Cappuccio A, Chawla D, Chen X, Rubenstein A, Cheng W, Mao W, Burke T, Tsalik E, Petzold E, Henao R, McClain M, Woods C, Chikina M, Troyanskaya O, Sealfon S, Kleinstein S, Zaslavsky E. Multi-objective optimization identifies a specific and interpretable COVID-19 host response signature. Cell Syst. 2022;13(12):989–1001.e8. PMID: 36549275

Meyer M, Wang Y, Edwards D, Smith G, Rubenstein A, Ramanathan P, Mire C, Pietzsch C, Chen X, Ge Y, Cheng W, Henry C, Woods A, Ma L, Stewart-Jones G, Bock K, Minai M, Nagata B, Periasamy S, Shi P-Y, Graham B, Moore I, Ramos I, Troyanskaya O, Zaslavsky E, Carfi A, Sealfon S, Bukreyev A. Attenuated activation of pulmonary immune cells in mRNA-1273-vaccinated hamsters after SARS-CoV-2 infection. J Clin Invest. 2021;131(20). PMCID: PMC8516449

Lindström N, Sealfon R, Chen X, Parvez R, Ransick A, Brandine G, Guo J, Hill B, Tran T, Kim A, Zhou J, Tadych A, Watters A, Wong A, Lovero E, Grubbs B, Thornton M, McMahon J, Smith A, Ruffins S, Armit C, Troyanskaya O, McMahon A. Spatial transcriptional mapping of the human nephrogenic program. Dev Cell. 2021;56(16):2381–2398.e6. PMCID: PMC8396064

Chen X, Zhou J, Zhang R, Wong A, Park C, Theesfeld C, Troyanskaya O. Tissue-specific enhancer functional networks for associating distal regulatory regions to disease. Cell Syst. 2021;12(4):353–362.e6. PMID: 33689683

Menon R, Otto E, Sealfon R, Nair V, Wong A, Theesfeld C, Chen X, Wang Y, Boppana A, Luo J, Yang Y, Kasson P, Schaub J, Berthier C, Eddy S, Lienczewski C, Godfrey B, Dagenais S, Sohaney R, Hartman J, Fermin D, Subramanian L, Looker H, Harder J, Mariani L, Hodgin J, Sexton J, Wobus C, Naik A, Nelson R, Troyanskaya O, Kretzler M. SARS-CoV-2 receptor networks in diabetic and COVID-19-associated kidney disease. Kidney Int. 2020;98(6):1502–1518. PMCID: PMC7543950

Menon R, Otto E, Sealfon R, Nair V, Wong A, Theesfeld C, Chen X, Wang Y, Boppanna A, Luo J, Yang Y, Kasson P, Schaub J, Berthier C, Eddy S, Lienczewski C, Godfrey B, Dagenais S, Sohaney R, Hartman J, Fermin D, Subramanian L, Looker H, Harder J, Mariani L, Hodgin J, Sexton J, Wobus C, Naik A, Nelson R, Troyanskaya O, Kretzler M. SARS-CoV-2 receptor networks in diabetic and COVID-19 associated kidney disease. medRxiv. 2020;. PMCID: PMC7241118