Computational modeling is an important tool for the study of complex biochemical processes associated with cell signaling networks. However, it is challenging to simulate processes that involve hundreds of lar...
Volume 10 Supplement 2
Selected articles from the IEEE International Conference on Bioinformatics and Biomedicine 2015: systems biology
Publication of this supplement has not been supported by sponsorship. Information about the source of funding for publication charges can be found in the individual articles. The articles have undergone the journal's standard peer review process for supplements. The Supplement Editor declares that they have no competing interests.
Washington, DC, USA9-12 November 2015
Edited by Xiaohua Hu.
Citation: BMC Systems Biology 2016 10(Suppl 2):48
The decrease of consistence probability: at the crossroad of catastrophic transition of a biological system
Unlike traditional detection of a disease state in which there are clear phenomena, it is usually a challenge to identify the pre-disease state during the progression of a complex disease just before the serio...Citation: BMC Systems Biology 2016 10(Suppl 2):50
Protein-protein interaction prediction based on multiple kernels and partial network with linear programming
Prediction of de novo protein-protein interaction is a critical step toward reconstructing PPI networks, which is a central task in systems biology. Recent computational approaches have shifted from making PPI pr...Citation: BMC Systems Biology 2016 10(Suppl 2):45
Simulating protein folding motions is an important problem in computational biology. Motion planning algorithms, such as Probabilistic Roadmap Methods, have been successful in modeling the folding landscape. P...Citation: BMC Systems Biology 2016 10(Suppl 2):49
Networks provide effective models to study complex biological systems, such as gene and protein interaction networks. With the advent of new sequencing technologies, many life scientists are grasping for user-...Citation: BMC Systems Biology 2016 10(Suppl 2):51
Wnt signal transduction pathway (Wnt STP) is a crucial intracellular pathway mainly due to its participation in important biological processes, functions, and diseases, i.e., embryonic development, stem-cell m...Citation: BMC Systems Biology 2016 10(Suppl 2):44
Various approaches to calling single-nucleotide variants (SNVs) or insertion-or-deletion (indel) mutations have been developed based on next-generation sequencing (NGS). However, most of them are dedicated to ...Citation: BMC Systems Biology 2016 10(Suppl 2):47
Methods for inferring signaling networks using single gene knockdown RNAi experiments and reference networks have been proposed in recent years. These methods assume that RNAi information is available for all ...Citation: BMC Systems Biology 2016 10(Suppl 2):53
Opening up the blackbox: an interpretable deep neural network-based classifier for cell-type specific enhancer predictions
Gene expression is mediated by specialized cis-regulatory modules (CRMs), the most prominent of which are called enhancers. Early experiments indicated that enhancers located far from the gene promoters are often...Citation: BMC Systems Biology 2016 10(Suppl 2):54