Christopher Mason, Ph.D.

Professor of Physiology and Biophysics

  • Director, WorldQuant Initiative for Quantitative Prediction and WorldQuant Foundation Research Scholar
  • Professor of Computational Genomics in Computational Biomedicine in the Institute for Computational Biomedicine
  • Professor of Neuroscience in the Brain and Mind Institute (secondary appointment)

646-962-5643

1305 York Avenue, Room Y-13.15
New York, NY 10021


Techniques

Research Areas


Research Summary:

We utilize computational and experimental methodologies to identify and characterize the essential genetic elements that guide the function of the human genome, with a particular emphasis on the elements that orchestrate the development of the human brain. Our lab creates detailed cell-specific molecular maps of genetic, epigenetic, transcriptional, and translational activity, creating a draft of the molecular recipe for the creation of the brain. We also develop methods to detect, catalog and functionally annotate variants in the genetic pathways that control developmental processes and how they are perturbed to create disease. We aim to understand of the functional elements of the human genome well enough to enable, eventually, the ability to repair, re-engineer, or fortify these genetic networks within human cells.

Recent Publications:

  1. Rapaport, F, Seier, K, Neelamraju, Y, Hassane, D, Baslan, T, Gildea, DT et al.. Integrative analysis identifies an older female-linked AML patient group with better risk in ECOG-ACRIN Cancer Research Group's clinical trial E3999. Blood Cancer J. 2022;12 (9):137. doi: 10.1038/s41408-022-00736-z. PubMed PMID:36151075 PubMed Central PMC9508258.
  2. McCloskey, D, Boza, J, Mason, CE, Erickson, D. MINI: A high-throughput point-of-care device for performing hundreds of nucleic acid tests per day. Biosens Bioelectron. 2022;216 :114654. doi: 10.1016/j.bios.2022.114654. PubMed PMID:36084523 .
  3. Park, J, Zhao, Y, Zhang, F, Zhang, S, Kwong, AC, Zhang, Y et al.. IL6/STAT3 axis dictates the PNPLA3-mediated susceptibility to non-alcoholic fatty liver disease. J Hepatol. 2022; :. doi: 10.1016/j.jhep.2022.08.022. PubMed PMID:36049612 .
  4. Madrigal, P, Singh, NK, Wood, JM, Gaudioso, E, Hernández-Del-Olmo, F, Mason, CE et al.. Machine learning algorithm to characterize antimicrobial resistance associated with the International Space Station surface microbiome. Microbiome. 2022;10 (1):134. doi: 10.1186/s40168-022-01332-w. PubMed PMID:35999570 PubMed Central PMC9400218.
  5. Peixoto, RS, Voolstra, CR, Sweet, M, Duarte, CM, Carvalho, S, Villela, H et al.. Harnessing the microbiome to prevent global biodiversity loss. Nat Microbiol. 2022; :. doi: 10.1038/s41564-022-01173-1. PubMed PMID:35864220 .
  6. Mzava, O, Cheng, AP, Chang, A, Smalling, S, Djomnang, LK, Lenz, JS et al.. A metagenomic DNA sequencing assay that is robust against environmental DNA contamination. Nat Commun. 2022;13 (1):4197. doi: 10.1038/s41467-022-31654-0. PubMed PMID:35864089 PubMed Central PMC9304412.
  7. Zhang, Y, Blomquist, TM, Kusko, R, Stetson, D, Zhang, Z, Yin, L et al.. Deep oncopanel sequencing reveals within block position-dependent quality degradation in FFPE processed samples. Genome Biol. 2022;23 (1):141. doi: 10.1186/s13059-022-02709-8. PubMed PMID:35768876 PubMed Central PMC9241261.
  8. Liu, MC, MacKay, M, Kase, M, Piwowarczyk, A, Lo, C, Schaeffer, J et al.. Longitudinal Shifts of Solid Tumor and Liquid Biopsy Sequencing Concordance in Metastatic Breast Cancer. JCO Precis Oncol. 2022;6 (1):e2100321. doi: 10.1200/PO.21.00321. PubMed PMID:35721584 PubMed Central PMC9200387.
  9. Hua, H, Meydan, C, Afshin, EE, Lili, LN, D'Adamo, CR, Rickard, N et al.. A Wipe-Based Stool Collection and Preservation Kit for Microbiome Community Profiling. Front Immunol. 2022;13 :889702. doi: 10.3389/fimmu.2022.889702. PubMed PMID:35711426 PubMed Central PMC9196042.
  10. Enguita, FJ, Leitão, AL, McDonald, JT, Zaksas, V, Das, S, Galeano, D et al.. The interplay between lncRNAs, RNA-binding proteins and viral genome during SARS-CoV-2 infection reveals strong connections with regulatory events involved in RNA metabolism and immune response. Theranostics. 2022;12 (8):3946-3962. doi: 10.7150/thno.73268. PubMed PMID:35664076 PubMed Central PMC9131284.
  11. Guerrero-Preston, R, Rivera-Amill, V, Caraballo, K, Rodríguez-Torres, S, Purcell-Wiltz, A, García, AA et al.. Precision health diagnostic and surveillance network uses S gene target failure (SGTF) combined with sequencing technologies to track emerging SARS-CoV-2 variants. Immun Inflamm Dis. 2022;10 (6):e634. doi: 10.1002/iid3.634. PubMed PMID:35634961 PubMed Central PMC9092005.
  12. Rius, FE, Papaiz, DD, Azevedo, HFZ, Ayub, ALP, Pessoa, DO, Oliveira, TF et al.. Genome-wide promoter methylation profiling in a cellular model of melanoma progression reveals markers of malignancy and metastasis that predict melanoma survival. Clin Epigenetics. 2022;14 (1):68. doi: 10.1186/s13148-022-01291-x. PubMed PMID:35606887 PubMed Central PMC9128240.
  13. Blachowicz, A, Mhatre, S, Singh, NK, Wood, JM, Parker, CW, Ly, C et al.. The Isolation and Characterization of Rare Mycobiome Associated With Spacecraft Assembly Cleanrooms. Front Microbiol. 2022;13 :777133. doi: 10.3389/fmicb.2022.777133. PubMed PMID:35558115 PubMed Central PMC9087587.
  14. Leung, W, Teater, M, Durmaz, C, Meydan, C, Chivu, AG, Chadburn, A et al.. SETD2 Haploinsufficiency Enhances Germinal Center-Associated AICDA Somatic Hypermutation to Drive B-cell Lymphomagenesis. Cancer Discov. 2022;12 (7):1782-1803. doi: 10.1158/2159-8290.CD-21-1514. PubMed PMID:35443279 PubMed Central PMC9262862.
  15. Knyazev, S, Chhugani, K, Sarwal, V, Ayyala, R, Singh, H, Karthikeyan, S et al.. Unlocking capacities of genomics for the COVID-19 response and future pandemics. Nat Methods. 2022;19 (4):374-380. doi: 10.1038/s41592-022-01444-z. PubMed PMID:35396471 PubMed Central PMC9467803.
  16. Solo-Gabriele, HM, Kumar, S, Abelson, S, Penso, J, Contreras, J, Babler, KM et al.. COVID-19 Prediction using Genomic Footprint of SARS-CoV-2 in Air, Surface Swab and Wastewater Samples. medRxiv. 2022; :. doi: 10.1101/2022.03.14.22272314. PubMed PMID:35313580 PubMed Central PMC8936103.
  17. Guarnieri, JW, Dybas, JM, Fazelinia, H, Kim, MS, Frere, J, Zhang, Y et al.. Targeted Down Regulation Of Core Mitochondrial Genes During SARS-CoV-2 Infection. bioRxiv. 2022; :. doi: 10.1101/2022.02.19.481089. PubMed PMID:35233572 PubMed Central PMC8887073.
  18. Park, J, Foox, J, Hether, T, Danko, DC, Warren, S, Kim, Y et al.. System-wide transcriptome damage and tissue identity loss in COVID-19 patients. Cell Rep Med. 2022;3 (2):100522. doi: 10.1016/j.xcrm.2022.100522. PubMed PMID:35233546 PubMed Central PMC8784611.
  19. Bijlani, S, Parker, C, Singh, NK, Sierra, MA, Foox, J, Wang, CCC et al.. Genomic Characterization of the Titan-like Cell Producing Naganishia tulchinskyi, the First Novel Eukaryote Isolated from the International Space Station. J Fungi (Basel). 2022;8 (2):. doi: 10.3390/jof8020165. PubMed PMID:35205919 PubMed Central PMC8875396.
  20. Choo, SW, Chong, JL, Gaubert, P, Hughes, AC, O'Brien, S, Chaber, AL et al.. A collective statement in support of saving pangolins. Sci Total Environ. 2022;824 :153666. doi: 10.1016/j.scitotenv.2022.153666. PubMed PMID:35176378 .
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