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Researcher Profile

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Reka Z. Albert, PhD

Reka Z. Albert, PhD

Distinguished Professor, Physics
Center for Infectious Disease Dynamics
Scientific Program:Next-Generation Therapies
RZA1@psu.edu

Research Interests

  • Signal Transduction
  • Genes
  • Proteins
  • Gene Regulatory Networks
  • Abscisic Acid
  • Neoplasms
  • T-Lymphocytes
  • Large Granular Lymphocytic Leukemia
  • Gene Expression
  • Theoretical Models
  • Systems Biology
  • Bacteria

Recent Publications

2024

Gan, X, Sengottaiyan, P, Park, KH, Assmann, SM & Albert, RZ 2024, 'A network-based modeling framework reveals the core signal transduction network underlying high carbon dioxide-induced stomatal closure in guard cells', PLoS biology, vol. 22, no. 5 May, e3002592. https://doi.org/10.1371/journal.pbio.3002592

2023

Li, R, Rozum, JC, Quail, MM, Qasim, MN, Sindi, SS, Nobile, CJ, Albert, R & Hernday, AD 2023, 'Inferring gene regulatory networks using transcriptional profiles as dynamical attractors', PLoS computational biology, vol. 19, no. 8 August, e1010991. https://doi.org/10.1371/journal.pcbi.1010991
Gan, X, Shu, Z, Wang, X, Yan, D, Li, J, Ofaim, S, Albert, R, Li, X, Liu, B, Zhou, X & Barabási, AL 2023, 'Network medicine framework reveals generic herb-symptom effectiveness of traditional Chinese medicine', Science Advances, vol. 9, no. 43, eadh0215. https://doi.org/10.1126/sciadv.adh0215
Fatemi Nasrollahi, FS, Campbell, C & Albert, R 2023, 'Predicting cascading extinctions and efficient restoration strategies in plant–pollinator networks via generalized positive feedback loops', Scientific reports, vol. 13, no. 1, 902. https://doi.org/10.1038/s41598-023-27525-3
Newby, E, Zañudo, JGT & Albert, R 2023, 'Structure-based approach to identify driver nodes in ensembles of biologically inspired Boolean networks', Physical Review Research, vol. 5, no. 3, 033009. https://doi.org/10.1103/PhysRevResearch.5.033009

2022

Maheshwari, P, Assmann, SM & Albert, R 2022, 'Inference of a Boolean Network From Causal Logic Implications', Frontiers in Genetics, vol. 13, 836856. https://doi.org/10.3389/fgene.2022.836856
Rozum, J & Albert, R 2022, 'Leveraging network structure in nonlinear control', NPJ systems biology and applications, vol. 8, no. 1, 36. https://doi.org/10.1038/s41540-022-00249-2
Rozum, JC, Deritei, D, Park, KH, Zañudo, JGT & Albert, R 2022, 'Pystablemotifs: Python library for attractor identification and control in Boolean networks', Bioinformatics, vol. 38, no. 5, pp. 1465-1466. https://doi.org/10.1093/bioinformatics/btab825
Newby, E, Tejeda Zanudo, JG & Albert, R 2022, 'Structure-based approach to identifying small sets of driver nodes in biological networks', Chaos, vol. 32, no. 6, 063102. https://doi.org/10.1063/5.0080843
Campbell, C, Russo, L, Albert, R, Buckling, A & Shea, K 2022, 'Whole community invasions and the integration of novel ecosystems', PLoS computational biology, vol. 18, no. 6, e1010151. https://doi.org/10.1371/journal.pcbi.1010151

2021

Zañudo, JGT, Mao, P, Alcon, C, Kowalski, K, Johnson, GN, Xu, G, Baselga, J, Scaltriti, M, Letai, A, Montero, J, Albert, R & Wagle, N 2021, 'Cell line-specific network models of er breast cancer identify potential pi3kainhibitor resistance mechanisms and drug combinations', Cancer Research, vol. 81, no. 17, pp. 4603-4617. https://doi.org/10.1158/0008-5472.CAN-21-1208
Mony, VK, Drangowska-Way, A, Albert, R, Harrison, E, Ghaddar, A, Horak, MK, Ke, W & O’Rourke, EJ 2021, 'Context-specific regulation of lysosomal lipolysis through network-level diverting of transcription factor interactions', Proceedings of the National Academy of Sciences of the United States of America, vol. 118, no. 41, e2104832118. https://doi.org/10.1073/pnas.2104832118
Wooten, DJ, Gebru, M, Wang, HG & Albert, R 2021, 'Data-driven math model of FLT3-ITD acute myeloid leukemia reveals potential therapeutic targets', Journal of Personalized Medicine, vol. 11, no. 3, 193. https://doi.org/10.3390/jpm11030193
Chatterjee, T, Albert, R, Thapliyal, S, Azarhooshang, N & DasGupta, B 2021, 'Detecting network anomalies using Forman–Ricci curvature and a case study for human brain networks', Scientific reports, vol. 11, no. 1, 8121. https://doi.org/10.1038/s41598-021-87587-z
Alcon, C, Zañudo, JGT, Albert, R, Wagle, N, Scaltriti, M, Letai, A, Samitier, J & Montero, J 2021, 'Er+ breast cancer strongly depends on mcl-1 and bcl-xl anti-apoptotic proteins', Cells, vol. 10, no. 7, 1659. https://doi.org/10.3390/cells10071659
Wooten, DJ, Zañudo, JGT, Murrugarra, D, Perry, AM, Dongari-Bagtzoglou, A, Laubenbacher, R, Nobile, CJ & Albert, R 2021, 'Mathematical modeling of the Candida albicans yeast to hyphal transition reveals novel control strategies', PLoS computational biology, vol. 17, no. 3, e1008690. https://doi.org/10.1371/journal.pcbi.1008690
Rozum, JC, Zañudo, JGT, Gan, X, Deritei, D & Albert, R 2021, 'Parity and time reversal elucidate both decision-making in empirical models and attractor scaling in critical Boolean networks', Science Advances, vol. 7, no. 29, eabf8124. https://doi.org/10.1126/sciadv.abf8124
Fatemi Nasrollahi, FS, Gómez Tejeda Zañudo, J, Campbell, C & Albert, R 2021, 'Relationships among generalized positive feedback loops determine possible community outcomes in plant-pollinator interaction networks', Physical Review E, vol. 104, no. 5, 054304. https://doi.org/10.1103/PhysRevE.104.054304
Wooten, DJ & Albert, R 2021, 'Synergy: A Python library for calculating, analyzing and visualizing drug combination synergy', Bioinformatics, vol. 37, no. 10, pp. 1473-1474. https://doi.org/10.1093/bioinformatics/btaa826

2020

Maheshwari, P, Assmann, SM & Albert, R 2020, 'A Guard Cell Abscisic Acid (ABA) Network Model That Captures the Stomatal Resting State', Frontiers in Physiology, vol. 11, 927. https://doi.org/10.3389/fphys.2020.00927
Yan, G, Arenas, A & Albert, R 2020, 'Introduction to the Special Section on Network Science in Biological and Bio-Inspired Systems', IEEE Transactions on Network Science and Engineering, vol. 7, no. 1, 9025278, pp. 409-410. https://doi.org/10.1109/TNSE.2019.2961198
Maheshwari, P & Albert, R 2020, 'Network model and analysis of the spread of Covid-19 with social distancing', Applied Network Science, vol. 5, no. 1, 100. https://doi.org/10.1007/s41109-020-00344-5