If you made any changes in Pure these will be visible here soon.

Research Output

2020

Introduction to the Special Section on Network Science in Biological and Bio-Inspired Systems

Yan, G., Arenas, A. & Albert, R., Jan 1 2020, In : IEEE Transactions on Network Science and Engineering. 7, 1, p. 409-410 2 p., 9025278.

Research output: Contribution to journalEditorial

2019

A feedback loop of conditionally stable circuits drives the cell cycle from checkpoint to checkpoint

Deritei, D., Rozum, J., Ravasz Regan, E. & Albert, R., Dec 1 2019, In : Scientific reports. 9, 1, 16430.

Research output: Contribution to journalArticle

Open Access

A survey of some tensor analysis techniques for biological systems

Yahyanejad, F., Albert, R. & DasGupta, B., Dec 1 2019, In : Quantitative Biology. 7, 4, p. 266-277 12 p.

Research output: Contribution to journalReview article

Open Access

CONTROLLING the CELL CYCLE RESTRICTION SWITCH ACROSS the INFORMATION GRADIENT

Rozum, J. C. & Albert, R., Nov 1 2019, In : Advances in Complex Systems. 22, 7-8, 1950020.

Research output: Contribution to journalArticle

1 Scopus citations

Edgetic perturbations to eliminate fixed-point attractors in Boolean regulatory networks

Campbell, C. & Albert, R., Feb 1 2019, In : Chaos. 29, 2, 023130.

Research output: Contribution to journalArticle

1 Scopus citations

Experimental species introduction shapes network interactions in a plant-pollinator community

Russo, L., Albert, R., Campbell, C. & Shea, K., Dec 1 2019, In : Biological Invasions. 21, 12, p. 3505-3519 15 p.

Research output: Contribution to journalArticle

1 Scopus citations

Model-driven discovery of calcium-related protein-phosphatase inhibition in plant guard cell signaling

Maheshwari, P., Du, H., Sheen, J., Assmann, S. M. & Albert, R., Jan 1 2019, In : PLoS computational biology. 15, 10, e1007429.

Research output: Contribution to journalArticle

Open Access

Systems-level network modeling of Small Cell Lung Cancer subtypes identifies master regulators and destabilizers

Wooten, D. J., Groves, S. M., Tyson, D. R., Liu, Q., Lim, J. S., Albert, R., Lopez, C. F., Sage, J. & Quaranta, V., Oct 1 2019, In : PLoS computational biology. 15, 10, p. e1007343

Research output: Contribution to journalArticle

Open Access
2 Scopus citations

Towards control of cellular decision-making networks in the epithelial-to-mesenchymal transition

Gómez Tejeda Zañudo, J., Guinn, M. T., Farquhar, K., Szenk, M., Steinway, S. N., Balázsi, G. & Albert, R., Mar 7 2019, In : Physical Biology. 16, 3, 031002.

Research output: Contribution to journalArticle

6 Scopus citations
2018

Discrete dynamic network modeling of oncogenic signaling: Mechanistic insights for personalized treatment of cancer

G.T. Zañudo, J., Steinway, S. N. & Albert, R., Jun 2018, In : Current Opinion in Systems Biology. 9, p. 1-10 10 p.

Research output: Contribution to journalReview article

14 Scopus citations

General method to find the attractors of discrete dynamic models of biological systems

Gan, X. & Albert, R., Apr 17 2018, In : Physical Review E. 97, 4, 042308.

Research output: Contribution to journalArticle

9 Scopus citations

Identifying (un)controllable dynamical behavior in complex networks

Rozum, J. C. & Albert, R., Dec 2018, In : PLoS computational biology. 14, 12, e1006630.

Research output: Contribution to journalArticle

6 Scopus citations

Introduction to the Special Issue on Approaches to Control Biological and Biologically Inspired Networks

Albert, R. Z., Baillieul, J. & Motter, A. E., Jun 1 2018, In : IEEE Transactions on Control of Network Systems. 5, 2, p. 690-693 4 p.

Research output: Contribution to journalArticle

1 Scopus citations

Self-sustaining positive feedback loops in discrete and continuous systems

Rozum, J. C. & Albert, R. Z., Dec 14 2018, In : Journal of Theoretical Biology. 459, p. 36-44 9 p.

Research output: Contribution to journalArticle

4 Scopus citations

Target control in logical models using the domain of influence of nodes

Yang, G., Zañudo, J. G. T. & Albert, R., May 8 2018, In : Frontiers in Physiology. 9, MAY, 454.

Research output: Contribution to journalArticle

4 Scopus citations
2017

A framework to find the logic backbone of a biological network

Maheshwari, P. & Albert, R., Dec 6 2017, In : BMC systems biology. 11, 1, 1 p.

Research output: Contribution to journalArticle

6 Scopus citations

A new discrete dynamic model of ABA-induced stomatal closure predicts key feedback loops

Albert, R., Acharya, B. R., Jeon, B. W., Zañudo, J. G. T., Zhu, M., Osman, K. & Assmann, S. M., Sep 22 2017, In : PLoS biology. 15, 9, e2003451.

Research output: Contribution to journalArticle

22 Scopus citations

Correlations in the degeneracy of structurally controllable topologies for networks

Campbell, C., Aucott, S., Ruths, J., Ruths, D., Shea, K. & Albert, R., Apr 12 2017, In : Scientific reports. 7, 46251.

Research output: Contribution to journalArticle

2 Scopus citations

Structure-based control of complex networks with nonlinear dynamics

Zañudo, J. G. T., Yang, G., Albert, R. & Levine, H., Jul 11 2017, In : Proceedings of the National Academy of Sciences of the United States of America. 114, 28, p. 7234-7239 6 p.

Research output: Contribution to journalArticle

59 Scopus citations
2016

Analysis of a dynamic model of guard cell signaling reveals the stability of signal propagation

Gan, X. & Albert, R., Aug 19 2016, In : BMC systems biology. 10, 1, 78.

Research output: Contribution to journalArticle

5 Scopus citations

Compensatory interactions to stabilize multiple steady states or mitigate the effects of multiple deregulations in biological networks

Yang, G., Campbell, C. & Albert, R., Dec 28 2016, In : Physical Review E. 94, 6, 062316.

Research output: Contribution to journalArticle

1 Scopus citations

Discrete dynamic modeling: A network approach for systems pharmacology

Steinway, S. N., Wang, R. S. & Albert, R., Jan 1 2016, AAPS Advances in the Pharmaceutical Sciences Series. Springer Verlag, p. 81-103 23 p. (AAPS Advances in the Pharmaceutical Sciences Series; vol. 23).

Research output: Chapter in Book/Report/Conference proceedingChapter

2 Scopus citations

Node-independent elementary signaling modes: A measure of redundancy in Boolean signaling transduction networks

Sun, Z. & Albert, R., Sep 1 2016, In : Network Science. 4, 3, p. 273-292 20 p.

Research output: Contribution to journalArticle

3 Scopus citations

Top-down network analysis characterizes hidden termite–termite interactions

Campbell, C., Russo, L., Marins, A., DeSouza, O., Schönrogge, K., Mortensen, D., Tooker, J., Albert, R. & Shea, K., Sep 1 2016, In : Ecology and Evolution. 6, 17, p. 6178-6188 11 p.

Research output: Contribution to journalArticle

5 Scopus citations
2015
9 Scopus citations

Cell Fate Reprogramming by Control of Intracellular Network Dynamics

Zañudo, J. G. T. & Albert, R., Apr 1 2015, In : PLoS computational biology. 11, 4, e1004193.

Research output: Contribution to journalArticle

70 Scopus citations

Combinatorial interventions inhibit TGFβ-driven epithelial-to-mesenchymal transition and support hybrid cellular phenotypes

Steinway, S. N., Zañudo, J. G. T., Michel, P. J., Feith, D. J., Loughran, T. P. & Albert, R., Nov 28 2015, In : NPJ systems biology and applications. 1, 15014.

Research output: Contribution to journalArticle

36 Scopus citations

Cooperative development of logical modelling standards and tools with CoLoMoTo

Naldi, A., Monteiro, P. T., Müssel, C., Kestler, H. A., Thieffry, D., Xenarios, I., Saez-Rodriguez, J., Helikar, T., Chaouiya, C., Albert, R., Barberis, M., Calzone, L., Chasapi, A., Cokelaer, T., Crespo, I., Dorier, J., Dräger, A., Hernandez, C., Hucka, M., De Jong, H. & 10 others, Keating, S. M., Klamt, S., Klarner, H., Laubenbacher, R., Le Novère, N., Niknejad, A., Rodriguez, N., Siebert, H., Stoll, G. & Zañudo., J. G. T., Apr 1 2015, In : Bioinformatics. 31, 7, p. 1154-1159 6 p.

Research output: Contribution to journalArticle

32 Scopus citations

Inference of Network Dynamics and Metabolic Interactions in the Gut Microbiome

Steinway, S. N., Biggs, M. B., Loughran, T. P., Papin, J. A. & Albert, R., Jun 23 2015, In : PLoS computational biology. 11, 6, e1004338.

Research output: Contribution to journalArticle

57 Scopus citations

Plant-pollinator community network response to species invasion depends on both invader and community characteristics

Campbell, C., Yang, S., Albert, R. & Shea, K., Apr 1 2015, In : Oikos. 124, 4, p. 406-413 8 p.

Research output: Contribution to journalArticle

11 Scopus citations

Signaling Networks: Asynchronous Boolean Models

Albert, R. & Robeva, R., Mar 25 2015, Algebraic and Discrete Mathematical Methods for Modern Biology. Elsevier, p. 65-91 27 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

6 Scopus citations

Topological constraints on network control profiles

Campbell, C., Ruths, J., Ruths, D., Shea, K. & Albert, R., Dec 22 2015, In : Scientific reports. 5, 18693.

Research output: Contribution to journalArticle

9 Scopus citations
2014
47 Scopus citations

Border control - A membrane-linked interactome of Arabidopsis

Jones, A. M., Xuan, Y., Xu, M., Wang, R. S., Ho, C. H., Lalonde, S., You, C. H., Sardi, M. I., Parsa, S. A., Smith-Valle, E., Su, T., Frazer, K. A., Pilot, G., Pratelli, R., Grossmann, G., Acharya, B. R., Hu, H. C., Engineer, C., Villiers, F., Ju, C. & 10 others, Takeda, K., Su, Z., Dong, Q., Assmann, S. M., Chen, J., Kwak, J. M., Schroeder, J. I., Albert, R., Rhee, S. Y. & Frommer, W. B., Jan 1 2014, In : Science. 344, 6185, p. 711-716 6 p.

Research output: Contribution to journalArticle

114 Scopus citations

Comment on "control profiles of complex networks"

Campbell, C., Shea, K. & Albert, R., Oct 31 2014, In : Science. 346, 6209, p. 561c

Research output: Contribution to journalReview article

9 Scopus citations

Motif profile dynamics and transient species in a Boolean model of mutualistic ecological communities

Campbell, C., Shea, K., Yang, S. & Albert, R., Sep 22 2014, In : Journal of Complex Networks. 4, 1, p. 127-139 13 p.

Research output: Contribution to journalArticle

1 Scopus citations
36 Scopus citations

Network modeling of TGFβ signaling in hepatocellular carcinoma epithelial-to-mesenchymal transition reveals joint sonic hedgehog and Wnt pathway activation

Steinway, S. N., Zanudo, J. G. T., Ding, W., Rountree, C. B., Feith, D. J., Loughran, T. P. & Albert, R., Nov 1 2014, In : Cancer Research. 74, 21, p. 5963-5977 15 p.

Research output: Contribution to journalArticle

108 Scopus citations

Restoration of plant-pollinator interaction networks via species translocation

LaBar, T., Campbell, C., Yang, S., Albert, R. & Shea, K., Jan 1 2014, In : Theoretical Ecology. 7, 2, p. 209-220 12 p.

Research output: Contribution to journalArticle

11 Scopus citations

Stabilization of perturbed Boolean network attractors through compensatory interactions

Campbell, C. & Albert, R., May 8 2014, In : BMC systems biology. 8, 1, 53.

Research output: Contribution to journalArticle

32 Scopus citations

Topological implications of negative curvature for biological and social networks

Albert, R., Dasgupta, B. & Mobasheri, N., Mar 24 2014, In : Physical Review E - Statistical, Nonlinear, and Soft Matter Physics. 89, 3, 032811.

Research output: Contribution to journalArticle

30 Scopus citations
2013

Abscisic acid-responsive guard cell metabolomes of Arabidopsis wild-type and gpa1 G-protein mutants

Jin, X., Wang, R. S., Zhu, M., Jeon, B. W., Albert, R., Chen, S. & Assmann, S. M., Dec 1 2013, In : Plant Cell. 25, 12, p. 4789-4811 23 p.

Research output: Contribution to journalArticle

43 Scopus citations

An effective network reduction approach to find the dynamical repertoire of discrete dynamic networks

Zañudo, J. G. T. & Albert, R., Jan 1 2013, In : Chaos. 23, 2, 025111.

Research output: Contribution to journalArticle

53 Scopus citations

A reduction method for Boolean network models proven to conserve attractors

Saadatpour, A., Albert, R. & Reluga, T. C., Dec 1 2013, In : SIAM Journal on Applied Dynamical Systems. 12, 4, p. 1997-2011 15 p.

Research output: Contribution to journalArticle

44 Scopus citations

Boolean modeling of biological regulatory networks: A methodology tutorial

Saadatpour, A. & Albert, R., Jul 15 2013, In : Methods. 62, 1, p. 3-12 10 p.

Research output: Contribution to journalArticle

57 Scopus citations

Boolean Models of Cellular Signaling Networks

Sun, Z. & Albert, R., Aug 29 2013, Handbook of Systems Biology. Elsevier Inc., p. 197-210 14 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

1 Scopus citations

Clustering social networks using ant colony optimization

Mandala, S. R., Kumara, S. R. T., Rao, C. R. & Albert, R., Jan 1 2013, In : Operational Research. 13, 1, p. 47-65 19 p.

Research output: Contribution to journalArticle

23 Scopus citations
18 Scopus citations

Generating super-shedders: Co-infection increases bacterial load and egg production of a gastrointestinal helminth

Lass, S., Hudson, P. J., Thakar, J., Saric, J., Harvill, E., Albert, R. & Perkins, S. E., Mar 6 2013, In : Journal of the Royal Society Interface. 10, 80

Research output: Contribution to journalArticle

42 Scopus citations

Global versus local extinction in a network model of plant-pollinator communities

LaBar, T., Campbell, C., Yang, S., Albert, R. & Shea, K., Nov 1 2013, In : Theoretical Ecology. 6, 4, p. 495-503 9 p.

Research output: Contribution to journalArticle

9 Scopus citations