Identifying protein complexes and functional modules—from static PPI networks to dynamic PPI networks

B Chen, W Fan, J Liu, FX Wu - Briefings in bioinformatics, 2014 - academic.oup.com
Cellular processes are typically carried out by protein complexes and functional modules.
Identifying them plays an important role for our attempt to reveal principles of cellular …

[PDF][PDF] Use of bioinformatics tools in different spheres of life sciences

MA Mehmood, U Sehar, N Ahmad - … of Data Mining in Genomics & …, 2014 - researchgate.net
The pace, by which scientific knowledge is being produced and shared today, was never
been so fast in the past. Different areas of science are getting closer to each other to give …

Molecular signatures of antibody responses derived from a systems biology study of five human vaccines

S Li, N Rouphael, S Duraisingham… - Nature …, 2014 - nature.com
Many vaccines induce protective immunity via antibodies. Systems biology approaches
have been used to determine signatures that can be used to predict vaccine-induced …

Uncovering global SUMOylation signaling networks in a site-specific manner

IA Hendriks, RCJ D'souza, B Yang… - Nature structural & …, 2014 - nature.com
SUMOylation is a reversible post-translational modification essential for genome stability.
Using high-resolution MS, we have studied global SUMOylation in human cells in a site …

Biological network exploration with Cytoscape 3

G Su, JH Morris, B Demchak… - Current protocols in …, 2014 - Wiley Online Library
Cytoscape is one of the most popular open‐source software tools for the visual exploration
of biomedical networks composed of protein, gene, and other types of interactions. It offers …

NetworkAnalyst-integrative approaches for protein–protein interaction network analysis and visual exploration

J Xia, MJ Benner, REW Hancock - Nucleic acids research, 2014 - academic.oup.com
Biological network analysis is a powerful approach to gain systems-level understanding of
patterns of gene expression in different cell types, disease states and other biological …

[图书][B] Statistical analysis of network data with R

ED Kolaczyk, G Csárdi - 2014 - Springer
Networks and network analysis are arguably one of the largest growth areas of the early
twenty-first century in the quantitative sciences. Despite roots in social network analysis …

[HTML][HTML] Demonstrating microbial co-occurrence pattern analyses within and between ecosystems

RJ Williams, A Howe, KS Hofmockel - Frontiers in microbiology, 2014 - frontiersin.org
Co-occurrence patterns are used in ecology to explore interactions between organisms and
environmental effects on coexistence within biological communities. Analysis of co …

[HTML][HTML] Ecdysone and mediator change energy metabolism to terminate proliferation in Drosophila neural stem cells

CCF Homem, V Steinmann, TR Burkard, A Jais… - Cell, 2014 - cell.com
Stem cells are highly abundant during early development but become a rare population in
most adult organs. The molecular mechanisms causing stem cells to exit proliferation at a …

Affinity purification–mass spectrometry and network analysis to understand protein-protein interactions

JH Morris, GM Knudsen, E Verschueren, JR Johnson… - Nature protocols, 2014 - nature.com
By determining protein-protein interactions in normal, diseased and infected cells, we can
improve our understanding of cellular systems and their reaction to various perturbations. In …