TP112. TP112 PROTEOMICS/GENOMICS/METABOLOMICS IN LUNG DISEASE最新文献

{"title":"Lung and Blood DNA Methylation in COPD and IPF Reveal Transcription Factor Perturbations","authors":"D. Morgan, J. Morrow, B. Hobbs, A. Ghosh, K. Krone, S. Li, E. Silverman, D. Demeo","doi":"10.1164/ajrccm-conference.2021.203.1_meetingabstracts.a4344","DOIUrl":"https://doi.org/10.1164/ajrccm-conference.2021.203.1_meetingabstracts.a4344","url":null,"abstract":"","PeriodicalId":413566,"journal":{"name":"TP112. TP112 PROTEOMICS/GENOMICS/METABOLOMICS IN LUNG DISEASE","volume":"60 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"1900-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"130561116","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Whole Exome Sequencing Reveals PRSS2 Mutation Influence the Prognosis of Sporadic Sarcoidosis Patients","authors":"Z. Qian, H. Huang, Z. Xu","doi":"10.1164/ajrccm-conference.2021.203.1_meetingabstracts.a4353","DOIUrl":"https://doi.org/10.1164/ajrccm-conference.2021.203.1_meetingabstracts.a4353","url":null,"abstract":"","PeriodicalId":413566,"journal":{"name":"TP112. TP112 PROTEOMICS/GENOMICS/METABOLOMICS IN LUNG DISEASE","volume":"29 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"1900-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"122708328","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Comparative scRNA-seq Analysis of Peripheral Blood Mononuclear Cells from Patients with COVID-19 and Idiopathic Pulmonary Fibrosis Demonstrates Dissimilar Cell Shifts and Gene Expression Profiles","authors":"A. Zhao, A. Unterman, J. Schupp, T. Adams, T. Sumida, C. Ryu, G. DeIuliis, X. Yan, D. Hafler, C. D. Dela Cruz, E. Herzog, N. Kaminski","doi":"10.1164/ajrccm-conference.2021.203.1_meetingabstracts.a4361","DOIUrl":"https://doi.org/10.1164/ajrccm-conference.2021.203.1_meetingabstracts.a4361","url":null,"abstract":"Rationale: Similar to other human coronaviruses like MERS and SARS, severe manifestations of COVID-19 are associated with acute lung injury and sustained pulmonary dysfunction. A recent single-cell study of lung tissue from severe COVID-19 and idiopathic pulmonary fibrosis (IPF) patients suggested these diseases share common pro-fibrotic molecular pathways. To determine whether similar changes can be detected in the blood, we compared single-cell RNA-seq profiles of peripheral blood mononuclear cells (PBMCs) from patients with IPF or COVID-19, using influenza and healthy individuals as controls. Methods: 25 IPF, 18 COVID-19, and 13 healthy control PBMC samples were sequenced in our lab using 10X Genomics 5' single-cell technology. This data was processed using CellRanger and integrated with publicly available datasets of Covid-19, influenza, and healthy PBMC samples, yielding ∼300,000 single cells. Severe COVID-19 patients were treated in the ICU and succumbed to the disease, while severe IPF had transplant-free survival of fewer than three years. Downstream analysis was performed with the R package Seurat. The Louvain clustering algorithm generated 28 distinct cell clusters. Wilcoxon rank-sum test was used to determine significant cell type proportion differences and differentially expressed genes (DEGs). Significantly enriched pathways were found using EnrichR and Gene Set Enrichment Analysis (GSEA). Results: We report significantly increased platelets as a proportion of total cells in patients with severe COVID-19 (p = 0.0047) and severe IPF (p = 0.05) compared to healthy patients. Stable IPF and severe COVID-19 shared similar cell proportions of platelets (p=0.15) and monocytes (p=0.42). Across most cell types, COVID-19 and influenza patients had gene expression changes consistent with type I interferon activation while IPF patients exhibited changes in ribosomal upregulation and pro-fibrotic pathways relative to healthy controls. Using a composite pro-fibrotic score of TGFB1 targets and effectors, hierarchical clustering markedly differentiates between IPF and controls versus COVID-19 and influenza, perhaps distinctly highlighting mechanisms of disease. Within monocytes, we did not observe a significant pro-fibrotic phenotype (SPP1, MMP9, CHI3L1, PLA2G7) in samples of patients with any disease;hierarchical clustering of these genes again segregated IPF and controls from COVID-19 and influenza. Conclusions: Pro-fibrotic gene expression patterns could not be seen in PBMCs from patients with acute severe COVID-19 infection. More studies are needed in distinct COVID-19 patient populations, such as those with prolonged respiratory failure or with sustained respiratory dysfunction after recovery.","PeriodicalId":413566,"journal":{"name":"TP112. TP112 PROTEOMICS/GENOMICS/METABOLOMICS IN LUNG DISEASE","volume":"140 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"1900-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"131465033","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Lung Proteomics Biomarkers Associated with COPD","authors":"Y.H. Zhang, M. Hoopmann, P. Castaldi, K. Simonsen, M. Midha, M. Cho, G. Criner, R. Bueno, J. Liu, R. Moritz, E. Silverman","doi":"10.1164/ajrccm-conference.2021.203.1_meetingabstracts.a4342","DOIUrl":"https://doi.org/10.1164/ajrccm-conference.2021.203.1_meetingabstracts.a4342","url":null,"abstract":"","PeriodicalId":413566,"journal":{"name":"TP112. TP112 PROTEOMICS/GENOMICS/METABOLOMICS IN LUNG DISEASE","volume":"11 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"1900-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"121835953","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Bridging the Envisia Genomic Classifier to the nCounter Platform: A Proof of Concept Study","authors":"H. Jiang, J. Qu, M. Wong, G. Fedorowicz, D. Pankratz, K. Lee, A. Sopory, J. Storhoff, S. Bhorade, J. Huang, P. Walsh, G. Kennedy","doi":"10.1164/ajrccm-conference.2021.203.1_meetingabstracts.a4352","DOIUrl":"https://doi.org/10.1164/ajrccm-conference.2021.203.1_meetingabstracts.a4352","url":null,"abstract":"","PeriodicalId":413566,"journal":{"name":"TP112. TP112 PROTEOMICS/GENOMICS/METABOLOMICS IN LUNG DISEASE","volume":"136 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"1900-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"122777010","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"A Multi-Omic Map of Human Adult Lungs at Single-Nucleus Resolution","authors":"T. Duong, B. Lake, D. Diep, D. Jacobsen, S. Gordon, R. Misra, C. Poole, H. Huyck, L. Rivier, G. Myers, X. Sun, G. Pryhuber, J. Hagood, K. Zhang","doi":"10.1164/ajrccm-conference.2021.203.1_meetingabstracts.a4360","DOIUrl":"https://doi.org/10.1164/ajrccm-conference.2021.203.1_meetingabstracts.a4360","url":null,"abstract":"","PeriodicalId":413566,"journal":{"name":"TP112. TP112 PROTEOMICS/GENOMICS/METABOLOMICS IN LUNG DISEASE","volume":"119 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"1900-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"126691369","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Single Cell RNA Velocity Analysis of Aberrant Basaloid Cells in Pulmonary Fibrosis Reveals Trajectory Towards an Alveolar Type I Like Cell State","authors":"J. Schupp, T. Adams, F. Ahangari, J. Mcdonough, G. DeIuliis, S. Poli, I. Rosas, X. Yan, N. Kaminski","doi":"10.1164/ajrccm-conference.2021.203.1_meetingabstracts.a4350","DOIUrl":"https://doi.org/10.1164/ajrccm-conference.2021.203.1_meetingabstracts.a4350","url":null,"abstract":"","PeriodicalId":413566,"journal":{"name":"TP112. TP112 PROTEOMICS/GENOMICS/METABOLOMICS IN LUNG DISEASE","volume":"11 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"1900-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"126975331","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Proteomics of Atelectatic and Endotoxemic Lung Confirms Previous Genomic Findings Involving Inflammation and Alveolar-Capillary Barrier Response","authors":"A. Rashid, C. Zeng, G.C. Motta Ribeiro, T. Hinoshita, M. Lessa, T. Libermann, S. Dillon, C. Kosour, T. Winkler, M. V. Vidal Melo","doi":"10.1164/ajrccm-conference.2021.203.1_meetingabstracts.a4333","DOIUrl":"https://doi.org/10.1164/ajrccm-conference.2021.203.1_meetingabstracts.a4333","url":null,"abstract":"","PeriodicalId":413566,"journal":{"name":"TP112. TP112 PROTEOMICS/GENOMICS/METABOLOMICS IN LUNG DISEASE","volume":"13 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"1900-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"128153245","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Characterizing Z-Driven Hepatic Heterogeneity and Metabolic Dysfunction in AATD Associated Liver Disease Using Patient Derived Syngeneic iPSCs","authors":"J. Kaserman, C. Villacorta-Martin, D. Kotton, A.A. Wilson","doi":"10.1164/ajrccm-conference.2021.203.1_meetingabstracts.a4359","DOIUrl":"https://doi.org/10.1164/ajrccm-conference.2021.203.1_meetingabstracts.a4359","url":null,"abstract":"","PeriodicalId":413566,"journal":{"name":"TP112. TP112 PROTEOMICS/GENOMICS/METABOLOMICS IN LUNG DISEASE","volume":"4 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"1900-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"128568452","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Epigenetic Alterations in Cigarette Smoke-Induced Endothelial Cell Senescence","authors":"S.-J. Kim, C. Hwangbo, P. Shan, Y. Zhang, L. Macadlo, J. Ou, P. R. Tata, E. Coutavas, P. Lee","doi":"10.1164/ajrccm-conference.2021.203.1_meetingabstracts.a4340","DOIUrl":"https://doi.org/10.1164/ajrccm-conference.2021.203.1_meetingabstracts.a4340","url":null,"abstract":"","PeriodicalId":413566,"journal":{"name":"TP112. TP112 PROTEOMICS/GENOMICS/METABOLOMICS IN LUNG DISEASE","volume":"1 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"1900-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"130931490","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}