Omics of Covid-19 disease

Version vom 20. Juni 2022, 11:52 Uhr

Maybe, specific information might be found in the raw readout of proteomic datasets.

Searchterm applied (gives 9900 papers on june 7th 2022)

http://www.moremed.org/SiteSearch.php?S1=transcriptom*+OR+transcription*+OR+proteom*+OR+gene+expression+OR+interactom*+OR+omics+OR+hub+genes+OR+epigenom*+OR+dna+methylation+OR+metabolom*+OR+gene+chip+OR+transcripts+OR+microarray+OR+receptorom*+OR+glycom*+OR+differential+expression&S2=covid19+OR+covid-19+OR+sars-cov2+OR+sars-cov-2+&S3=&submit=submit&px1=proxy.nationallizenzen.de&px2=&px3=&px4=&R=all&Y0=1500&Y1=2025

Covid Omics Databases and Webservers

34845454 2021. Identifying disease-critical cell types and cellular processes across the human body by integration of single-cell profiles and human genetics.
34127975 2021. Implicating Gene and Cell Networks Responsible for Differential COVID-19 Host Responses via an Interactive Single Cell Web Portal.
34075382 2021. CovidExpress: an interactive portal for intuitive investigation on SARS-CoV-2 related transcriptomes.
32587962 2020. The IMEx Coronavirus interactome: an evolving map of Coronaviridae-Host molecular interactions.
33206959 2020. The IMEx coronavirus interactome: an evolving map of Coronaviridae-host molecular interactions.
33413085 2021. H2V: a database of human genes and proteins that respond to SARS-CoV-2, SARS-CoV, and MERS-CoV infection.
34448623 2021. A Novel Pathway Network Analytics Method Based on Graph Theory.
33605735 2021. Open Science Resources for the Mass Spectrometry-Based Analysis of SARS-CoV-2.
32930583 2020. Quantification of mRNA Expression Using Single-Molecule Nanopore Sensing.
33553941 2021. SARSCOVIDB-A New Platform for the Analysis of the Molecular Impact of SARS-CoV-2 Viral Infection.
33501381 2020. Fostering global data sharing: highlighting the recommendations of the Research Data Alliance COVID-19 working group.
34718395 2022. A comprehensive review of the analysis and integration of omics data for SARS-CoV-2 and COVID-19.
34424948 2021. DeepDRIM: a deep neural network to reconstruct cell-type-specific gene regulatory network using single-cell RNA-seq data.
34111889 2021. Single-cell multi-omics sequencing: application trends, COVID-19, data analysis issues and prospects.
34076249 2021. Transcriptomic studies revealed pathophysiological impact of COVID-19 to predominant health conditions.
34009288 2021. Multi-omics data integration and network-based analysis drives a multiplex drug repurposing approach to a shortlist of candidate drugs against COVID-19.
33592108 2021. Data science in unveiling COVID-19 pathogenesis and diagnosis: evolutionary origin to drug repurposing.
33416848 2021. SARS-CoV-2 3D database: understanding the coronavirus proteome and evaluating possible drug targets.
33057582 2021. Web tools to fight pandemics: the COVID-19 experience.
34767776 2021. COVID-19 immune features revealed by a large-scale single-cell transcriptome atlas.
33657410 2021. COVID-19 immune features revealed by a large-scale single-cell transcriptome atlas.
34471261 2021. Multiomics: unraveling the panoramic landscapes of SARS-CoV-2 infection.
34348131 2021. The COVIDome Explorer researcher portal.
33310371 2021. Recent trends on omics and bioinformatics approaches to study SARS-CoV-2: A bibliometric analysis and mini-review.
33301953 2021. Next-generation computational tools and resources for coronavirus research: From detection to vaccine discovery.
32864402 2020. Dataset of mutational analysis, miRNAs targeting SARS-CoV-2 genes and host gene expression in SARS-CoV and SARS-CoV-2 infections.
32835036 2020. Quantitative proteomic dataset from oro- and naso-pharyngeal swabs used for COVID-19 diagnosis: Detection of viral proteins and host's biological processes altered by the infection.
35134150 2022. SCANNER: a web platform for annotation, visualization and sharing of single cell RNA-seq data.
33009914 2021. A database resource and online analysis tools for coronaviruses on a historical and global scale.
32404885 2020. The COVID-19 Host Genetics Initiative, a global initiative to elucidate the role of host genetic factors in susceptibility and severity of the SARS-CoV-2 virus pandemic.
33194800 2020. Systems Biology Approaches for Therapeutics Development Against COVID-19.
35003208 2021. COVID-19 Transcriptomic Atlas: A Comprehensive Analysis of COVID-19 Related Transcriptomics Datasets.
34975833 2021. Understanding Gene Expression and Transcriptome Profiling of COVID-19: An Initiative Towards the Mapping of Protective Immunity Genes Against SARS-CoV-2 Infection.
32670298 2020. Immune and Metabolic Signatures of COVID-19 Revealed by Transcriptomics Data Reuse.
34557504 2021. Unraveling Risk Genes of COVID-19 by Multi-Omics Integrative Analyses.
35047913 2021. The SIRAH-CoV-2 Initiative: A Coarse-Grained Simulations' Dataset of the SARS-CoV-2 Proteome.
35531299 2022. The Intricacy of the Viral-Human Protein Interaction Networks: Resources, Data, and Analyses.
33324374 2020. Comparative Transcriptome Analysis Reveals the Intensive Early Stage Responses of Host Cells to SARS-CoV-2 Infection.
33585554 2020. SARS-CoV-2 Proteins Exploit Host's Genetic and Epigenetic Mediators for the Annexation of Key Host Signaling Pathways.
34530086 2022. An overview of human proteins and genes involved in SARS-CoV-2 infection.
33263093 2021. Gene expression profiling of corona virus microarray datasets to identify crucial targets in COVID-19 patients.
34401607 2021. Systems level insights into the impact of airborne exposure on SARS-CoV-2 pathogenesis and COVID-19 outcome - A multi-omics big data study.
33553808 2020. Bioinformatics analyses of significant genes, related pathways, and candidate diagnostic biomarkers and molecular targets in SARS-CoV-2/COVID-19.
33809949 2021. A Resource for the Network Representation of Cell Perturbations Caused by SARS-CoV-2 Infection.
34209818 2021. Toward a Coronavirus Knowledge Graph.
35002537 2021. Identification of Differentially Expressed Genes in COVID-19 and Integrated Bioinformatics Analysis of Signaling Pathways.
35184750 2022. Systematic comparison of published host gene expression signatures for bacterial/viral discrimination.
34001247 2021. An atlas connecting shared genetic architecture of human diseases and molecular phenotypes provides insight into COVID-19 susceptibility.
34350693 2021. Comprehensive investigation of RNA-sequencing dataset reveals the hub genes and molecular mechanisms of coronavirus disease 2019 acute respiratory distress syndrome.
34675627 2021. Construction and Investigation of Competing Endogenous RNA Networks and Candidate Genes Involved in SARS-CoV-2 Infection.
34623759 2021. New insights into genetic characteristics between multiple myeloma and COVID-19: An integrative bioinformatics analysis of gene expression omnibus microarray and the cancer genome atlas data.
35269564 2022. COVIDomics: The Proteomic and Metabolomic Signatures of COVID-19.
33207699 2020. Large-Scale Plasma Analysis Revealed New Mechanisms and Molecules Associated with the Host Response to SARS-CoV-2.
32236644 2020. Identification of a potential mechanism of acute kidney injury during the COVID-19 outbreak: a study based on single-cell transcriptome analysis.
34522848 2021. An interactive single cell web portal identifies gene and cell networks in COVID-19 host responses.
34487344 2021. A pathway map of signaling events triggered upon SARS-CoV infection.
33730024 2021. Single-cell longitudinal analysis of SARS-CoV-2 infection in human airway epithelium identifies target cells, alterations in gene expression, and cell state changes.
33901166 2021. The first few days of a SARS-CoV-2 infection viewed at single-cell resolution.
34260589 2021. COVIDomic: A multi-modal cloud-based platform for identification of risk factors associated with COVID-19 severity.
35468151 2022. Multi-omic analysis reveals enriched pathways associated with COVID-19 and COVID-19 severity.
35390032 2022. Identification of host transcriptome-guided repurposable drugs for SARS-CoV-1 infections and their validation with SARS-CoV-2 infections by using the integrated bioinformatics approaches.
35085325 2022. Identification of potentially anti-COVID-19 active drugs using the connectivity MAP.
33082228 2020. Transcriptional and proteomic insights into the host response in fatal COVID-19 cases.
35377064 2022. Differential transcriptomic landscapes of multiple organs from SARS-CoV-2 early infected rhesus macaques.
32664949 2020. SARS-CoV-2 induces transcriptional signatures in human lung epithelial cells that promote lung fibrosis.
34127904 2021. Network-based transcriptomic analysis identifies the genetic effect of COVID-19 to chronic kidney disease patients: A bioinformatics approach.
32963239 2020. Consensus transcriptional regulatory networks of coronavirus-infected human cells.
34031435 2021. Integrative web-based analysis of omics data for study of drugs against SARS-CoV-2.
33782412 2021. Comprehensive transcriptomic analysis of COVID-19 blood, lung, and airway.
33510359 2021. Meta-analysis of host transcriptional responses to SARS-CoV-2 infection reveals their manifestation in human tumors.
34907210 2021. Identification of transcriptional regulatory network associated with response of host epithelial cells to SARS-CoV-2.
34376762 2021. Comparative transcriptome analyses reveal genes associated with SARS-CoV-2 infection of human lung epithelial cells.
33318519 2020. Gene expression network analysis provides potential targets against SARS-CoV-2.
33863870 2021. COVID-19: complexity of disease severity revealed by systemic and localized single cell immune atlas.
33859163 2021. Multi-platform omics analysis reveals molecular signature for COVID-19 pathogenesis, prognosis and drug target discovery.
32670298 2020. Immune and Metabolic Signatures of COVID-19 Revealed by Transcriptomics Data Reuse.
34557504 2021. Unraveling Risk Genes of COVID-19 by Multi-Omics Integrative Analyses.
35047913 2021. The SIRAH-CoV-2 Initiative: A Coarse-Grained Simulations' Dataset of the SARS-CoV-2 Proteome.
35531299 2022. The Intricacy of the Viral-Human Protein Interaction Networks: Resources, Data, and Analyses.
33324374 2020. Comparative Transcriptome Analysis Reveals the Intensive Early Stage Responses of Host Cells to SARS-CoV-2 Infection.
33585554 2020. SARS-CoV-2 Proteins Exploit Host's Genetic and Epigenetic Mediators for the Annexation of Key Host Signaling Pathways.
34530086 2022. An overview of human proteins and genes involved in SARS-CoV-2 infection.
33263093 2021. Gene expression profiling of corona virus microarray datasets to identify crucial targets in COVID-19 patients.
34401607 2021. Systems level insights into the impact of airborne exposure on SARS-CoV-2 pathogenesis and COVID-19 outcome - A multi-omics big data study.
33553808 2020. Bioinformatics analyses of significant genes, related pathways, and candidate diagnostic biomarkers and molecular targets in SARS-CoV-2/COVID-19.
33809949 2021. A Resource for the Network Representation of Cell Perturbations Caused by SARS-CoV-2 Infection.
34209818 2021. Toward a Coronavirus Knowledge Graph.
35002537 2021. Identification of Differentially Expressed Genes in COVID-19 and Integrated Bioinformatics Analysis of Signaling Pathways.
34001247 2021. An atlas connecting shared genetic architecture of human diseases and molecular phenotypes provides insight into COVID-19 susceptibility.
34350693 2021. Comprehensive investigation of RNA-sequencing dataset reveals the hub genes and molecular mechanisms of coronavirus disease 2019 acute respiratory distress syndrome.
34675627 2021. Construction and Investigation of Competing Endogenous RNA Networks and Candidate Genes Involved in SARS-CoV-2 Infection.
34623759 2021. New insights into genetic characteristics between multiple myeloma and COVID-19: An integrative bioinformatics analysis of gene expression omnibus microarray and the cancer genome atlas data.
35269564 2022. COVIDomics: The Proteomic and Metabolomic Signatures of COVID-19.
33207699 2020. Large-Scale Plasma Analysis Revealed New Mechanisms and Molecules Associated with the Host Response to SARS-CoV-2.
32236644 2020. Identification of a potential mechanism of acute kidney injury during the COVID-19 outbreak: a study based on single-cell transcriptome analysis.
34522848 2021. An interactive single cell web portal identifies gene and cell networks in COVID-19 host responses.
34487344 2021. A pathway map of signaling events triggered upon SARS-CoV infection.
32806897 2020. Integrative Modeling of Quantitative Plasma Lipoprotein, Metabolic, and Amino Acid Data Reveals a Multiorgan Pathological Signature of SARS-CoV-2 Infection.
35150462 2022. Thrombosis pathways in COVID-19 vs. influenza-associated ARDS: A targeted proteomics approach.
33413422 2021. Transcriptome of nasopharyngeal samples from COVID-19 patients and a comparative analysis with other SARS-CoV-2 infection models reveal disparate host responses against SARS-CoV-2.
34876157 2021. Multi-omics approach to COVID-19: a domain-based literature review.
32811513 2020. The current landscape of coronavirus-host protein-protein interactions.
34319784 2021. Kinetic Multi-omic Analysis of Responses to SARS-CoV-2 Infection in a Model of Severe COVID-19.
34106002 2021. Viral and Host Transcriptomes in SARS-CoV-2-Infected Human Lung Cells.
35530264 2022. Plasma Proteomics of COVID-19-Associated Cardiovascular Complications: Implications for Pathophysiology and Therapeutics.
34254058 2021. Cov-MS: A Community-Based Template Assay for Mass-Spectrometry-Based Protein Detection in SARS-CoV-2 Patients.
35511435 2022. Single-cell transcriptomic profiling of lung endothelial cells identifies dynamic inflammatory and regenerative subpopulations.
35175937 2022. Temporal transcriptomic analysis using TrendCatcher identifies early and persistent neutrophil activation in severe COVID-19.
34618691 2021. Human nasal wash RNA-Seq reveals distinct cell-specific innate immune responses in influenza versus SARS-CoV-2.
33284134 2021. Metabolic reprogramming and epigenetic changes of vital organs in SARS-CoV-2-induced systemic toxicity.
34642644 2021. A Pilot Study of Urine Proteomics in COVID-19-Associated Acute Kidney Injury.
35368565 2022. Single-Cell RNA Sequencing of Urinary Cells Reveals Distinct Cellular Diversity in COVID-19-Associated AKI.
35110370 2022. Proteomic landscape of SARS-CoV-2- and MERS-CoV-infected primary human renal epithelial cells.
34425963 2021. Acute Kidney Injury in Severe COVID-19 Has Similarities to Sepsis-Associated Kidney Injury: A Multi-Omics Study.
35604092 2022. The Translational Landscape of SARS-CoV-2-infected Cells Reveals Suppression of Innate Immune Genes.
34766152 2021. Application of omics technology to combat the COVID-19 pandemic.
33833618 2021. Whole-Transcriptome RNA Sequencing Reveals Significant Differentially Expressed mRNAs, miRNAs, and lncRNAs and Related Regulating Biological Pathways in the Peripheral Blood of COVID-19 Patients.
35547845 2022. Whole Genome DNA and RNA Sequencing of Whole Blood Elucidates the Genetic Architecture of Gene Expression Underlying a Wide Range of Diseases.
33758879 2021. The COVIDome Explorer Researcher Portal.
32743614 2020. Large-scale Multi-omic Analysis of COVID-19 Severity.
33398303 2020. An atlas connecting shared genetic architecture of human diseases and molecular phenotypes provides insight into COVID-19 susceptibility.
33435351 2021. Comprehensive Meta-Analysis of COVID-19 Global Metabolomics Datasets.
34153417 2021. Construction of an autophagy interaction network based on competitive endogenous RNA reveals the key pathways and central genes of SARS-CoV-2 infection in vivo.
34118193 2021. Global analysis of protein-RNA interactions in SARS-CoV-2-infected cells reveals key regulators of infection.
33989516 2021. The SARS-CoV-2 RNA interactome.
35504488 2022. Mapping molecular gene signatures mediated by SARS-COV-2 and large-scale and genome-wide transcriptomics comparative analysis among respiratory viruses of medical importance.
34400346 2021. Proteomic Signature of Host Response to SARS-CoV-2 Infection in the Nasopharynx.
34089862 2021. Proteomics-Based Insights Into the SARS-CoV-2-Mediated COVID-19 Pandemic: A Review of the First Year of Research.
34664389 2021. COVID19 Disease Map, a computational knowledge repository of virus-host interaction mechanisms.
35300459 2022. Transcriptogram analysis reveals relationship between viral titer and gene sets responses during Corona-virus infection.
34876692 2021. A single-cell transcriptomic landscape of the lungs of patients with COVID-19.
34315893 2021. Single-cell transcriptome of bronchoalveolar lavage fluid reveals sequential change of macrophages during SARS-CoV-2 infection in ferrets.
34315889 2021. The trans-omics landscape of COVID-19.
33597532 2021. Dysregulated transcriptional responses to SARS-CoV-2 in the periphery.
34381043 2021. Temporal omics analysis in Syrian hamsters unravel cellular effector responses to moderate COVID-19.
33879890 2021. Single-cell multi-omics analysis of the immune response in COVID-19.
34876996 2021. Post-mortem tissue proteomics reveals the pathogenesis of multi-organ injuries of COVID-19.
33915569 2021. COVID-19 tissue atlases reveal SARS-CoV-2 pathology and cellular targets.
33915568 2021. A molecular single-cell lung atlas of lethal COVID-19.
34237774 2021. Mapping the human genetic architecture of COVID-19.
33274348 2020. CovMulNet19, Integrating Proteins, Diseases, Drugs, and Symptoms: A Network Medicine Approach to COVID-19.
34031419 2021. Comparative transcriptome analysis reveals key epigenetic targets in SARS-CoV-2 infection.
35100418 2022. AggMapNet: enhanced and explainable low-sample omics deep learning with feature-aggregated multi-channel networks.
34761257 2022. SCoV2-MD: a database for the dynamics of the SARS-CoV-2 proteome and variant impact predictions.
34718748 2022. MVIP: multi-omics portal of viral infection.
34634820 2022. SCovid: single-cell atlases for exposing molecular characteristics of COVID-19 across 10 human tissues.
34554255 2022. COVID19db: a comprehensive database platform to discover potential drugs and targets of COVID-19 at whole transcriptomic scale.
35557984 2022. Weighted Gene Co-Expression Network Analysis to Identify Potential Biological Processes and Key Genes in COVID-19-Related Stroke.
34457122 2021. Comprehensive Analysis of the Systemic Transcriptomic Alternations and Inflammatory Response during the Occurrence and Progress of COVID-19.
32667665 2020. Transcriptome-based drug repositioning for coronavirus disease 2019 (COVID-19).
33842903 2021. Secondary analysis of transcriptomes of SARS-CoV-2 infection models to characterize COVID-19.
33868814 2021. Multi-schema computational prediction of the comprehensive SARS-CoV-2 vs. human interactome.
32566414 2020. Host transcriptome-guided drug repurposing for COVID-19 treatment: a meta-analysis based approach.
33730024 2021. Single-cell longitudinal analysis of SARS-CoV-2 infection in human airway epithelium identifies target cells, alterations in gene expression, and cell state changes.
33901166 2021. The first few days of a SARS-CoV-2 infection viewed at single-cell resolution.
34260589 2021. COVIDomic: A multi-modal cloud-based platform for identification of risk factors associated with COVID-19 severity.
35468151 2022. Multi-omic analysis reveals enriched pathways associated with COVID-19 and COVID-19 severity.
35390032 2022. Identification of host transcriptome-guided repurposable drugs for SARS-CoV-1 infections and their validation with SARS-CoV-2 infections by using the integrated bioinformatics approaches.
35085325 2022. Identification of potentially anti-COVID-19 active drugs using the connectivity MAP.
33082228 2020. Transcriptional and proteomic insights into the host response in fatal COVID-19 cases.
35377064 2022. Differential transcriptomic landscapes of multiple organs from SARS-CoV-2 early infected rhesus macaques.
32664949 2020. SARS-CoV-2 induces transcriptional signatures in human lung epithelial cells that promote lung fibrosis.
34127904 2021. Network-based transcriptomic analysis identifies the genetic effect of COVID-19 to chronic kidney disease patients: A bioinformatics approach.
32963239 2020. Consensus transcriptional regulatory networks of coronavirus-infected human cells.
34031435 2021. Integrative web-based analysis of omics data for study of drugs against SARS-CoV-2.
33782412 2021. Comprehensive transcriptomic analysis of COVID-19 blood, lung, and airway. {{tp|p=34907210|t=2021. Identification of transcriptional regulatory network associated with response of ho
34376762 2021. Comparative transcriptome analyses reveal genes associated with SARS-CoV-2 infection of human lung epithelial cells.
33318519 2020. Gene expression network analysis provides potential targets against SARS-CoV-2.
33863870 2021. COVID-19: complexity of disease severity revealed by systemic and localized single cell immune atlas.
33859163 2021. Multi-platform omics analysis reveals molecular signature for COVID-19 pathogenesis, prognosis and drug target discovery.
33846224 2021. Longitudinal Peripheral Blood Transcriptional Analysis Reveals Molecular Signatures of Disease Progression in COVID-19 Patients.
33813307 2021. A SARS-CoV-2 -human metalloproteome interaction map.
33735949 2021. OverCOVID: an integrative web portal for SARS-CoV-2 bioinformatics resources.
34080738 2021. Critical COVID-19 is associated with distinct leukocyte phenotypes and transcriptome patterns.
33162722 2020. A comprehensive overview of proteomics approach for COVID 19: new perspectives in target therapy strategies.
34550702 2021. Discovery Proteomics for COVID-19: Where We Are Now.
34379420 2021. A Multi-omics Longitudinal Study Reveals Alteration of the Leukocyte Activation Pathway in COVID-19 Patients.
33666082 2021. Ubiquitin-Modified Proteome of SARS-CoV-2-Infected Host Cells Reveals Insights into Virus-Host Interaction and Pathogenesis.
34080435 2021. Proteomic Analysis Identifies Prolonged Disturbances in Pathways Related to Cholesterol Metabolism and Myocardium Function in the COVID-19 Recovery Stage.
34077217 2021. Mass Spectrometric Analysis of Urine from COVID-19 Patients for Detection of SARS-CoV-2 Viral Antigen and to Study Host Response.
33464917 2021. Proteomic Approaches to Study SARS-CoV-2 Biology and COVID-19 Pathology.
33426872 2021. Role of Multiomics Data to Understand Host-Pathogen Interactions in COVID-19 Pathogenesis.
33103435 2020. Computational Identification of Human Biological Processes and Protein Sequence Motifs Putatively Targeted by SARS-CoV-2 Proteins Using Protein-Protein Interaction Networks.
32654489 2020. Repurpose Open Data to Discover Therapeutics for COVID-19 Using Deep Learning.
33245774 2021. PAGER-CoV: a comprehensive collection of pathways, annotated gene-lists and gene signatures for coronavirus disease studies.
35511057 2022. deepHPI: a comprehensive deep learning platform for accurate prediction and visualization of host-pathogen protein-protein interactions.

All relevant papers

34920080 2022. The spike protein of SARS-CoV-2 induces heme oxygenase-1: Pathophysiologic implications.
34835015 2021. SARS-CoV-2 Spike Protein S1-Mediated Endothelial Injury and Pro-Inflammatory State Is Amplified by Dihydrotestosterone and Prevented by Mineralocorticoid Antagonism. -to be shown-