Enhancer landscape of lung neuroendocrine tumors reveals regulatory and developmental signatures with potential theranostic implications. Davis E*, Avniel-Polak S*, Abu-Kamel S, Antman I, Saadoun T, Brim C, Jumaa M, Maron Y, Maimon O, Bel-Ange A, Atlan K, Tzur T, Abu Akar F, Wald O, Izhar U, Hecht M, Grozinsky-Glasberg S, Drier Y. PNAS, 2024.
Accurate estimation of pathway activity in single cells for clustering and differential analysis. Davis D, Wizel A, Drier Y. Genome Research, 2024.
DNMT3B splicing dysregulation mediated by SMCHD1 loss contributes to DUX4 overexpression and FSHD pathogenesis. Engal E, Sharma A, Aviel U, Taqatqa N, Juster S, Jaffe-Herman S, Bentata M, Geminder O, Gershon A, Lewis R, Kay G, Hecht M, Epsztejn-Litman S, Gotkine M, Mouly V, Eiges R, Salton M, Drier Y. Science Advances, 2024.
SARS-CoV-2 infection perturbs enhancer mediated transcriptional regulation of key pathways. Yedidya Y, Davis D, Drier Y. PLoS Computational Biology, 2023.
Single-cell RNA sequencing identifies a paracrine interaction that may drive oncogenic notch signaling in human adenoid cystic carcinoma. Parikh AS*, Wizel A*, Davis D, Lefranc-Torres A, Rodarte-Rascon AI, Miller LE, Emerick KS, Varvares MA, Deschler DG, Faquin WC, Aster JC, Lin DT, Bernstein BE, Drier Y, Puram SV. Cell Reports, 2022.
Simultaneous Mapping of Enhancers and Enhancer Rearrangements with Paired-End H3K27ac ChIP-seq. Antman I*, Davis E*, Abu-Kamel S*, Hecht M, Drier Y. Methods in Molecular Biology, 2022.
Single cell RNA-seq reveals developmental plasticity with coexisting oncogenic and immune evasion programs in ETP-ALL. Anand P*, Guillaumet-Adkins A*, Dimitrova V*, Yun H*, Drier Y*, Sotudeh N, Rogers AJ, Ouseph MM, Nair M, Potdar S, Isenhart R, Kloeber JA, Vijaykumar T, Niu L, Vincent TL, Guo G, Frede J, Harris M, Place A, Silverman LB, Teachey DT, Lane AA, DeAngelo DJ, Aster JC, Bernstein B, Lohr J, Knoechel B. Blood, 2021.
Large-scale implementation of pooled RNA-extraction and RT-PCR for SARS-CoV-2 detection. Ben-Ami R*, Klochendler A*, Seidel M*, Sido T, Gurel-Gurevich O, Yassour M, Meshorer E, Benedek G, Fogel I, Oiknine-Djian E, Gertler A, Rotstein Z, Lavi B, Dor Y, Wolf DG, Salton M, Drier Y. Clinical Microbiology and Infection, 2020.
Enhancer and super-enhancer regulation and its disruption in cancer. Drier Y. Current Opinion in Systems Biology, 2020.
Altered chromosomal topology drives oncogenic programs in SDH-deficient GISTs. Flavahan WA*, Drier Y*, Johnstone SE, Hemming ML, Tarjan DR, Hegazi E, Shareef SJ, Javed NM, Raut CP, Eschle BK, Gokhale PC, Hornick JL, Sicinska ET, Demetri GD, Bernstein BE. Nature, 2019.
Enhancer signatures stratify and predict outcomes of non-functional pancreatic neuroendocrine tumors. Cejas P*, Drier Y*, Dreijerink KMA, Brosens LAA, Deshpande V, Epstein CB, Conemans EB, Morsink FHM, Graham MK, Valk GD, Vriens MR, Castillo CF, Ferrone CR, Adar T, Bowden M, Whitton HJ, Da Silva A, Font-Tello A, Long HW, Gaskell E, Shoresh N, Heaphy CM, Sicinska E, Kulke MH, Chung DC, Bernstein BE, Shivdasani RA. Nature Medicine, 2019.
Insulator dysfunction and oncogene activation in IDH mutant gliomas. Flavahan WA*, Drier Y*, Liau BB, Gillespie SM, Venteicher AS, Stemmer-Rachamimov AO, Suvà ML, Bernstein BE. Nature, 2016.
An oncogenic MYB feedback loop drives alternate cell fates in adenoid cystic carcinoma. Drier Y, Cotton MJ, Williamson KE, Gillespie SM, Ryan RJ, Kluk MJ, Carey CD, Rodig SJ, Sholl LM, Afrogheh AH, Faquin WC, Queimado L, Qi J, Wick MJ, El-Naggar AK, Bradner JE, Moskaluk CA, Aster JC, Knoechel B, Bernstein BE. Nature Genetics, 2016.
Detection of Enhancer-Associated Rearrangements Reveals Mechanisms of Oncogene Dysregulation in B-cell Lymphoma. Ryan RJ*, Drier Y*, Whitton H, Cotton MJ, Kaur J, Issner R, Gillespie S, Epstein CB, Nardi V, Sohani AR, Hochberg EP, Bernstein BE. Cancer Discovery, 2015.
Pathway-based personalized analysis of cancer. Drier Y, Sheffer M, Domany E. PNAS, 2013.
Somatic rearrangements across cancer reveal classes of samples with distinct patterns of DNA breakage and rearrangement-induced hypermutability. Drier Y, Lawrence MS, Carter SL, Stewart C, Gabriel SB, Lander ES, Meyerson M, Beroukhim R, Getz G. Genome Research, 2013.
Mutational heterogeneity in cancer and the search for new cancer-associated genes. Lawrence MS*, Stojanov P*, Polak P*, Kryukov GV, Cibulskis K, Sivachenko A, Carter SL, Stewart C, Mermel CH, Roberts SA, Kiezun A, Hammerman PS, McKenna A, Drier Y, Zou L, Ramos AH, Pugh TJ, Stransky N, Helman E, Kim J, Sougnez C, Ambrogio L, Nickerson E, Shefler E, Cortés ML, Auclair D, Saksena G, Voet D, Noble M, DiCara D, Lin P, Lichtenstein L, Heiman DI, Fennell T, Imielinski M, Hernandez B, Hodis E, Baca S, Dulak AM, Lohr J, Landau DA, Wu CJ, Melendez-Zajgla J, Hidalgo-Miranda A, Koren A, McCarroll SA, Mora J, Crompton B, Onofrio R, Parkin M, Winckler W, Ardlie K, Gabriel SB, Roberts CWM, Biegel JA, Stegmaier K, Bass AJ, Garraway LA, Meyerson M, Golub TR, Gordenin DA, Sunyaev S, Lander ES, Getz G. Nature, 2013.
The genomic complexity of primary human prostate cancer. Berger MF*, Lawrence MS*, Demichelis F*, Drier Y*, Cibulskis K, Sivachenko AY, Sboner A, Esgueva R, Pflueger D, Sougnez C, Onofrio R, Carter SL, Park K, Habegger L, Ambrogio L, Fennell T, Parkin M, Saksena G, Voet D, Ramos AH, Pugh TJ, Wilkinson J, Fisher S, Winckler W, Mahan S, Ardlie K, Baldwin J, Simons JW, Kitabayashi N, MacDonald TY, Kantoff PW, Chin L, Gabriel SB, Gerstein MB, Golub TR, Meyerson M, Tewari A, Lander ES, Getz G, Rubin MA, Garraway LA. Nature, 2011.
Do two machine-learning based prognostic signatures for breast cancer capture the same biological processes? Drier Y, Domany E, PLoS one, 2011.
Minors in lifts of graphs. Drier Y, Linial N, Random Structures & Algorithms, 2006.
* Co-first authors
