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Dan Levy

Dan Levy

Associate Professor
Cancer Center Member

Ph.D., University of California, Berkeley 2005

[email protected] | 516-367-5039

We have recently come to appreciate that many unrelated diseases, such as autism, congenital heart disease and cancer, are derived from rare and unique mutations, many of which are not inherited but instead occur spontaneously. I am generating algorithms to analyze massive datasets comprising thousands of affected families to identify disease-causing mutations.

There is increasing evidence that rare and unique mutations have a significant role in the etiology of many diseases such as autism, congenital heart disease, and cancer. Dan Levy鈥檚 group develops algorithms to identify these mutations from large, high-throughput data sets comprising thousands of nuclear families. After earlier working with high-resolution CGH arrays, Levy鈥檚 group now uses targeted sequence data. Levy has developed methods for identifying de novo mutations (i.e., those seen in a child but not in his or her parents) by simultaneously genotyping the entire family; the team is currently focused on building algorithms to detect copy-number variants and multiscale genomic rearrangements. Although their copy-number methods are based on 鈥渞ead鈥 density, there are classes of mutations that require analysis at the level of the read. Thus, they are developing algorithms to identify insertions, deletions, inversions, transpositions, and other complex events. Other projects in the Levy lab include analysis of single-cell RNA, phylogenetic reconstruction from sparse data sets, and disentangling haplotypes from sperm and subgenomic sequence data.

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All Publications

27 Sep 2025 | Genome Biology | 26(1):314
Li, Siran;  Alexander, Joan;  Kendall, Jude;  Andrews, Peter;  Rose, Elizabeth;  Orjuela, Hope;  Park, Sarah;  Podszus, Craig;  Shanley, Liam;  Ranade, Nissim;  Morris, Patrick;  Stauder, Danielle;  Bradford, Daniel;  Laster, Zachary;  Ronemus, Michael;  Rishi, Arvind;  Frimer, Marina;  Ma, Rong;  Donoho, David;  Goldberg, Gary;  Wigler, Michael;  Levy, Dan;  

14 Jun 2023 | Cell Genomics | 3(6):100319
Wroten, Mathew;  Yoon, Seungtai;  Andrews, Peter;  Yamrom, Boris;  Ronemus, Michael;  Buja, Andreas;  Krieger, Abba;  Levy, Dan;  Ye, Kenny;  Wigler, Michael;  Iossifov, Ivan;  

1 Jan 2023 | Advanced Materials Technologies
Lammertse, E;  Li, S;  Kendall, J;  Kim, C;  Morris, P;  Ranade, N;  Levy, D;  Wigler, M;  Brouzes, E;  

12 Sep 2022 | Nucleic Acids Research (NAR) | :gkac723
Wang, Zihua;  Moffitt, Andrea;  Andrews, Peter;  Wigler, Michael;  Levy, Dan;  

13 Jul 2022 | Nucleic Acids Research (NAR)
Li, Siran;  Park, Sarah;  Ye, Catherine;  Danyko, Cassidy;  Wroten, Matthew;  Andrews, Peter;  Wigler, Michael;  Levy, Dan;  

1 Sep 2021 | Communications Biology | 4(1):1026
Yoon, Seungtai;  Munoz, Adriana;  Yamrom, Boris;  Lee, Yoon-Ha;  Andrews, Peter;  Marks, Steven;  Wang, Zihua;  Reeves, Catherine;  Winterkorn, Lara;  Krieger, Abba;  Buja, Andreas;  Pradhan, Kith;  Ronemus, Michael;  Baldwin, Kristin;  Levy, Dan;  Wigler, Michael;  Iossifov, Ivan;  

24 Feb 2020 | Developmental Cell | 52(4):413-428
Vasudevan, A;  Baruah, P;  Smith, J;  Wang, Z;  Sayles, N;  Andrews, P;  Kendall, J;  Leu, J;  Chunduri, N;  Levy, D;  Wigler, M;  Storchova, Z;  Sheltzer, J;  

21 Feb 2020 | Nucleic Acids Research (NAR) | 48(7):e40
Moffitt, A;  Spector, M;  Andrews, P;  Kendall, J;  Alexander, J;  Stepansky, A;  Ma, B;  Kolitz, J;  Chiorazzi, N;  Allen, S;  Krasnitz, A;  Wigler, M;  Levy, D;  Wang, Z;  

14 Nov 2019 | Genome Research | 30(1):49-61
Li, S;  Kendall, J;  Park, S;  Wang, Z;  Alexander, J;  Moffitt, A;  Ranade, N;  Danyko, C;  Gegenhuber, B;  Fischer, S;  Robinson, B;  Lepor, H;  Tollkuhn, J;  Gillis, J;  Brouzes, E;  Krasnitz, A;  Levy, D;  Wigler, M;  

25 Jan 2018 | Nucleic Acids Research (NAR) | 46(2):e10
Kumar, V;  Rosenbaum, J;  Wang, Z;  Forcier, T;  Ronemus, M;  Wigler, M;  Levy, D;