Transcriptional regulatory network topology with applications to bio-inspired networking: A survey

S Roy, P Ghosh, N Ghosh, SK Das - ACM Computing Surveys (CSUR), 2021 - dl.acm.org
The advent of the edge computing network paradigm places the computational and storage
resources away from the data centers and closer to the edge of the network largely …

[HTML][HTML] Contribution of canonical feed-forward loop motifs on the fault-tolerance and information transport efficiency of transcriptional regulatory networks

AF Abdelzaher, ML Mayo, EJ Perkins… - Nano Communication …, 2015 - Elsevier
Motifs and degree distribution in transcriptional regulatory networks play an important role
towards their fault-tolerance and efficient information transport. In this paper, we designed …

[图书][B] Structure and topology of transcriptional regulatory networks and their applications in bio-inspired networking

S Roy - 2019 - search.proquest.com
Biological networks carry out vital functions necessary for sustenance despite environmental
adversities. Transcriptional Regulatory Network (TRN) is one such biological network that is …

Dynamical impacts from structural redundancy of transcriptional motifs in gene-regulatory networks

BK Kamapantula, M Mayo, E Perkins… - Proceedings of the 8th …, 2014 - dl.acm.org
We examine and compare transcriptional networks extracted from the bacterium Escherichia
coli and the baker's yeast Saccharomyces cerevisiae using discrete event simulation based …

Feature ranking in transcriptional networks: packet receipt as a dynamical metric

BK Kamapantula, M Mayo, E Perkins… - Proceedings of the 8th …, 2014 - dl.acm.org
Machine learning techniques may be useful in determining the features contributing to some
biological properties, such as robustness, which is the tendency for biological systems to …

Correlating in silico feed-forward loop knockout experiments with the topological features of transcriptional regulatory networks

AF Abdelzaher, ML Mayo, EJ Perkins… - Proceedings of the 8th …, 2014 - dl.acm.org
Motifs and degree distribution in transcriptional regulatory networks play an important role
towards their faulttolerance and efficient information transport. In this paper, we designed an …

Intrinsic and Simplified Complex Network Embedding Model

AF Al Musawi, P Ghosh - Next Generation of Internet of Things …, 2021 - Springer
Most naturally occurring complex networks exhibit a power-law-based degree distribution. In
such networks, most of the nodes possess the same few lowest degrees (mostly degrees of …

Similar Feed-forward Loop Crosstalk Patterns may Impact Robust Information Transport Across E. coli and S. Cerevisiae Transcriptional Networks

K Syed, A Abdelzaher, M Mayo, P Ghosh - Mobile Networks and …, 2020 - Springer
Evolved biological network topologies may resist perturbances to allow for more robust
information transport across larger networks in which their network motifs may play a …

Identifying Parameters for Robust Network Growth using Attachment Kernels: A case study on directed and undirected networks

AF Abdelzaher - 2016 - scholarscompass.vcu.edu
Network growing mechanisms are used to construct random networks that have structural
behaviors similar to existing networks such as genetic networks, in efforts of understanding …

[PDF][PDF] Feature ranking in E. coli and Yeast derived networks using the packet receival rate as robustness metric

BK Kamapantula, M Mayo, E Perkins, A Abdelzaher… - bkamapantula.github.io
Biological networks are now studied extensively by researchers to understand the working
principles of nature. Machine learning techniques can be useful in realizing the features …