Integrating pathways of Parkinson's disease in a molecular interaction map
Parkinson's disease (PD) is a major neurodegenerative chronic disease, most likely caused
by a complex interplay of genetic and environmental factors. Information on various aspects …
by a complex interplay of genetic and environmental factors. Information on various aspects …
Systematic benchmarking of omics computational tools
Computational omics methods packaged as software have become essential to modern
biological research. The increasing dependence of scientists on these powerful software …
biological research. The increasing dependence of scientists on these powerful software …
Critical assessment of automated flow cytometry data analysis techniques
N Aghaeepour, G Finak, FlowCAP Consortium… - Nature …, 2013 - nature.com
Traditional methods for flow cytometry (FCM) data processing rely on subjective manual
gating. Recently, several groups have developed computational methods for identifying cell …
gating. Recently, several groups have developed computational methods for identifying cell …
How adverse outcome pathways can aid the development and use of computational prediction models for regulatory toxicology
Efforts are underway to transform regulatory toxicology and chemical safety assessment
from a largely empirical science based on direct observation of apical toxicity outcomes in …
from a largely empirical science based on direct observation of apical toxicity outcomes in …
Crowdsourcing biomedical research: leveraging communities as innovation engines
The generation of large-scale biomedical data is creating unprecedented opportunities for
basic and translational science. Typically, the data producers perform initial analyses, but it …
basic and translational science. Typically, the data producers perform initial analyses, but it …
Model selection in systems and synthetic biology
Developing mechanistic models has become an integral aspect of systems biology, as has
the need to differentiate between alternative models. Parameterizing mathematical models …
the need to differentiate between alternative models. Parameterizing mathematical models …
[HTML][HTML] Interrogating the microbiome: experimental and computational considerations in support of study reproducibility
C Poussin, N Sierro, S Boué, J Battey, E Scotti… - Drug discovery today, 2018 - Elsevier
Highlights•Growing evidence indicates that the microbiome plays an important role in health
and disease.•Reliable and meaningful scientific conclusions from microbiome studies rely …
and disease.•Reliable and meaningful scientific conclusions from microbiome studies rely …
Navigating cancer network attractors for tumor-specific therapy
Cells employ highly dynamic signaling networks to drive biological decision processes.
Perturbations to these signaling networks may attract cells to new malignant signaling and …
Perturbations to these signaling networks may attract cells to new malignant signaling and …
Strengths and limitations of microarray-based phenotype prediction: lessons learned from the IMPROVER Diagnostic Signature Challenge
Motivation: After more than a decade since microarrays were used to predict phenotype of
biological samples, real-life applications for disease screening and identification of patients …
biological samples, real-life applications for disease screening and identification of patients …
Causal biological network database: a comprehensive platform of causal biological network models focused on the pulmonary and vascular systems
S Boue, M Talikka, JW Westra, W Hayes, A Di Fabio… - Database, 2015 - academic.oup.com
With the wealth of publications and data available, powerful and transparent computational
approaches are required to represent measured data and scientific knowledge in a …
approaches are required to represent measured data and scientific knowledge in a …