* Denotes equal contribution

Ketkar S*, Verdoni AM*, Smith AM*, Bangert CV, Leight ER, Chen DY, Brune MK, Helton NM, Hoock M, George DR, Fronick C, Fulton RS, Ramakrishnam SM, Chang GS, Petti AA, Spencer DH, Miller CA, Ley TJ. Remethylation of Dnmt3a-/- hematopoietic cells is associated with partial correction of gene dysregulation and reduced myeloid skewing. Proc. Natl. Acad. Sci. 2020; 117(6):3123-3134. PMCID: PMC7022185.

Petti AA*, Williams SR*, Miller CA, Fiddes IT, Srivatsan SN, Chen DY, Fronick CC, Fulton RS, Church DM, and Ley TJ. A general approach for detecting expressed mutations in AML cells using single cell RNA-sequencing. Nature Commun. 2019; 10(1):3660.1-3660.16.

Christopher MJ*, Petti AA*, Rettig MP*, Miller CA, Chendamarai E, Duncavage EJ, Klco JM, Helton NM, O’Laughlin M, Fronick, CC, Fulton RS, Wilson RK, Wartman LD, Welch JS, Heath SE, Baty JD, Payton JE, Graubert TA, Link DC, Walter MJ, Westervelt P, Ley TJ, and DiPersio, JF. Immune Escape of Relapsed AML Cells after Allogeneic Transplantation. New England Journal of Medicine 2018; 379(24):2330-2341.

Zhu L, Cheng G, Ye D, Nazeri A, Yue Y, Liu W, Wang X, Dunn GP, Petti AA, Leuthardt EC, Chen H. Focused Ultrasound-enabled Brain Tumor Liquid Biopsy. Sci Rep. 2018; 8(1):6553-6561.

Cole CB*, Russler-Germain DA*, Ketkar S*, Verdoni AM, Smith AM, Venezia C, Helton NM, Guo M, Klco JM, O’Laughlin S, Fronick C, Fulton R, Chang GS, Petti AA, Miller CA, and Ley TJ. Dnmt3A haploinsufficiency predisposes hematopoietic cells to myeloid malignancies. J. Clinical Investigation 2017; 127(10):3657-3674.

Welch JS, Petti AA, Ley TJ. Decitabine in TP53-Mutated AML. New Engl J Med. 2017; 376(8):797-798.

Zhang X, Kim S, Hundal J, Herndon JM, Li S, Petti AA, Soysal SD, Li L, McLellan MD, Hoog J, Primeau T, Myers N, Vickery TL, Sturmoski M, Hagemann IS, Miller CA, Ellis MJ, Mardis ER, Hansen T, Fleming TP, Goedegebuure SP, Gillanders WE. Breast Cancer Neoantigens Can Induce CD8+T-Cell Responses and Antitumor Immunity. Cancer Immunol Res. 2017; 5(7):516-523.

Duncavage EJ*, Uy GL*, Petti AA, Miller CA, Lee Y-S, Tandon B, Gao F, Fronick CC, O’Laughlin M, Fulton RS, Wilson RK, Jacoby MA, Cashen AF, Wartman LD, Walter MJ, Westervelt P, Link DC, DiPersio JF, Ley TJ, Welch JS. Mutational landscape and response is conserved in the peripheral blood of AML and MDS patients during decitabine therapy. Blood 2017; 129(10):1397-1401.

Welch JS*, Petti AA*, Miller CA, Fronick CC, O’Laughlin M, Fulton RS, Wilson RK, Baty JD, Duncavage EJ, Tandon B, Lee Y-S, Wartman LD, Uy GL, Ghobadi A, Tomasson MH, Pusic I, Romee R, Fehniger TA, Stockerl-Goldstein KE, Vij R, Oh ST, Abboud CN, Cashen AF, Schroeder MA, Jacoby MA, Heath SE, Luber K, Janke MR, Hantel A, Khan N, Sukhanova MJ, Knoebel RW, Stock W, Graubert TA, Walter MJ, Westervelt P, Link DC, DiPersio JF, and Ley TJ. TP53 and decitabine in acute myeloid leukemia and myelodysplastic syndromes. New England Journal of Medicine 2016; 375: 2023-36.

Li YI, van de Geijn B, Raj A, Knowles DA, Petti AA, Golan D, Gilad Y, Pritchard JK. RNA splicing is a primary link between genetic variation and disease. Science 2016; 352(6285): 600-4.

Hundal J, Carreno BM, Petti AA, Linette GP, Griffith OL, Mardis ER, Griffith M. pVAC-Seq: A genome-guided in silico approach to identifying tumor neoantigens. Genome Medicine 2016; 8:11.

Wong TN, Miller CA, Klco JM, Petti A, Demeter R, Helton NM, Li T, Fulton RS, Heath SE, Mardis ER, Westervelt P, DiPersio JF, Walter MJ, Welch JS, Graubert TA, Wilson RK, Ley TJ, Link DC. Rapid expansion of pre-existing non-leukemic hematopoietic clones frequently follows induction therapy for de novo AML. Blood 2015; 127(7): 893-7.

Klco JM*, Miller CA*, Griffith M, Petti A, Spencer DH, Ketkar-Kulkarni S, Wartman LD, Christopher M, Lamprecht TL, Helton NM, Duncavage EJ, Payton JE, Baty J, Heath SE, Griffith OL, Shen D, Hundal J, Chang GS, Fulton R, O’Laughlin M, Fronick C, Magrini V, Demeter RT, Larson DE, Kulkarni S, Ozenberger BA, Welch JS, Walter MJ, Graubert TA, Westervelt P, Radich JP, Link DC, Mardis ER, DiPersio JF, Wilson RK, Ley TJ. Association Between Mutation Clearance After Induction Therapy and Outcomes in Acute Myeloid Leukemia. JAMA 2015; 314(8): 811-22.

Carreno BM, Magrini V, Becker-Hapak M, Kaabinejadian S, Hundal J, Petti AA, Ly A, Lie WR, Hildebrand WH, Mardis ER, Linette G. A dendritic cell vaccine increases the breadth and diversity of melanoma neoantigen-specific T cells. Science 2015; 348 (6236): 803-8.

Stewart CR, Deery WJ, Egan ES, Myles B, Petti AA. The product of SPO1 gene 56 inhibits host cell division during infection of Bacillus subtilis by bacteriophage SPO1. Virology 2013; 447(1-2): 249-53.

Petti AA, McIsaac RS*, Ho-Shing O*, Bussemaker H, and Botstein D. Combinatorial Control of Diverse Metabolic and Physiological Functions by Transcriptional Regulators of the Yeast Sulfur Assimilation Pathway. Mol. Biol. Cell 2012; 23(15): 3008-24.

McIsaac RS, Petti AA, Bussemaker H, and Botstein D. Perturbation-based analysis and modeling of combinatorial regulation in the yeast sulfur assimilation pathway. Mol. Biol. Cell 2012; 23(15): 2993-3007.

McIsaac RS, Silverman SJ, McClean MN, Gibney PA, Macinskas J, Hickman MJ, Petti A, Botstein D. Fast-acting and nearly gratuitous induction of gene expression and protein depletion in Saccharomyces cerevisiae. Mol. Biol. Cell 2011; 22(22): 4447-59.

Hickman MJ*, Petti AA*, Ho-Shing O, Silverman SJ, McIsaac RS, Lee TA, Botstein D. Coordinated regulation of sulfur and phospholipid metabolism reflects the importance of methylation in the growth of yeast. Mol. Biol. Cell 2011; 22(21): 4192-204.

Petti AA, Crutchfield CA, Rabinowitz J, and Botstein D. Survival of starving yeast is correlated with oxidative stress response and nonrespiratory mitochondrial function. Proc. Natl. Acad. Sci. Plus. 2011; 108(45): E1089-98.

Silverman SJ, Petti AA*, Slavov N*, Parsons L, Briehof R, Thiberge SY, Zenklusen D, Gandhi SJ, Larson DR, Singer RH, Botstein D. Metabolic cycling in single yeast cells from unsynchronized steady-state populations limited on glucose or phosphate. Proc. Natl. Acad. Sci. 2010; 107(15): 6946-51.

Petti AA and Church GM. A network of transcriptionally coordinated functional modules in Saccharomyces cerevisiae. Genome Research 2005; 15(9): 1298-306.

Steffen M, Petti A, Aach J, D’haeseleer P, and Church G. Automated modelling of signal transduction networks. BMC Bioinformatics 2002; 3(1): 34-44.

Ceriani MF, Darlington TK, Staknis D, Mas P, Petti AA, Weitz CJ, Kay SA. Light-dependent sequestration of TIMELESS by CRYPTOCHROME. Science 1999; 285(5427): 553-6.