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. Zhang, Z, Zhou, C, Li, X, Barnes, SD, Deng, S, Hoover, E et al.. Loss of CHD1 Promotes Heterogeneous Mechanisms of Resistance to AR-Targeted Therapy via Chromatin Dysregulation. Cancer Cell. 2020; :. doi: 10.1016/j.ccell.2020.03.001. PubMed PMID:32220301 .
  2. Tomoiaga, D, Aguiar-Pulido, V, Shrestha, S, Feinstein, P, Levy, SE, Mason, CE et al.. Single-cell sperm transcriptomes and variants from fathers of children with and without autism spectrum disorder. NPJ Genom Med. 2020;5 :14. doi: 10.1038/s41525-020-0117-4. PubMed PMID:32133155 PubMed Central PMC7035312.
  3. Klimenko, NS, Tyakht, AV, Toshchakov, SV, Shevchenko, MA, Korzhenkov, AA, Afshinnekoo, E et al.. Co-occurrence patterns of bacteria within microbiome of Moscow subway. Comput Struct Biotechnol J. 2020;18 :314-322. doi: 10.1016/j.csbj.2020.01.007. PubMed PMID:32071708 PubMed Central PMC7016200.
  4. Mische, SM, Fisher, NC, Meyn, SM, Church, KS, Hegstad-Davies, RL, Weis-Garcia, F et al.. A Review of the Scientific Rigor, Reproducibility, and Transparency Studies Conducted by the ABRF Research Groups. J Biomol Tech. 2020; :. doi: 10.7171/jbt.20-3101-003. PubMed PMID:31969795 PubMed Central PMC6959150.
  5. MacKay, M, Afshinnekoo, E, Rub, J, Hassan, C, Khunte, M, Baskaran, N et al.. The therapeutic landscape for cells engineered with chimeric antigen receptors. Nat. Biotechnol. 2020;38 (2):233-244. doi: 10.1038/s41587-019-0329-2. PubMed PMID:31907405 .
  6. Iosim, S, MacKay, M, Westover, C, Mason, CE. Translating current biomedical therapies for long duration, deep space missions. Precis Clin Med. 2019;2 (4):259-269. doi: 10.1093/pcmedi/pbz022. PubMed PMID:31886035 PubMed Central PMC6927098.
  7. Gokhale, NS, McIntyre, ABR, Mattocks, MD, Holley, CL, Lazear, HM, Mason, CE et al.. Altered m6A Modification of Specific Cellular Transcripts Affects Flaviviridae Infection. Mol. Cell. 2020;77 (3):542-555.e8. doi: 10.1016/j.molcel.2019.11.007. PubMed PMID:31810760 PubMed Central PMC7007864.
  8. Walker, JA, Jordan, VE, Storer, JM, Steely, CJ, Gonzalez-Quiroga, P, Beckstrom, TO et al.. Alu insertion polymorphisms shared by Papio baboons and Theropithecus gelada reveal an intertwined common ancestry. Mob DNA. 2019;10 :46. doi: 10.1186/s13100-019-0187-y. PubMed PMID:31788036 PubMed Central PMC6880559.
  9. 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. 2020;215 :31-40. doi: 10.1016/j.trsl.2019.08.008. PubMed PMID:31520587 PubMed Central PMC6939610.
  10. 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.
  11. 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.
  12. 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.
  13. 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 .
  14. 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.
  15. 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 .
  16. 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 PubMed Central PMC6884007.
  17. 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 .
  18. 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.
  19. 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 .
  20. 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.
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