Aristotelis Tsirigos

Aristotelis Tsirigos, PhD

Professor, Department of Medicine

Professor, Department of Pathology

Keywords
computational biology, genomics, Hi-C data analysis, pediatric acute lymphoblastic leukemia, cancer, bioinformatics, molecular pathology
Summary

Our lab has extensive experience in Cancer Genomics and Epigenomics involving designing computational methods and pipelines, analyzing data and interpreting the results in different biological contexts (e.g. leukemia, stem cells). We have developed GenomicTools, a free open-source computational platform for designing high-throughput analytics in genomics (Tsirigos et al. Bioinformatics 2011), and HiC-bench, a computational platform for comprehensive and reproducible Hi-C data analysis designed for parameter exploration and benchmarking. Our work was pivotal in the molecular understanding of epigenetic changes in pediatric acute lymphoblastic leukemia (Ntziachristos*, Tsirigos* et al. Nature Medicine 2012; Ntziachristos*, Tsirigos* et al. Nature 2014) as well as the discovery of novel long non-coding RNAs as biomarkers and potential therapeutic targets (Trimarchi et al. Cell 2014).

Lab Website
Tsirigos Lab
Is this your profile?
Edit profile

Positions

Professor, Department of Medicine at NYU Grossman School of Medicine

Professor, Department of Pathology at NYU Grossman School of Medicine

Co- Director, Division of Precision Medicine

Director, Applied Bioinformatics Laboratories

Director, Clinical Informatics, Molecular Pathology Lab

Graduate Education

PhD from New York University

Integrated multi-omics approaches to precision medicine in kidney disease (iMAP-Kidney)

See All Studies (1)

Detection of Gene Fusions and Rearrangements in Formalin-Fixed, Paraffin-Embedded Solid Tumor Specimens Using High-Throughput Chromosome Conformation Capture

Galbraith, Kristyn; Wu, Jamin; Sikkink, Kristin; Mohamed, Hussein; Reid, Derek; Perez-Arreola, Michelle; Belton, Jon-Matthew; Nomikou, Sofia; Melnyk, Shadi; Yang, Yiying; Liechty, Benjamin L; Jour, George; Tsirigos, Aristotelis; Hermel, David J; Beck, Alyssa; Sigal, Darren; Dahl, Nathan A; Vibhakar, Rajeev; Schmitt, Anthony; Snuderl, Matija

The Journal of molecular diagnostics : JMD. 2025 May; 27(5):346-359

Native stem cell transcriptional circuits define cardinal features of high-risk leukemia

Wang, Qing; Boccalatte, Francesco; Xu, Jason; Gambi, Giovanni; Nadorp, Bettina; Akter, Fatema; Mullin, Carea; Melnick, Ashley F; Choe, Elizabeth; McCarter, Anna C; Jerome, Nicole A; Chen, Siyi; Lin, Karena; Khan, Sarah; Kodgule, Rohan; Sussman, Jonathan H; Pölönen, Petri; Rodriguez-Hernaez, Javier; Narang, Sonali; Avrampou, Kleopatra; King, Bryan; Tsirigos, Aristotelis; Ryan, Russell J H; Mullighan, Charles G; Teachey, David T; Tan, Kai; Aifantis, Iannis; Chiang, Mark Y

The Journal of experimental medicine. 2025 Apr 07; 222(4):

Binding domain mutations provide insight into CTCF's relationship with chromatin and its contribution to gene regulation

Do, Catherine; Jiang, Guimei; Cova, Giulia; Katsifis, Christos C; Narducci, Domenic N; Sakellaropoulos, Theodore; Vidal, Raphael; Lhoumaud, Priscillia; Tsirigos, Aristotelis; Regis, Faye Fara D; Kakabadze, Nata; Nora, Elphege P; Noyes, Marcus; Hansen, Anders S; Skok, Jane A

Cell genomics. 2025 Mar 18; 100813

Self-supervised learning reveals clinically relevant histomorphological patterns for therapeutic strategies in colon cancer

Liu, Bojing; Polack, Meaghan; Coudray, Nicolas; Claudio Quiros, Adalberto; Sakellaropoulos, Theodore; Le, Hortense; Karimkhan, Afreen; Crobach, Augustinus S L P; van Krieken, J Han J M; Yuan, Ke; Tollenaar, Rob A E M; Mesker, Wilma E; Tsirigos, Aristotelis

Nature communications. 2025 Mar 08; 16(1):2328

Characterization of tumour heterogeneity through segmentation-free representation learning on multiplexed imaging data

Tan, Jimin; Le, Hortense; Deng, Jiehui; Liu, Yingzhuo; Hao, Yuan; Hollenberg, Michelle; Liu, Wenke; Wang, Joshua M; Xia, Bo; Ramaswami, Sitharam; Mezzano, Valeria; Loomis, Cynthia; Murrell, Nina; Moreira, Andre L; Cho, Kyunghyun; Pass, Harvey I; Wong, Kwok-Kin; Ban, Yi; Neel, Benjamin G; Tsirigos, Aristotelis; Fenyö, David

Nature biomedical engineering. 2025 Mar; 9(3):405-419

A proinflammatory response and polarized differentiation of stromal elements characterizes the murine myeloma bone marrow niche

Ghamlouch, Hussein; Gagler, Dylan C; Blaney, Patrick; Boyle, Eileen M; Wang, Yubao; Avigan, Jason; Choi, Jinyoung; Landgren, Ola; Tsirigos, Aristotelis; Maura, Francesco; Morgan, Gareth J; Davies, Faith E

Experimental hematology & oncology. 2025 Feb 26; 14(1):22

Binding domain mutations provide insight into CTCF's relationship with chromatin and its contribution to gene regulation

Do, Catherine; Jiang, Guimei; Cova, Giulia; Katsifis, Christos C; Narducci, Domenic N; Sakellaropoulos, Theodore; Vidal, Raphael; Lhoumaud, Priscillia; Tsirigos, Aristotelis; Regis, Faye Fara D; Kakabadze, Nata; Nora, Elphege P; Noyes, Marcus; Hansen, Anders S; Skok, Jane A

bioRxiv : the preprint server for biology. 2025 Feb 18;

Self supervised artificial intelligence predicts poor outcome from primary cutaneous squamous cell carcinoma at diagnosis

Coudray, Nicolas; Juarez, Michelle C; Criscito, Maressa C; Quiros, Adalberto Claudio; Wilken, Reason; Jackson Cullison, Stephanie R; Stevenson, Mary L; Doudican, Nicole A; Yuan, Ke; Aquino, Jamie D; Klufas, Daniel M; North, Jeffrey P; Yu, Siegrid S; Murad, Fadi; Ruiz, Emily; Schmults, Chrysalyne D; Cardona Machado, Cristian D; Cañueto, Javier; Choudhary, Anirudh; Hughes, Alysia N; Stockard, Alyssa; Leibovit-Reiben, Zachary; Mangold, Aaron R; Tsirigos, Aristotelis; Carucci, John A

NPJ digital medicine. 2025 Feb 15; 8(1):105

See All Publications (212)

Read Story
Read Story
Read Story
Read Story
Read Story
Read Story
Read Story
Read Story
Read Story
Read Story
Read Story
Read Story