Leveraging -omics for asthma endotyping

被引:84
作者
Tyler, Scott R. [1 ]
Bunyavanich, Supinda [1 ,2 ]
机构
[1] Icahn Sch Med Mt Sinai, Dept Genet & Genom Sci, New York, NY 10029 USA
[2] Icahn Sch Med Mt Sinai, Dept Pediat, Div Allergy & Immunol, New York, NY 10029 USA
基金
美国国家卫生研究院;
关键词
Asthma; endotype; -ome; -omit; transcriptome; epigenome; microbiome; metabolome; proteome; multi-ome; phenotype; cluster; integrate; EPIGENOME-WIDE ASSOCIATION; VOLATILE ORGANIC-COMPOUNDS; GENE-EXPRESSION; ALLERGIC DISEASES; PHENOTYPES; CELLS; INFLAMMATION; METABOLOMICS; BIOMARKERS; SIGNATURE;
D O I
10.1016/j.jaci.2019.05.015
中图分类号
R392 [医学免疫学];
学科分类号
100102 ;
摘要
Asthma is a highly heterogeneous disease, often manifesting with wheeze, dyspnea, chest tightness, and cough as prominent symptoms. The eliciting factors, natural history, underlying molecular biology, and clinical management of asthma vary highly among affected subjects. Because of this variation, many efforts have gone into subtyping asthma. Endotypes are subtypes of disease based on distinct pathophysiologic mechanisms. Endotypes can be clinically useful because they organize our mechanistic understanding of heterogeneous diseases and can direct treatment toward modalities that are likely to be the most effective. Asthma endotyping can be shaped by clinical features, laboratory parameters, and/or-omics approaches. We discuss the application of -omics approaches, including transcriptomics, epigenomics, microbiomics, metabolomics, and proteomics, to asthma endotyping. -Omics approaches have provided supporting evidence for many existing endotyping paradigms and also suggested novel ways to conceptualize asthma endotypes. Although endotypes based on single -omics approaches are relatively common, their integrated multi-omics application to asthma endotyping has been more limited thus far. We discuss paths forward to integrate multi-omics with clinical features and laboratory parameters to achieve the goal of precise asthma endotypes.
引用
收藏
页码:13 / 24
页数:12
相关论文
共 68 条
[1]   Sputum gene expression signature of 6 biomarkers discriminates asthma inflammatory phenotypes [J].
Baines, Katherine J. ;
Simpson, Jodie L. ;
Wood, Lisa G. ;
Scott, Rodney J. ;
Fibbens, Naomi L. ;
Powell, Heather ;
Cowan, Douglas C. ;
Taylor, D. Robin ;
Cowan, Jan O. ;
Gibson, Peter G. .
JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY, 2014, 133 (04) :997-1007
[2]   Targeting cytokines to treat asthma and chronic obstructive pulmonary disease [J].
Barnes, Peter J. .
NATURE REVIEWS IMMUNOLOGY, 2018, 18 (07) :454-466
[3]   A Severe Asthma Disease Signature from Gene Expression Profiling of Peripheral Blood from U-BIOPRED Cohorts [J].
Bigler, Jeannette ;
Boedigheimer, Michael ;
Schofield, James P. R. ;
Skipp, Paul J. ;
Corfield, Julie ;
Rowe, Anthony ;
Sousa, Ana R. ;
Timour, Martin ;
Twehues, Lori ;
Hu, Xuguang ;
Roberts, Graham ;
Welcher, Andrew A. ;
Yu, Wen ;
Lefaudeux, Diane ;
De Meulder, Bertrand ;
Auffray, Charles ;
Chung, Kian F. ;
Adcock, Ian M. ;
Sterk, Peter J. ;
Djukanovic, Ratko .
AMERICAN JOURNAL OF RESPIRATORY AND CRITICAL CARE MEDICINE, 2017, 195 (10) :1311-1320
[4]   Identification and prospective stability of electronic nose (eNose)-derived inflammatory phenotypes in patients with severe asthma [J].
Brinkman, Paul ;
Wagener, Ariane H. ;
Hekking, Pieter-Paul ;
Bansal, Aruna T. ;
Maitland-van der Zee, Anke-Hilse ;
Wang, Yuanyue ;
Weda, Hans ;
Knobel, Hugo H. ;
Vink, Teunis J. ;
Rattray, Nicholas J. ;
D'Amico, Arnaldo ;
Pennazza, Giorgio ;
Santonico, Marco ;
Lefaudeux, Diane ;
De Meulder, Bertrand ;
Auffray, Charles ;
Bakke, Per S. ;
Caruso, Massimo ;
Chanez, Pascal ;
Chung, Kian F. ;
Corfield, Julie ;
Dahlen, Sven-Erik ;
Djukanovic, Ratko ;
Geiser, Thomas ;
Horvath, Ildiko ;
Krug, Nobert ;
Musial, Jacek ;
Sun, Kai ;
Riley, John H. ;
Shaw, Dominic E. ;
Sandstrom, Thomas ;
Sousa, Ana R. ;
Montuschi, Paolo ;
Fowler, Stephen J. ;
Sterk, Peter J. .
JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY, 2019, 143 (05) :1811-+
[5]   Systems biology of asthma and allergic diseases: A multiscale approach [J].
Bunyavanich, Supinda ;
Schadt, Eric E. .
JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY, 2015, 135 (01) :31-42
[6]   Biologics and biomarkers for asthma, urticaria, and nasal polyposis [J].
Casale, Thomas B. .
JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY, 2017, 139 (05) :1411-+
[7]   An epigenome-wide association study of total serum IgE in Hispanic children [J].
Chen, Wei ;
Wang, Ting ;
Pino-Yanes, Maria ;
Forno, Erick ;
Liang, Liming ;
Yan, Qi ;
Hu, Donglei ;
Weeks, Daniel E. ;
Baccarelli, Andrea ;
Acosta-Perez, Edna ;
Eng, Celeste ;
Han, Yueh-Ying ;
Boutaoui, Nadia ;
Laprise, Catherine ;
Davies, Gwyneth A. ;
Hopkin, Julian M. ;
Moffatt, Miriam F. ;
Cookson, William O. C. M. ;
Canino, Glorisa ;
Burchard, Esteban G. ;
Celedon, Juan C. .
JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY, 2017, 140 (02) :571-577
[8]   Omalizumab in children with uncontrolled allergic asthma: Review of clinical trial and real-world experience [J].
Chipps, Bradley E. ;
Lanier, Bob ;
Milgrom, Henry ;
Deschildre, Antoine ;
Hedlin, Gunilla ;
Szefler, Stanley J. ;
Kattan, Meyer ;
Kianifard, Farid ;
Ortiz, Benjamin ;
Haselkorn, Tmirah ;
Iqbal, Ahmar ;
Rosen, Karin ;
Trzaskoma, Benjamin ;
Busse, William W. .
JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY, 2017, 139 (05) :1431-1444
[9]   TH2 and TH17 inflammatory pathways are reciprocally regulated in asthma [J].
Choy, David F. ;
Hart, Kevin M. ;
Borthwick, Lee A. ;
Shikotra, Aarti ;
Nagarkar, Deepti R. ;
Siddiqui, Salman ;
Jia, Guiquan ;
Ohri, Chandra M. ;
Doran, Emma ;
Vannella, Kevin M. ;
Butler, Claire A. ;
Hargadon, Beverley ;
Sciurba, Joshua C. ;
Gieseck, Richard L. ;
Thompson, Robert W. ;
White, Sandra ;
Abbas, Alexander R. ;
Jackman, Janet ;
Wu, Lawren C. ;
Egen, Jackson G. ;
Heaney, Liam G. ;
Ramalingam, Thirumalai R. ;
Arron, Joseph R. ;
Wynn, Thomas A. ;
Bradding, Peter .
SCIENCE TRANSLATIONAL MEDICINE, 2015, 7 (301)
[10]   Airway microbial dysbiosis in asthmatic patients: A target for prevention and treatment? [J].
Chung, Kian Fan .
JOURNAL OF ALLERGY AND CLINICAL IMMUNOLOGY, 2017, 139 (04) :1071-1083