The study of complex traits in humans and model organisms has made considerable progress in recent years. Multi-dimensional high-resolution genomics data and immunological data allows to study complex biological networks, and the dynamics of cellular state and function at a resolution not possible before. The usage of these technologies require, however, highly specialized expertise in genomics, immunology, and computational biology. The primary goal of the Multiparametric Host Cell Analysis (MHC) Core is to provide members of the University of Chicago (UChicago) Digestive Diseases Research Core Center (DDRCC) for Interdisciplinary Study of Inflammatory Intestinal Disorders (C-IID) with such level of expertise, further promoting the usage of state-of-the-art genomic technologies in gastrointestinal research. Specifically, the MHC core will provide the community: (i) consulting service for human tissue isolation, analysis and cell sorting protocols adapted to the different forms of assays, (ii) consulting services and development of customized antibody panels for high resolution cellular tissue profiling of human samples using spectral flow cytometry, (iii) advanced flow cytometry sorting of 6 different populations of cells from a tissue sample based on the detection of 28 fluorescence marker using an advanced BD Biosciences sorter (FACSymphony S6 High Parameter Cell Sorter), (iv) advise with the study design of genomic experiments; (v) a series of pre-optimized genomic assays (e.g., single-cell RNA-seq, epigenetic profiles); (vi) standardized and validated analytical pipelines for the analyses of different genomic datasets, and (vii) bioinformatics support for genomic and flow cytometry data analysis. The standardization of experimental protocols and analytical pipelines offered by the core will help minimize the errors during data collection, management, maintenance, and, importantly, facilitate downstream data integration and sharing among C-IID members.

National Institute of Health (NIH)
National Institute of Diabetes and Digestive and Kidney Diseases (NIDDK)
Center Core Grants (P30)
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Special Emphasis Panel (ZDK1)
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University of Chicago
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Lu, Lei; Claud, Erika C (2018) Intrauterine Inflammation, Epigenetics, and Microbiome Influences on Preterm Infant Health. Curr Pathobiol Rep 6:15-21
Lu, Jing; Synowiec, Sylvia; Lu, Lei et al. (2018) Microbiota influence the development of the brain and behaviors in C57BL/6J mice. PLoS One 13:e0201829
Shiloh, Ruth; Gilad, Yuval; Ber, Yaara et al. (2018) Non-canonical activation of DAPK2 by AMPK constitutes a new pathway linking metabolic stress to autophagy. Nat Commun 9:1759
Wang, Haitao; Cheng, Minying; Dsouza, Melissa et al. (2018) Soil Bacterial Diversity Is Associated with Human Population Density in Urban Greenspaces. Environ Sci Technol 52:5115-5124
Khambu, Bilon; Huda, Nazmul; Chen, Xiaoyun et al. (2018) HMGB1 promotes ductular reaction and tumorigenesis in autophagy-deficient livers. J Clin Invest 128:2419-2435
Cason, Cori A; Dolan, Kyle T; Sharma, Gaurav et al. (2018) Plasma microbiome-modulated indole- and phenyl-derived metabolites associate with advanced atherosclerosis and postoperative outcomes. J Vasc Surg 68:1552-1562.e7
Christensen, B; Micic, D; Gibson, P R et al. (2018) Vedolizumab in patients with concurrent primary sclerosing cholangitis and inflammatory bowel disease does not improve liver biochemistry but is safe and effective for the bowel disease. Aliment Pharmacol Ther 47:753-762
Peñalver Bernabé, Beatriz; Cralle, Lauren; Gilbert, Jack A (2018) Systems biology of the human microbiome. Curr Opin Biotechnol 51:146-153
Amin, Ruhul; Asplin, John; Jung, Daniel et al. (2018) Reduced active transcellular intestinal oxalate secretion contributes to the pathogenesis of obesity-associated hyperoxaluria. Kidney Int 93:1098-1107
Miyoshi, Jun; Nobutani, Kentaro; Musch, Mark W et al. (2018) Time-, Sex-, and Dose-Dependent Alterations of the Gut Microbiota by Consumption of Dietary Daikenchuto (TU-100). Evid Based Complement Alternat Med 2018:7415975

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