Christina Theodoris, MD, PhD
Biography
California Institute of Technology, Pasadena, CA | BS | 06/2009 | Biology |
University of California, San Francisco, San Francisco, CA | MD, PhD | 06/2017 | Developmental and Stem Cell Biology |
Boston Children's Hospital, Boston, MA | residency | 06/2022 | Pediatrics-Medical Genetics Residency |
Broad Institute of MIT and Harvard; Dept. of Data Science, Dana-Farber Cancer Institute, Boston, MA | postdoc | 09/2022 | Computational Biology |
Overview
Our lab leverages cutting-edge machine learning and experimental genomics to map the gene regulatory networks disrupted in cardiovascular disease and discover network-correcting therapeutics. We develop machine learning models that leverage the unprecedented volume of transcriptomic and epigenomic data now available to gain a fundamental understanding of network dynamics that can be democratized to a vast array of downstream applications. Investigating the consequences of network rewiring that occurs in disease states uncovers the key mechanisms that coordinate gene transcription to ensure normal development and tissue maintenance. Furthermore, mapping the network dysregulation driving disease allows targeting normalization of central elements to treat the core disease mechanism rather than merely managing symptoms. We apply an innovative network-based framework for therapeutic discovery to cardiovascular disease to accelerate development of much-needed treatments for patients as well as to advance our fundamental understanding of the regulatory circuitry governing human development and disease.
Bibliographic
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Learning the language of DNA. Science. 2024 Nov 15; 386(6723):729-730.
Theodoris CV. PMID: 39541478.
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Humans
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How to Build the Virtual Cell with Artificial Intelligence: Priorities and Opportunities. ArXiv. 2024 Oct 14.
Bunne C, Roohani Y, Rosen Y, Gupta A, Zhang X, Roed M, Alexandrov T, AlQuraishi M, Brennan P, Burkhardt DB, Califano A, Cool J, Dernburg AF, Ewing K, Fox EB, Haury M, Herr AE, Horvitz E, Hsu PD, Jain V, Johnson GR, Kalil T, Kelley DR, Kelley SO, Kreshuk A, Mitchison T, Otte S, Shendure J, Sofroniew NJ, Theis F, Theodoris CV, Upadhyayula S, Valer M, Wang B, Xing E, Yeung-Levy S, Zitnik M, Karaletsos T, Regev A, Lundberg E, Leskovec J, Quake SR. PMID: 39398201; PMCID: PMC11468656.
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Quantized multi-task learning for context-specific representations of gene network dynamics. bioRxiv. 2024 Aug 19.
Chen H, Venkatesh MS, Ortega JG, Mahesh SV, Nandi TN, Madduri RK, Pelka K, Theodoris CV. PMID: 39229018; PMCID: PMC11370383.
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Race, Ethnicity, and Ancestry in Clinical Pathways: A Framework for Evaluation. Pediatrics. 2023 Dec 01; 152(6).
Rosen RH, Epee-Bounya A, Curran D, Chung S, Hoffmann R, Lee LK, Marcus C, Mateo CM, Miller JE, Nereim C, Silberholz E, Shah SN, Theodoris CV, Wardell H, Winn AS, Toomey S, Finkelstein JA, Ward VL, Starmer A, BOSTON CHILDREN’S HOSPITAL RACE, ETHNICITY, AND ANCESTRY IN CLINICAL PATHWAYS WORKING GROUP. PMID: 37974460.
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Humans
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Interpretable model of CRISPR-Cas9 enzymatic reactions. Nat Comput Sci. 2023 Dec; 3(12):1011-1012.
Wen DJ, Theodoris CV. PMID: 38177728.
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Transfer learning enables predictions in network biology. Nature. 2023 Jun; 618(7965):616-624.
Theodoris CV, Xiao L, Chopra A, Chaffin MD, Al Sayed ZR, Hill MC, Mantineo H, Brydon EM, Zeng Z, Liu XS, Ellinor PT. PMID: 37258680; PMCID: PMC10949956.
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PubMed Mentions:
119 Fields:
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HumansCells
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MIRA: joint regulatory modeling of multimodal expression and chromatin accessibility in single cells. Nat Methods. 2022 09; 19(9):1097-1108.
Lynch AW, Theodoris CV, Long HW, Brown M, Liu XS, Meyer CA. PMID: 36068320; PMCID: PMC9517733.
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28 Fields:
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Cells
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Network-based screen in iPSC-derived cells reveals therapeutic candidate for heart valve disease. Science. 2021 02 12; 371(6530).
Theodoris CV, Zhou P, Liu L, Zhang Y, Nishino T, Huang Y, Kostina A, Ranade SS, Gifford CA, Uspenskiy V, Malashicheva A, Ding S, Srivastava D. PMID: 33303684; PMCID: PMC7880903.
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38 Fields:
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HumansAnimalsCells
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Long telomeres protect against age-dependent cardiac disease caused by NOTCH1 haploinsufficiency. J Clin Invest. 2017 May 01; 127(5):1683-1688.
Theodoris CV, Mourkioti F, Huang Y, Ranade SS, Liu L, Blau HM, Srivastava D. PMID: 28346225; PMCID: PMC5409071.
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23 Fields:
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HumansAnimalsCells
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The ACVR1 R206H mutation found in fibrodysplasia ossificans progressiva increases human induced pluripotent stem cell-derived endothelial cell formation and collagen production through BMP-mediated SMAD1/5/8 signaling. Stem Cell Res Ther. 2016 08 17; 7(1):115.
Barruet E, Morales BM, Lwin W, White MP, Theodoris CV, Kim H, Urrutia A, Wong SA, Srivastava D, Hsiao EC. PMID: 27530160; PMCID: PMC4988052.
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34 Fields:
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HumansCells
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NOTCH1 regulates matrix gla protein and calcification gene networks in human valve endothelium. J Mol Cell Cardiol. 2015 Jul; 84:13-23.
White MP, Theodoris CV, Liu L, Collins WJ, Blue KW, Lee JH, Meng X, Robbins RC, Ivey KN, Srivastava D. PMID: 25871831; PMCID: PMC4468000.
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30 Fields:
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HumansCells
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Human disease modeling reveals integrated transcriptional and epigenetic mechanisms of NOTCH1 haploinsufficiency. Cell. 2015 Mar 12; 160(6):1072-86.
Theodoris CV, Li M, White MP, Liu L, He D, Pollard KS, Bruneau BG, Srivastava D. PMID: 25768904; PMCID: PMC4359747.
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PubMed Mentions:
104 Fields:
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HumansCells
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A spatially dynamic cohort of regulatory genes in the endomesodermal gene network of the sea urchin embryo. Dev Biol. 2008 Jan 15; 313(2):863-75.
Smith J, Kraemer E, Liu H, Theodoris C, Davidson E. PMID: 18061160; PMCID: PMC3640430.
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24 Fields:
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AnimalsCells
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A gene regulatory network subcircuit drives a dynamic pattern of gene expression. Science. 2007 Nov 02; 318(5851):794-7.
Smith J, Theodoris C, Davidson EH. PMID: 17975065.
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65 Fields:
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Animals
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Year | Publications |
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2007 | 2 |
2015 | 2 |
2016 | 1 |
2017 | 1 |
2020 | 1 |
2022 | 1 |
2023 | 3 |
2024 | 3 |
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This graph shows the number and percent of publications by field.
Fields are based on how the National Library of Medicine (NLM) classifies the publications' journals and might not represent the specific topics of the publications.
Note that an individual publication can be assigned to more than one field. As a result, the publication counts in this graph might add up to more than the number of publications the person has written.
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