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Higher-order organization of complex networks

A. R. Benson, D. F. Gleich, J. Leskovec
2016 Science  
However, higher-order organization of complex networks---at the level of small network subgraphs---remains largely unknown.  ...  The framework reveals higher-order organization in a number of networks including information propagation units in neuronal networks and hub structure in transportation networks.  ...  S8 Data availability All data is available at our project web site at http://snap.stanford.edu/higher-order/.  ... 
doi:10.1126/science.aad9029 pmid:27387949 pmcid:PMC5133458 fatcat:nuonw75egzgqfhxssdiu77vviu

Network analytics in the age of big data

N. Pr ulj, N. Malod-Dognin
2016 Science  
discovered patterns for revealing the higher-order organizational principles of several real-world networked systems.  ...  In this way, the method unifies the local wiring patterning with higher order structural modularity imposed by it, uncovering higher order functional regions in networked data.  ...  In this way, the method unifies the local wiring patterning with higher order structural modularity imposed by it, uncovering higher order functional regions in networked data.  ... 
doi:10.1126/science.aah3449 pmid:27387938 fatcat:wpyn7arnvrdzlfzqe2peq5inkq

Agricultural intensification reduces microbial network complexity and the abundance of keystone taxa in roots

Samiran Banerjee, Florian Walder, Lucie Büchi, Marcel Meyer, Alain Y. Held, Andreas Gattinger, Thomas Keller, Raphael Charles, Marcel G. A. van der Heijden
2019 The ISME Journal  
Organic farming harbored a much more complex fungal network with significantly higher connectivity than conventional and no-till farming systems.  ...  Supporting this, the abundance of mycorrhizal fungi in roots and soils was also significantly higher under organic farming.  ...  We are grateful to three anonymous reviewers whose constructive comments and insightful suggestions greatly improved the quality of the manuscript.  ... 
doi:10.1038/s41396-019-0383-2 pmid:30850707 pmcid:PMC6591126 fatcat:ftswuo6y3jftbn3gg2l4zpmkf4

Simplicial Topological Coding and Homology of Spin Networks [chapter]

Vesna Berec
2017 Applications of Computer Algebra  
The specific geometric structure and topological characterization of 1-simplex connectivity is generalized to higher dimensional structure of ordered complex in the combinatorial Laplacian matrix defined  ...  We study the commutation of the stabilizer generators embedded in the qrepresentation of higher dimensional simplicial complex.  ...  The specific geometric structure and topological characterization of 1-simplex connectivity is generalized to higher dimensional structure of ordered complex in the combinatorial Laplacian matrix defined  ... 
doi:10.1007/978-3-319-56932-1_2 fatcat:pahzpkotmzhphbaqhvnflh3nh4

The Self-Organizing Symbiotic Agent [article]

Babak Hodjat, Makoto Amamiya
1998 arXiv   pre-print
In this approach a self-organizing method of dividing the more complex "main-problem" to a hyper-structure of "sub-problems" with the aim of reducing complexity is desired.  ...  A description of the general problem will be given along with some instances of related work.  ...  We take SS r (Solution Structure of order r) to represent this structure with PC(SS r ) as its potential complexity. A given problem is of an unknown order of complexity (x) higher than PC(SS r ).  ... 
arXiv:cs/9812013v1 fatcat:5acxyop55fatnh7rt22afuh4ue

Coemergence of regularity and complexity during neural network development

E. Fuchs, A. Ayali, A. Robinson, E. Hulata, E. Ben-Jacob
2007 Developmental Neurobiology  
The simulations support our experimental results by showing increased levels of complexity of neuronal activity patterns when neurons are wired up and organized in clusters (similar to mature real networks  ...  Complex collective network electrical activity evolved from sporadic firing patterns of the single neurons.  ...  of network organization.  ... 
doi:10.1002/dneu.20557 pmid:17701997 fatcat:tvajwcavxna77gopa43razrfxm

Trace of evolutionary evidence by analyzing clustering information of metabolic pathways in eukaryotes

Arang Rhie, Myungha Jang, Hyun-Seok Park
2010 2010 IEEE International Conference on Bioinformatics and Biomedicine Workshops (BIBMW)  
This implies that higher organisms have evolved in alternative pathways, giving traces of evolution.  ...  After grouping reactions along their connectivity, the results showed that compounds in higher organisms were less clustered into loosely connected groups.  ...  As pathways of higher organisms have more complex topology, the result suggests that trace of evolutionary evidence lies under the metabolic network.  ... 
doi:10.1109/bibmw.2010.5703947 fatcat:elwo5nqh5zbzvkd2jv77ixh7fu

What Transcription Factors Can't Do: On the Combinatorial Limits of Gene Regulatory Networks [article]

Eric Werner
2014 arXiv   pre-print
of complex organisms.  ...  The architecture of these higher level networks may in fact be universal (modulo syntax) in the genomes of all multicellular life.  ...  These higher level developmental control networks are encoded in the genomes of organisms.  ... 
arXiv:1312.5565v2 fatcat:wnihpgg2brdwvelxygkvnadf2i

Membrane Traffic in the Post-Golgi Network: Toward A Better Understanding of the Higher Order Functioning Systems

Hiroshi Ohno
2003 Cell Structure and Function  
Membrane traffic has recently been recognized to be involved in sophisticated higher order functioning systems characteristic of higher, multicellular organisms, as typified by the immune system as well  ...  Multiple complexities of the post-Golgi network and their relationships with the functions as multicellular organisms have just begun to be addressed, and a long, although promising, way awaits us before  ... 
doi:10.1247/csf.28.395 pmid:14745132 fatcat:elqkgvoqfbdjtaf5od4u5in4g4

Higher Order Temporal Analysis of Global Terrorism Data [article]

Madelyn Dunning, Sumit Purohit
2020 arXiv   pre-print
Temporal networks are a fundamental and flexible way of describing the activities, relationships, and evolution of any complex system. Global terrorism is one of the biggest concerns of recent times.  ...  It is also an example of a temporal network that evolves over time.  ...  These types of higher order graph analyses of the terrorism network give much more insight into the operations of these groups, which is not available using lower order elements of the graph such as vertices  ... 
arXiv:2005.14002v1 fatcat:hatciph4bnes5d2jbcisti6ecm

The Effect of Network Structure on Individual Behavior

James Hay, David Flynn
2014 Complex Systems  
to the way the behavior of individuals in a social network may be affected by social structure.  ...  Using computer networks built from cellular automata fundamentals, this paper shows how the behavior of individuals at the nodes or vertices in those networks is affected by the network structure, analogous  ...  The star organization has a higher ordered fraction than the other two.  ... 
doi:10.25088/complexsystems.23.4.295 fatcat:s6pgofyv45btho7t6wuyrw5scq

Agricultural intensification reduces microbial network complexity and the abundance of keystone taxa in roots [article]

Samiran Banerjee, Florian Walder, Lucie Buchi, Marcel Meyer, Alan Y Held, Andreas Gattinger, Thomas Keller, Raphael Charles, Marcel GA van der Heijden
2018 bioRxiv   pre-print
Organic farming harboured a much more complex fungal network than conventional and no-till farming systems.  ...  Supporting this, the abundance of mycorrhizal fungi in roots and soils was also significantly higher under organic farming.  ...  In this sense, the higher complexity of 308 organic networks may indicate that the root microbiota under organic management is more 309 resilient to environmental stresses as different taxa can complement  ... 
doi:10.1101/416271 fatcat:js2eiysypbeb3kijx54zzr6kvu

Beyond Pairwise Interactions: Higher-Order Dynamics in Protein Interaction Networks [article]

Kevin A. Murgas, Emil Saucan, Romeil Sandhu
2022 bioRxiv   pre-print
These higher-order relationships are better represented by a hypergraph as a generalized network model.  ...  Higher-order interactions are well-characterized in biology, including protein complex formation and feedback or feedforward loops.  ...  This property has been described in the edge degree of PPI graph models, and the scale-free property of higher-order interactions has been previously reported with regard to protein complex organization  ... 
doi:10.1101/2022.05.03.490479 fatcat:ufd6ncgbxnblnh6fmhqlrb7uuq

The physics of higher-order interactions in complex systems

Federico Battiston, Enrico Amico, Alain Barrat, Ginestra Bianconi, Guilherme Ferraz de Arruda, Benedetta Franceschiello, Iacopo Iacopini, Sonia Kéfi, Vito Latora, Yamir Moreno, Micah M. Murray, Tiago P. Peixoto (+2 others)
2021 Nature Physics  
Higher-order structures, such as hypergraphs and simplicial complexes, are therefore a better tool to map the real organization of many social, biological and man-made systems.  ...  Complex networks have become the main paradigm for modelling the dynamics of interacting systems.  ...  Higher-order structures, such as hypergraphs and simplicial complexes, are therefore a better tool to map the real organization of many social, biological and man-made systems.  ... 
doi:10.1038/s41567-021-01371-4 fatcat:iu7qhjpsbjfkxfn6j2tdyhhjwy

Septin Form and Function at the Cell Cortex

Andrew A. Bridges, Amy S. Gladfelter
2015 Journal of Biological Chemistry  
Septins are GTP-binding proteins that form filaments and higher-order structures on the cell cortex of eukaryotic cells and associate with actin and microtubule cytoskeletal networks.  ...  Higher-order septin structures act to recruit and/or integrate protein networks at specific locations, an example being contractile ring components in cell division (4 -7).  ...  Acknowledgments-We thank the laboratory staff for thoughtful discussion and critical reading of this review.  ... 
doi:10.1074/jbc.r114.634444 pmid:25957401 pmcid:PMC4498057 fatcat:2nbxjra7yffx3bgotbaj3rxohu
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