Scientific topics: Pathway or network or Mathematics
DE-Sim is an open-source, Python-based object-oriented discrete-event simulation (DES) tool that makes it easy to use large, heterogeneous datasets and high-level data science tools such as NumPy, Scipy,...
Scientific topics: Computational biology, Mathematics, Computer science, Simulation experiment
Operations: Visualisation, Modelling and simulation
Keywords: data-driven modeling, Computational modelling, discrete-event simulation, DES, object-oriented programming, Python, data visualization, Data Science
Resource type: examples, Tutorial, Jupyter notebook, API reference
This intensive course is to provide students with the prerequisites - some conceptual background and sufficient working knowledge of mathematics - necessary to master the mathematically based graduate courses at the Center for Complex Systems & Brain Sciences. By no means it is intended to...
Scientific topics: Computational biology, Mathematics
Keywords: ComputationalBiology, Neuroscience, complex systems, Mathematics
Resource type: Notes, Scripts
Introduction to the Bivi community presented as the introductory talk at the 1st Bivi Annual Meeting.
Created at: 1st BiVi Annual Meeting.
Scientific topics: Phylogenetics, Pathway or network
Keywords: Anatomy Physiology and Atlases, Cells and Organisms, Genome, Molecular, Pathway, Phylogenetics, Populations
Resource type: Video
Alexander Lex (http://alexander-lex.com/) talks about enRoute, a tool for dynamic path extraction from biological pathway maps for in-depth experimental data analysis. He highlights the inherent problem with correlating real-life heterogeneous data to pathways, namely that they rarely follow the...
Scientific topics: Pathway or network
Keywords: Pathway
Resource type: Video
Scooter Morris (http://www.cgl.ucsf.edu/home/scooter/) talks about the opportunities and challenges in mapping biological networks and gives an brief overview of Cytoscape (http://www.cytoscape.org/), an open source bioinformatics software platform for visualizing molecular interaction...
Scientific topics: Pathway or network
Keywords: Cells and Organisms, Pathway
Resource type: Video
Michael Ball from BBSRC's closing remarks on Data and Data Visualisation from 1st BiVi in 2014.
Created at: 1st BiVi Annual Meeting.
Scientific topics: Phylogenetics, Pathway or network
Keywords: Anatomy Physiology and Atlases, Cells and Organisms, Genome, Molecular, Pathway, Phylogenetics, Populations, Information visualisation
Resource type: Video
Derek Wright discusses the BioLayout Express visualisation tool at 1st BiVi in 2014.
Created at: 1st BiVi Annual Meeting.
Scientific topics: Pathway or network
Keywords: Cells and Organisms, Genome, Pathway
Resource type: Video
Prof Tom Freeman discusses bio-visualisation within the Pathway theme at 1st BiVi in 2014.
Created at: 1st BiVi Annual Meeting.
Scientific topics: Pathway or network
Keywords: Pathway
Resource type: Video
Kostas Sidiropoulos disceusses the visualsation of biomolecular pathways and Reactome, a free, open-source, curated and peer-reviewed knowledge-base of biomolecular pathways at 2nd BiVi in 2015.
Created at: 2nd BiVi Annual Meeting.
Scientific topics: Pathway or network
Keywords: Pathway, Databases
Resource type: Slideshow
Dr Manuel Corpas discusses the BioJS Javascript component library at the 1st BiVi Annual Meeting in 2014.
Created at: 1st BiVi Annual Meeting.
Scientific topics: Phylogenetics, Pathway or network
Keywords: Anatomy Physiology and Atlases, Genome, Molecular, Pathway, Phylogenetics
Resource type: Video
A 3rd BiVi 2017 Keynote Presentation by Bang Wong, Broad Institute of MIT & Harvard and Department of Art as Applied to Medicine, Johns Hopkins University School of MedicineChaired by: Geoff BartonThe data generated by the biomedical research community hold tremendous potential to inform our...
Scientific topics: Phylogenetics, Pathway or network
Keywords: Anatomy Physiology and Atlases, Cells and Organisms, Genome, Molecular, Pathway, Phylogenetics, Populations, Communication, Information visualisation
Resource type: Video
Reactome provides curated human biological pathways representing the consensus view of the molecular events involved. Pathway Diagrams show mechanistic details, using a style based on SBGN. A unique Overview represents all pathways in a single view. Analysis results and expression data are...
Scientific topics: Pathway or network
Keywords: Pathway
Resource type: Video
Poster presentation at 3rd BiVi in April 2017.Presenitng a suite of web applications, developed for the PRECISION-Parc initiative, to provide integrative analyses of genomic and transcription data from patient primary samples, cell lines and xenografts, as well as clinical data on patient...
Scientific topics: Pathway or network
Keywords: Genome, Pathway
Resource type: Poster