Reka Z. Albert, PhD - Penn State Cancer Institute
Researcher Profile
Reka Z. Albert, PhD
Distinguished Professor, Physics
Center for Infectious Disease Dynamics
Center for Infectious Disease Dynamics
Scientific Program:Next-Generation Therapies
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
2023
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
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
2019
Deritei, D, Rozum, J, Ravasz Regan, E & Albert, R 2019, 'A feedback loop of conditionally stable circuits drives the cell cycle from checkpoint to checkpoint', Scientific reports, vol. 9, no. 1, 16430. https://doi.org/10.1038/s41598-019-52725-1
Yahyanejad, F, Albert, R & DasGupta, B 2019, 'A survey of some tensor analysis techniques for biological systems', Quantitative Biology, vol. 7, no. 4, pp. 266-277. https://doi.org/10.1007/s40484-019-0186-5
Rozum, JC & Albert, R 2019, 'CONTROLLING the CELL CYCLE RESTRICTION SWITCH ACROSS the INFORMATION GRADIENT', Advances in Complex Systems, vol. 22, no. 7-8, 1950020. https://doi.org/10.1142/S0219525919500206
Campbell, C & Albert, R 2019, 'Edgetic perturbations to eliminate fixed-point attractors in Boolean regulatory networks', Chaos, vol. 29, no. 2, 023130. https://doi.org/10.1063/1.5083060
Russo, L, Albert, R, Campbell, C & Shea, K 2019, 'Experimental species introduction shapes network interactions in a plant-pollinator community', Biological Invasions, vol. 21, no. 12, pp. 3505-3519. https://doi.org/10.1007/s10530-019-02064-z
Maheshwari, P, Du, H, Sheen, J, Assmann, SM & Albert, R 2019, 'Model-driven discovery of calcium-related protein-phosphatase inhibition in plant guard cell signaling', PLoS computational biology, vol. 15, no. 10, e1007429. https://doi.org/10.1371/journal.pcbi.1007429
Wooten, DJ, Groves, SM, Tyson, DR, Liu, Q, Lim, JS, Albert, R, Lopez, CF, Sage, J & Quaranta, V 2019, 'Systems-level network modeling of Small Cell Lung Cancer subtypes identifies master regulators and destabilizers', PLoS computational biology, vol. 15, no. 10, pp. e1007343. https://doi.org/10.1371/journal.pcbi.1007343
Gómez Tejeda Zañudo, J, Guinn, MT, Farquhar, K, Szenk, M, Steinway, SN, Balázsi, G & Albert, R 2019, 'Towards control of cellular decision-making networks in the epithelial-to-mesenchymal transition', Physical Biology, vol. 16, no. 3, 031002. https://doi.org/10.1088/1478-3975/aaffa1