María Rodríguez Martínez, PhD, MSc
Associate Professor of Biomedical Informatics and Data ScienceCards
About
Research
Publications
2026
Cross-Cohort Optimal Transport Maps Macrophage Plasticity and Competing Routes to Inflammation and Fibrosis in Human Atherosclerotic Plaques
Vazquez Montes de Oca S, Acedo Terrades A, Carreño Martinez JF, Kirchner P, Örd T, Kaikkonen MU, Freigang S, Zlobec I, Rodríguez Martínez M. Cross-Cohort Optimal Transport Maps Macrophage Plasticity and Competing Routes to Inflammation and Fibrosis in Human Atherosclerotic Plaques. 2026 DOI: 10.64898/2026.05.15.725379.Peer-Reviewed Original ResearchIMMREP25: Unseen Peptides
Richardson E, Aarts YJM, Altin JA, Baakman CAB, Bradley P, Chen B, Clifford J, Dhar M, Diepenbroek D, Fast E, Gowthaman R, He J, Karnaukhov V, Marzella DF, Meysman P, Nielsen M, Nilsson JB, Deleuran SN, Parizi FM, Pelissier A, Pierce BG, Rodriguez Martinez M, Roran A R D, Saravanakumar S, Shao Y, Smit N, Van Houcke M, Visani GM, Wan YTR, Wang X, Woods L, Wuyts S, Xiao C, Xue LC, Barton J, Noakes M, May DH, Peters B, . IMMREP25: Unseen Peptides. 2026 DOI: 10.64898/2026.03.30.715276.Peer-Reviewed Original ResearchUnifying non-Markovian dynamics and agent heterogeneity in scalable stochastic networks
Pélissier A, Phan M, Le Bail D, Beerenwinkel N, Rodríguez Martínez M. Unifying non-Markovian dynamics and agent heterogeneity in scalable stochastic networks. Nature Communications 2026, 17: 3345. PMID: 41771859, PMCID: PMC13066373, DOI: 10.1038/s41467-026-69817-y.Peer-Reviewed Original ResearchThis study introduces MOSAIC, a computational framework that efficiently simulates complex systems with individual-level diversity and memory, enabling accurate modeling across biology, physics, and social networks.Pediatric acute myeloid leukemia tumor composition predicts patient outcomes at diagnosis and reveals mechanisms of resistance to chemotherapy.
NajafPanah MJ, Stevens AM, Krueger MJ, Rochette M, Sandhu S, Kim L, Addanki S, Cooper J, Chiu HS, Epps J, Somvanshi S, Zorman B, Martinez MR, Rapsomaniki M, Unger S, Becher B, Yi JS, Man TK, Redell ML, Sumazin P. Pediatric acute myeloid leukemia tumor composition predicts patient outcomes at diagnosis and reveals mechanisms of resistance to chemotherapy. Res Sq 2026 PMID: 41646346, DOI: 10.21203/rs.3.rs-4669225/v1.Peer-Reviewed Original ResearchBenchmarking generative scaffold design methods for peptide engineering in TCR–MHC complexes
Xie L, Dam GB, Patel Y, Denzler L, Shao Y, Wang R, Caron E, Yasumizu Y, Hafler DA, Rodríguez Martínez M. Benchmarking generative scaffold design methods for peptide engineering in TCR–MHC complexes. 2026 DOI: 10.64898/2026.01.22.701133.Peer-Reviewed Original Research
2025
Correction: Proteomic-based stratification of intermediate-risk prostate cancer patients
Zhong Q, Sun R, Aref A, Noor Z, Anees A, Zhu Y, Lucas N, Poulos R, Lyu M, Zhu T, Chen G, Wang Y, Ding X, Rutishauser D, Rupp N, Rueschoff J, Poyet C, Hermanns T, Fankhauser C, Martínez M, Shao W, Buljan M, Neumann J, Beyer A, Hains P, Reddel R, Robinson P, Aebersold R, Guo T, Wild P. Correction: Proteomic-based stratification of intermediate-risk prostate cancer patients. Life Science Alliance 2025, 9: e202503547. PMID: 41326175, PMCID: PMC12670120, DOI: 10.26508/lsa.202503547.Commentaries, Editorials and LettersSurvBoard: standardized benchmarking for multi-omics cancer survival models
Wissel D, Janakarajan N, Grover A, Toniato E, Martínez M, Boeva V. SurvBoard: standardized benchmarking for multi-omics cancer survival models. Briefings In Bioinformatics 2025, 26: bbaf521. PMID: 41031875, PMCID: PMC12486238, DOI: 10.1093/bib/bbaf521.Peer-Reviewed Original ResearchMulti-modal clustering reveals event-free patient subgroup in colorectal cancer survival
Janakarajan N, Larghero G, Rodríguez Martínez M. Multi-modal clustering reveals event-free patient subgroup in colorectal cancer survival. Npj Systems Biology And Applications 2025, 11: 86. PMID: 40753169, PMCID: PMC12318085, DOI: 10.1038/s41540-025-00557-3.Peer-Reviewed Original ResearchCorrigendum to “T-cell receptor binding prediction: A machine learning revolution” [ImmunoInformatics, Volume 15, September 2024, 100040]
Martínez M. Corrigendum to “T-cell receptor binding prediction: A machine learning revolution” [ImmunoInformatics, Volume 15, September 2024, 100040]. ImmunoInformatics 2025, 18: 100049. DOI: 10.1016/j.immuno.2025.100049.Commentaries, Editorials and LettersDissecting the role of CAR signaling architectures on T cell activation and persistence using pooled screens and single-cell sequencing
Castellanos-Rueda R, Wang K, Forster J, Driessen A, Frank J, Martínez M, Reddy S. Dissecting the role of CAR signaling architectures on T cell activation and persistence using pooled screens and single-cell sequencing. Science Advances 2025, 11: eadp4008. PMID: 39951542, PMCID: PMC11827634, DOI: 10.1126/sciadv.adp4008.Peer-Reviewed Original ResearchConceptsChimeric antigen receptorT-cell phenotypeT cell responsesT cell activationCAR T cell phenotypesCAR T-cell biologyModulate T cell responsesT cell persistenceCAR-T therapySingle-cell sequencingT cell functionT cell biologyCorrelated in vitroT therapyT cellsAntigen receptorClinical outcomesCD40 costimulationCancer treatmentPhenotypeSignaling domainMembrane-proximal domainCostimulationCD40Screening approach
News & Links
News
- May 20, 2026
Rodríguez Martínez Awarded R01 Grant to Study Autoreactive B Cells in Myasthenia Gravis
- April 29, 2026
Using AI Tools to Detect Misfolding Proteins Behind Neurological Disease and Diabetes
- October 15, 2025
Program Spotlight: New Human Genome Sciences PhD Track
- May 14, 2024
Rodríguez Martínez Brings AI and Cancer Therapy Research to Yale
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Contacts
Academic Office Number
Mailing Address
Primary Faculty
101 College Street, PO Box 208009
New Haven, CT 06520-8009
United States
Locations
Department of Biomedical Informatics & Data Science
Academic Office
101 College Street, Fl 10, Rm 1021R
New Haven, CT 06510