A theory of ecological invasions and its implications for eco-evolutionary dynamics

Authors: Feng, Zhijie, Blumenthal, Emmy, Mehta, Pankaj, Goyal, Akshit

Subject Terms: Quantitative Biology - Populations and Evolution, Condensed Matter - Disordered Systems and Neural Networks, Condensed Matter - Statistical Mechanics

Access URL: http://arxiv.org/abs/2503.10865

Energy-ordered resource stratification as an agnostic signature of life

Authors: Goyal, Akshit, Tikhonov, Mikhail

Subject Terms: Quantitative Biology - Populations and Evolution, Physics - Biological Physics

Access URL: http://arxiv.org/abs/2403.18614

A universal niche geometry governs the response of ecosystems to environmental perturbations

Authors: Goyal, Akshit, Rocks, Jason W., Mehta, Pankaj

Subject Terms: Quantitative Biology - Populations and Evolution, Condensed Matter - Disordered Systems and Neural Networks, Condensed Matter - Statistical Mechanics

Access URL: http://arxiv.org/abs/2403.01276

Globally Solving a Class of Bilevel Programs with Spatial Price Equilibrium Constraints

Authors: Goyal, Akshit, Richard, Jean-Philippe P.

Subject Terms: Mathematics - Optimization and Control

Access URL: http://arxiv.org/abs/2309.13502

An algorithm for bilevel optimization with traffic equilibrium constraints: convergence rate analysis

Authors: Goyal, Akshit, Lamperski, Andrew

Subject Terms: Mathematics - Optimization and Control

Access URL: http://arxiv.org/abs/2306.14235

Closed ecosystems extract energy through self-organized nutrient cycles

Authors: Goyal, Akshit, Flamholz, Avi I., Petroff, Alexander P., Murugan, Arvind

Subject Terms: Quantitative Biology - Populations and Evolution, Nonlinear Sciences - Adaptation and Self-Organizing Systems, Quantitative Biology - Molecular Networks

Access URL: http://arxiv.org/abs/2305.19102

Decision Rule Approaches for Pessimistic Bilevel Linear Programs under Moment Ambiguity with Facility Location Applications

Authors: Goyal, Akshit, Zhang, Yiling, He, Chuan

Subject Terms: Mathematics - Optimization and Control

Access URL: http://arxiv.org/abs/2206.03531

Evidence for a multi-level trophic organization of the human gut microbiome

Authors: Wang, Tong, Goyal, Akshit, Dubinkina, Veronika, Maslov, Sergei

Subject Terms: Quantitative Biology - Populations and Evolution, Physics - Biological Physics, Quantitative Biology - Genomics

Access URL: http://arxiv.org/abs/1908.10963

Matching metabolic supply to demand optimizes microbial growth

Authors: Flamholz, Avi I., Goyal, Akshit

Source: In Trends in Microbiology August 2023 31(8):769-771

Multiple stable states in microbial communities explained by the stable marriage problem

Authors: Goyal, Akshit, Dubinkina, Veronika, Maslov, Sergei

Source: The ISME Journal 12, 2823-2834 (2018)

Subject Terms: Quantitative Biology - Populations and Evolution, Computer Science - Computer Science and Game Theory, Physics - Biological Physics, Quantitative Biology - Molecular Networks

Access URL: http://arxiv.org/abs/1712.06042

Diversity, stability, and reproducibility in stochastically assembled microbial ecosystems

Authors: Goyal, Akshit, Maslov, Sergei

Source: Phys. Rev. Lett. 120, 158102 (2018)

Subject Terms: Quantitative Biology - Populations and Evolution, Condensed Matter - Statistical Mechanics, Quantitative Biology - Molecular Networks

Access URL: http://arxiv.org/abs/1711.00755

Horizontal gene transfer drives the evolution of dependencies in bacteria

Authors: Goyal, Akshit ^{1, 2, ∗}

Source: In iScience 20 May 2022 25(5)

Mining Top-k Pairs of Correlated Subgraphs in a Large Network
Very large data bases (46th international conference)

Authors: Prateek, Arneish, Khan, Arijit, Goyal, Akshit, Ranu, Sayan

Source: Proceedings. 46(3):1511-1524

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCCN606662785&indx=1&recIds=ETOCCN606662785

Decision Rule Approaches for Pessimistic Bilevel Linear Programs Under Moment Ambiguity with Facility Location Applications.

Authors: Goyal, Akshit¹, goyal080@umn.edu, Zhang, Yiling¹, yiling@umn.edu, He, Chuan¹, he000233@umn.edu

Source: INFORMS Journal on Computing; Nov/Dec2023, Vol. 35 Issue 6, p1342-1360, 19p

The proteome is a terminal electron acceptor.

Authors: Flamholz, Avi I.¹ aflamhol@caltech.edu, Goyal, Akshit^2,3, Fischer, Woodward W.⁴, Newman, Dianne K.^1,2 dkn@caltech.edu, Phillips, Rob^1,5 phillips@pboc.caltech.edu

Source: Proceedings of the National Academy of Sciences of the United States of America. 1/7/2025, Vol. 122 Issue 1, p1-59. 71p.

Subject Terms: *MICROBIAL physiology, *MICROBIAL metabolism, *ADENOSINE triphosphate, *CYTOSKELETAL proteins, *ELECTROPHILES

Annotation-free discovery of functional groups in microbial communities.

Authors: Shan, Xiaoyu, Goyal, Akshit, Gregor, Rachel, Cordero, Otto X.

Source: Nature Ecology & Evolution; May2023, Vol. 7 Issue 5, p716-724, 9p

Metabolic adaptations underlying genome flexibility in prokaryotes.

Authors: Goyal, Akshit¹ akshitg@ncbs.res.in

Source: PLoS Genetics. 10/29/2018, Vol. 14 Issue 10, p1-15. 15p.

Subject Terms: *PROKARYOTES, *GENOMICS, *BIOSYNTHESIS, *AUXOTROPHY, *METABOLITES

Community interactions drive the evolution of antibiotic tolerance in bacteria.

Authors: Mizrahi, Sivan Pearl¹, Goyal, Akshit¹, Gore, Jeff¹ gore@mit.edu

Source: Proceedings of the National Academy of Sciences of the United States of America. 1/17/2023, Vol. 120 Issue 3, p1-9. 26p.

Subject Terms: *COMMUNITIES, *ANTIBIOTICS, *WHOLE genome sequencing, *BACTERIAL communities, *BACTERIAL population

Fine-scale diversity of microbial communities due to satellite niches in boom and bust environments.

Authors: Fridman, Yulia, Wang, Zihan, Maslov, Sergei, Goyal, Akshit

Source: PLoS Computational Biology; 12/27/2022, Vol. 18 Issue 12, p1-15, 15p, 3 Graphs

Subject Terms: MICROBIAL diversity, COEXISTENCE of species, MICROBIAL communities, BIOTIC communities, MICROBIAL growth

Complementary resource preferences spontaneously emerge in diauxic microbial communities.

Authors: Wang, Zihan, Goyal, Akshit, Dubinkina, Veronika, George, Ashish B., Wang, Tong, Fridman, Yulia, Maslov, Sergei

Source: Nature Communications; 11/18/2021, Vol. 12 Issue 1, p1-12, 12p

Subject Terms: MICROBIAL communities, GEOMETRIC approach, COMMUNITIES, MODEL theory, COMMUNITY life, MICROORGANISMS