Christopher Mason, Ph.D.

Associate Professor of Physiology and Biophysics

  • Director, WorldQuant Initiative for Quantitative Prediction and WorldQuant Foundation Research Scholar
  • Associate Professor of Computational Genomics in Computational Biomedicinein the Institute for Computational Biomedicine
  • Associate Professor of Neuroscience, 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. Gochuico, BR, Ziegler, SG, Ten, NS, Balanda, NJ, Mason, CE, Zumbo, P et al.. A comprehensive, multidisciplinary, precision medicine approach to discover effective therapy for an undiagnosed, progressive, fibroinflammatory disease. Transl Res. 2019; :. doi: 10.1016/j.trsl.2019.08.008. PubMed PMID:31520587 .
  2. Tan, L, Lacko, LA, Zhou, T, Tomoiaga, D, Hurtado, R, Zhang, T et al.. Pre- and peri-implantation Zika virus infection impairs fetal development by targeting trophectoderm cells. Nat Commun. 2019;10 (1):4155. doi: 10.1038/s41467-019-12063-2. PubMed PMID:31519912 PubMed Central PMC6744420.
  3. Liu, H, Begik, O, Lucas, MC, Ramirez, JM, Mason, CE, Wiener, D et al.. Accurate detection of m6A RNA modifications in native RNA sequences. Nat Commun. 2019;10 (1):4079. doi: 10.1038/s41467-019-11713-9. PubMed PMID:31501426 PubMed Central PMC6734003.
  4. Sims, CA, Holena, D, Kim, P, Pascual, J, Smith, B, Martin, N et al.. Effect of Low-Dose Supplementation of Arginine Vasopressin on Need for Blood Product Transfusions in Patients With Trauma and Hemorrhagic Shock: A Randomized Clinical Trial. JAMA Surg. 2019; :. doi: 10.1001/jamasurg.2019.2884. PubMed PMID:31461138 PubMed Central PMC6714462.
  5. Ji, X, Tong, W, Ning, B, Mason, CE, Kreil, DP, Labaj, PP et al.. QuaPra: Efficient transcript assembly and quantification using quadratic programming with Apriori algorithm. Sci China Life Sci. 2019;62 (7):937-946. doi: 10.1007/s11427-018-9433-3. PubMed PMID:31124003 .
  6. Zhang, X, Alexander, N, Leonardi, I, Mason, C, Kirkman, LA, Deitsch, KW et al.. Rapid antigen diversification through mitotic recombination in the human malaria parasite Plasmodium falciparum. PLoS Biol. 2019;17 (5):e3000271. doi: 10.1371/journal.pbio.3000271. PubMed PMID:31083650 PubMed Central PMC6532940.
  7. Amann, RI, Baichoo, S, Blencowe, BJ, Bork, P, Borodovsky, M, Brooksbank, C et al.. Consent insufficient for data release-Response. Science. 2019;364 (6439):446. doi: 10.1126/science.aax7509. PubMed PMID:31048484 .
  8. Deng, Y, Zhu, Y, Wang, H, Khadka, VS, Hu, L, Ai, J et al.. Ratio-Based Method To Identify True Biomarkers by Normalizing Circulating ncRNA Sequencing and Quantitative PCR Data. Anal. Chem. 2019;91 (10):6746-6753. doi: 10.1021/acs.analchem.9b00821. PubMed PMID:31002238 .
  9. Garrett-Bakelman, FE, Darshi, M, Green, SJ, Gur, RC, Lin, L, Macias, BR et al.. The NASA Twins Study: A multidimensional analysis of a year-long human spaceflight. Science. 2019;364 (6436):. doi: 10.1126/science.aau8650. PubMed PMID:30975860 .
  10. McIntyre, ABR, Ounit, R, Afshinnekoo, E, Prill, RJ, Hénaff, E, Alexander, N et al.. Correction to: Comprehensive benchmarking and ensemble approaches for metagenomic classifiers. Genome Biol. 2019;20 (1):72. doi: 10.1186/s13059-019-1687-2. PubMed PMID:30953547 PubMed Central PMC6450011.
  11. Krusche, P, Trigg, L, Boutros, PC, Mason, CE, De La Vega, FM, Moore, BL et al.. Author Correction: Best practices for benchmarking germline small-variant calls in human genomes. Nat. Biotechnol. 2019;37 (5):567. doi: 10.1038/s41587-019-0108-0. PubMed PMID:30899106 .
  12. Goldman, SL, Hassan, C, Khunte, M, Soldatenko, A, Jong, Y, Afshinnekoo, E et al.. Epigenetic Modifications in Acute Myeloid Leukemia: Prognosis, Treatment, and Heterogeneity. Front Genet. 2019;10 :133. doi: 10.3389/fgene.2019.00133. PubMed PMID:30881380 PubMed Central PMC6405641.
  13. Goldman, SL, MacKay, M, Afshinnekoo, E, Melnick, AM, Wu, S, Mason, CE et al.. The Impact of Heterogeneity on Single-Cell Sequencing. Front Genet. 2019;10 :8. doi: 10.3389/fgene.2019.00008. PubMed PMID:30881372 PubMed Central PMC6405636.
  14. Krusche, P, Trigg, L, Boutros, PC, Mason, CE, De La Vega, FM, Moore, BL et al.. Best practices for benchmarking germline small-variant calls in human genomes. Nat. Biotechnol. 2019;37 (5):555-560. doi: 10.1038/s41587-019-0054-x. PubMed PMID:30858580 PubMed Central PMC6699627.
  15. Fresia, P, Antelo, V, Salazar, C, Giménez, M, D'Alessandro, B, Afshinnekoo, E et al.. Urban metagenomics uncover antibiotic resistance reservoirs in coastal beach and sewage waters. Microbiome. 2019;7 (1):35. doi: 10.1186/s40168-019-0648-z. PubMed PMID:30819245 PubMed Central PMC6396544.
  16. Jalal, PJ, King, BJ, Saeed, A, Adedeji, Y, Mason, CP, Ball, JK et al.. Elevated serum activity of MBL and ficolin-2 as biomarkers for progression to hepatocellular carcinoma in chronic HCV infection. Virology. 2019;530 :99-106. doi: 10.1016/j.virol.2019.02.002. PubMed PMID:30798068 .
  17. Agirre, X, Meydan, C, Jiang, Y, Garate, L, Doane, AS, Li, Z et al.. Long non-coding RNAs discriminate the stages and gene regulatory states of human humoral immune response. Nat Commun. 2019;10 (1):821. doi: 10.1038/s41467-019-08679-z. PubMed PMID:30778059 PubMed Central PMC6379396.
  18. Jalal, PJ, Urbanowicz, RA, Horncastle, E, Pathak, M, Goddard, C, Saeed, A et al.. Expression of human ficolin-2 in hepatocytes confers resistance to infection by diverse hepatotropic viruses. J. Med. Microbiol. 2019;68 (4):642-648. doi: 10.1099/jmm.0.000935. PubMed PMID:30747617 .
  19. McIntyre, ABR, Alexander, N, Grigorev, K, Bezdan, D, Sichtig, H, Chiu, CY et al.. Single-molecule sequencing detection of N6-methyladenine in microbial reference materials. Nat Commun. 2019;10 (1):579. doi: 10.1038/s41467-019-08289-9. PubMed PMID:30718479 PubMed Central PMC6362088.
  20. Amann, RI, Baichoo, S, Blencowe, BJ, Bork, P, Borodovsky, M, Brooksbank, C et al.. Toward unrestricted use of public genomic data. Science. 2019;363 (6425):350-352. doi: 10.1126/science.aaw1280. PubMed PMID:30679363 .
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