Lyashenko E, Niepel M, Dixit PD, Lim SK, Sorger PK, Vitkup D. Receptor-based mechanism of relative sensing and cell memory in mammalian signaling networks. Elife. 2020 Jan 21;9. pii: e50342. doi: 10.7554/eLife.50342.

Dixit PD, Lyashenko E, Niepel M, Vitkup D. Maximum Entropy Framework for Predictive Inference of Cell Population Heterogeneity and Responses in Signaling Networks. Cell Syst. 2019 Dec 13. pii: S2405-4712(19)30430-2. doi: 10.1016/j.cels.2019.11.010. 

Ji BW, Sheth RU, Dixit PD, Huang Y, Kaufman A, Wang HH, Vitkup D. Quantifying spatiotemporal variability and noise in absolute microbiota abundances using replicate sampling. Nat Methods. 2019 Jul 15. doi: 10.1038/s41592-019-0467-y. 

Konaté MM, Plata G, Park J, Usmanova DR, Wang H, Vitkup D. Molecular function limits divergent protein evolution on planetary timescales. Elife. 2019 Sep 18;8. pii: e39705. doi: 10.7554/eLife.39705.

Lyashenko E,  Niepel M,  Dixit P,  Kyun Lim S,  Sorger P,  Vitkup D. Receptor-Based Mechanism of Relative Sensing in Mammalian Signaling Networks. bioRxiv 158774; 2017 Jul 02.

Dixit P,  Lyashenko E,  Niepel M,  Vitkup D. Maximum Entropy Framework For Inference Of Cell Population Heterogeneity In Signaling Networks. bioRxiv 137513; 2017 May 12.

Gilman SR, Chang J, Xu B, Bawa TS, Gogos JA, Karayiorgou M, Vitkup D. Diverse types of genetic variation converge on functional gene networks involved in schizophrenia. Nat Neurosci. 2012 Dec;15(12):1723-8.

Gilman SR, Iossifov I, Levy D, Ronemus M, Wigler M, Vitkup D. Rare de novo variants associated with autism implicate a large functional network of genes involved in formation and function of synapses. Neuron. 2011 Jun 9;70(5):898-907.

Hsiao TL, Revelles O, Chen L, Sauer U, Vitkup D. Automatic policing of biochemical annotations using genomic correlations. Nat Chem Biol. 2010 Jan;6(1):34-40.

de Hoon MJ, Eichenberger P, Vitjup D. Hierarchical evolution of the bacterial sporulation network. Curr Biol. 2010 Sep 14;20(17):R735-45.

Plata G, Hsiao TL, Olszewski K, Llinas M, Vitkup D. Reconstruction and flux balance analysis of the Plasmodium falciparum metabolic network. Mol Syst Biol. 2010 Sep 7;6:408.

Feldman I, Rzhetsky A, Vitkup D. Network properties of genes harboring inherited disease mutations. Proc Natl Acad Sci U S A. 2008 Mar 18;105(11):4323-8.