ID 669783 - BioProject

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Accession: PRJEB40771 ID: 669783

INSDC COVID-19 Infected Human Sequencing Data

This umbrella project groups all (and only) public human sequencing data from COVID-19 infected individuals that is currently archived with the International Nucleotide Sequence Database Collaboration (INSDC).

Accession	PRJEB40771
Type	Umbrella project
Submission	Registration date: 19-Oct-2020 EMBL-EBI

Project Data:

Resource Name	Number of Links
Sequence data
Nucleotide (Genomic DNA)	8561
SRA Experiments	38228
Publications
PubMed	349
PMC	337
Other datasets
BioSample	37510
Genotype and Phenotype (dbGaP)	3
GEO DataSets	423

GEO Data Details

Parameter	Value
Data volume, Supplementary Mbytes	302353

SRA Data Details

Parameter	Value
Data volume, Gbases	256,927
Data volume, Tbytes	90.35

This project encompasses the following 594 sub-projects:

Project Type

Number of Projects

Epigenomics

BioProject accession	Organism	Title
PRJNA350685	Homo sapiens	ChIP-seq analysis of coronavirus-infected human cells (Institute for Genetics, Justus-Liebig-University...)
PRJNA686969	Homo sapiens	Distinct mechanisms for TMPRSS2 expression explain organ-specific inhibition of SARS-CoV-2 infection by enzalutamide [ChIP-Seq] (Shanghai Institute of Biochemistry...)
PRJNA686970	Homo sapiens	Distinct mechanisms for TMPRSS2 expression explain organ-specific inhibition of SARS-CoV-2 infection by enzalutamide [ATAC-Seq] (Shanghai Institute of Biochemistry...)
PRJNA704898	Homo sapiens	H3K27ac in SARS-CoV-2 infection (Center for Autoimmune Genomics...)
PRJNA682408	Homo sapiens	Role of Top1 and 3D Genome structure in SARS-CoV-2 infection [Hi-C] (Ivan Marazzi, Microbiology,...)

List all 21 'Epigenomics' projects...

BioProject accession	Organism	Title
PRJNA350685	Homo sapiens	ChIP-seq analysis of coronavirus-infected human cells (Institute for Genetics, Justus-Liebig-University...)
PRJNA686969	Homo sapiens	Distinct mechanisms for TMPRSS2 expression explain organ-specific inhibition of SARS-CoV-2 infection by enzalutamide [ChIP-Seq] (Shanghai Institute of Biochemistry...)
PRJNA686970	Homo sapiens	Distinct mechanisms for TMPRSS2 expression explain organ-specific inhibition of SARS-CoV-2 infection by enzalutamide [ATAC-Seq] (Shanghai Institute of Biochemistry...)
PRJNA704898	Homo sapiens	H3K27ac in SARS-CoV-2 infection (Center for Autoimmune Genomics...)
PRJNA682408	Homo sapiens	Role of Top1 and 3D Genome structure in SARS-CoV-2 infection [Hi-C] (Ivan Marazzi, Microbiology,...)
PRJNA726171	Homo sapiens	Genome-wide mapping of H3K4me3 and H3K27ac in monocytes from SARS-CoV-2 convalescent patients. (University Hospital of Cologne)
PRJNA748584	Homo sapiens	Alterations in circulating monocytes predict COVID-19 severity and include chromatin modifications still detectable six months after recovery (Genomics Unit, CNIC)
PRJNA733666	Homo sapiens	Identification of LZTFL1 as a candidate effector gene at a COVID-19 risk locus (ChIP-seq) (MRC Weatherall Institute...)
PRJNA733669	Homo sapiens	Identification of LZTFL1 as a candidate effector gene at a COVID-19 risk locus (ATAC-seq) (MRC Weatherall Institute...)
PRJNA730890	Homo sapiens	Implicating effector genes at COVID-19 GWAS loci using promoter-focused Capture-C in disease-relevant immune cell types [ATAC-seq] (Struan Grant and Andrew Wells,...)
PRJNA814291	Homo sapiens	Functional reprogramming of monocytes in acute and convalescent severe COVID-19 patients [ATAC-seq] (Université Libre de Bruxelles)
PRJNA679046	Homo sapiens	JAK inhibitors dampen activation of interferon-stimulated transcription of ACE2 isoforms in human airway epithelial cells (ChIP-seq) (Laboratory of Genetics and...)
PRJNA679898	Homo sapiens	Interferon-regulated genetic programs and JAK/STAT pathway activate the intronic promoter of the short ACE2 isoform in renal proximal tubules [ChIP-seq] (Laboratory of Genetics and...)
PRJNA801421	Homo sapiens	Type I Interferon Transcriptional Network Regulates Expression of Coinhibitory Receptors in Human T cells [ATAC-seq] (Hafler lab, Neurology, Yale...)
PRJNA691302	Homo sapiens	The role of XIST in X-inactivation maintenance in B cells (ChIP-seq, Cut&Run)) (Stanford University)
PRJNA851014	Homo sapiens	Differential chromatin accessibility in peripheral blood mononuclear cells underlies COVID-19 disease severity prior to seroconversion [scATAC-Seq] (Center for Applied Genomics...)
PRJNA849934	Homo sapiens	Differential chromatin accessibility in peripheral blood mononuclear cells underlies COVID-19 disease severity prior to seroconversion [bulkATAC-Seq] (Center for Applied Genomics...)
PRJNA846719	Homo sapiens	ATACseq analysis of A549 cells infected with SARS-CoV-2 with dARKSAP virus Set 2 (Korb Lab, University of Pennsylvania)
PRJNA775005	Homo sapiens	ChIP sequencing following infection with CoV-02 Orf8 KO (Berger, CDB, University of...)
PRJNA844885	Homo sapiens	ChIP sequencing following infection with CoV-02 Orf8 or ARKSAP KO (Berger, CDB, University of...)
PRJNA846718	Homo sapiens	ATACseq analysis of A549 cells infected with SARS-CoV-2 with dARKSAP virus Set 3 (Korb Lab, University of Pennsylvania)

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Genome sequencing

Highest level of assembly :

SRA or Trace

114

BioProject accession	Assembly level	Name	Title
PRJNA764053	SRA or Trace	A BBB organ chip model reveals BBB injury following SARS-CoV-2 infection	A BBB organ chip model reveals BBB injury following SARS-CoV-2 infection (Dalian Institute of Chemical...)
PRJNA668200	SRA or Trace	A Human 3D neural-perivascular assembloid promotes astrocytic development and enables modeling of SARS-CoV-2 neuropathology	A Human 3D neural-perivascular assembloid promotes astrocytic development and enables modeling of SARS-CoV-2 neuropathology (University of California...)
PRJNA692253	SRA or Trace	A blood RNA transcriptome profile for COVID-19	A blood RNA transcriptome profile for COVID-19 (NUHS)
PRJNA779941	SRA or Trace	A genome-wide CRISPR screen identifies interactors of the autophagy pathway as conserved coronavirus targets	A genome-wide CRISPR screen identifies interactors of the autophagy pathway as conserved coronavirus targets (Institute of Virology and...)
PRJNA647532	SRA or Trace	A human disease model of SARS-CoV-2-induced lung injury and immune responses with a microengineered organ chip	A human disease model of SARS-CoV-2-induced lung injury and immune responses with a microengineered organ chip (Dalian Institute of Chemical...)

List all 114 'Genome sequencing' projects...

Less...

Other

118

BioProject accession	Name	Title
PRJNA671680	A Multiplexed, Next-Generation Sequencing Platform for High-Throughput Detection of SARS-CoV-2 [PoC cohort]	A Multiplexed, Next-Generation Sequencing Platform for High-Throughput Detection of SARS-CoV-2 [PoC cohort] (Lunenfeld Tanenbaum Research...)
PRJNA671693	A Multiplexed, Next-Generation Sequencing Platform for High-Throughput Detection of SARS-CoV-2 [extended cohort]	A Multiplexed, Next-Generation Sequencing Platform for High-Throughput Detection of SARS-CoV-2 [extended cohort] (Lunenfeld Tanenbaum Research...)
PRJNA671689	A Multiplexed, Next-Generation Sequencing Platform for High-Throughput Detection of SARS-CoV-2 [pilot cohort]	A Multiplexed, Next-Generation Sequencing Platform for High-Throughput Detection of SARS-CoV-2 [pilot cohort] (Lunenfeld Tanenbaum Research...)
PRJNA671682	A Multiplexed, Next-Generation Sequencing Platform for High-Throughput Detection of SARS-CoV-2 [test cohort]	A Multiplexed, Next-Generation Sequencing Platform for High-Throughput Detection of SARS-CoV-2 [test cohort] (Lunenfeld Tanenbaum Research...)
PRJNA661467	A high-resolution temporal atlas of the SARS-CoV-2 translatome and transcriptome	A high-resolution temporal atlas of the SARS-CoV-2 translatome and transcriptome (The Baek Research Group of...)

List all 118 'Other' projects...

BioProject accession	Name	Title
PRJNA671680	A Multiplexed, Next-Generation Sequencing Platform for High-Throughput Detection of SARS-CoV-2 [PoC cohort]	A Multiplexed, Next-Generation Sequencing Platform for High-Throughput Detection of SARS-CoV-2 [PoC cohort] (Lunenfeld Tanenbaum Research...)
PRJNA671693	A Multiplexed, Next-Generation Sequencing Platform for High-Throughput Detection of SARS-CoV-2 [extended cohort]	A Multiplexed, Next-Generation Sequencing Platform for High-Throughput Detection of SARS-CoV-2 [extended cohort] (Lunenfeld Tanenbaum Research...)
PRJNA671689	A Multiplexed, Next-Generation Sequencing Platform for High-Throughput Detection of SARS-CoV-2 [pilot cohort]	A Multiplexed, Next-Generation Sequencing Platform for High-Throughput Detection of SARS-CoV-2 [pilot cohort] (Lunenfeld Tanenbaum Research...)
PRJNA671682	A Multiplexed, Next-Generation Sequencing Platform for High-Throughput Detection of SARS-CoV-2 [test cohort]	A Multiplexed, Next-Generation Sequencing Platform for High-Throughput Detection of SARS-CoV-2 [test cohort] (Lunenfeld Tanenbaum Research...)
PRJNA661467	A high-resolution temporal atlas of the SARS-CoV-2 translatome and transcriptome	A high-resolution temporal atlas of the SARS-CoV-2 translatome and transcriptome (The Baek Research Group of...)
PRJNA683801	A single-cell and spatial atlas of autopsy tissues reveals pathology and cellular targets of SARS-CoV-2 [gene expression levels]	A single-cell and spatial atlas of autopsy tissues reveals pathology and cellular targets of SARS-CoV-2 [gene expression levels] (Broad Institute of MIT and...)
PRJEB43580	A single-cell atlas of lymphocyte adaptive immune repertoires and transcriptomes reveals age-related differences in convalescent COVID-19 patients	A single-cell atlas of lymphocyte adaptive immune repertoires and transcriptomes reveals age-related differences in convalescent COVID-19 patients (European Bioinformatics Institute)
PRJNA733168	Bidirectional genome-wide CRISPR screens reveal host factors regulating SARS-CoV-2, MERS-CoV and seasonal HCoVs	Bidirectional genome-wide CRISPR screens reveal host factors regulating SARS-CoV-2, MERS-CoV and seasonal HCoVs (Genetic Perturbation Platform,...)
PRJEB42534	Blood RNA-seq data from individuals during the UK Covid-19 lockdown, spanning sequential weeks from first PCR-confirmed SARS-CoV-2 infection, used to evaluate blood transcriptomic signatures of viral infection and identify host-response biomarkers of early SARS-CoV-2 infection	Blood RNA-seq data from individuals during the UK Covid-19 lockdown, spanning sequential weeks from first PCR-confirmed SARS-CoV-2 infection, used to evaluate blood transcriptomic signatures of viral infection and identify host-response biomarkers of early SARS-CoV-2 infection (European Bioinformatics Institute)
PRJEB41480	Bulk RNA Barcoding and sequencing (BRB-seq) of Mock, SARS-CoV, and SARS-CoV-2 infected human airway epithelial cell cultures at 33°C and 37°C	Bulk RNA Barcoding and sequencing (BRB-seq) of Mock, SARS-CoV, and SARS-CoV-2 infected human airway epithelial cell cultures at 33°C and 37°C (European Bioinformatics Institute)
PRJEB52612	Bulk RNA-seq of an ALI (Air-lung interface) model of SARS-CoV2	Bulk RNA-seq of an ALI (Air-lung interface) model of SARS-CoV2 (European Bioinformatics Institute)
PRJNA722158	COV-ID: A LAMP sequencing approach for high-throughput co-detection of SARS-CoV-2 and influenza virus in human saliva	COV-ID: A LAMP sequencing approach for high-throughput co-detection of SARS-CoV-2 and influenza virus in human saliva (Bonasio, Cell and Developmental...)
PRJEB51337	COVID-19 and nasopharyngeal microbiota in Barcelona, Spain	Impact of COVID-19 lockdown on the nasopharyngeal microbiota of children and adults self-confined at home (Hospital Sant Joan de Deu)
PRJEB51261	COVID-19 asthma microbiome	COVID-19 asthma microbiome (WASHINGTON UNIVERSITY IN...)
PRJEB45873	COVID19_Autopsy_Study	Microbiome and host features of secondary infections in lethal COVID-19. (MEDICAL UNIVERSITY GRAZ)
PRJNA812945	CRISPR screens for host factors critical for infection by SARS-CoV-2 variants of concern	CRISPR screens for host factors critical for infection by SARS-CoV-2 variants of concern (Noam Stern-Ginossar, Molecular...)
PRJEB49845	Capturing SARS-cov in low abundant patient samples: a comparative analysis (Illumina respv NS).	Capturing SARS-cov in low abundant patient samples: a comparative analysis (Illumina respv NS). (European Bioinformatics Institute)
PRJEB49846	Capturing SARS-cov in low abundant patient samples: a comparative analysis (Twist sarscov MS).	Capturing SARS-cov in low abundant patient samples: a comparative analysis (Twist sarscov MS). (European Bioinformatics Institute)
PRJEB49843	Capturing SARS-cov in low abundant patient samples: a comparative analysis (arbo double ms) .	Capturing SARS-cov in low abundant patient samples: a comparative analysis (arbo double ms) . (European Bioinformatics Institute)
PRJEB49847	Capturing SARS-cov in low abundant patient samples: a comparative analysis (arbo single MS).	Capturing SARS-cov in low abundant patient samples: a comparative analysis (arbo single MS). (European Bioinformatics Institute)
PRJEB49849	Capturing SARS-cov in low abundant patient samples: a comparative analysis (twist panviral NS).	Capturing SARS-cov in low abundant patient samples: a comparative analysis (twist panviral NS). (European Bioinformatics Institute)
PRJEB47548	Characterisation of the blood RNA host response underpinning severity in COVID-19 patients	Characterisation of the blood RNA host response underpinning severity in COVID-19 patients (European Bioinformatics Institute)
PRJNA723762	Combinatorial optimization of mRNA structure, stability, and translation for RNA-based therapeutics	Combinatorial optimization of mRNA structure, stability, and translation for RNA-based therapeutics (Das, Biochemistry, Stanford...)
PRJEB43102	Date for "Paediatric nasal epithelial cells are less permissive to SARS-CoV-2 replication"(Yanshan Zhu et al.)	Pediatric nasal epithelial cells are less permissive to SARS-CoV-2 replication compared to adult cells (THE UNIVERSITY OF QUEENSLAND)
PRJNA630716	Decoding SARS-CoV-2 coding capacity	Decoding SARS-CoV-2 coding capacity (Noam Stern-Ginossar, Molecular...)
PRJNA723769	Developing RT-LAMP Assays for Detection of SARS-CoV-2 in Saliva	Developing RT-LAMP Assays for Detection of SARS-CoV-2 in Saliva (University of Illinois at...)
PRJNA853268	Differential Whole Genome CRISPR Screening Strategy for SARS-CoV-2 Spike and VSV-G Mediated Pseudoviral Entry	Differential Whole Genome CRISPR Screening Strategy for SARS-CoV-2 Spike and VSV-G Mediated Pseudoviral Entry (Immunology, Chemistry and...)
PRJNA725841	Discovery and functional interrogation of the virus and host RNA interactome of SARS-CoV-2 proteins [eCLIP]	Discovery and functional interrogation of the virus and host RNA interactome of SARS-CoV-2 proteins [eCLIP] (UCSD)
PRJEB41332	Elevated temperature inhibits SARS-CoV2 replication in respiratory epithelium independently of the induction of IFN-mediated innate immune defences	Elevated temperature inhibits SARS-CoV2 replication in respiratory epithelium independently of the induction of IFN-mediated innate immune defences (MRC-University of Glasgow...)
PRJEB40692	Functional genomic screens in human cells to identify host factors for SARS-CoV-2 and common cold coronaviruses	Functional genomic screens in human cells to identify host factors for SARS-CoV-2 and common cold coronaviruses (European Bioinformatics Institute)
PRJNA680345	Functional interrogation of a SARS-CoV-2 host protein interactome identifies unique and shared coronavirus host factors	Functional interrogation of a SARS-CoV-2 host protein interactome identifies unique and shared coronavirus host factors (NYU Langone Health)
PRJNA680344	Genome-scale identification of SARS-CoV-2 and pan-coronavirus host factor networks	Genome-scale identification of SARS-CoV-2 and pan-coronavirus host factor networks (NYU Langone Health)
PRJNA608742	Homo sapiens	Single-cell landscape of bronchoalveolar immune cells in COVID-19 patients (Shenzhen 3rd People's Hospital)
PRJNA613297	Homo sapiens	The sequence of human ACE2 is suboptimal for binding the S spike protein of SARS coronavirus 2 (RAL 318G, Biochemistry, University...)
PRJNA658479	Homo sapiens	Transposon mutagenesis screen identifies MHC class II transactivator (CIITA) as an inducer of cellular resistance to Ebola virus and SARS Coronavirus (Benaroya Research Institute)
PRJNA665035	Homo sapiens	Genes with 5′ terminal oligopyrimidine tracts preferentially escape global suppression of translation by the SARS-CoV-2 NSP1 protein (Cenik Lab, Department of...)
PRJNA664769	Homo sapiens	Identification of required host factors for SARS-CoV-2 infection in human cells (Biology, New York University)
PRJNA669984	Homo sapiens	Identification of required host factors for SARS-CoV-2 infection in human cells [ECCITE-seq] (Biology, New York University)
PRJNA646247	Homo sapiens	The SARS-CoV-2 RNA-protein interactome in infected human cells (Stanford University)
PRJNA684320	Homo sapiens	Characterizing cerebrospinal fluid immunity in neurological manifestations of COVID-19 (Neuroimmunology, Translational...)
PRJNA687171	Homo sapiens	SARSeq, a robust and highly multiplexed NGS assay for parallel detection of SRAS-CoV2 and other respiratory infections (Stark Lab, The Research Institute...)
PRJNA697969	Homo sapiens	Single-cell immunophenotyping of the fetal immune response to maternal SARS-CoV-2 infection (Greenberg Lab, Neurobiology,...)
PRJNA690256	Homo sapiens	Distinct B cell repertoires characterize patients with mild and severe COVID-19 [VDJ] (Neurology, Icahn School of...)
PRJNA670023	Homo sapiens	TMEM41B is a host factor required for the replication of diverse coronaviruses including SARS-CoV-2 (Molecular Genetics and Microbiology,...)
PRJNA725482	Homo sapiens	Identification of DAXX As A Restriction Factor Of SARS-CoV-2 Through A CRISPR/Cas9 Screen (Institut Pasteur)
PRJNA728100	Homo sapiens	Multi-omic profiling reveals widespread dysregulation of innate immunity and hematopoiesis in COVID-19 (Stanford University)
PRJNA691071	Homo sapiens	Promoter Capture Hi-C performed on A549 cells in a SARS-CoV2 infection timecourse (Functional Gene Control,...)
PRJNA736300	Homo sapiens	Impaired antigen-specific memory B cell and plasma cell responses including lack of specific IgG upon SARS-CoV-2 BNT162b2 vaccination among Kidney Transplant and Dialysis patients (Deutsches Rheuma-Forschungszentrum)
PRJNA679559	Homo sapiens	TRB sequences targeting ORF1ab are associated with disease severity in hospitalized COVID-19 patients (Laboratory of Medical Immunology,...)
PRJNA742664	Homo sapiens	Mapping the 3D genome and epigenome in SARS-CoV-2 infected human cells (UTHealth McGovern Medical...)
PRJNA764933	Homo sapiens	The NF-κB transcriptional footprint is essential for SARS-CoV-2 replication (tenOever lab, Microbiology,...)
PRJNA735258	Homo sapiens	Immune signatures underlying post-acute COVID-19 lung sequelae (Mayo Clinic)
PRJNA733668	Homo sapiens	Identification of LZTFL1 as a candidate effector gene at a COVID-19 risk locus (MCC) (MRC Weatherall Institute...)
PRJNA756047	Homo sapiens	A Prenylated dsRNA Sensor Protects Against Severe COVID-19 (Castello, MRC-University...)
PRJNA670712	Homo sapiens	High resolution chromosome conformation capture from gene promoters at COVID-19, T1D, AS and RBC GWAS loci (MRC Weatherall Institute...)
PRJNA761726	Homo sapiens	The innate and adaptive immune landscape of SARS-CoV-2-associated multisystem inflammatory syndrome in children (MIS-C) from acute disease to recovery (Institute of Immunology and...)
PRJNA647352	Homo sapiens	Autocrine vitamin D signaling switches off pro-inflammatory programs of Th1 cells (Immunoregulation Section,...)
PRJNA648992	Homo sapiens	Single-Cell Omics Reveals Dyssynchrony of the Innate and Adaptive Immune System in Progressive COVID-19 [CITE-seq] (Kleinstein, Pathology, Yale...)
PRJNA778775	Homo sapiens	Allelic variation in Class I HLA determines pre-existing memory responses to SARS-CoV-2 that shape the CD8+ T cell repertoire upon viral exposure (Repertoire Immune Medicines)
PRJNA769052	Homo sapiens	Gut microbiota interplay with COVID-19 reveals links to host lipid metabolism among Middle Eastern populations (Center of Biotechnology,...)
PRJNA748731	Homo sapiens	People critically ill with COVID-19 exhibit peripheral immune profiles predictive of mortality and reflective of SARS-CoV-2 lung viral burden (Vignali Lab, Immunology,...)
PRJNA737127	Homo sapiens	Genome-wide knockout screen of OC43/SARS-CoV2-infected HEK293-hACE2 cells II (Ciaudo lab, Biology, ETH...)
PRJNA737125	Homo sapiens	Genome-wide knockout screen of OC43/SARS-CoV2-infected HEK293-hACE2 cells I (Ciaudo lab, Biology, ETH...)
PRJNA718086	Homo sapiens	SARS-CoV-2 Nucleocapsid protein attenuates stress granule formation and interacts directly with mRNAs to impair host stress response (iCLIP-Seq) (University of Toronto)
PRJNA788547	Homo sapiens	Recruitment of highly cytotoxic CD8+ T cell receptors in mild SARS-CoV-2 infection (Prof. Dirk Busch, Institute...)
PRJNA798057	Homo sapiens	Bidirectional genome-wide CRISPR screens reveal host factors regulating SARS-CoV-2, MERS-CoV and seasonal HCoVs (Genetic Perturbation Platform,...)
PRJEB50888	Homo sapiens	Precision COVID-19 immunization strategy to overcome individual fragility: a case of generalized lipodystrophy type 4 (European Bioinformatics Institute)
PRJEB51612	Homo sapiens	Distribution of TAS2R38 bitter taste receptor phenotype and haplotypes among COVID-19 patients (European Bioinformatics Institute)
PRJNA830364	Homo sapiens	Improved predictions of immunogenicity reveal SARS-Cov-2 CD8 T-cell epitopes (Department of Oncology, University...)
PRJNA730893	Homo sapiens	Implicating effector genes at COVID-19 GWAS loci using promoter-focused Capture-C in disease-relevant immune cell types [Capture-C] (Struan Grant and Andrew Wells,...)
PRJNA723634	Homo sapiens	Single-cell multi-modal profiling of proteins and chromatin accessibility using PHAGE-ATAC [Spike_mix_pbmcs] (Stanford University)
PRJNA723635	Homo sapiens	Single-cell multi-modal profiling of proteins and chromatin accessibility using PHAGE-ATAC [ASAP_Phage_comparison] (Stanford University)
PRJNA691301	Homo sapiens	The role of XIST in X-inactivation maintenance in B cells (CRISPRi screen) (Stanford University)
PRJNA760481	Homo sapiens	The BNT162b2 vaccine elicits robust lymph node T follicular helper cell responses (Department of Immunology,...)
PRJNA723636	Homo sapiens	Single-cell multi-modal profiling of proteins and chromatin accessibility using PHAGE-ATAC [Intracellular_GFP] (Stanford University)
PRJNA670179	Homo sapiens	Hydroxychloroquine inhibits trained immunity (Teichmann Lab, Cellular Genetics,...)
PRJNA694127	Homo sapiens	Reduced Nucleoprotein availability impairs negative-sense RNA virus replication and promotes host recognition (tenOever Lab, Microbiology,...)
PRJNA859437	Homo sapiens	Elevated Myl9 reflects the Myl9-containing microthrombi in SARS-CoV-2-induced exudative vasculitis and predicts COVID-19 severity (Chiba univercity)
PRJEB40825	Integrated longitudinal immunophenotyping, transcriptional and repertoire analyses depict principles of protective immune responses and memory formation in COVID-19 patients	Integrated longitudinal immunophenotyping, transcriptional and repertoire analyses depict principles of protective immune responses and memory formation in COVID-19 patients (European Bioinformatics Institute)
PRJEB44816	Long-read ONT sequencing of human cells infected with SARS-CoV-2	Long-read ONT sequencing of human cells infected with SARS-CoV-2 (Mater Medical Research Institute,...)
PRJEB53053	Longitudinal scRNAseq profiling of memory B cells in severe COVID19 patients	Longitudinal scRNAseq profiling of memory B cells in severe COVID19 patients (European Bioinformatics Institute)
PRJEB43418	MIS-C TCR	HLA Class I-associated expansion of TRBV11-2 T cells via a CDR3-independent mechanism in Multisystem Inflammatory Syndrome in Children (MARTIN-LUTHER-UNIVERSITY...)
PRJEB46564	Multi-tissue transcriptomic-informed in silico investigation of drugs for the treatment of dengue fever disease	We characterized the expression profile of post-mortem human spleen samples by Ion AmpliSeq from dengue haemorrhagic fever and non-diseased deceased individuals, to enrich published gene expression profiles from blood and liver in Dengue cohorts. (IPATIMUP)
PRJNA715632	Neanderthal Adaptively Introgressed Genetic Variants Regulate Human Immune Genes In Vitro.	Neanderthal Adaptively Introgressed Genetic Variants Regulate Human Immune Genes In Vitro. (Capellini, Human Evolutionary...)
PRJEB38339	Next Generation Sequencing of T and B cell receptor repertoires from COVID-19 patients showed signatures associated with severity of disease	Next Generation Sequencing of T and B cell receptor repertoires from COVID-19 patients showed signatures associated with severity of disease (MARTIN-LUTHER-UNIVERSITY...)
PRJEB43444	PanClinCov	Biomedical research PanClinCov is focused on usability of 2nd and 3rd generation sequencing methods in improving clinical management of people infected by SARS-CoV-2 as well as application of these methods to identify genomic variability of SARS-CoV-2. (Comenius University Science...)
PRJNA824486	Parsing the role of NSP1 in SARS-CoV-2 infection	Parsing the role of NSP1 in SARS-CoV-2 infection (Noam Stern-Ginossar, Molecular...)
PRJEB45262	Platelet transcriptome and high platelet turnover in sepsis	Impact of high platelet turnover on the platelet transcriptome: Results from platelet RNA-sequencing in patients with sepsis (UNIVERSITY OF FREIBURG)
PRJEB48830	Profiling of SARS-CoV-2 5' capping sites and characterisation of novel sgRNAs using Nanopore ReCappable Sequencing	Nanopore ReCappable Sequencing maps SARS-CoV-2 5’ capping sites and provides new insights into the structure of sgRNAs (istituto italiano di tecnologia)
PRJEB44716	RNA-Seq HEK293T cells transfected with plasmids expressing SARS-CoV-2 Nucleocapsid protein	RNA-Seq HEK293T cells transfected with plasmids expressing SARS-CoV-2 Nucleocapsid protein (King Abdullah University...)
PRJEB38935	RNA-seq of RBC depleted whole blood from COVID-19 patients and controls	RNA-seq of RBC depleted whole blood from COVID-19 patients and controls (European Bioinformatics Institute)
PRJEB41026	RNA-seq of SARS-CoV-2-infected human primary hepatocyte-derived spheroids upon interferon a2 and baricitinib treatment	RNA-seq of SARS-CoV-2-infected human primary hepatocyte-derived spheroids upon interferon a2 and baricitinib treatment (European Bioinformatics Institute)
PRJEB49520	RNA-seq time-course of Calu-3 cells infected with SARS-CoV-2 early-lineage and Alpha variant viruses	RNA-seq time-course of Calu-3 cells infected with SARS-CoV-2 early-lineage and Alpha variant viruses (European Bioinformatics Institute)
PRJEB33871	RNAseq of Calu-3 epithelial cells treated with Cyclosporin A	RNAseq of Calu-3 epithelial cells treated with Cyclosporin A (European Bioinformatics Institute)
PRJEB50803	Rapid hypermutation B cell trajectory recruits previously primed B cells upon third SARS-CoV-2 mRNA vaccination	B cell maturation trajectories after SARS-CoV-2 booster vaccination (MARTIN-LUTHER-UNIVERSITY...)
PRJEB51271	SARS-COV2-UPR	Enhanced SARS-CoV-2 entry via UPR-dependent AMPK-related kinase NUAK2 (GERMAN CANCER RESEARCH CENTER...)
PRJEB45515	SARS-CoV-2 samples from Saudi Arabia	Saudi Arabian SARS-CoV-2 genomes (King Abdullah University...)
PRJNA681523	SARS-CoV-2 utilizes a multipronged strategy to suppress host protein synthesis	SARS-CoV-2 utilizes a multipronged strategy to suppress host protein synthesis (Noam Stern-Ginossar, Molecular...)
PRJEB44878	ScRNA-seq based characterization of smoke effects on SAEC	Cigarette smoke specifically affects small airway epithelial cell populations and triggers the expansion of inflammatory and squamous differentiation associated basal cells (BOEHRINGER INGELHEIM PHARMA...)
PRJEB47921	Single Cell Analysis of B cells in COVID-19 comprising active and recovered disease	Single Cell Analysis of B cells in COVID-19 comprising active and recovered disease (European Bioinformatics Institute)
PRJEB44229	Single cell RNA-seq and TCR-seq for PBMC from COVID-19 patients with persistent SARS-CoV-2 infection	Single cell RNA-seq and TCR-seq for PBMC from COVID-19 patients with persistent SARS-CoV-2 infection (tongji hospital, tongji medical...)
PRJEB52725	Single-cell RNA-seq of an ALI (Air-lung interface) model of SARS-CoV2	Single-cell RNA-seq of an ALI (Air-lung interface) model of SARS-CoV2 (European Bioinformatics Institute)
PRJEB53344	Single-cell RNA-seq of an ALI (Air-lung interface) model of SARS-CoV2	Single-cell RNA-seq of an ALI (Air-lung interface) model of SARS-CoV2 (European Bioinformatics Institute)
PRJEB40222	Specification of HiPS to in vivo placental cell types	Specification of HiPS to in vivo placental cell types (European Bioinformatics Institute)
PRJNA740029	Systematic genome-scale identification of host factors for SARS-CoV-2 infection across models yields a core single gene dependency; ACE2	Systematic genome-scale identification of host factors for SARS-CoV-2 infection across models yields a core single gene dependency; ACE2 (Molecular Genetics, University...)
PRJNA680347	TMEM41B is a pan-flavivirus host factor	TMEM41B is a pan-flavivirus host factor (NYU Langone Health)
PRJNA678298	Temporal and Spatial Heterogeneity of Host Response to SARS-CoV-2 Pulmonary Infection [gene expression]	Temporal and Spatial Heterogeneity of Host Response to SARS-CoV-2 Pulmonary Infection [gene expression] (R&D, Nanostring)
PRJEB43380	The Trans-omics Landscape of COVID-19	The Trans-omics Landscape of COVID-19 (XIAN)
PRJEB51886	The salivary and nasopharyngeal microbiomes are associated with SARS-CoV-2 infection and disease severity	The salivary and nasopharyngeal microbiomes are associated with SARS-CoV-2 infection and disease severity (WASHINGTON UNIVERSITY IN...)
PRJNA646969	The short- and long-range RNA Interactome of SARS-CoV-2	The short- and long-range RNA Interactome of SARS-CoV-2 (Miska Lab, The Gurdon Inst.,...)
PRJEB38744	Time resolved 3’-sequencing of poly(A) RNA of SARS-CoV-2-MUC-IMB-1 infection (MOI 3) in A549-ACE2 cells.	Multi-level proteomics reveals host-perturbation strategies of SARS-CoV-2 and SARS-CoV. (Klinikum rechts der Isar,...)
PRJNA667051	Translational landscape of SARS-CoV-2 and infected cells	Translational landscape of SARS-CoV-2 and infected cells (Washington University School...)
PRJNA734853	Visualizing in deceased COVID-19 patients how SARS-CoV-2 attacks the respiratory and olfactory mucosae but spares the olfactory bulb	Visualizing in deceased COVID-19 patients how SARS-CoV-2 attacks the respiratory and olfactory mucosae but spares the olfactory bulb (Translational Sciences, NanoString...)
PRJEB48163	gut microbiome upon SARS-CoV-2 vaccines	Vaccination (BBIBP-CorV vaccine) against the SARS-CoV-2 virus affects the gut microbiome (Beijing Chaoyang Hospita)
PRJEB42052	m6A RNA modification of betacoronaviruses	Targeting the m6A RNA modification pathway blocks SARS-CoV-2 and HCoV-OC43 replication (NEW YORK UNIVERSITY SCHOOL...)
PRJNA702920	m6A modification in SARS-CoV-2 virus regulates host cell innate immune response	m6A modification in SARS-CoV-2 virus regulates host cell innate immune response (Tariq Rana's Lab, Pediatrics,...)
PRJEB45698	small RNA sequencing from plasma samples of SARS-CoV-2 infected patients	small RNA sequencing from plasma samples of SARS-CoV-2 infected patients (European Bioinformatics Institute)
PRJEB52928	undefined	Multiomics and SARS-CoV-2 vaccination (IMPERIAL COLLEGE LONDON)

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Phenotype or Genotype

BioProject accession	Organism	Title
PRJNA671371	Homo sapiens	Shotgun Transcriptome and Isothermal Profiling of SARS-CoV-2 Infection Reveals Unique Host Responses, Viral Diversification, and Drug Interactions (WEILL MEDICAL COLL OF CORNELL...)
PRJNA730941	Homo sapiens	Nasopharyngeal RNASeq comparing SARS-CoV-2+ patients and SARS-CoV-2 negative control subjects (YALE UNIVERSITY)
PRJNA800566	Homo sapiens	IFN-γ and TNF-α drive a CXCL10+ CCL2+ macrophage phenotype expanded in severe COVID-19 lungs and inflammatory diseases with tissue inflammation (HOSPITAL FOR SPECIAL SURGERY)

Targeted Locus (Loci)

BioProject accession	Organism	Title
PRJDB13013	Homo sapiens	single-cell BCR repertoire from seven healthy donors (Institute of Advanced Medicine,...)
PRJDB13703	Homo sapiens	A genome-wide CRISPR screen for herpes simplex virus type-1 host factors reveals PAPS synthase as a key factor for heparan sulfate biosynthesis (Department of Virology, Nagoya...)

Transcriptome or Gene expression

336

BioProject accession	Name	Title
PRJNA667083	A customizable purification assay designed for small-RNA biomarker identification and functional evaluation of circulating exosomes: Exosome Capture by AnTibody of CHoice and Enzymatic Release (exo-CATCHER)	A customizable purification assay designed for small-RNA biomarker identification and functional evaluation of circulating exosomes: Exosome Capture by AnTibody of CHoice and Enzymatic Release (exo-CATCHER) (Laboratory of Medical Transcriptomics,...)
PRJNA720637	A human-airway-on-a-chip for the rapid identification of candidate antiviral therapeutics and prophylactics	A human-airway-on-a-chip for the rapid identification of candidate antiviral therapeutics and prophylactics (tenOever Lab, Microbiology,...)
PRJNA682433	A novel cell culture system modeling the SARS-CoV-2 life cycle	A novel cell culture system modeling the SARS-CoV-2 life cycle (China Agricultural Universtiy)
PRJNA704330	ChIRP-MS RNA-seq during SARS-CoV-2 infection	ChIRP-MS RNA-seq during SARS-CoV-2 infection (Stanford University)
PRJNA683662	Clofazimine is a broad-spectrum coronavirus inhibitor that antagonizes SARS-CoV-2 replication in primary human cell culture and hamsters	Clofazimine is a broad-spectrum coronavirus inhibitor that antagonizes SARS-CoV-2 replication in primary human cell culture and hamsters (The University of Hong Kong)

List all 336 'Transcriptome or Gene expression' projects...

BioProject accession	Name	Title
PRJNA667083	A customizable purification assay designed for small-RNA biomarker identification and functional evaluation of circulating exosomes: Exosome Capture by AnTibody of CHoice and Enzymatic Release (exo-CATCHER)	A customizable purification assay designed for small-RNA biomarker identification and functional evaluation of circulating exosomes: Exosome Capture by AnTibody of CHoice and Enzymatic Release (exo-CATCHER) (Laboratory of Medical Transcriptomics,...)
PRJNA720637	A human-airway-on-a-chip for the rapid identification of candidate antiviral therapeutics and prophylactics	A human-airway-on-a-chip for the rapid identification of candidate antiviral therapeutics and prophylactics (tenOever Lab, Microbiology,...)
PRJNA682433	A novel cell culture system modeling the SARS-CoV-2 life cycle	A novel cell culture system modeling the SARS-CoV-2 life cycle (China Agricultural Universtiy)
PRJNA704330	ChIRP-MS RNA-seq during SARS-CoV-2 infection	ChIRP-MS RNA-seq during SARS-CoV-2 infection (Stanford University)
PRJNA683662	Clofazimine is a broad-spectrum coronavirus inhibitor that antagonizes SARS-CoV-2 replication in primary human cell culture and hamsters	Clofazimine is a broad-spectrum coronavirus inhibitor that antagonizes SARS-CoV-2 replication in primary human cell culture and hamsters (The University of Hong Kong)
PRJNA725867	Discovery and functional interrogation of the virus and host RNA interactome of SARS-CoV-2 proteins [RNA-Seq]	Discovery and functional interrogation of the virus and host RNA interactome of SARS-CoV-2 proteins [RNA-Seq] (UCSD)
PRJNA735451	Evaluation of Swab-Seq as a scalable, sensitive assay for community surveillance of SARS-CoV-2 Infection	Evaluation of Swab-Seq as a scalable, sensitive assay for community surveillance of SARS-CoV-2 Infection (Cellular and Molecular Medicine,...)
PRJNA659731	FD-seq: Droplet-based RNA sequencing of fixed single cells	FD-seq: Droplet-based RNA sequencing of fixed single cells (Priztker School of Molecular...)
PRJNA719366	Global analysis of protein-RNA interactions in SARS-CoV-2 infected cells reveals key regulators of infection	Global analysis of protein-RNA interactions in SARS-CoV-2 infected cells reveals key regulators of infection (Department of Biochemistry,...)
PRJNA786802	High throughput sequencing of Vero, A549, CaCO2, and HRT18 cells infected with SARS-CoV2	High throughput sequencing of Vero, A549, CaCO2, and HRT18 cells infected with SARS-CoV2 (Chungbuk National University)
PRJNA233943	Homo Sapiens	Transcriptomic analysis of the Novel Middle East Respiratory Syndrome Coronavirus (MERS-CoV) (IGS)
PRJNA580021	Homo sapiens	Transcriptomic Analysis Of circRNAs/miRNAs/mRNAs upon Middle East Respiratory Syndrome Coronavirus (MERS-CoV) infection (HKU)
PRJNA622520	Homo sapiens	A Platform to Define Cellular Targets of SARS-COV-2 Infection Using Human Pluripotent Stem Cell-Derived Cells and Organoids (Surgery, Weill Cornell Medical...)
PRJNA622691	Homo sapiens	Identification of A Drug Blocking SARS-CoV-2 Infection using Human Pluripotent Stem Cell-derived Colon Organoids (Surgery, Weill Cornell Medical...)
PRJNA625518	Homo sapiens	Gene expression profiling of SARS-CoV-1/2 infected human cell lines at bulk and single-cell level (RNA Biology and Posttranscriptional...)
PRJNA627860	Homo sapiens	RV infections in asthmatics increase ACE2 expression and stimulate cytokine pathways implicated in COVID19 (Eugene Lab, Department of...)
PRJNA628628	Homo sapiens	Bulk RNA sequencing of SARS-CoV and SARS-CoV-2 infected human intestinal organoids (Hubrecht Institute)
PRJNA629752	Homo sapiens	Immunophenotyping of COVID-19 and Influenza Underscores the Association of Type I IFN Response in Severe COVID-19 (Biological Sciences, KAIST)
PRJNA631753	Homo sapiens	Spectrum of Viral Load and Host Response Seen in Autopsies of SARS-CoV-2 Infected Lungs (Ting Lab, Cancer Center,...)
PRJNA631969	Homo sapiens	RNA-Seq of Human iPSC-cardiomyocytes infected with SARS-CoV-2 (Cancer Institute, Cedars...)
PRJNA633393	Homo sapiens	A single-cell atlas of the peripheral immune response to severe COVID-19 (Stanford University)
PRJNA633783	Homo sapiens	Generation of human bronchial organoids for SARS-CoV-2 research (Human Immunology （Single...)
PRJNA634167	Homo sapiens	A safe inhalational treatment prevents SARS–CoV-2 viral replication in human airway epithelial cells. (Pediatrics, Indiana University)
PRJNA634938	Homo sapiens	Blocking of the CD80/86 axis as a therapeutic approach to prevent progression to more severe forms of COVID-19 (Rheumatology Research Group,...)
PRJNA637143	Homo sapiens	Two distinct immunopathological profiles in lungs of lethal COVID-19 (Institute of Pathology, Cantonal...)
PRJNA637303	Homo sapiens	Identification of Lead Drug Candidates for COVID-19 based on Drug Screening Using Human Pluripotent Stem Cell-Derived Cells/Organoids (Weill Cornell Medicine)
PRJNA639275	Homo sapiens	Systems biological assessment of immunity to severe and mild COVID-19 infections (Genomics Core, Developmental...)
PRJNA639580	Homo sapiens	Imbalance of regulatory and cytotoxic SARS-CoV-2-reactive CD4+ T cells in COVID-19 (Vijayanand Lab, Vaccine Discovery,...)
PRJNA641908	Homo sapiens	Global transcriptomic analyses of pluripotent stem cell-derived type II alveolar epithelial-like cells at 1 and 4 days after infection with SARS-CoV-2 (Center for Regenerative Medicine...)
PRJNA643694	Homo sapiens	SARS-CoV-2 infection and replication in human fetal and pediatric gastric organoids (ngd)
PRJNA644579	Homo sapiens	Severely ill COVID-19 patients display impaired exhaustion features in SARS-CoV-2-reactive CD8+ T cells (Vijayanand Lab, Vaccine Discovery,...)
PRJNA644625	Homo sapiens	Primary Human Airway Epithelial Cultures infected with SARS-CoV-2 (Emory University)
PRJNA646224	Homo sapiens	Transcriptional and proteomic insights into the host response in fatal COVID-19 cases (Harvard Medical School)
PRJNA646704	Homo sapiens	Single cell RNAseq reveal covid19 patient immune response (Stripp Lab, Lung and Regenerative...)
PRJNA646783	Homo sapiens	Modulating the transcriptional landscape of SARS-CoV-2 as an effective method for developing antiviral compounds (Ma'ayan Lab, Pharmacological...)
PRJNA648120	Homo sapiens	Transcriptional Profiling of Leukocytes in Critically Ill COVID19 Patients (London Regional Genomics...)
PRJNA648425	Homo sapiens	Human dendritic cell and macrophage response to SARS-CoV-2 infection (Molecular Microbiology, Washington...)
PRJNA649019	Homo sapiens	Identification of Drugs Blocking SARS-CoV-2 Infection using hPSC-derived Lung and Colonic Organoids (Surgery, Weill Cornell Medical...)
PRJNA655740	Homo sapiens	Systems biological assessment of immunity to severe and mild COVID-19 infections (Stanford)
PRJNA658974	Homo sapiens	SARS-CoV2 infection of iPSC-derived cardiac cells predicts novel cytopathic features in COVID-19 patients (McDevitt, GICD, Gladstone...)
PRJNA660067	Homo sapiens	Large-scale Multi-omic Analysis of COVID-19 Severity (Molecular and Cellular Physiology,...)
PRJNA662965	Homo sapiens	Human Pluripotent Stem Cell-Derived Neural Cells and Brain Organoids Reveal SARS-CoV-2 Neurotropism Predominates in Choroid Plexus Epithelium (Clinical Research Building,...)
PRJNA666421	Homo sapiens	Expression of SARS-CoV-2 receptor ACE2 and coincident host response signature varies by asthma inflammatory phenotype (Ray, Medicine/Pulmonary,...)
PRJNA418179	Homo sapiens	Progenitor identification and SARS-CoV-2 infection in human distal lung organoids (Calvin Kuo, Medicine/Hematology,...)
PRJNA637579	Homo sapiens	Cardiomyocytes Infected by SARS-CoV-2 Recruit Cardiotoxic Macrophages [scRNA-seq dataset] (Surgery, Weill Cornell Medical...)
PRJNA637580	Homo sapiens	Cardiomyocytes Infected by SARS-CoV-2 Recruit Cardiotoxic Macrophages [bulk RNA-seq dataset) (Surgery, Weill Cornell Medical...)
PRJNA637909	Homo sapiens	A gateway for SARS-CoV-2 infection in the human olfactory neuroepithelium (Genetics and Evolution, University...)
PRJNA649976	Homo sapiens	SARS-CoV-2 infection of primary human lung epithelium for COVID-19 modeling and drug discovery (Stripp Lab, Lung and Regenerative...)
PRJNA661274	Homo sapiens	Single-cell sequencing of glioblastoma reveals central nervous system susceptibility to SARS-CoV-2 (Department of Neurosurgery,...)
PRJNA661567	Homo sapiens	Single cell resolution of SARS-CoV-2 tropism, antiviral responses, and susceptibility to therapies in primary human airway epithelium (Translational Bioinformatics,...)
PRJNA669987	Homo sapiens	Identification of required host factors for SARS-CoV-2 infection in human cells [RNA-seq] (Biology, New York University)
PRJNA670674	Homo sapiens	Dysregulation of brain and choroid plexus cell types in severe COVID-19 (Chair for Clinical Bioinformatics,...)
PRJNA672981	Homo sapiens	Macrophage expression and prognostic significance of the long pentraxin PTX3 in COVID-19 (Experimental Immunopathology,...)
PRJNA623281	Homo sapiens	Identification of Candidate COVID-19 Therapeutics using hPSC-derived Lung Organoids (Surgery, Weill Cornell Medical...)
PRJNA630421	Homo sapiens	Persistent viral activity, cytokine storm and lung fibrosis in severe COVID-19 (Shenzhen 3rd People's Hospital)
PRJNA633281	Homo sapiens	Modeling COVID-19 with Human Pluripotent Stem Cell-Derived Cells Reveals Synergistic Effects of Anti-inflammatory Macrophages with ACE2 Inhibition Against SARS-CoV-2 (The Chen lab, Pritzker School...)
PRJNA641797	Homo sapiens	Bulk RNA sequencing of SARS-CoV-2 infected alveolar type I- and type II like cells (dr. Hans Clevers Lab, Hubrecht...)
PRJNA659998	Homo sapiens	AI-guided Discovery of a Paradoxical Immune Response in Fatal COVID-19 (Ileum) (Boolean, Pediatrics, UCSD)
PRJNA662985	Homo sapiens	Whole transcriptome sequencing of peripheral blood mononuclear cells from patients with COVID-19 (Key Laboratory of Animal...)
PRJNA675538	Homo sapiens	Direct exposure to SARS-CoV-2 and cigarette smoke increases infection severity and alters the stem cell-derived airway repair response (University of California,...)
PRJNA680711	Homo sapiens	Infection of human Nasal Epithelial Cells with SARS-CoV-2 and a 382-nt deletion isolate lacking ORF8 reveals similar viral kinetics and host transcriptional profiles (Wang Linfa Lab, Emerging...)
PRJNA682812	Homo sapiens	SARS-CoV-2 infects human pluripotent stem cell-derived cardiomyocytes, impairing electrical and mechanical function (Immunology, University of...)
PRJNA625444	Homo sapiens	Identification of Lead Drug Candidates for COVID-19 based on Drug Screening Using Human Pluripotent Stem Cell-Derived Cells/Organoids (Weill Cornell Medicine)
PRJNA625446	Homo sapiens	Identification of Drugs Blocking SARS-CoV-2 Infection using Human Pluripotent Stem Cell-derived Colonic Organoids (Weill Cornell Medicine)
PRJNA643420	Homo sapiens	Immunologic characterization of COVID-19 patients with hematologic cancer: biologic and clinical significance (Clínica Universidad de Navarra...)
PRJNA677825	Homo sapiens	Androgen Regulates SARS-CoV-2 Receptor Levels and Is Associated with Severe COVID-19 Symptoms in Men [scRNA-Seq] (Biochemistry and Biophysics,...)
PRJNA677826	Homo sapiens	Androgen Regulates SARS-CoV-2 Receptor Levels and Is Associated with Severe COVID-19 Symptoms in Men [bulk RNA-Seq] (Biochemistry and Biophysics,...)
PRJNA679331	Homo sapiens	Longitudinal multi-omics identifies responses of megakaryocytes, erythroid cells and plasmablasts as hallmarks of severe COVID-19 trajectories [sequencing] (Cell biology Lab, Institute...)
PRJNA680539	Homo sapiens	Low avidity T cell responses to SARS-CoV-2 in unexposed individuals and severe COVID-19 (Neuroimmunology, Institute...)
PRJNA688216	Homo sapiens	Combined heart-lung transplant for COVID-19 (Kropski, Medicine, Vanderbilt...)
PRJNA688734	Homo sapiens	Response to SARS-CoV-2 infection in cornea, limbus and sclera from human donors (tenOever lab, Microbiology,...)
PRJNA690513	Homo sapiens	Outcome of SARS-CoV-2 infection is linked to MAIT cell activation and cytotoxicity (Institut Cochin)
PRJNA691164	Homo sapiens	Single-cell RNA sequencing of human nasal swab from COVID-19 patient (Center for Vascular Research,...)
PRJNA679264	Homo sapiens	Dysregulated transcriptional responses to SARS-CoV-2 in the periphery support novel diagnostic approaches (Duke University)
PRJNA688684	Homo sapiens	Global Absence and Targeting of Protective Immune States in Severe COVID-19 (Data Sciences CoLab, CoLabs,...)
PRJNA692987	Homo sapiens	BRD2 inhibition blocks SARS-CoV-2 infection by reducing transcription of the host cell receptor ACE2 (SUSTech)
PRJNA693539	Homo sapiens	Adult Stem Cell-derived Complete Lung Organoid Models Emulate Lung Disease in COVID-19 (Boolean, Pediatrics, UCSD)
PRJNA694646	Homo sapiens	The expansion of unconventional CD56dim CD16neg cells is a hallmark of the natural killer cell population in COVID-19 (LIID, KAIST)
PRJNA661032	Homo sapiens	Deciphering the state of immune silence in fatal COVID-19 patients (Immunology, Weizmann Institute...)
PRJNA670242	Homo sapiens	SARS-CoV-2 infection of human pancreatic islets (Ulm University)
PRJNA686659	Homo sapiens	Transcriptome analysis of SARS-CoV-2 infected H522 human lung adenocarcinoma cells (Washington University School...)
PRJNA694670	Homo sapiens	Single cell sequencing of whole eye organoids to identify ocular cell susceptible to infection with SARS-CoV2 and the viral response in infected cells (Ichan School of Medicine...)
PRJNA694911	Homo sapiens	Virus-induced senescence is a central pathogenic principle and therapeutic target in COVID-19 disease (Hematology, Oncology, Tumorimmunology,...)
PRJNA663837	Homo sapiens	In severe COVID-19, SARS-CoV-2 induces a chronic, TGF-β-dominated adaptive immune response (Activated B cells, set 1) (Deutsches Rheuma-Forschungszentrum)
PRJNA663838	Homo sapiens	In severe COVID-19, SARS-CoV-2 induces a chronic, TGF-β-dominated adaptive immune response (Activated B cells, Set 2) (Deutsches Rheuma-Forschungszentrum)
PRJNA663839	Homo sapiens	In severe COVID-19, SARS-CoV-2 induces a chronic, TGF-β-dominated adaptive immune response (Measles-reactive T cells) (Deutsches Rheuma-Forschungszentrum)
PRJNA663840	Homo sapiens	In severe COVID-19, SARS-CoV-2 induces a chronic, TGF-β-dominated adaptive immune response (Bronchoalveolar lavage) (Deutsches Rheuma-Forschungszentrum)
PRJNA699856	Homo sapiens	Transcriptomic characteristics and impaired immune function of patients who retest positive for SARS-CoV-2 RNA (University of Science and...)
PRJNA645534	Homo sapiens	Expression profiling of SARS-CoV-2 infected patients by RNA-seq (Basic and Applied Research...)
PRJNA680293	Homo sapiens	Time-resolved Systems Immunology Reveals a Late Juncture Linked to Fatal COVID-19 (Immunobiology, Yale School...)
PRJNA676120	Homo sapiens	Pathological effects of SARS-CoV-2 on hESC-derived peripheral neurons (Pathology, Department of...)
PRJNA698540	Homo sapiens	Deleterious effects of SARS-CoV-2 infection on human pancreatic cells (Sareen lab, Board of Governors...)
PRJNA701930	Homo sapiens	Single-cell longitudinal analysis of SARS-CoV-2 infection in human airway epithelium identifies target cells, alterations in gene expression and cell state changes (Clinic Building 407A, Laboratory...)
PRJNA702537	Homo sapiens	Single Cell RNA-Seq of PBMC from COVID-19 patients and Control subjects (Johns Hopkins SOM)
PRJNA702558	Homo sapiens	PolyA RNA-seq from whole blood of Sars-COV2-negative and -positive subjects (Pharmacology & Linda Crnic...)
PRJNA703046	Homo sapiens	Host-virus chimeric events in SARS-CoV2 infected cells are infrequent and artifactual (Purdue university)
PRJNA704706	Homo sapiens	SARS-CoV-2 spike protein interacts with and activates TLR4 (You Lab, Institute of Systems...)
PRJNA668169	Homo sapiens	A genome-wide RNAi screen to identify human factors essential for SARS-CoV-2 infection (The University of Hong Kong)
PRJNA690013	Homo sapiens	Frontal Cortex whole transcriptome sequencing in COVID-19 elderly patients (Genomic and Post Genomic...)
PRJNA707445	Homo sapiens	Longitudinal single-cell epitope and RNA-sequencing reveals the immunological impact of type 1 interferon autoantibodies in critical COVID-19 (Ye, Graduate Division, University...)
PRJNA658984	Homo sapiens	Single-cell transcriptomics of human intestinal organoids infected with SARS-CoV-2 (Alexandrov team, Structural...)
PRJNA663975	Homo sapiens	Human primary brain microvascular endothelial cells transcriptome with/without SARS-CoV-2 infection (Huazhong Agricultural University)
PRJNA682407	Homo sapiens	Role of Top1 and Genome structure in SARS-CoV-2 infection [RNA-Seq human] (Ivan Marazzi, Microbiology,...)
PRJNA688513	Homo sapiens	A single-cell and spatial atlas of autopsy tissues reveals pathology and cellular targets of SARS-CoV-2 [gene expression levels] (Vlachos Lab, Pathology, Beth...)
PRJNA701047	Homo sapiens	Immune dysregulation and autoreactivity correlate with disease severity in SARS-CoV-2-associated multisystem inflammatory syndrome in children (Yale University)
PRJNA715450	Homo sapiens	Host transcriptome response to SARS-CoV2 infection (Diabetes Complications and...)
PRJNA715767	Homo sapiens	hPSC-derived cells to model Macrophage-mediated inflammation in COVID19 Hearts (Surgery, Weill Cornell Medical...)
PRJNA716830	Homo sapiens	Identification and characterization of a SARS-CoV-2 specific CD8 T cell response with immunodominant features (Molecular Oncology & Immunology,...)
PRJNA719365	Homo sapiens	SARS-CoV-2 infection in pregnancy is associated with robust inflammatory response at the maternal-fetal interface (Ecology and Evolutionary...)
PRJNA720088	Homo sapiens	Single-cell RNA-seq of human peripheral blood mononuclear cells in COVID-19 (Duke University)
PRJNA721668	Homo sapiens	SARS-CoV-2 infection in pregnancy is associated with robust inflammatory response at the maternal-fetal interface (Immunobiology, Yale School...)
PRJNA649786	Homo sapiens	Whole blood transcriptome analysis reveals SARS-CoV-2 ORF8 as a potential therapeutic and vaccine target (Singapore Immunology Network...)
PRJNA667939	Homo sapiens	iPSC-derived Human Intestinal Organoids are permissive to SARS-CoV-2 infection (Center for Regenerative Medicine...)
PRJNA688321	Homo sapiens	Transcriptome analysis of Severe acute respiratory syndrome coronavirus 2(SARS-CoV-2)-infected and Influenza A/H1N1-infected nasal turbinate and lung tissues (Clinical Virology Unit, Dept....)
PRJNA700863	Homo sapiens	Asymptomatic COVID-19: disease tolerance with efficient anti-viral immunity against SARS-CoV-2 (Singapore Immunology Network...)
PRJNA702533	Homo sapiens	Modeling SARS-CoV-2 infection and its individual differences with ACE2-expressing human iPS cells (Center for iPS Cell Research...)
PRJNA669693	Homo sapiens	scRNA-seq analysis of SARS-CoV-2 infected human islets (Surgery, Weill Cornell Medical...)
PRJNA682211	Homo sapiens	Immune transcriptomes of highly exposed SARS-CoV-2 asymptomatic seropositive versus seronegative individuals from the Ischgl community (Laboratory of Genetics and...)
PRJNA690255	Homo sapiens	Distinct B cell repertoires characterize patients with mild and severe COVID-19 [GEX] (Neurology, Icahn School of...)
PRJNA655952	Homo sapiens	Immunological Biomarkers of Fatal COVID-19: A Study of 868 Patients (Clínica Universidad de Navarra...)
PRJNA716306	Homo sapiens	scRNAseq of Antigen Presenting Cells in severe COVID-19 patients (U976, Human Immunology Pathophysiology...)
PRJNA719419	Homo sapiens	Study of a novel aspect of viral-host interaction upon SARS-CoV-2 infection using bulk RNA-seq (Whitehead Institute)
PRJNA722734	Homo sapiens	Natural Mucosal Barriers and COVID-19 in Children (Albert Einstein College of...)
PRJNA636173	Homo sapiens	Experimental and natural evidence of SARS-CoV-2 infection-induced activation of type I interferon responses (Biochemistry & Biomedical...)
PRJNA694174	Homo sapiens	Transcriptional analysis of SARS-CoV-2 specific CD4 T cells (SUNY Upstate Medical University)
PRJNA726809	Homo sapiens	ORAI1 establishes resistance to SARS-CoV-2 infection by regulating tonic type I interferon levels (Ecology and Evolutionary...)
PRJNA731026	Homo sapiens	A multi-omics investigation on the composition and physiological function of extracellular vesicles along the temporal trajectory of COVID-19 (Institute of Genetics and...)
PRJNA731518	Homo sapiens	RNAseq analysis of PS+ vs PS- non-naive CD8 T cells sorted from peripheral blood of COVID-19 patients (Institute for Immunology,...)
PRJNA718288	Homo sapiens	Comparative Transcriptomic and Molecular Pathway Analyses of HL-CZ Human Pro-Monocytic Cells Expressing SARS-CoV-2 Spike S1, S2, NP, NSP15 and NSP16 Genes (Microbiology & Immunology,...)
PRJNA718349	Homo sapiens	Whole blood transciptome analysis in severe Covid-19 patients and healthy donors (INSERM U955_VRI)
PRJNA733520	Homo sapiens	Characterization of the SARS-CoV-2 Host Response in Primary Human Airway Epithelial Cells from Aged Individuals (Genes & Human Disease Research...)
PRJNA725825	Homo sapiens	Next generation sequencing transcriptome analysis of patient-derived macrophages stimulated with SARS-CoV-2 protein (University Hospital of Cologne)
PRJNA663578	Homo sapiens	Scottish Colorectal Cancer Vitamin D Intervention Study (SCoViDS) [RNA-seq] (Bioinformatics Analysis Core,...)
PRJNA690931	Homo sapiens	The landscape of human brain immune response in patients with severe COVID-19 (Functional Neurogenomics,...)
PRJNA738888	Homo sapiens	Identification of immune correlates of fatal outcomes in critically ill COVID-19 patients (Goulder, Paediatrics, University...)
PRJNA735729	Homo sapiens	RNA sequencing of blood monocyte subsets in COVID patients (Pathology and Immunology,...)
PRJNA740323	Homo sapiens	Rapid, scalable assessment of SARS-CoV-2 cellular immunity by whole-blood PCR (Icahn School of Medicine...)
PRJNA741195	Homo sapiens	Severe COVID-19 is Characterized by an Impaired Type I Interferon Response and Elevated Levels of Arginase Producing Granulocytic Myeloid Derived Suppressor Cells (LCRC 909, Cancer Center/Interdiscipliary...)
PRJNA675891	Homo sapiens	Next Generation Sequencing Analysis of Transcriptomes in maculopapular drug rash with COVID-19 infection (Functional Genomics Center...)
PRJNA707223	Homo sapiens	Peripheral blood gene expression according to IFIH1 rs1990760 variants in critically-ill COVID-19 patients (Laboratorio de Investigación...)
PRJNA736848	Homo sapiens	Effects of steroids on peripheral blood gene expression in COVID-19 patients according to rs1990760 variants (Laboratorio de Investigación...)
PRJNA702763	Homo sapiens	A monocyte/dendritic cell molecular signature of SARS-CoV2-related multisystem inflammatory syndrome in children (MIS-C) with severe myocarditis [Bulk RNAseq] (Institut Imagine)
PRJNA702765	Homo sapiens	A monocyte/dendritic cell molecular signature of SARS-CoV2-related multisystem inflammatory syndrome in children (MIS-C) with severe myocarditis [Single cell RNAseq] (Institut Imagine)
PRJNA743862	Homo sapiens	RNAseq analysis of human CD4+ regulatory Tregs and Tconvs in COVID-19 and healthy donors isolated from peripheral blood. (CBDM, Microbiology and Immunobiology,...)
PRJNA745903	Homo sapiens	SARS-CoV-2 infects the brain vasculature in COVID-19 patients and a hiPSC-derived model of the blood-brain barrier (ScreeningPort, Frauenhofer...)
PRJNA645842	Homo sapiens	RNA-seq on CD16Int versus CD16High in severe COVID-19 patients (KY INBRE Bioinformatics Core,...)
PRJNA744408	Homo sapiens	Transcriptome analysis of PBMCs reveals distinct immune response in the asymptomatic and re-detectable positive COVID-19 patients (College of Bioinformatics)
PRJNA750442	Homo sapiens	Convalescent COVID-19 patients without comorbidities display similar immunophenotypes over time despite divergent disease severities (Biomedical Informatics, Graz...)
PRJNA766554	Homo sapiens	Investigation of human peripheral T cells responsive to SARS-CoV-2 antigens (Osaka University)
PRJNA756941	Homo sapiens	The interferon landscape along the respiratory tract impacts the severity of COVID-19 (Pediatrics/Immunology, Boston...)
PRJNA729748	Homo sapiens	Switching of OAS1 splicing isoforms mitigates SARS-CoV-2 infection (Kindai University)
PRJNA701206	Homo sapiens	Deciphering the host transcriptional response to SARS-CoV-2 infection (Bioinformatics, Center for...)
PRJNA755713	Homo sapiens	Molecular Profiling of COVID-19 Autopsies Uncovers Novel Disease Mechanisms [scRNA-Seq] (Genetics and Genomic Sciences,...)
PRJNA741686	Homo sapiens	Baseline signatures associated with clinical, virologic, and immunologic outcomes in patients with mild to moderate COVID-19 (University of California...)
PRJNA736408	Homo sapiens	Microvascular Endothelial Cell RNA-Seq: Treatment with Platelet Releasate from COVID-19 & Control Donors (Ruggles Lab, School of Medicine,...)
PRJNA717662	Homo sapiens	Long-term perturbation of the blood transcriptome months after SARS-CoV-2 infection. (SAHMRI)
PRJNA756893	Homo sapiens	Ab Initio Design of Amphipathic-Symmetric Peptides against SARS-CoV-2 (Zhejiang University)
PRJNA764429	Homo sapiens	SARS-CoV-2 infection and replication in human gastric organoids (ngd)
PRJNA736410	Homo sapiens	Assessment of the platelet transcriptome in patients with COVID-19 versus controls (Ruggles Lab, School of Medicine,...)
PRJNA753775	Homo sapiens	Comparison of viral RNA–host protein interactomes across pathogenic RNA viruses informs rapid antiviral drug discovery for SARS-CoV-2 (Tsinghua University)
PRJNA707200	Homo sapiens	Maturation signatures of conventional dendritic cell subtypes in COVID-19 suggest direct viral sensing (Università di Milano-Bicocca)
PRJNA753794	Homo sapiens	HIV infection drives interferon signaling within intestinal SARS-CoV-2 susceptible target cells (Henrik Kloverpris Lab, Immunology...)
PRJNA735694	Homo sapiens	Human nasal epithelial and immune cell responses to SARS-CoV-2 versus influenza A virus (Garber Lab, Program in Bioinformatics...)
PRJNA765795	Homo sapiens	Highly efficient SARS-CoV-2 infection of human cardiomyocytes: spike protein-mediated cell fusion and its inhibition (Robero Cattaneo, Molecular...)
PRJNA663977	Homo sapiens	Human neuroblastoma cells (SK-N-SH) transcriptome with/without SARS-CoV-2 infection (Huazhong Agricultural University)
PRJNA662785	Homo sapiens	Dexamethasone modulates immature neutrophils and interferon programming in severe COVID-19 (Biernaskie Lab, Comparative...)
PRJNA705602	Homo sapiens	Genome-wide PBMCs Profiling Reveals Early Detection of Immunothrombotic Dysregulation in COVID-19 based on Blood Routine Test: A Multi-Center Retrospective Study of 1219 Patients (School of Public Health,Southern...)
PRJNA661222	Homo sapiens	Next Generation Sequencing Quantitative Analysis on COVID-19 Kidney tissue (Bioinfomatics, Renal, Icahn...)
PRJNA691950	Homo sapiens	Antihypertensive drug treatment and susceptibility to SARS-CoV-2 infection in human PSC-derived cardiomyocytes and primary endothelial cells (Churko Lab, CMM, University...)
PRJNA692496	Homo sapiens	Single-cell analysis identifies shared and distinct immune features of COVID-19, Influenza and other community-acquired pneumonia (Academic Medical Center)
PRJNA725183	Homo sapiens	Blood transcriptomes of anti-SARS-CoV2 antibody positive healthy individuals with prior asymptomatic versus clinical infection (National and Kapodistrian...)
PRJNA755712	Homo sapiens	Molecular Profiling of COVID-19 Autopsies Uncovers Novel Disease Mechanisms [RNA-Seq] (Genetics and Genomic Sciences,...)
PRJNA699562	Homo sapiens	Understanding COVID-19 in children and adults (Department of Pathology and...)
PRJNA736063	Homo sapiens	Circadian regulation of SARS-CoV-2 infection in lung epithelial cells (University of Oxford)
PRJNA731457	Homo sapiens	SARS-CoV-2 Infection Causes Dopaminergic Neuron Senescence (Surgery, Weill Cornell Medical...)
PRJNA764083	Homo sapiens	Untimely TGFβ responses in COVID-19 limit antiviral functions of NK cells (Deutsches Rheuma-Forschungszentrum)
PRJNA722046	Homo sapiens	Identification of driver genes for severe forms of COVID-19 in a deeply phenotyped young patient cohort (AI Lab, GAIRI, Genuity Science)
PRJNA774966	Homo sapiens	A virus-specific monocyte inflammatory phenotype is induced by SARS-CoV2 at the immune-epithelial interface (CBDM, Microbiology and Immunobiology,...)
PRJNA773942	Homo sapiens	Baricitinib attenuates the proinflammatory phase1 of COVID-19 driven by lung-infiltrating monocytes (Rabindra Tirouvanziam, Pediatrics,...)
PRJNA648991	Homo sapiens	Single-Cell Omics Reveals Dyssynchrony of the Innate and Adaptive Immune System in Progressive COVID-19 [single-cell RNA-seq] (Kleinstein, Pathology, Yale...)
PRJNA778712	Homo sapiens	RNA-seq of SIRT5-KO cells infected with SARS-CoV-2 (Buck institute)
PRJNA769665	Homo sapiens	Maternal-Fetal Immune Responses in Pregnant Women Infected with SARS-CoV-2 (Bioinformatics and Computational...)
PRJNA736437	Homo sapiens	Cardiometabolic MicroRNAs are Associated with severeerity and 28-Day Intensive Care Unit Mortality in COVID-19 Patients (TAmiRNA GmbH)
PRJNA765050	Homo sapiens	Enteric coronavirus infection and treatment modeled with an immunocompetent human intestine-on-a-chip (MIT)
PRJNA758292	Homo sapiens	Postmortem high-dimensional immune profiling of severe COVID-19 patients reveals distinct patterns of immunosuppression and immunoactivation [RNA-seq] (Department of Pathology,...)
PRJNA681515	Homo sapiens	A virus-derived microRNA targets immune response genes during SARS-CoV-2 infection [RNA-seq] (Mechanisms of Epigenetic...)
PRJNA681510	Homo sapiens	A virus-derived microRNA targets immune response genes during SARS-CoV-2 infection [sRNA-seq] (Mechanisms of Epigenetic...)
PRJNA720624	Homo sapiens	SARS-CoV-2 infection-induced human B cells (Medicine, University of Chicago)
PRJNA783299	Homo sapiens	Small RNA-seq analysis of serum miRNAs in patients with severe COVID-19 (Department of Clinical and...)
PRJNA781955	Homo sapiens	Vascular Damage, Thromboinflammation, Plasmablast Activation, T-Cell Dysregulation and Pathological Histiocytic Response in Pulmonary Draining Lymph Nodes of COVID-19 (Institute of Medical Genetics...)
PRJNA783881	Homo sapiens	Differential interferon-α immune signatures prevent SARS-CoV-2 infection (Molecular & Medical Virology,...)
PRJNA748753	Homo sapiens	Single-cell RNA sequencing of urinary cells from patients with COVID-19 reveals distinct cellular diversity in AKI (University of Alabama at...)
PRJNA764084	Homo sapiens	Single cell RNA sequencing and TCR repertoire analysis of MIS-C affected patients versus healthy controls and severe adult COVID-19 (VIB Inflammation Research...)
PRJNA770335	Homo sapiens	Differential effect of SARS-CoV-2 spike glycoprotein 1 on human bronchial and alveolar lung mucosa models: Implications on pathogenicity. (Institute of Experimental...)
PRJNA718085	Homo sapiens	SARS-CoV-2 Nucleocapsid protein attenuates stress granule formation and interacts directly with mRNAs to impair host stress response (RNA-Seq) (University of Toronto)
PRJNA687221	Homo sapiens	Self-organized stem cell-derived human lung buds with proximo-distal patterning and novel targets of SARS-CoV-2 (Brivanlou lab, The Rockefeller...)
PRJNA767057	Homo sapiens	Profilling of viral and host transcriptome in SARS-CoV-2 infected A549-ACE2 cells with VIC or B.1.1.7 strains. (University of Oxford)
PRJNA769125	Homo sapiens	Single Nuclei RNA Sequencing Analysis of Cardiac Microthrombi in Fatal Covid-19 (Masonic Medical Research...)
PRJDB11612	Homo sapiens	Bulk RNA sequencing of FFPE sample from COVID-19 patient (Institute of Advanced Medicine,...)
PRJNA756316	Homo sapiens	Human Nasal Epithelial Cells sustain persistent SARS-CoV-2 infection in vitro, despite eliciting a prolonged antiviral response. (Wang Linfa Lab, Emerging...)
PRJNA771040	Homo sapiens	Transcriptomic profiles revealed down regulation of low-density lipoprotein particle receptor activity pathway in survived from severe COVID-19-19. (Laboratory of Molecular Genetics...)
PRJNA797377	Homo sapiens	Protective immune trajectories in early viral containment of non-pneumonic SARS-CoV-2 infection (LMU Munich)
PRJNA797428	Homo sapiens	Cap-independent translation and a precisely localized RNA sequence enable SARS-CoV-2 to control host translation and escape anti-viral response (Weizmann Institute of Science)
PRJNA714051	Homo sapiens	Cannabidiol Inhibits SARS-CoV-2 Replication through Induction of the Host ER Stress and Innate Immune Responses (University of Chicago)
PRJNA798975	Homo sapiens	Limited extent and consequences of pancreatic SARS-CoV-2 infection (Department of Microbiology,...)
PRJNA762681	Homo sapiens	Systems analysis of interaction between p38/MAPK pathway and SARS-CoV-2 (Johnson Lab, Microbiology,...)
PRJNA629682	Homo sapiens	Attenuation of SARS-CoV-2 Infection by Losartan in Human Kidney Organoids (Biernaskie Lab, Comparative...)
PRJNA781246	Homo sapiens	Prior BNT162b vaccination enhances interferon-JAK-STAT regulated antiviral programs in hospitalized COVID-19 patients infected with the SARS-CoV-2 Beta variant (Laboratory of Genetics and...)
PRJNA797391	Homo sapiens	SARS-CoV-2 Infection Induces Ferroptosis of Human Pluripotent Stem Cell-Derived Sinoatrial Nodal like Pacemaker Cells [single-cell RNA-seq] (Surgery, Weill Cornell Medical...)
PRJNA791326	Homo sapiens	Single cell transcriptomics of PBMCs during severe COVID-19 (Washington University In...)
PRJNA750398	Homo sapiens	Next Generation Sequencing of sorted central memory CD4 T cells (TCM) from young and elderly severe SARS-CoV-2 patients (University of Modena and...)
PRJNA805095	Homo sapiens	Global transcriptomic analyses of pluripotent stem cell-derived airway epithelial cells at 1 and 3 days after infection with SARS-CoV-2 (Center for Regenerative Medicine,...)
PRJNA714880	Homo sapiens	Transcriptomic analysis revealed increased expression of genes involved in keratinization in the tears of COVID-19 patients (IRCCS Centro Neurolesi "Bonino-Pulejo")
PRJNA745975	Homo sapiens	Transcriptome analysis of human colonic organoids infected SARS-CoV-2 (Cadwell Lab, Microbiology,...)
PRJNA693201	Homo sapiens	Identification of distinct immune cell subsets associated with various clinical presentations, disease severity and viral persistence of SARS-CoV-2 infection (precision medicine center,...)
PRJNA719305	Homo sapiens	Genome-wide Analyses Revealed the Global Impacts of SARS-CoV-2 Viral Gene Orf9c on Human Cardiomyocytes (Department of Pediatrics,...)
PRJNA782306	Homo sapiens	Transcriptomes of SARS-CoV-2 naïve and recovered individuals vaccinated with inactivated vaccine (Pathogenobiology, SDCDC)
PRJNA752081	Homo sapiens	Upregulation of cytokine signalling in platelet increases risk of thrombophilia in severe COVID-19 patients (Prasenjit Guchhait)
PRJNA787951	Homo sapiens	Immune transcriptome analysis of COVID-19 patients infected with SARS-CoV-2 variants carrying the E484K escape mutation identifies a distinct gene module (Laboratory of Genetics and...)
PRJNA807370	Homo sapiens	Whole blood transcriptome from Covid-19 patients in India (Biochemistry, IISC)
PRJNA809356	Homo sapiens	Transcriptomic clustering of critically-ill COVID-19 patients [Day 1-RNA-Seq] (Laboratorio de Investigación...)
PRJNA809566	Homo sapiens	Transcriptomic clustering of critically-ill COVID-19 patients [Day 1-miRNA-Seq] (Laboratorio de Investigación...)
PRJNA796591	Homo sapiens	Changes of small non-coding RNAs by severe acute respiratory syndrome coronavirus 2 infection (Pediatrics, University of...)
PRJNA777558	Homo sapiens	Deciphering COVID-19 host transcriptomic complexity and variations for therapeutic discovery against new variants (Bin Chen lab, Department...)
PRJNA811519	Homo sapiens	Exposure of PBMCs to SARS-CoV-2, as opposed to SARS-CoV, induces cell-intrinsic type I innate immunity responses in several immune cell types in the absence of productive infection (Goffinet, Institute of Virology,...)
PRJNA797780	Homo sapiens	Single-cell transcriptomic analysis of blood T cells from healthy controls, MS patients and COVID-19 patients by 10X genomics (Institute for Immunity, Transplantation...)
PRJNA786238	Homo sapiens	Next Generation Sequencing of SARS-CoV-2 infected lung epithelial cells derived from iPSC (Eyestem research)
PRJNA788374	Homo sapiens	mRNA vaccination in octogenarian nuns 15 and 20 months after recovery from COVID-19 elicits robust immune and antibody responses that include Omicron (Laboratory of Genetics and...)
PRJNA743007	Homo sapiens	SARS-CoV-2 Nsp14 mediates the effects of viral infection on the host cell transcriptome (Brandeis University)
PRJNA804953	Homo sapiens	Viral mimicry of Interleukin-17A by SARS-COV-2 ORF8 (Cancer Biology, Cleveland...)
PRJNA780522	Homo sapiens	Severe COVID-19 is associated with molecular signatures of aging in the human brain (BIDMC)
PRJNA823920	Homo sapiens	Next generation sequencing transcriptome analysis of patient-derived macrophages after SARS-CoV-2 mRNA vaccination (Schumacher, Bioinformatics...)
PRJNA645700	Homo sapiens	Long-term longitudinal analysis of peripheral blood transcriptome in COVID-19 patients (Beijing institute of Biotechnology)
PRJNA833037	Homo sapiens	Circulating microRNA signatures associated with disease severity and outcome in COVID-19 patients (Campus Biomedico, Medicine,...)
PRJNA738502	Homo sapiens	mRNA profiling in pooled human umbilical vein endothelial cells stimulated with Coronavirus Disease 2019 (COVID-19) patient plasma (University Health Network)
PRJNA827153	Homo sapiens	Biologic correlates of COVID-19 resolution using single cell RNA sequecing (Rutgers University)
PRJNA748049	Homo sapiens	Probiotic consortia improve anti-viral immunity to SARS-CoV-2 in Ferrets [RNA-seq] (GEM, International Flavors...)
PRJNA737991	Homo sapiens	Whole transcriptome miRNA profiling of Coronavirus Disease 2019 (COVID-19) patient plasma. (University Health Network)
PRJNA821420	Homo sapiens	An endogenously activated antiviral state restricts SARS-CoV-2 infection in differentiated primary airway epithelial cells (Centre for Experimental Medicine,...)
PRJNA720694	Homo sapiens	SARS-CoV-2 Viral Genes Compromise Survival and Functions of Human Cardiomyocytes via Reducing Cellular ATP Level (Department of Pediatrics,...)
PRJNA751094	Homo sapiens	Effect of SARS-CoV-2 on the human placenta (Surgery, Weill Cornell Medical...)
PRJNA813159	Homo sapiens	Impact of an Immune Modulator Mycobacterium-w on Adaptive Natural Killer Cells and Protection Against COVID-19 (Cellular Therapy and Immunology,...)
PRJNA666884	Homo sapiens	Early Predicting COVID-19 Severity Value with Extracellular Vesicles and Extracellular RNAs (Division of Respiratory Diseases,...)
PRJNA755276	Homo sapiens	Analysis of circulating miRNAs altered in the acute respiratory distress syndrome related to SARS-CoV-2 infection (MARData-BU, Hospital del...)
PRJNA730906	Homo sapiens	Implicating effector genes at COVID-19 GWAS loci using promoter-focused Capture-C in disease-relevant immune cell types [RNA-seq] (Struan Grant and Andrew Wells,...)
PRJNA834649	Homo sapiens	Inhibition of Toll-like receptor 4 and Interleukin-1 receptor prevent SARS-CoV-2 mediated kidney injury in vitro (Hokkaido University)
PRJNA769955	Homo sapiens	Heart-on-a-chip model of SARS-CoV-2 infection and treatment with induced pluripotent stem cell derived extracellular vesicles (Medical College of Wisconsin)
PRJNA699486	Homo sapiens	Identification of distinct miRNAs associated with SARS-CoV-2 infection (precision medicine center,...)
PRJNA817264	Homo sapiens	Discovery and functional interrogation of the virus and host RNA interactome of SARS-CoV-2 proteins [Ribo-Seq] (UCSD)
PRJNA819422	Homo sapiens	Single-cell transcriptomics reveal a unique memory-like NK cell subset that accumulates with aging and correlates with disease severity in COVID-19 (University of Science and...)
PRJNA814290	Homo sapiens	Functional reprogramming of monocytes in acute and convalescent severe COVID-19 patients [RNA-seq] (Université Libre de Bruxelles)
PRJNA708208	Homo sapiens	Transcriptional profiling of human KIR+ and KIR- CD8 T cells by bulk RNA-seq (Institute for Immunity, Transplantation...)
PRJNA679897	Homo sapiens	Interferon-regulated genetic programs and JAK/STAT pathway activate the intronic promoter of the short ACE2 isoform in renal proximal tubules [RNA-seq] (Laboratory of Genetics and...)
PRJNA838497	Homo sapiens	Single-Cell RNA Sequencing to Decipher the Immunogenicity of ChAdOx1 nCoV-19/AZD1222 and mRNA-1273 Vaccines in Patients with Autoimmune Rheumatic Diseases (TCVGH)
PRJNA684327	Homo sapiens	Single-cell RNA sequencing of Tocilizumab-treated peripheral blood mononuclear cells as an in vitro model of inflammation (Ye, Graduate Division, University...)
PRJNA724033	Homo sapiens	Nopp140-chaperoned 2’-O-methylation of small nuclear RNAs in Cajal bodies ensures splicing fidelity (Meier Lab, Department of...)
PRJNA753532	Homo sapiens	Short duplex RNAs induce potent immunostimulation via Hoogsteen G-G base pairing-mediated dimerization (Wyss Institute)
PRJNA669838	Homo sapiens	Human Tubular Epithelial Cells Activate a Coordinated Stress Response after Serum Exposure [RNAseq-pid2019] (University of Washington)
PRJNA659992	Homo sapiens	Human lung organoid for modeling infection and disease conditions (Lung I) (Boolean, Pediatrics, UCSD)
PRJNA749873	Homo sapiens	Transcriptome characterization of organoids derived from healthy and irreversibly damaged NASH patient liver (University of Pennsylvania)
PRJNA731855	Homo sapiens	Molecular profiling reveals human biomarker signatures in patients after allogeneic stem cell transplantation suffering from invasive aspergillosis (Systems Biology and Bioinformatics,...)
PRJNA719377	Homo sapiens	Effect of lactoferrin treatment on iAEC2 (University of Michigan)
PRJNA728117	Homo sapiens	Large-scale genomic study reveals robust activation of the immune system following advanced Inner Engineering meditation retreat (University of Florida)
PRJNA679047	Homo sapiens	JAK inhibitors dampen activation of interferon-stimulated transcription of ACE2 isoforms in human airway epithelial cells (RNA-seq) (Laboratory of Genetics and...)
PRJNA763506	Homo sapiens	The snoGloBe interaction predictor reveals a broad spectrum of C/D snoRNA RNA targets (Université de Sherbrooke)
PRJNA762922	Homo sapiens	Homo sapiens Transcriptome or Gene expression (Vanderbilt University Medical...)
PRJNA648499	Homo sapiens	Single-cell RNA sequencing of human nasal mucosa (Institute for Basic Science)
PRJNA669691	Homo sapiens	Human Tubular Epithelial Cells Activate a Coordinated Stress Response after Serum Exposure [RNAseq-pid1830] (University of Washington)
PRJNA679844	Homo sapiens	Single-cell RNA-seq of air-liquid interface bronchioalveolar cells (Single Cell Discoveries)
PRJNA738854	Homo sapiens	Downregulation of exhausted cytotoxic T cells in gene expression networks of multisystem inflammatory syndrome in children (Icahn Medical School at Mount...)
PRJNA722510	Homo sapiens	Stem cell-derived trophoblast organoids model human placental development and susceptibility to emerging pathogens (Washington University School...)
PRJNA815866	Homo sapiens	Immune transcriptome in adult-onset Still’s disease with mild flare following administration of mRNA vaccine BNT162b2 (Laboratory of Genetics and...)
PRJNA841359	Homo sapiens	An herbal medicine-based formula affected the epithelial cell line, BEAS-2B, genes expression. (Professor Chi-Ying Huang,...)
PRJNA659990	Homo sapiens	Human lung organoid for modeling infection and disease conditions (Lung II) (Boolean, Pediatrics, UCSD)
PRJNA779249	Homo sapiens	Homo sapiens Transcriptome or Gene expression (West China Hospital of Sichuan...)
PRJNA647903	Homo sapiens	Elucidation of remdesivir cytotoxicity pathways through genome-wide CRISPR/Cas9 screening and transcriptomics (Division of Genetics, Department...)
PRJNA792569	Homo sapiens	What goes around comes around: artificial circular RNAs bypass cellular antiviral responses (Biology and Chemistry (FB08),...)
PRJNA656002	Homo sapiens	Comparison of children and adults’ lung tissues by scRNA-seq (singleron)
PRJNA700860	Homo sapiens	Transcriptomic analysis of of SNX-5422-treated human primary tracheobronchial epithelial (TBE) cells. (Permar Lab, Duke Human Vaccine...)
PRJNA719801	Homo sapiens	Single-cell RNA sequencing of human nasal swab from healthy donors (Center for Vascular Research,...)
PRJNA827806	Homo sapiens	Genome-wide CRISPR Knockout Screen Identified PLAC8 as an Essential Factor for SADS-CoVs Infection (Baric, Epidemiology, UNC...)
PRJNA750396	Homo sapiens	Single-cell RNA-seq of human kidney organoids (Advanced Genomics, Hemato-Oncology,...)
PRJNA648957	Homo sapiens	Multi-omic data integration allows baseline immune signatures to predict hepatitis B vaccine response in a small cohort (Amy Lee, Molecular Biology...)
PRJNA701642	Homo sapiens	mRNA-seq of large airway basal cell, small airway basal cell and alveolar type2 cells from normal patients (Rajagopal, Center for Regenerative...)
PRJNA731508	Homo sapiens	Regulatory KIR+RA+ T cells accumulate with age and are highly activated during viral respiratory disease (RIVM)
PRJNA625888	Homo sapiens	Cell-intrinsic differences between human tracheal epithelial cells from children and adults [FACS-sorted basal cells] (Lungs for Living, UCL Respiratory,...)
PRJNA704573	Homo sapiens	RNA-seq Analysis of control and CyPA-stimulated BEAs-2B cells Transcriptomes (cell biology, Cell biology...)
PRJNA832139	Homo sapiens	Heterologous ChAdOx1-BNT162b2 vaccination in a Korean cohort induces a robust genetic immune and antibody response that includes Omicron [RNA_seq] (Laboratory of Genetics and...)
PRJNA673821	Homo sapiens	RNA-seq profiles on hESC-derived macrophage (The Chen lab, Pritzker School...)
PRJNA625892	Homo sapiens	Cell-intrinsic differences between human tracheal epithelial cells from children and adults [cultured basal cells] (Lungs for Living, UCL Respiratory,...)
PRJNA691303	Homo sapiens	The role of XIST in X-inactivation maintenance in B cells (RNA-seq) (Stanford University)
PRJNA622298	Homo sapiens	Single-cell RNA-seq of engineered healthy human kidney organoids (Advanced Genomics, Hemato-Oncology,...)
PRJNA771707	Homo sapiens	Validate whether the targeting of crRNAs affected the host cell gene expression (Stanley Qi lab, Bioengineering,...)
PRJNA832138	Homo sapiens	Heterologous ChAdOx1-BNT162b2 vaccination in a Korean cohort induces a robust genetic immune and antibody response that includes Omicron [scRNA-seq] (Laboratory of Genetics and...)
PRJDB12786	Homo sapiens	The effects of the SARS-CoV-2 ORF8 secretory glycoprotein on human primary monocyte-derived macrophages (MDMs) (Department of Infectious...)
PRJNA656274	Homo sapiens	Transcriptomic profiling of human corona virus (HCoV)-229E -infected human cells (Sheba Medical Center at Tel...)
PRJNA761132	Homo sapiens	Whole transcriptome sequencing from covid-19 and control lung biopsies (Biochemical engineering and...)
PRJNA831830	Homo sapiens	Antigenic determinants of SARS-CoV-2-specific CD4+ T cell lines reveals M protein-driven dysregulation of interferon signaling (NIAID, NIH)
PRJNA790648	Homo sapiens	Conjunctival epithelial cells resist productive SARS-CoV-2 infection (Newcastle University)
PRJNA792807	Homo sapiens	Resistin Forms a Network with Cytokines Associated with Endothelial Damage and Worse Outcome in COVID-19 (Human Immunology （Single...)
PRJNA716611	Homo sapiens	Immune responses to Coronavirus disease-19 with Thymosin α 1 intervention: an observational cohort study (precision medicine center,...)
PRJNA832132	Homo sapiens	Prior vaccination exceeds prior infection in eliciting innate and humoral immune responses in Omicron infected outpatients (Laboratory of Genetics and...)
PRJNA783307	Homo sapiens	A bipotential organoid culture of respiratory epithelium for modeling SARS-CoV-2 infection (Microbiology, The University...)
PRJNA730810	Homo sapiens	BNT162b2 vaccination enhances interferon-JAK-STAT-regulated antiviral programs in COVID-19 patients infected with the SARS-CoV-2 Beta variant (Laboratory of Genetics and...)
PRJNA745333	Homo sapiens	Gene expression analysis of whole blood obtained from COVID-19 in the Osaka cohort (Human Immunology （Single...)
PRJNA754796	Homo sapiens	Clinical significance of interferon signal based on mRNA-microRNA integration and plasma protein analyses in the critically ill patients with COVID19 (Human Immunology （Single...)
PRJNA849921	Homo sapiens	Differential chromatin accessibility in peripheral blood mononuclear cells underlies COVID-19 disease severity prior to seroconversion [bulkRNA-Seq] (Center for Applied Genomics...)
PRJNA853574	Homo sapiens	β-hydroxybutyrate restores T cell metabolism and function in severe COVID-19 (Univeristy of Bonn)
PRJNA774978	Homo sapiens	RNA-seq analysis of nasopharyngeal swabs from asymptomatic and mildly symptomatic COVID-19 patients (School of Life Sciences and...)
PRJNA852187	Homo sapiens	Antiviral function and viral antagonism of the rapidly evolving dynein activating adapter NINL (University of California...)
PRJNA819163	Homo sapiens	Monocytic-Myeloid Derived Suppressor Cells Suppress T-Cell Responses in Recovered SARS CoV2-Infected Individuals (Medicine, University of California,...)
PRJNA802194	Homo sapiens	Blood transcriptomes of SARS-CoV-2 infected kidney transplant recipients demonstrate immune insufficiency (Ichan School of Medicine...)
PRJNA859179	Homo sapiens	Early suppression of antiviral host response and protocadherins by SARS-CoV-2 Spike protein in monocyte-derived macrophages (Laboratory of Retroviral...)
PRJNA718524	Homo sapiens	SUMOylation restrains the degradation of ACE2 through TOLLIP-mediated selective autophagy to facilitate the host susceptibility to SARS-CoV-2 infection (sysu)
PRJNA849954	Homo sapiens	Differential chromatin accessibility in peripheral blood mononuclear cells underlies COVID-19 disease severity prior to seroconversion [scRNA-Seq] (Center for Applied Genomics...)
PRJNA795179	Homo sapiens	SARS-CoV-2 diverges from other betacoronaviruses in only partially activating the IRE1a/XBP1 ER stress pathway in human lung-derived cells (University of Chicago)
PRJNA846717	Homo sapiens	RNAseq analysis of SARS-CoV-2 infection of A549ACE cells with dARKSAP virus (Korb Lab, University of Pennsylvania)
PRJNA797951	Homo sapiens	ScRNA-seq Expression of APOC2 and IFI27 Identifies Four Alveolar Macrophage Superclusters in Cystic Fibrosis and Healthy BALF (Jakubzick, Microbiology and...)
PRJNA666676	MAIT cell activation augments adenovirus vector vaccine immunogenicity	MAIT cell activation augments adenovirus vector vaccine immunogenicity (Dan Barouch, Center for Virology...)
PRJNA750088	Macrophages govern antiviral responses in human lung tissues protected from SARS-CoV-2 infection	Macrophages govern antiviral responses in human lung tissues protected from SARS-CoV-2 infection (Connor lab, National Emerging...)
PRJNA746455	Macrophages govern antiviral responses in human lung tissues protected from SARS-CoV-2 infection	Macrophages govern antiviral responses in human lung tissues protected from SARS-CoV-2 infection (BU Single Cell Sequencing...)
PRJNA680599	Metabolic reprogramming and epigenetic changes of vital organs in SARS-CoV-2 induced systemic toxicity	Metabolic reprogramming and epigenetic changes of vital organs in SARS-CoV-2 induced systemic toxicity (Pellegrini Lab, Molecular...)
PRJNA624302	Modeling SARS-Cov-2 Infection in Human Airway Epithelium Organoids Transcriptome	Modeling SARS-Cov-2 Infection in Human Airway Epithelium Organoids Transcriptome (Southern University of Science...)
PRJNA699591	Pharmacological Activation of STING blocks SARS-CoV-2 infection	Pharmacological Activation of STING blocks SARS-CoV-2 infection (Pathology and Laboratory...)
PRJNA716338	RNA-Seq Quantitative Analysis of the regulation of SARS-CoV-2 infection on autophagy and apoptosis related gene transcriptome in infected cells	RNA-Seq Quantitative Analysis of the regulation of SARS-CoV-2 infection on autophagy and apoptosis related gene transcriptome in infected cells (School of Life Science, Sun...)
PRJNA797392	SARS-CoV-2 Infection Induces Ferroptosis of Human Pluripotent Stem Cell-Derived Sinoatrial Nodal like Pacemaker Cells [bulk RNA-seq]	SARS-CoV-2 Infection Induces Ferroptosis of Human Pluripotent Stem Cell-Derived Sinoatrial Nodal like Pacemaker Cells [bulk RNA-seq] (Surgery, Weill Cornell Medical...)
PRJNA759880	SARS-CoV-2 expresses a microRNA-like small RNA able to selectively repress host genes	SARS-CoV-2 expresses a microRNA-like small RNA able to selectively repress host genes (Joan A. Steitz, MBB, Yale...)
PRJNA741531	SARS-CoV-2 infected and uninfected VeroE6 and A549-ACE2: Bemcentinib and liposome treatments	SARS-CoV-2 infected and uninfected VeroE6 and A549-ACE2: Bemcentinib and liposome treatments (Maury Lab, Microbiology and...)
PRJNA667921	SARS-CoV-2 infected cells present HLA-I peptides from canonical and out-of-frame ORFs	SARS-CoV-2 infected cells present HLA-I peptides from canonical and out-of-frame ORFs (Eran Segal, Weizmann Institute...)
PRJNA649246	SARS-CoV-2 infection is effectively treated and prevented by EIDD-2801	SARS-CoV-2 infection is effectively treated and prevented by EIDD-2801 (BARC, UNC SOM)
PRJNA731890	SARS-CoV-2 infects and replicates in photoreceptor and retinal ganglion cells of human retinal organoids	SARS-CoV-2 infects and replicates in photoreceptor and retinal ganglion cells of human retinal organoids (Cell and Developmental Biology,...)
PRJNA810734	SARS-CoV-2 produces a diverse small viral RNA landscape capable of targeting host transcripts	SARS-CoV-2 produces a diverse small viral RNA landscape capable of targeting host transcripts (Sanford Lab, Molecular, Cell...)
PRJNA615032	Transcriptional response to SARS-CoV-2 infection	Transcriptional response to SARS-CoV-2 infection (tenOever Lab, Microbiology,...)
PRJNA819093	Transcriptome Analaysis of humanized lungs in COVID-19 [scRNAseq]	Transcriptome Analaysis of humanized lungs in COVID-19 [scRNAseq] (BBS Program, Yale University)
PRJNA639791	Transcriptomic analysis of human alveolar type II cell organoids post infection of SARS-CoV-2	Transcriptomic analysis of human alveolar type II cell organoids post infection of SARS-CoV-2 (Tata Lab, Cell Biology, Duke...)
PRJNA673197	bulk RNAseq of SARS-COV2 infected human lung organoid	bulk RNAseq of SARS-COV2 infected human lung organoid (Stripp Lab, Lung and Regenerative...)

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INSDC COVID-19 Infected Human Sequencing Data

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