Introducing Bivi.co
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
Introducing Bivi.co
https://bivi.co/content/introducing-bivico
http://tess.elixir-uk.org/materials/introducing-bivi-co
Introduction to the Bivi community presented as the introductory talk at the 1st Bivi Annual Meeting.
Created at: 1st BiVi Annual Meeting.
Prof. Jessie Kennedy
Phylogenetics
Pathway or network
Anatomy Physiology and Atlases, Cells and Organisms, Genome, Molecular, Pathway, Phylogenetics, Populations
2016-12-08
enRoute: BioVis Best Paper
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
enRoute: BioVis Best Paper
https://bivi.co/presentation/enroute-biovis-best-paper
http://tess.elixir-uk.org/materials/enroute-biovis-best-paper
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 same topography. enRoute tool allows the investigator to select defined sections of the pathway and display them in a linear fashion to allow for easier navigation of collated data. This talk was presented at VIZBI 2013, an international conference series on visualizing biological data (http://vizbi.org). This video was filmed and distributed with permission under a Creative Commons license.
Created at: VIZBI 2013.
Dr. Alexander Lex
Pathway or network
Pathway
2017-01-31
Biological Networks
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
Biological Networks
https://bivi.co/presentation/biological-networks
http://tess.elixir-uk.org/materials/biological-networks
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 networks.(PLEASE NOTE: There is a small formatting problem with the presentation slides for the first 2 min of the talk only). This video was filmed and distributed with permission under a Creative Commons license.
Created at: VIZBI 2013.
Dr. Scooter Morris
Pathway or network
Cells and Organisms, Pathway
2017-01-31
BBSRC: Data and Data Visualisation
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
BBSRC: Data and Data Visualisation
https://bivi.co/presentation/bbsrc-data-and-data-visualisation
http://tess.elixir-uk.org/materials/bbsrc-data-and-data-visualisation
Michael Ball from BBSRC's closing remarks on Data and Data Visualisation from 1st BiVi in 2014.
Created at: 1st BiVi Annual Meeting.
Michael Ball
Phylogenetics
Pathway or network
Anatomy Physiology and Atlases, Cells and Organisms, Genome, Molecular, Pathway, Phylogenetics, Populations, Information visualisation
2017-02-01
BioLayout Express 3D
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
BioLayout Express 3D
https://bivi.co/presentation/biolayout-express-3d
http://tess.elixir-uk.org/materials/biolayout-express-3d
Derek Wright discusses the BioLayout Express visualisation tool at 1st BiVi in 2014.
Created at: 1st BiVi Annual Meeting.
Derek Wright
Pathway or network
Cells and Organisms, Genome, Pathway
2017-02-02
BiVi theme: Pathways
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
BiVi theme: Pathways
https://bivi.co/presentation/bivi-theme-pathways
http://tess.elixir-uk.org/materials/bivi-theme-pathways
Prof Tom Freeman discusses bio-visualisation within the Pathway theme at 1st BiVi in 2014.
Created at: 1st BiVi Annual Meeting.
Prof. Tom Freeman
Pathway or network
Pathway
2017-02-02
Reactome
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
Reactome
https://bivi.co/presentation/reactome
http://tess.elixir-uk.org/materials/reactome
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.
Dr. Konstantinos Sidiropoulos
Pathway or network
Pathway, Databases
2017-02-03
BioJS
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
BioJS
https://bivi.co/presentation/biojs
http://tess.elixir-uk.org/materials/biojs-6f4125d4-aca1-407d-b0c7-02345f3b3900
Dr Manuel Corpas discusses the BioJS Javascript component library at the 1st BiVi Annual Meeting in 2014.
Created at: 1st BiVi Annual Meeting.
Dr. Manuel Corpas
Phylogenetics
Pathway or network
Anatomy Physiology and Atlases, Genome, Molecular, Pathway, Phylogenetics
2016-12-08
Art and Science: A partnership catalyzing discovery in biomedicine
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
Art and Science: A partnership catalyzing discovery in biomedicine
https://bivi.co/presentation/art-and-science-partnership-catalyzing-discovery-biomedicine
http://tess.elixir-uk.org/materials/art-and-science-a-partnership-catalyzing-discovery-in-biomedicine
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 understanding and treatment of disease. The challenge is to ensure that technical and non-technical researchers can access, use and learn from this wealth of data and analytical resources. Bang will present examples of solutions developed at the Broad Institute that draw on art and design to enable scientific discovery.Bang Wong is the creative director of the Broad Institute of MIT & Harvard and an adjunct assistant professor in the Department of Art as Applied to Medicine at the Johns Hopkins University School of Medicine. His work focuses on the design and development of computation-visualization tools to meet the analytical challenges of research data. He leads the data visualization initiative at the Broad and is the founding author of Points of View published by Nature Methods, a series of articles that focus on the fundamental aspects of data presentation in science.
Created at: 3rd BiVi Annual Meeting (2017).
Bang Wong
Phylogenetics
Pathway or network
Anatomy Physiology and Atlases, Cells and Organisms, Genome, Molecular, Pathway, Phylogenetics, Populations, Communication, Information visualisation
2017-05-12
Pathway visualization in the Reactome pathway database
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
Pathway visualization in the Reactome pathway database
https://bivi.co/presentation/pathway-visualization-reactome-pathway-database
http://tess.elixir-uk.org/materials/pathway-visualization-in-the-reactome-pathway-database
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 represented in both Pathway Diagrams and Overview as coloured overlays.
Created at: 3rd BiVi Annual Meeting (2017).
Dr. Steve Jupe
Pathway or network
Pathway
2017-05-15
Web-based Tools for Integrative Analysis of Pancreatic Cancer Data
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
Web-based Tools for Integrative Analysis of Pancreatic Cancer Data
https://bivi.co/presentation/web-based-tools-integrative-analysis-pancreatic-cancer-data
http://tess.elixir-uk.org/materials/web-based-tools-for-integrative-analysis-of-pancreatic-cancer-data
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 survival.
Created at: 3rd BiVi Annual Meeting (2017).
Derek Wright
Pathway or network
Genome, Pathway
2017-05-30