC 바로가기 [Article Type] Comparative Study
SARS-CoV-2 potential drugs, drug targets, and biomarkers: a viral-host interaction network-based analysisSARS-CoV-2 잠재적 약물, 약물 표적 및 바이오마커: 바이러스-숙주 상호작용 네트워크 기반 분석Article Published on 2022-07-132022-09-11 Journal: Scientific Reports [Category] COVID19(2023년), SARS, 바이오마커, 변종, 신약개발, 임상, 치료제, [키워드] Amiodarone Analysis anthracyclines Antibiotics Antiviral antiviral agent Biomarker Blood CDK1 cell cycle CENPF CIT Complete COVID-19 cytarabine daily living diagnostic biomarker Diagnostic biomarkers Differentially expressed genes digitoxin Doxorubicin drug drug target drugs Enhancing enrichment ERG example expression FDA-approved drug FDA-approved drugs FLUOROURACIL gemcitabine global pandemic HMOX1 host cell hydroxyurea identify Infection inhibitors Interaction less mir-93 mitotic MYB omicron Omicron variant pathway Pathways performed Probability prognostic biomarker repositioning retrieved RRM2 SARS-CoV-2 sotalol suggested targets the disease therapeutic TOP2A transcriptomic transmission rate Treatment variant variants viral-host interaction virus [DOI] 10.1038/s41598-022-15898-w PMC 바로가기 [Article Type] Article
Enrichment analysis on regulatory subspaces: A novel direction for the superior description of cellular responses to SARS-CoV-2규제 부분 공간에 대한 농축 분석: SARS-CoV-2에 대한 세포 반응의 우수한 설명을 위한 새로운 방향Article Published on 2022-07-012022-09-11 Journal: Computers in biology and medicine [Category] COVID19(2023년), SARS, 변종, 신종인플루엔자, [키워드] affected Algorithm Analysis applied Biclustering Cell cell line cellular response Characteristics classic Clustering Comparative analysis complex Computational biology Coverage COVID-19 database Discriminative regulatory patterns enrichment enrichment analysis False positive functional enrichment Functional enrichment analysis GO term GO terms H1N1 IAV identify Impact IMPROVE in vivo infected cell infected cells Interaction KEGG pathway knowledge knowledge extraction lack lung cell line lung cell lines machine machine learning machine learning algorithm machine learning approach motivation observations pathophysiological performed Predictive Regulatory RSV SARS-CoV-1 SARS-CoV-2 SARS-COV-2 infection SARS-CoV-2 virus scarcity significantly the SARS-CoV-2 virus transcriptional response transcriptomic data transcriptomics variant virus viruses [DOI] 10.1016/j.compbiomed.2022.105443 PMC 바로가기 [Article Type] Article
A New Approach to Drug Repurposing with Two-Stage Prediction, Machine Learning, and Unsupervised Clustering of Gene Expression2 단계 예측, 기계 학습 및 유전자 발현의 감독되지 않은 클러스터링으로 약물 용도에 대한 새로운 접근 방식Article Published on 2022-06-012022-08-31 Journal: Omics : a journal of integrative biology [Category] MERS, 신약개발, 유전자 메커니즘, [키워드] Acetate affected alvocidib analyzed approach approximation big data bioinformatics BMS-387032 candidate Candidates characteristic clinical trial clinical trials Cluster Clusters Compound conditions Consistency Control COVID-19 pandemic Critical dermatomyositis develop dimension disease Diseases drug Drug development Drug discovery Drug efficacy Drug repurposing drug research and OMICS effective enrichment enrichment analysis examined expected expression pattern expression patterns followed by for inclusion function functions Gene Expression gene set enrichment analysis Health human diseases identify Inclusion Inclusion body inclusion body myositis Infectious disease Infectious diseases Innovation Intervention machine learning Manifold mitoxantrone myositis New offer pathway phorbol phorbol-12-myristate-13-acetate polymyositis prediction premise Probability projection repurposing Research reversed Reversibility targets Uniform variety vorinostat [DOI] 10.1089/omi.2022.0026 PMC 바로가기 [Article Type] Article
Integration of omics data to generate and analyse COVID-19 specific genome-scale metabolic modelsomics 데이터를 통합하여 COVID-19 특정 게놈 규모 대사 모델 생성 및 분석Article Published on 2022-06-012022-09-11 Journal: Computers in biology and medicine [Category] 바이오마커, 유전자 메커니즘, 치료제, [키워드] addressed analyses Analysis Antiviral applied approach cholesterol cholesterol metabolism code Combination complex Context-specific models COVID-19 COVID-19 patients dataset datasets disease down-regulated downregulated downregulation enrichment FIVE generate genome-scale metabolic models host response include indicated Infection integration MEM metabolic Metabolic enrichment analysis metabolic pathway metabolic pathways metabolism Model Model extraction methods. observation observations predicted prediction preserved Previous studies previous study produced provided retinol separated targets transcriptomic Variability Vitamin D3 [DOI] 10.1016/j.compbiomed.2022.105428 PMC 바로가기 [Article Type] Article
Gene Set Enrichment Analysis Reveals That Fucoidan Induces Type I IFN Pathways in BMDC유전자 세트 농축 분석을 통해 후코이단이 BMDC에서 I형 IFN 경로를 유도한다는 사실이 밝혀졌습니다Article Published on 2022-05-272022-09-11 Journal: Nutrients [Category] COVID19(2023년), SARS, 유전자 메커니즘, 치료제, [키워드] activate Analysis Antigen presentation Antiviral antiviral activity BMDC CD40 CD80 cytometric DEGs dendritic dendritic cell dendritic cells differentially expressed gene Differentially expressed genes differentially expressed genes (DEGs) driven by enrichment enrichment analysis Flow Flow cytometric analysis fucoidan gene set enrichment analysis gene set enrichment analysis (GSEA) greater GSEA highlighting IFN IFN-stimulated gene immune cells Inflammatory response innate immune Innate immune cells IRF ISG ISGs maturation mechanism MHCII NF-κB NLR nucleic acid pathway Pathways polysaccharide potential mechanism Prevent PRR receptor SARS-CoV-2 Signaling STAT STING sulfated surface marker TLR transcription factors transcriptional change transcriptionally Transcriptome transcriptome change treat Type type I Type I IFN type I interferon upregulated viral infections viruses [DOI] 10.3390/nu14112242 PMC 바로가기 [Article Type] Article
Highly multiplexed immune repertoire sequencing links multiple lymphocyte classes with severity of response to COVID-19Research article Published on 2022-05-142022-10-05 Journal: EClinicalMedicine [Category] 진단, 치료기술, [키워드] adaptive Adaptive immune response analyzed Antigen association Berlin cell counts cell types characterized clinical Clinical course Clinical management clone controls coronavirus coronavirus disease COVID-19 COVID-19 disease severity Critical cross-sectional decrease Disease progression disease severity distribution enrichment examined figure finding funding group healthy healthy control healthy subject heavy chain highest highlighting HLA immune Immune receptor Immune repertoires immune response Immunoglobulin IMPROVE increase in leukocyte lymphocyte measure Metadata Mild outbreak Peripheral blood Predictive Probability progression receptor SARS-CoV-2 scale sequence Sequencing severe COVID-19 severe COVID-19 disease severity subject subjects T cell T cell receptor T cells target the disease Therapies TRB TRD understanding variable with COVID-19 World Health Organization [DOI] 10.1016/j.eclinm.2022.101438 [Article Type] Research article
Computational prediction of potential inhibitors for SARS-COV-2 main protease based on machine learning, docking, MM-PBSA calculations, and metadynamics기계 학습, 도킹, MM-PBSA 계산 및 메타역학을 기반으로 한 SARS-COV-2 주요 프로테아제에 대한 잠재적 억제제의 컴퓨터 예측Article Published on 2022-04-222022-09-11 Journal: PLoS ONE [Category] COVID19(2023년), SARS, 신약개발, 치료기술, 치료제, [키워드] alternative ambenonium approach approved binding energy calculated CHARMM complex Compound compounds COVID-19 dataset described detect Diseases docking docking experiment drug emerging disease enrichment Factor FDA highlighting Histamine histamine receptor HIV-1 reverse transcriptase house inhibit inhibitor input Interaction knowledge lack Metadynamics Mitigation molecules MPro output PDB predict protease Protein protein targets rates of infection receptor researcher reverse transcriptase SARS-CoV-2 main protease SARS-CoV-2 Mpro scored Serotonin strong interaction the epidemic time-consuming Treatment [DOI] 10.1371/journal.pone.0267471 PMC 바로가기 [Article Type] Article
Host-pathogen dynamics in longitudinal clinical specimens from patients with COVID-19COVID-19 환자의 종단 임상 표본에서 숙주-병원체 역학Article Published on 2022-04-072022-09-11 Journal: Scientific Reports [Category] COVID19(2023년), SARS, 변종, 유전자 메커니즘, 임상, 진단, 치료기술, 치료법, [키워드] Analysis average bacterial species bacterial specy ciliated ciliated epithelium co-occurrence collected consensus genome Course COVID-19 cycle threshold cytoskeletal declined deep sequencing deletion variant Differential gene expression differential gene expression analysis dissemination downregulation enrichment Frequency Genetic Genome globe highlight Hospitalized Host immune pressure in vivo increase in individuals Infection low frequencies metagenomic N-terminal domain neutralization potency nonsynonymous variant nonsynonymous variants one patient Patient patients with COVID-19 per day performed Prevalence Rapid reduced Repository SARS-CoV-2 SARS-CoV-2 consensus sequence SARS-CoV-2 consensus sequences SARS-CoV-2 sequencing sequenced Sequencing sera shown specimen spike glycoprotein state subset Surveillance variants Viral viral evolution viral genomes viral loads Washington widespread [DOI] 10.1038/s41598-022-09752-2 PMC 바로가기 [Article Type] Article