Raquel Ordonez Ciriza

Raquel Ordonez Ciriza, PhD

Institute for Systems Genetics

Research Assistant Professor, Department of Pathology

Keywords
Synthetic regulatory genomics, genome engineering, systems biology, sequencing technologies
Summary

All cells in your body contain the same genetic information, yet they specialize into different cell types through the selective activation of a subset of specific genes in your DNA. This precise regulation of gene activity is key to proper organ formation, tissue repair, and the body’s ability to adapt to changes. My research focuses on understanding how these genetic "switches"—known as regulatory DNA—work, and how alterations in their sequence can impact health, disease, and evolution.

To investigate this, I create synthetic versions of these regulatory DNA sequences, which range from hundreds of base pairs to over 200 kilobases in length. These synthetic sequences are then inserted into disease-relevant loci in mammalian genomes using advanced genome engineering techniques. We analyze the phenotypic effects of these modifications to explore how different regulatory elements interact and influence gene activity. This helps us understand how genetic changes in regulatory DNA contribute to common traits and diseases. Ultimately, my goal is to uncover the fundamental principles of gene regulation and explore ways to manipulate these processes for therapeutic purposes.

Academic office

435 East 30th Street, Science Building

8th floor, 823U

New York, NY 10016

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PhD from University of Navarra

Institute for Systems Genetics, NYU, Maurano Lab

Valcárcel, Luis V; San José-Enériz, Edurne; Ordoñez, Raquel; Apaolaza, Iñigo; Olaverri-Mendizabal, Danel; Barrena, Naroa; Valcárcel, Ana; Garate, Leire; San Miguel, Jesús; Pineda-Lucena, Antonio; Agirre, Xabier; Prósper, Felipe; Planes, Francisco J

Nature communications. 2024 Oct 11; 15(1):8685

Ordoñez, Raquel; Zhang, Weimin; Ellis, Gwen; Zhu, Yinan; Ashe, Hannah J; Ribeiro-Dos-Santos, André M; Brosh, Ran; Huang, Emily; Hogan, Megan S; Boeke, Jef D; Maurano, Matthew T

Molecular cell. 2024 May 16; 84(10):1842-1854.e7

Zhang, Weimin; Golynker, Ilona; Brosh, Ran; Fajardo, Alvaro; Zhu, Yinan; Wudzinska, Aleksandra M; Ordoñez, Raquel; Ribeiro-Dos-Santos, André M; Carrau, Lucia; Damani-Yokota, Payal; Yeung, Stephen T; Khairallah, Camille; Vela Gartner, Antonio; Chalhoub, Noor; Huang, Emily; Ashe, Hannah J; Khanna, Kamal M; Maurano, Matthew T; Kim, Sang Yong; tenOever, Benjamin R; Boeke, Jef D

Nature. 2023 Nov; 623(7986):423-431

Brosh, Ran; Coelho, Camila; Ribeiro-Dos-Santos, André M; Ellis, Gwen; Hogan, Megan S; Ashe, Hannah J; Somogyi, Nicolette; Ordoñez, Raquel; Luther, Raven D; Huang, Emily; Boeke, Jef D; Maurano, Matthew T

Molecular cell. 2023 Apr 06; 83(7):1140-1152.e7

Larrayoz, Marta; Garcia-Barchino, Maria J; Celay, Jon; Etxebeste, Amaia; Jimenez, Maddalen; Perez, Cristina; Ordoñez, Raquel; Cobaleda, Cesar; Botta, Cirino; Fresquet, Vicente; Roa, Sergio; Goicoechea, Ibai; Maia, Catarina; Lasaga, Miren; Chesi, Marta; Bergsagel, P Leif; Larrayoz, Maria J; Calasanz, Maria J; Campos-Sanchez, Elena; Martinez-Cano, Jorge; Panizo, Carlos; Rodriguez-Otero, Paula; Vicent, Silvestre; Roncador, Giovanna; Gonzalez, Patricia; Takahashi, Satoru; Katz, Samuel G; Walensky, Loren D; Ruppert, Shannon M; Lasater, Elisabeth A; Amann, Maria; Lozano, Teresa; Llopiz, Diana; Sarobe, Pablo; Lasarte, Juan J; Planell, Nuria; Gomez-Cabrero, David; Kudryashova, Olga; Kurilovich, Anna; Revuelta, Maria V; Cerchietti, Leandro; Agirre, Xabier; San Miguel, Jesus; Paiva, Bruno; Prosper, Felipe; Martinez-Climent, Jose A

Nature medicine. 2023 Mar; 29(3):632-645

Maurano, Matthew T; Ramaswami, Sitharam; Zappile, Paul; Dimartino, Dacia; Boytard, Ludovic; Ribeiro-Dos-Santos, André M; Vulpescu, Nicholas A; Westby, Gael; Shen, Guomiao; Feng, Xiaojun; Hogan, Megan S; Ragonnet-Cronin, Manon; Geidelberg, Lily; Marier, Christian; Meyn, Peter; Zhang, Yutong; Cadley, John A; Ordoñez, Raquel; Luther, Raven; Huang, Emily; Guzman, Emily; Arguelles-Grande, Carolina; Argyropoulos, Kimon V; Black, Margaret; Serrano, Antonio; Call, Melissa E; Kim, Min Jae; Belovarac, Brendan; Gindin, Tatyana; Lytle, Andrew; Pinnell, Jared; Vougiouklakis, Theodore; Chen, John; Lin, Lawrence H; Rapkiewicz, Amy; Raabe, Vanessa; Samanovic, Marie I; Jour, George; Osman, Iman; Aguero-Rosenfeld, Maria; Mulligan, Mark J; Volz, Erik M; Cotzia, Paolo; Snuderl, Matija; Heguy, Adriana

Genome research. 2020 Dec; 30:1781-1788

Ordoñez, Raquel; Kulis, Marta; Russiñol, Nuria; Chapaprieta, Vicente; Carrasco-Leon, Arantxa; García-Torre, Beatriz; Charalampopoulou, Stella; Clot, Guillem; Beekman, Renée; Meydan, Cem; Duran-Ferrer, Martí; Verdaguer-Dot, Núria; Vilarrasa-Blasi, Roser; Soler-Vila, Paula; Garate, Leire; Miranda, Estíbaliz; San José-Enériz, Edurne; Rodriguez-Madoz, Juan R; Ezponda, Teresa; Martínez-Turrilas, Rebeca; Vilas-Zornoza, Amaia; Lara-Astiaso, David; Dupéré-Richer, Daphné; Martens, Joost H A; El-Omri, Halima; Taha, Ruba Y; Calasanz, Maria J; Paiva, Bruno; San Miguel, Jesus; Flicek, Paul; Gut, Ivo; Melnick, Ari; Mitsiades, Constantine S; Licht, Jonathan D; Campo, Elias; Stunnenberg, Hendrik G; Agirre, Xabier; Prosper, Felipe; Martin-Subero, Jose I

Genome research. 2020 Sep; 30(9):1217-1227