Commit 06afe318 authored by Albert Hornos Vidal's avatar Albert Hornos Vidal
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feat: add EGA related publications

parent 39559aea
{"entity":"EGA COVID19 spanish PI studies","timestamp":"2021-10-14 08:46:48.293964","links":{"self":{"href":"https:\/\/docs.google.com\/spreadsheets\/d\/e\/2PACX-1vRgouM0eO0qKvyi43S72V-x3U80vru5dOkvL9jI9lO0wYeY6A11TK5UPWlcYCCevlm7isZLzaiLfsIW\/pub?gid=304192027&single=true&output=tsv"},"origin":{"href":"https:\/\/docs.google.com\/spreadsheets\/d\/e\/2PACX-1vRgouM0eO0qKvyi43S72V-x3U80vru5dOkvL9jI9lO0wYeY6A11TK5UPWlcYCCevlm7isZLzaiLfsIW\/pub?gid=304192027&single=true&output=tsv"}},"ega_studies_counter":23,"ega_datasets_counter":65,"ega_studies":[{"study_accession":"EGAS00001005465","study_title":"Multi-omic single-cell profiling of peripheral blood immune cells from COVID-19 patients and controls.","datasets":[{"dataset_accession":"EGAD00001007867","dataset_title":"Cambridge COVID-19 Single-cell PBMC"},{"dataset_accession":"EGAD00001007866","dataset_title":"Newcastle COVID-19 Single-cell PBMC"},{"dataset_accession":"EGAD00001007865","dataset_title":"UCL COVID-19 Single-cell 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[10x]","datasets":[{"dataset_accession":"EGAD00001008109","dataset_title":"analysis of T cell receptor repertoirs"},{"dataset_accession":"EGAD00001006995","dataset_title":"Single-cell gene expression data from CD8+ T cells from two Austrian COVID19 patients stimulated with wildtype and mutant SARS-Cov-2 peptides"}]},{"study_accession":"EGAS00001004508","study_title":"Three-dimensional human alveolar stem cell culture models reveal infection response to SARS-CoV-2","datasets":[{"dataset_accession":"EGAD00001006242","dataset_title":"Single cell RNA sequencing data in \"Three-dimensional human alveolar stem cell culture models reveal infection response to SARS-CoV-2\""},{"dataset_accession":"EGAD00001006241","dataset_title":"Bulk RNA sequencing data in \"Three-dimensional human alveolar stem cell culture models reveal infection response to SARS-CoV-2\""}]},{"study_accession":"EGAS00001004951","study_title":"Upper respiratory microbiome of COVID-19 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anti-viral innate immunity in the upper airways controls early SARS-CoV-2 infection in children","datasets":[{"dataset_accession":"EGAD00001007969","dataset_title":"Pre-activated anti-viral innate immunity in the upper airways controls early SARS-CoV-2 infection in children"}]},{"study_accession":"EGAS00001004716","study_title":"Ancestry COVID-19 study","datasets":[{"dataset_accession":"EGAD00010002011","dataset_title":"Ancestry COVID-19 Study Phenotype"},{"dataset_accession":"EGAD00010002012","dataset_title":"Ancestry COVID-19 Study Genotype"}]},{"study_accession":"EGAS00001005099","study_title":"AncestryDNA COVID-19 GWAS with Eight Phenotypes","datasets":[{"dataset_accession":"EGAD00010002104","dataset_title":"AncestryDNA COVID-19 GWAS for Continuous_Severity_Score"},{"dataset_accession":"EGAD00010002109","dataset_title":"AncestryDNA COVID-19 GWAS for ExposedPositive_ExposedNegative"},{"dataset_accession":"EGAD00010002111","dataset_title":"AncestryDNA COVID-19 GWAS for Hospitalized_NotHosptialized"},{"dataset_accession":"EGAD00010002120","dataset_title":"AncestryDNA COVID-19 GWAS for Positive_Negative"},{"dataset_accession":"EGAD00010002122","dataset_title":"AncestryDNA COVID-19 GWAS for Symptomatic_Paucisymptomatic"},{"dataset_accession":"EGAD00010002129","dataset_title":"AncestryDNA COVID-19 GWAS for Hospitalized_Unscreened"},{"dataset_accession":"EGAD00010002159","dataset_title":"AncestryDNA COVID-19 GWAS for Positive_Unscreened"},{"dataset_accession":"EGAD00010002162","dataset_title":"AncestryDNA COVID-19 GWAS for Unscreened_ExposedNegative"}]},{"study_accession":"EGAS00001005206","study_title":"High titers and low fucosylation of early phase anti-SARS-CoV-2 IgG promote hyper-inflammation by alveolar macrophages","datasets":[{"dataset_accession":"EGAD00001007512","dataset_title":"anti-SARS-CoV-2 IgG and Fostamatinib treated human primary IL10-M2 macrophages"}]},{"study_accession":"EGAS00001004503","study_title":"Peripheral immunoprofiling of stratifies COVID-19 patients based on disease-specific neutrophil signatures","datasets":[{"dataset_accession":"EGAD00001006671","dataset_title":"Peripheral immunoprofiling of stratifies COVID-19 patients based on disease-specific neutrophil signatures"},{"dataset_accession":"EGAD00001006326","dataset_title":"Peripheral immunoprofiling of stratifies COVID-19 patients based on disease-specific neutrophil signatures"}]},{"study_accession":"EGAS00001004391","study_title":"Paediatric and adult nasal RNAseq COVID19","datasets":[{"dataset_accession":"EGAD00001007718","dataset_title":"The cellular immune and airway epithelial profile throughout childhood and in response to COVID-19 at multi-omic single cell level."}]},{"study_accession":"EGAS00001004772","study_title":"Hypertension delays viral clearance and exacerbates airway hyperinflammation in patients with COVID-19","datasets":[{"dataset_accession":"EGAD00001006828","dataset_title":"Hypertension delays viral clearance and exacerbates airway hyperinflammation in patients with COVID-19"}]},{"study_accession":"EGAS00001004481","study_title":"Single-cell analysis of airway samples identifies immune cell activation correlating with COVID-19 disease severity","datasets":[{"dataset_accession":"EGAD00001006339","dataset_title":"COVID-19 severity correlates with airway epithelium\u2013immune cell interactions identified by single-cell analysis"}]},{"study_accession":"EGAS00001004419","study_title":"SARS\u2010CoV\u20102 receptor ACE2 and TMPRSS2 are primarily expressed in bronchial transient secretory cells","datasets":[{"dataset_accession":"EGAD00001006185","dataset_title":"ALI culture bronchial cells and alveolar lung surgical resection scRNA-Seq"}]},{"study_accession":"EGAS00001004412","study_title":"Potent neutralizing antibodies against SARS-CoV-2","datasets":[{"dataset_accession":"EGAD00001006130","dataset_title":"Potent neutralizing antibodies against SARS-CoV-2"}]}]}
{"entity":"EGA COVID19 spanish PI studies","timestamp":"2021-10-15 08:29:44.657712","links":{"self":{"href":"https:\/\/docs.google.com\/spreadsheets\/d\/e\/2PACX-1vRgouM0eO0qKvyi43S72V-x3U80vru5dOkvL9jI9lO0wYeY6A11TK5UPWlcYCCevlm7isZLzaiLfsIW\/pub?gid=304192027&single=true&output=tsv"},"origin":{"href":"https:\/\/docs.google.com\/spreadsheets\/d\/e\/2PACX-1vRgouM0eO0qKvyi43S72V-x3U80vru5dOkvL9jI9lO0wYeY6A11TK5UPWlcYCCevlm7isZLzaiLfsIW\/pub?gid=304192027&single=true&output=tsv"}},"ega_studies_counter":23,"ega_datasets_counter":65,"ega_studies":[{"study_accession":"EGAS00001005465","study_title":"Multi-omic single-cell profiling of peripheral blood immune cells from COVID-19 patients and controls.","datasets":[{"dataset_accession":"EGAD00001007867","dataset_title":"Cambridge COVID-19 Single-cell PBMC"},{"dataset_accession":"EGAD00001007866","dataset_title":"Newcastle COVID-19 Single-cell PBMC"},{"dataset_accession":"EGAD00001007865","dataset_title":"UCL COVID-19 Single-cell PBMC"}]},{"study_accession":"EGAS00001005332","study_title":"COVID-19 whole blood transcriptomic analysis","datasets":[{"dataset_accession":"EGAD00001007776","dataset_title":"Whole blood RNA-sequencing of covid-19 patients and healthy controls"}]},{"study_accession":"EGAS00001005380","study_title":"An analysis of humoral and cellular immune responses following COVID-19 vaccination.","datasets":[{"dataset_accession":"EGAD00001007777","dataset_title":"Covid vaccination BCR repertoire analysis"}],"publications":[{"study_accession":"EGAS00001005380","pubmed_id":"34192737","article_title":"Age-related immune response heterogeneity to SARS-CoV-2 vaccine BNT162b2.","journal_title":"Nature","pub_year":"2021","authors":"Collier DA, Ferreira IATM, Kotagiri P, Datir RP, Lim EY, Touizer E, Meng B, Abdullahi A, CITIID-NIHR BioResource COVID-19 Collaboration, Elmer A, Kingston N, Graves B, Le Gresley E, Caputo D, Bergamaschi L, Smith KGC, Bradley JR, Ceron-Gutierrez L, Cortes-Acevedo P, Barcenas-Morales G, Linterman MA, McCoy LE, Davis C, Thomson E, Lyons PA, McKinney E, Doffinger R, Wills M, Gupta RK."}]},{"study_accession":"EGAS00001004571","study_title":"ScRNA-seq of PBMC and whole blood samples reveals a dysregulated myeloid cell compartment in severe COVID-19","datasets":[{"dataset_accession":"EGAD00001006550","dataset_title":"ScRNA-seq of PBMC and whole blood samples reveales a dysregulated myeloid cell compartment in severe COVID-19"}],"publications":[{"study_accession":"EGAS00001004571","pubmed_id":"32810438","article_title":"Severe COVID-19 Is Marked by a Dysregulated Myeloid Cell Compartment.","journal_title":"Cell","pub_year":"2020","authors":"Schulte-Schrepping J, Reusch N, Paclik D, Ba\u00dfler K, Schlickeiser S, Zhang B, Kr\u00e4mer B, Krammer T, Brumhard S, Bonaguro L, De Domenico E, Wendisch D, Grasshoff M, Kapellos TS, Beckstette M, Pecht T, Saglam A, Dietrich O, Mei HE, Schulz AR, Conrad C, Kunkel D, Vafadarnejad E, Xu CJ, Horne A, Herbert M, Drews A, Thibeault C, Pfeiffer M, Hippenstiel S, Hocke A, M\u00fcller-Redetzky H, Heim KM, Machleidt F, Uhrig A, Bosquillon de Jarcy L, J\u00fcrgens L, Stegemann M, Gl\u00f6senkamp CR, Volk HD, Goffinet C, Landthaler M, Wyler E, Georg P, Schneider M, Dang-Heine C, Neuwinger N, Kappert K, Tauber R, Corman V, Raabe J, Kaiser KM, Vinh MT, Rieke G, Meisel C, Ulas T, Becker M, Geffers R, Witzenrath M, Drosten C, Suttorp N, von Kalle C, Kurth F, H\u00e4ndler K, Schultze JL, Aschenbrenner AC, Li Y, Nattermann J, Sawitzki B, Saliba AE, Sander LE, Deutsche COVID-19 OMICS Initiative (DeCOI)."},{"study_accession":"EGAS00001004571","pubmed_id":"33377120","article_title":"Optimized workflow for single-cell transcriptomics on infectious diseases including COVID-19.","journal_title":"STAR Protoc","pub_year":"2020","authors":"De Domenico E, Bonaguro L, Schulte-Schrepping J, Becker M, H\u00e4ndler K, Schultze JL."},{"study_accession":"EGAS00001004571","pubmed_id":"33752798","article_title":"Convalescent COVID-19 patients are susceptible to endothelial dysfunction due to persistent immune activation.","journal_title":"Elife","pub_year":"2021","authors":"Chioh FW, Fong SW, Young BE, Wu KX, Siau A, Krishnan S, Chan YH, Carissimo G, Teo LL, Gao F, Tan RS, Zhong L, Koh AS, Tan SY, Tambyah PA, Renia L, Ng LF, Lye DC, Cheung C."},{"study_accession":"EGAS00001004571","pubmed_id":"33969320","article_title":"Longitudinal proteomic analysis of plasma from patients with severe COVID-19 reveal patient survival-associated signatures, tissue-specific cell death, and cell-cell interactions.","journal_title":"Cell Rep Med","pub_year":"2021","authors":"Filbin MR, Mehta A, Schneider AM, Kays KR, Guess JR, Gentili M, Fenyves BG, Charland NC, Gonye ALK, Gushterova I, Khanna HK, LaSalle TJ, Lavin-Parsons KM, Lilley BM, Lodenstein CL, Manakongtreecheep K, Margolin JD, McKaig BN, Rojas-Lopez M, Russo BC, Sharma N, Tantivit J, Thomas MF, Gerszten RE, Heimberg GS, Hoover PJ, Lieb DJ, Lin B, Ngo D, Pelka K, Reyes M, Smillie CS, Waghray A, Wood TE, Zajac AS, Jennings LL, Grundberg I, Bhattacharyya RP, Parry BA, Villani AC, Sade-Feldman M, Hacohen N, Goldberg MB."},{"study_accession":"EGAS00001004571","pubmed_id":"34108966","article_title":"Transcriptional Changes in CD16+ Monocytes May Contribute to the Pathogenesis of COVID-19.","journal_title":"Front Immunol","pub_year":"2021","authors":"Chilunda V, Martinez-Aguado P, Xia LC, Cheney L, Murphy A, Veksler V, Ruiz V, Calderon TM, Berman JW."},{"study_accession":"EGAS00001004571","pubmed_id":"34179732","article_title":"Dissecting the common and compartment-specific features of COVID-19 severity in the lung and periphery with single-cell resolution.","journal_title":"iScience","pub_year":"2021","authors":"Overholt KJ, Krog JR, Zanoni I, Bryson BD."},{"study_accession":"EGAS00001004571","pubmed_id":"34522848","article_title":"<b>An Interactive Single Cell Web Portal Identifies Gene and Cell Networks in COVID-19 Host Responses<\/b>.","journal_title":"iScience","pub_year":"2021","authors":"Jin K, Bardes EE, Mitelpunkt A, Wang JY, Bhatnagar S, Sengupta S, Krummel DP, Rothenberg ME, Aronow BJ."}]},{"study_accession":"EGAS00001005060","study_title":"SARS-CoV-2 escapes CD8 T cell surveillance via mutations in MHC-I restricted epitopes [10x]","datasets":[{"dataset_accession":"EGAD00001008109","dataset_title":"analysis of T cell receptor repertoirs"},{"dataset_accession":"EGAD00001006995","dataset_title":"Single-cell gene expression data from CD8+ T cells from two Austrian COVID19 patients stimulated with wildtype and mutant SARS-Cov-2 peptides"}],"publications":[{"study_accession":"EGAS00001005060","pubmed_id":"33664060","article_title":"SARS-CoV-2 mutations in MHC-I-restricted epitopes evade CD8<sup>+<\/sup> T cell responses.","journal_title":"Sci Immunol","pub_year":"2021","authors":"Agerer B, Koblischke M, Gudipati V, Monta\u00f1o-Gutierrez LF, Smyth M, Popa A, Genger JW, Endler L, Florian DM, M\u00fchlgrabner V, Graninger M, Aberle SW, Husa AM, Shaw LE, Lercher A, Gattinger P, Torralba-Gombau R, Trapin D, Penz T, Barreca D, Fae I, Wenda S, Traugott M, Walder G, Pickl WF, Thiel V, Allerberger F, Stockinger H, Puchhammer-St\u00f6ckl E, Weninger W, Fischer G, Hoepler W, Pawelka E, Zoufaly A, Valenta R, Bock C, Paster W, Geyeregger R, Farlik M, Halbritter F, Huppa JB, Aberle JH, Bergthaler A."}]},{"study_accession":"EGAS00001004508","study_title":"Three-dimensional human alveolar stem cell culture models reveal infection response to SARS-CoV-2","datasets":[{"dataset_accession":"EGAD00001006242","dataset_title":"Single cell RNA sequencing data in \"Three-dimensional human alveolar stem cell culture models reveal infection response to SARS-CoV-2\""},{"dataset_accession":"EGAD00001006241","dataset_title":"Bulk RNA sequencing data in \"Three-dimensional human alveolar stem cell culture models reveal infection response to SARS-CoV-2\""}],"publications":[{"study_accession":"EGAS00001004508","pubmed_id":"33142113","article_title":"Three-Dimensional Human Alveolar Stem Cell Culture Models Reveal Infection Response to SARS-CoV-2.","journal_title":"Cell Stem Cell","pub_year":"2020","authors":"Youk J, Kim T, Evans KV, Jeong YI, Hur Y, Hong SP, Kim JH, Yi K, Kim SY, Na KJ, Bleazard T, Kim HM, Fellows M, Mahbubani KT, Saeb-Parsy K, Kim SY, Kim YT, Koh GY, Choi BS, Ju YS, Lee JH."}]},{"study_accession":"EGAS00001004951","study_title":"Upper respiratory microbiome of COVID-19 patients","datasets":[{"dataset_accession":"EGAD00001006864","dataset_title":"CONTAGIOUS trial - COVID-19 16S dataset"},{"dataset_accession":"EGAD00001008006","dataset_title":"CONTAGIOUS trial - COVID-19 16S metadata"}]},{"study_accession":"EGAS00001004502","study_title":"Swarm Learning to identify COVID-19 tuberculosis and leukemia patients based on blood transcriptomes","datasets":[{"dataset_accession":"EGAD00001006231","dataset_title":"Swarm Learning to identify COVID-19 tuberculosis and leukemia patients based on blood transcriptomes "}],"publications":[{"study_accession":"EGAS00001004502","pubmed_id":"34040261","article_title":"Swarm Learning for decentralized and confidential clinical machine learning.","journal_title":"Nature","pub_year":"2021","authors":"Warnat-Herresthal S, Schultze H, Shastry KL, Manamohan S, Mukherjee S, Garg V, Sarveswara R, H\u00e4ndler K, Pickkers P, Aziz NA, Ktena S, Tran F, Bitzer M, Ossowski S, Casadei N, Herr C, Petersheim D, Behrends U, Kern F, Fehlmann T, Schommers P, Lehmann C, Augustin M, Rybniker J, Altm\u00fcller J, Mishra N, Bernardes JP, Kr\u00e4mer B, Bonaguro L, Schulte-Schrepping J, De Domenico E, Siever C, Kraut M, Desai M, Monnet B, Saridaki M, Siegel CM, Drews A, Nuesch-Germano M, Theis H, Heyckendorf J, Schreiber S, Kim-Hellmuth S, COVID-19 Aachen Study (COVAS), Nattermann J, Skowasch D, Kurth I, Keller A, Bals R, N\u00fcrnberg P, Rie\u00df O, Rosenstiel P, Netea MG, Theis F, Mukherjee S, Backes M, Aschenbrenner AC, Ulas T, Deutsche COVID-19 Omics Initiative (DeCOI), Breteler MMB, Giamarellos-Bourboulis EJ, Kox M, Becker M, Cheran S, Woodacre MS, Goh EL, Schultze JL."}]},{"study_accession":"EGAS00001005280","study_title":"Impaired Humoral and Cellular Immunity after SARS-CoV2 BNT162b2 (Tozinameran) Prime-Boost Vaccination in Kidney Transplant Recipients","datasets":[{"dataset_accession":"EGAD00001007689","dataset_title":"RNA-Seq of response to Tozinameran vaccination in individuals with KTx\/dialysis or healthy controls."}]},{"study_accession":"EGAS00001004689","study_title":"COVID-19 Postmortem Lung snRNA-seq","datasets":[{"dataset_accession":"EGAD00001006584","dataset_title":"COVID-19 Postmortem Lung snRNA-seq"}],"publications":[{"study_accession":"EGAS00001004689","pubmed_id":"34155207","article_title":"SARS-CoV-2-mediated dysregulation of metabolism and autophagy uncovers host-targeting antivirals.","journal_title":"Nat Commun","pub_year":"2021","authors":"Gassen NC, Papies J, Bajaj T, Emanuel J, Dethloff F, Chua RL, Trimpert J, Heinemann N, Niemeyer C, Weege F, H\u00f6nzke K, Aschman T, Heinz DE, Weckmann K, Ebert T, Zellner A, Lennarz M, Wyler E, Schroeder S, Richter A, Niemeyer D, Hoffmann K, Meyer TF, Heppner FL, Corman VM, Landthaler M, Hocke AC, Morkel M, Osterrieder N, Conrad C, Eils R, Radbruch H, Giavalisco P, Drosten C, M\u00fcller MA."}]},{"study_accession":"EGAS00001005039","study_title":"SINGLE-CELL RNA SEQUENCING Single-cell RNA sequencing was performed on 13 \u2018mild-moderate\u2019 and 10 \u2018critical\u2019 COVID19 PBMC samples","datasets":[{"dataset_accession":"EGAD00001006997","dataset_title":"Single cell sequencing of mild and critical COVID19 PBMC"}],"publications":[{"study_accession":"EGAS00001005039","pubmed_id":"34226537","article_title":"Monocyte-driven atypical cytokine storm and aberrant neutrophil activation as key mediators of COVID-19 disease severity.","journal_title":"Nat Commun","pub_year":"2021","authors":"Vanderbeke L, Van Mol P, Van Herck Y, De Smet F, Humblet-Baron S, Martinod K, Antoranz A, Arijs I, Boeckx B, Bosisio FM, Casaer M, Dauwe D, De Wever W, Dooms C, Dreesen E, Emmaneel A, Filtjens J, Gouwy M, Gunst J, Hermans G, Jansen S, Lagrou K, Liston A, Lorent N, Meersseman P, Mercier T, Neyts J, Odent J, Panovska D, Penttila PA, Pollet E, Proost P, Qian J, Quintelier K, Raes J, Rex S, Saeys Y, Sprooten J, Tejpar S, Testelmans D, Thevissen K, Van Buyten T, Vandenhaute J, Van Gassen S, Vel\u00e1squez Pereira LC, Vos R, Weynand B, Wilmer A, Yserbyt J, Garg AD, Matthys P, Wouters C, Lambrechts D, Wauters E, Wauters J."}]},{"study_accession":"EGAS00001004717","study_title":"Single-cell RNA sequencing of bronchoalveolar lavages from COVID-19 patients","datasets":[{"dataset_accession":"EGAD00001006893","dataset_title":"Single-cell RNA sequencing of bronchoalveolar lavages from COVID-19 patients"}],"publications":[{"study_accession":"EGAS00001004717","pubmed_id":"33473155","article_title":"Discriminating mild from critical COVID-19 by innate and adaptive immune single-cell profiling of bronchoalveolar lavages.","journal_title":"Cell Res","pub_year":"2021","authors":"Wauters E, Van Mol P, Garg AD, Jansen S, Van Herck Y, Vanderbeke L, Bassez A, Boeckx B, Malengier-Devlies B, Timmerman A, Van Brussel T, Van Buyten T, Schepers R, Heylen E, Dauwe D, Dooms C, Gunst J, Hermans G, Meersseman P, Testelmans D, Yserbyt J, Tejpar S, De Wever W, Matthys P, CONTAGIOUS collaborators, Neyts J, Wauters J, Qian J, Lambrechts D."},{"study_accession":"EGAS00001004717","pubmed_id":"34179732","article_title":"Dissecting the common and compartment-specific features of COVID-19 severity in the lung and periphery with single-cell resolution.","journal_title":"iScience","pub_year":"2021","authors":"Overholt KJ, Krog JR, Zanoni I, Bryson BD."},{"study_accession":"EGAS00001004717","pubmed_id":"34226537","article_title":"Monocyte-driven atypical cytokine storm and aberrant neutrophil activation as key mediators of COVID-19 disease severity.","journal_title":"Nat Commun","pub_year":"2021","authors":"Vanderbeke L, Van Mol P, Van Herck Y, De Smet F, Humblet-Baron S, Martinod K, Antoranz A, Arijs I, Boeckx B, Bosisio FM, Casaer M, Dauwe D, De Wever W, Dooms C, Dreesen E, Emmaneel A, Filtjens J, Gouwy M, Gunst J, Hermans G, Jansen S, Lagrou K, Liston A, Lorent N, Meersseman P, Mercier T, Neyts J, Odent J, Panovska D, Penttila PA, Pollet E, Proost P, Qian J, Quintelier K, Raes J, Rex S, Saeys Y, Sprooten J, Tejpar S, Testelmans D, Thevissen K, Van Buyten T, Vandenhaute J, Van Gassen S, Vel\u00e1squez Pereira LC, Vos R, Weynand B, Wilmer A, Yserbyt J, Garg AD, Matthys P, Wouters C, Lambrechts D, Wauters E, Wauters J."}]},{"study_accession":"EGAS00001005304","study_title":"COVID19 Host Genetic Initiative","datasets":[{"dataset_accession":"EGAD00010002171","dataset_title":"Hostage_2_genotype"},{"dataset_accession":"EGAD00010002172","dataset_title":"BRACOVID_genotype"},{"dataset_accession":"EGAD00010002173","dataset_title":"Hostage_3_genotype"},{"dataset_accession":"EGAD00010002174","dataset_title":"INMUNGEN_CoV2_genotype"},{"dataset_accession":"EGAD00010002175","dataset_title":"SweCovid_genotype"},{"dataset_accession":"EGAD00010002177","dataset_title":"GEN_COVID_genotype"},{"dataset_accession":"EGAD00010002178","dataset_title":"Hostage_4_genotype"},{"dataset_accession":"EGAD00010002179","dataset_title":"BelCovid_2_genotype"},{"dataset_accession":"EGAD00010002180","dataset_title":"Hostage_1_genotype"},{"dataset_accession":"EGAD00010002176","dataset_title":"SPGRX_genotype"},{"dataset_accession":"EGAD00001007837","dataset_title":"GEN_COVID_phenotype_lab"},{"dataset_accession":"EGAD00001007844","dataset_title":"Hostage_4_phenotype_basic"},{"dataset_accession":"EGAD00001007832","dataset_title":"BRACOVID_phenotype_basic"},{"dataset_accession":"EGAD00001007850","dataset_title":"SweCovid_phenotype_lab"},{"dataset_accession":"EGAD00001007848","dataset_title":"SPGRX_phenotype_basic"},{"dataset_accession":"EGAD00001007847","dataset_title":"INMUNGEN_CoV2_phenotype_lab"},{"dataset_accession":"EGAD00001007846","dataset_title":"INMUNGEN_CoV2_phenotype_basic"},{"dataset_accession":"EGAD00001007845","dataset_title":"Hostage_4_phenotype_lab"},{"dataset_accession":"EGAD00001007843","dataset_title":"Hostage_3_phenotype_lab"},{"dataset_accession":"EGAD00001007842","dataset_title":"Hostage_3_phenotype_basic"},{"dataset_accession":"EGAD00001007841","dataset_title":"Hostage_2_phenotype_lab"},{"dataset_accession":"EGAD00001007840","dataset_title":"Hostage_2_phenotype_basic"},{"dataset_accession":"EGAD00001007839","dataset_title":"Hostage_1_phenotype_lab"},{"dataset_accession":"EGAD00001007838","dataset_title":"Hostage_1_phenotype_basic"},{"dataset_accession":"EGAD00001007836","dataset_title":"GEN_COVID_phenotype_basic"},{"dataset_accession":"EGAD00001007835","dataset_title":"BelCovid_2_phenotype_lab"},{"dataset_accession":"EGAD00001007834","dataset_title":"BelCovid_2_phenotype_basic"},{"dataset_accession":"EGAD00001007833","dataset_title":"BRACOVID_phenotype_lab"},{"dataset_accession":"EGAD00001007849","dataset_title":"SweCovid_phenotype_basic"}],"publications":[{"study_accession":"EGAS00001005304","pubmed_id":"34237774","article_title":"Mapping the human genetic architecture of COVID-19.","journal_title":"Nature","pub_year":"2021","authors":"COVID-19 Host Genetics Initiative."}]},{"study_accession":"EGAS00001005461","study_title":"Pre-activated anti-viral innate immunity in the upper airways controls early SARS-CoV-2 infection in children","datasets":[{"dataset_accession":"EGAD00001007969","dataset_title":"Pre-activated anti-viral innate immunity in the upper airways controls early SARS-CoV-2 infection in children"}]},{"study_accession":"EGAS00001004716","study_title":"Ancestry COVID-19 study","datasets":[{"dataset_accession":"EGAD00010002011","dataset_title":"Ancestry COVID-19 Study Phenotype"},{"dataset_accession":"EGAD00010002012","dataset_title":"Ancestry COVID-19 Study Genotype"}]},{"study_accession":"EGAS00001005099","study_title":"AncestryDNA COVID-19 GWAS with Eight Phenotypes","datasets":[{"dataset_accession":"EGAD00010002104","dataset_title":"AncestryDNA COVID-19 GWAS for Continuous_Severity_Score"},{"dataset_accession":"EGAD00010002109","dataset_title":"AncestryDNA COVID-19 GWAS for ExposedPositive_ExposedNegative"},{"dataset_accession":"EGAD00010002111","dataset_title":"AncestryDNA COVID-19 GWAS for Hospitalized_NotHosptialized"},{"dataset_accession":"EGAD00010002120","dataset_title":"AncestryDNA COVID-19 GWAS for Positive_Negative"},{"dataset_accession":"EGAD00010002122","dataset_title":"AncestryDNA COVID-19 GWAS for Symptomatic_Paucisymptomatic"},{"dataset_accession":"EGAD00010002129","dataset_title":"AncestryDNA COVID-19 GWAS for Hospitalized_Unscreened"},{"dataset_accession":"EGAD00010002159","dataset_title":"AncestryDNA COVID-19 GWAS for Positive_Unscreened"},{"dataset_accession":"EGAD00010002162","dataset_title":"AncestryDNA COVID-19 GWAS for Unscreened_ExposedNegative"}]},{"study_accession":"EGAS00001005206","study_title":"High titers and low fucosylation of early phase anti-SARS-CoV-2 IgG promote hyper-inflammation by alveolar macrophages","datasets":[{"dataset_accession":"EGAD00001007512","dataset_title":"anti-SARS-CoV-2 IgG and Fostamatinib treated human primary IL10-M2 macrophages"}]},{"study_accession":"EGAS00001004503","study_title":"Peripheral immunoprofiling of stratifies COVID-19 patients based on disease-specific neutrophil signatures","datasets":[{"dataset_accession":"EGAD00001006671","dataset_title":"Peripheral immunoprofiling of stratifies COVID-19 patients based on disease-specific neutrophil signatures"},{"dataset_accession":"EGAD00001006326","dataset_title":"Peripheral immunoprofiling of stratifies COVID-19 patients based on disease-specific neutrophil signatures"}],"publications":[{"study_accession":"EGAS00001004503","pubmed_id":"33200082","article_title":"Enhanced expression of immune checkpoint receptors during SARS-CoV-2 viral infection.","journal_title":"Mol Ther Methods Clin Dev","pub_year":"2021","authors":"Saheb Sharif-Askari N, Saheb Sharif-Askari F, Mdkhana B, Al Heialy S, Alsafar HS, Hamoudi R, Hamid Q, Halwani R."},{"study_accession":"EGAS00001004503","pubmed_id":"33441124","article_title":"Disease severity-specific neutrophil signatures in blood transcriptomes stratify COVID-19 patients.","journal_title":"Genome Med","pub_year":"2021","authors":"Aschenbrenner AC, Mouktaroudi M, Kr\u00e4mer B, Oestreich M, Antonakos N, Nuesch-Germano M, Gkizeli K, Bonaguro L, Reusch N, Ba\u00dfler K, Saridaki M, Knoll R, Pecht T, Kapellos TS, Doulou S, Kr\u00f6ger C, Herbert M, Holsten L, Horne A, Gem\u00fcnd ID, Rovina N, Agrawal S, Dahm K, van Uelft M, Drews A, Lenkeit L, Bruse N, Gerretsen J, Gierlich J, Becker M, H\u00e4ndler K, Kraut M, Theis H, Mengiste S, De Domenico E, Schulte-Schrepping J, Seep L, Raabe J, Hoffmeister C, ToVinh M, Keitel V, Rieke G, Talevi V, Skowasch D, Aziz NA, Pickkers P, van de Veerdonk FL, Netea MG, Schultze JL, Kox M, Breteler MMB, Nattermann J, Koutsoukou A, Giamarellos-Bourboulis EJ, Ulas T, German COVID-19 Omics Initiative (DeCOI)."},{"study_accession":"EGAS00001004503","pubmed_id":"34186206","article_title":"Upregulation of oxidative stress gene markers during SARS-COV-2 viral infection.","journal_title":"Free Radic Biol Med","pub_year":"2021","authors":"Saheb Sharif-Askari N, Saheb Sharif-Askari F, Mdkhana B, Hussain Alsayed HA, Alsafar H, Alrais ZF, Hamid Q, Halwani R."},{"study_accession":"EGAS00001004503","pubmed_id":"34276672","article_title":"Enhanced Expression of Autoantigens During SARS-CoV-2 Viral Infection.","journal_title":"Front Immunol","pub_year":"2021","authors":"Saheb Sharif-Askari N, Saheb Sharif-Askari F, Ahmed SBM, Hannawi S, Hamoudi R, Hamid Q, Halwani R."}]},{"study_accession":"EGAS00001004391","study_title":"Paediatric and adult nasal RNAseq COVID19","datasets":[{"dataset_accession":"EGAD00001007718","dataset_title":"The cellular immune and airway epithelial profile throughout childhood and in response to COVID-19 at multi-omic single cell level."}]},{"study_accession":"EGAS00001004772","study_title":"Hypertension delays viral clearance and exacerbates airway hyperinflammation in patients with COVID-19","datasets":[{"dataset_accession":"EGAD00001006828","dataset_title":"Hypertension delays viral clearance and exacerbates airway hyperinflammation in patients with COVID-19"}],"publications":[{"study_accession":"EGAS00001004772","pubmed_id":"33361824","article_title":"Hypertension delays viral clearance and exacerbates airway hyperinflammation in patients with COVID-19.","journal_title":"Nat Biotechnol","pub_year":"2021","authors":"Trump S, Lukassen S, Anker MS, Chua RL, Liebig J, Th\u00fcrmann L, Corman VM, Binder M, Loske J, Klasa C, Krieger T, Hennig BP, Messingschlager M, Pott F, Kazmierski J, Twardziok S, Albrecht JP, Eils J, Hadzibegovic S, Lena A, Heidecker B, B\u00fcrgel T, Steinfeldt J, Goffinet C, Kurth F, Witzenrath M, V\u00f6lker MT, M\u00fcller SD, Liebert UG, Ishaque N, Kaderali L, Sander LE, Drosten C, Laudi S, Eils R, Conrad C, Landmesser U, Lehmann I."}]},{"study_accession":"EGAS00001004481","study_title":"Single-cell analysis of airway samples identifies immune cell activation correlating with COVID-19 disease severity","datasets":[{"dataset_accession":"EGAD00001006339","dataset_title":"COVID-19 severity correlates with airway epithelium\u2013immune cell interactions identified by single-cell analysis"}],"publications":[{"study_accession":"EGAS00001004481","pubmed_id":"32591762","article_title":"COVID-19 severity correlates with airway epithelium-immune cell interactions identified by single-cell analysis.","journal_title":"Nat Biotechnol","pub_year":"2020","authors":"Chua RL, Lukassen S, Trump S, Hennig BP, Wendisch D, Pott F, Debnath O, Th\u00fcrmann L, Kurth F, V\u00f6lker MT, Kazmierski J, Timmermann B, Twardziok S, Schneider S, Machleidt F, M\u00fcller-Redetzky H, Maier M, Krannich A, Schmidt S, Balzer F, Liebig J, Loske J, Suttorp N, Eils J, Ishaque N, Liebert UG, von Kalle C, Hocke A, Witzenrath M, Goffinet C, Drosten C, Laudi S, Lehmann I, Conrad C, Sander LE, Eils R."},{"study_accession":"EGAS00001004481","pubmed_id":"33279954","article_title":"A review of COVID-19 biomarkers and drug targets: resources and tools.","journal_title":"Brief Bioinform","pub_year":"2021","authors":"Caruso FP, Scala G, Cerulo L, Ceccarelli M."},{"study_accession":"EGAS00001004481","pubmed_id":"34330889","article_title":"Multimodal single-cell omics analysis identifies epithelium-immune cell interactions and immune vulnerability associated with sex differences in COVID-19.","journal_title":"Signal Transduct Target Ther","pub_year":"2021","authors":"Hou Y, Zhou Y, Gack MU, Lathia JD, Kallianpur A, Mehra R, Chan TA, Jung JU, Jehi L, Eng C, Cheng F."}]},{"study_accession":"EGAS00001004419","study_title":"SARS\u2010CoV\u20102 receptor ACE2 and TMPRSS2 are primarily expressed in bronchial transient secretory cells","datasets":[{"dataset_accession":"EGAD00001006185","dataset_title":"ALI culture bronchial cells and alveolar lung surgical resection scRNA-Seq"}],"publications":[{"study_accession":"EGAS00001004419","pubmed_id":"32246845","article_title":"SARS-CoV-2 receptor ACE2 and TMPRSS2 are primarily expressed in bronchial transient secretory cells.","journal_title":"EMBO J","pub_year":"2020","authors":"Lukassen S, Chua RL, Trefzer T, Kahn NC, Schneider MA, Muley T, Winter H, Meister M, Veith C, Boots AW, Hennig BP, Kreuter M, Conrad C, Eils R."}]},{"study_accession":"EGAS00001004412","study_title":"Potent neutralizing antibodies against SARS-CoV-2","datasets":[{"dataset_accession":"EGAD00001006130","dataset_title":"Potent neutralizing antibodies against SARS-CoV-2"}],"publications":[{"study_accession":"EGAS00001004412","pubmed_id":"32425270","article_title":"Potent neutralizing antibodies against SARS-CoV-2 identified by high-throughput single-cell sequencing of convalescent patients' B cells.","journal_title":"Cell","pub_year":"2020","authors":"Cao Y, Su B, Guo X, Sun W, Deng Y, Bao L, Zhu Q, Zhang X, Zheng Y, Geng C, Chai X, He R, Li X, Lv Q, Zhu H, Deng W, Xu Y, Wang Y, Qiao L, Tan Y, Song L, Wang G, Du X, Gao N, Liu J, Xiao J, Su XD, Du Z, Feng Y, Qin C, Qin C, Jin R, Xie XS."},{"study_accession":"EGAS00001004412","pubmed_id":"33279954","article_title":"A review of COVID-19 biomarkers and drug targets: resources and tools.","journal_title":"Brief Bioinform","pub_year":"2021","authors":"Caruso FP, Scala G, Cerulo L, Ceccarelli M."},{"study_accession":"EGAS00001004412","pubmed_id":"34048576","article_title":"The COVID-19 Data Portal: accelerating SARS-CoV-2 and COVID-19 research through rapid open access data sharing.","journal_title":"Nucleic Acids Res","pub_year":"2021","authors":"Harrison PW, Lopez R, Rahman N, Allen SG, Aslam R, Buso N, Cummins C, Fathy Y, Felix E, Glont M, Jayathilaka S, Kadam S, Kumar M, Lauer KB, Malhotra G, Mosaku A, Edbali O, Park YM, Parton A, Pearce M, Estrada Pena JF, Rossetto J, Russell C, Selvakumar S, Sitj\u00e0 XP, Sokolov A, Thorne R, Ventouratou M, Walter P, Yordanova G, Zadissa A, Cochrane G, Blomberg N, Apweiler R."}]}]}
\ No newline at end of file
......@@ -53,7 +53,8 @@ other = "COVID-19 ISCIII's funded projects variables"
other = "Read more"
[publication]
other = "Publication"
one = "Publication"
other = "Publications"
[download_csv]
other = "Download as CSV"
......@@ -290,8 +291,12 @@ other="Study title"
other="Number of datasets"
["datasets"]
one="Dataset"
other="Datasets"
["pubmed_id"]
other="PubMed ID"
[collection_date]
other = "Collection date"
......
......@@ -82,42 +82,42 @@
</thead>
<tbody>
<tr>
<td>Eighth report</td>
<td>8th report</td>
<td><a href="https://www.veo-europe.eu/news/Nyhed?id={9F445038-C721-459F-9E90-CACF00FCC72E}" target="_blank">News</a></td>
<td><a href="https://www.veo-europe.eu/-/media/sites/veo-europe/library/veo-covid-19-variants-report-8-final.pdf?la=da&hash=ED6ECE05BFE6D0AD51B00EBB7E7A322F37BF8471">Download report</a></td>
</tr>
<tr>
<td>Seventh report</td>
<td>7th report</td>
<td><a href="https://www.veo-europe.eu/news/Nyhed?id={F636F235-DE3E-4BCC-8772-068017100945}" target="_blank">News</a></td>
<td><a href="https://www.veo-europe.eu/-/media/sites/veo-europe/library/veo-covid-19-variants-report-7-final.pdf?la=da&hash=9571234B1BA6CC166DC2B20C99A403E1C0156710">Download report</a></td>
</tr>
<tr>
<td>Sixth report</td>
<td>6th report</td>
<td><a href="https://www.veo-europe.eu/news/Nyhed?id={0AB6C30A-4CED-4F71-88D6-058998C2673E}" target="_blank">News</a></td>
<td><a href="https://www.veo-europe.eu/-/media/sites/veo-europe/library/veo-covid-19-variants-report-6-final.pdf?la=da&hash=38280825E8C0274822FC35DAD0B658939A13DB5A">Download report</a></td>
</tr>
<tr>
<td>Fifth report</td>
<td>5th report</td>
<td><a href="https://www.veo-europe.eu/news/Nyhed?id={B114E6E9-F4D4-4900-BDD4-2C2E546C0EA5}" target="_blank">News</a></td>
<td><a href="https://www.veo-europe.eu/-/media/sites/veo-europe/library/veo-covid-19-variants-report-5-final.pdf?la=da&hash=8A01A87944E2E4D4DC0665968DFB9AD5673E7BFA">Download report</a></td>
</tr>
<tr>
<td>Fourth report</td>
<td>4th report</td>
<td><a href="https://www.veo-europe.eu/news/Nyhed?id={F96C565D-D211-4BC3-A751-7330ED55CDB3}" target="_blank">News</a></td>
<td><a href="https://www.veo-europe.eu/-/media/sites/veo-europe/library/veo-covid-19-variants-report-4-final.pdf?la=da&hash=1120416E0F29FC5209AC1E4BAB027E766FC6D576">Download report</a></td>
</tr>
<tr>
<td>Third report</td>
<td>3rd report</td>
<td><a href="https://www.veo-europe.eu/news/Nyhed?id={E4321352-62C6-47A8-9977-EF88DA13A481}" target="_blank">News</a></td>
<td><a href="https://www.veo-europe.eu/-/media/sites/veo-europe/library/veo-covid-19-variants-report-3-final.pdf?la=da&hash=FB7DFC9E426B97A92EAFA516F85CFDF8D0B04B4A">Download report</a></td>
</tr>
<tr>
<td>Second report</td>
<td>2nd report</td>
<td><a href="https://www.veo-europe.eu/news/Nyhed?id={295B1E0E-FB34-4ADA-B8DB-17C125B12971}" target="_blank">News</a></td>
<td><a href="https://www.veo-europe.eu/-/media/sites/veo-europe/library/veo-covid-19-variants-report-2-final.pdf?la=da&hash=04C7DECB4B7713D44CE13CC31BCD7D1BBD68A391">Download report</a></td>
</tr>
<tr>
<td>First report</td>
<td>1st report</td>
<td><a href="https://www.veo-europe.eu/news/Nyhed?id={C8603A16-8104-475E-9E6B-985BCCB67136}" target="_blank">News</a></td>
<td><a href="https://www.veo-europe.eu/-/media/sites/veo-europe/library/veo-covid-19-variants-report-v02.pdf?la=da&hash=C20457CBD60493484B3E0F799DC2384FECE724F3">Download report</a></td>
</tr>
......
......@@ -30,31 +30,61 @@ These results are periodically manually retrieved from EGA.
<td class="col-md-10">
{{ .study_title }}
{{ if .datasets }}
<br/><a class="badge badge-primary dp-background-color--primary" data-toggle="collapse" href="#datasets{{ $index }}" role="button" aria-expanded="false" aria-controls="datasets{{ $index }}">
{{ len .datasets }} {{ i18n "datasets" }} <i class="bi bi-caret-down-fill"></i>
</a>
<div class="collapse" id="datasets{{ $index }}">
<div class="card card-body">
<table class="table table-hover table-sm">
<thead>
<th class="col-md-3">{{ i18n "accession_id" }}</th>
<th class="col-md-9">{{ i18n "title" }}</th>
</thead>
<tbody>
{{ range $ds := .datasets}}
<tr>
<td class="col-md-3">
<a href='{{print "https://ega-archive.org/datasets/" .dataset_accession}}'>{{ .dataset_accession }}</a>
</td>
<td class="col-md-9">
{{ .dataset_title }}
</td>
</tr>
{{ end }}
</tbody>
</table>
<br/>
<a class="badge badge-primary dp-background-color--primary" data-toggle="collapse" href="#datasets{{ $index }}" role="button" aria-expanded="false" aria-controls="datasets{{ $index }}">
{{ len .datasets }} {{ i18n "datasets" (len .datasets)}} <i class="bi bi-caret-down-fill"></i>
</a>
<div class="collapse" id="datasets{{ $index }}">
<div class="card card-body">
<table class="table table-hover table-sm">
<thead>
<th class="col-md-3">{{ i18n "accession_id" }}</th>
<th class="col-md-9">{{ i18n "title" }}</th>
</thead>
<tbody>
{{ range $ds := .datasets}}
<tr>
<td class="col-md-3">
<a href='{{print "https://ega-archive.org/datasets/" .dataset_accession}}'>{{ .dataset_accession }}</a>
</td>
<td class="col-md-9">
{{ .dataset_title }}
</td>
</tr>
{{ end }}
</tbody>
</table>
</div>
</div>
</div>
{{ if .publications}}
<a class="badge badge-success dp-background-color--success ml-3" data-toggle="collapse" href="#publications{{ $index }}" role="button" aria-expanded="false" aria-controls="publications{{ $index }}">
{{ len .publications }} {{ i18n "publication" (len .publications)}} <i class="bi bi-caret-down-fill"></i>
</a>
<div class="collapse" id="publications{{ $index }}">
<div class="card card-body">
<table class="table table-hover table-sm">
<thead>
<th class="col-md-3">{{ i18n "pubmed_id" }}</th>
<th class="col-md-9">{{ i18n "title" }}</th>
</thead>
<tbody>
{{ range $p := .publications}}
<tr>
<td class="col-md-3">
<a href='{{print "https://pubmed.ncbi.nlm.nih.gov/" .pubmed_id}}'>{{ .pubmed_id }}</a>
</td>
<td class="col-md-9">
{{ .article_title }}
</td>
</tr>
{{ end }}
</tbody>
</table>
</div>
</div>
{{ end }}
{{ end }}
</td>
</tr>
......
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