FAIRDOMHub

14 items tagged with 'Cytoscape'.

People (12)
Data files (2)

Expertise: Knowledge integration, Curation, Data Integration, rare diseases, Systems Biology, GMP, GCP, Neuroscience

Tools: wikipathways, pathvisio, Cytoscape, R, Python, Statistics

Pranavathiyani G

Projects: COVID-19 Disease Map

Institutions: Pondicherry University

https://orcid.org/0000-0003-4854-8238

Expertise: Bioinformatics, Transcriptomics, Computational Systems Biology, Data analysis

Tools: Data Integration, R, Databases, Python, Cytoscape, network theory

PhD Student at Centre for Bioinformatics, Pondicherry University, Pondicherry, India.

Bhanwar Lal Puniya

Projects: COVID-19 Disease Map, Covid-19 Interferon pathway modelling and analysis

Institutions: University of Nebraska-Lincoln

https://orcid.org/0000-0001-7528-3568

Expertise: Computational modelling, Data analysis, Data Integration

Tools: R, Matlab, Cell designer, Cell Collective, Cytoscape

Viviam Solangeli Bermúdez Paiva

Projects: C19DM - Macrophage logical model, COVID-19 Disease Map

Institutions: Norwegian University of Science and Technology

https://orcid.org/0000-0002-9044-4742

Expertise: Systems Biology, Bioinformatics, Immunology, Molecular Biology

Tools: GINsim, Cytoscape, Computational and theoretical biology, Databases, data modeling

Martina Kutmon

Projects: COVID-19 Disease Map

Institutions: University Maastricht

https://orcid.org/0000-0002-7699-8191

Expertise: Curation, Data Integration, Pathway Analysis, Network Visualization, Network biology

Tools: pathvisio, wikipathways, Cytoscape

Johann PELLET

Projects: COVID-19 Disease Map

Institutions: BIOASTER

Expertise: Data Management, Databases, Knowledge Management, Computational Systems Biology, Systems Medicine, Bioinformatics

Tools: Knowledge Management, R, Cytoscape

Inna Kuperstein

Projects: COVID-19 Disease Map

Institutions: Institut Curie

https://orcid.org/0000-0001-8086-8915

Expertise: Network biology, Computational Systems Biology, Cancer research, Data analysis, Bioinformatics, Curation

Tools: CellDesigner, Cytoscape, NaviCell, Pathway Tools

Network biology, knowledge formalisation, cancer, data analysis

Alexander Pico

Projects: COVID-19 Disease Map

Institutions: Gladstone Institutes

https://orcid.org/0000-0001-5706-2163

Expertise: Network Visualization, Network Analysis, Pathway Curation, Pathway Analysis

Tools: wikipathways, Cytoscape, pathvisio

Bioinformatics core director at Gladstone Institutes. Executive director of the National Resource for Network Biology. Co-founder of WikiPathways. Co-developer of Cytoscape.

Marcio Acencio

Projects: COVID-19 Disease Map

Institutions: Luxembourg Centre for Systems Biomedicine (LCSB)

https://orcid.org/0000-0002-8278-240X

Expertise: Biological knowledge managament, Systems Biology, Biocuration

Tools: CellDesigner, Cytoscape, Python, Shell scripting, NetworkX, Protein2GO

Markus Wolfien

Projects: iRhythmics, OLCIR: Optimization of Lung Cancer Therapy with Ionizing Radiation

Institutions: University of Rostock

https://orcid.org/0000-0002-1887-4772

Expertise: Bioinformatics, Transcriptomics, RNA-Seq, AI, Data Integration

Tools: Python, R, Galaxy, Cytoscape

Matthias König

We are investigating liver metabolism and function with the help of computational models and methods.

Group Leader Dr. Matthias König

Institute for Theoretical Biology Humboldt-University Berlin Philippstraße 13, 10115 Berlin, Germany phone +49 30 2093-98435 koenigmx@hu-berlin.de https://www.livermetabolism.com

The König group works on computational modeling, data science, data management, bioinformatics methods and machine learning on ...

Network statistics of Reactome

COSMIC

Basic Graph statistics

RCM: Reaction-Compound Mapping, an edge between nodes means reaction contains metabolite MMM: Metabolite-Metabolite Mapping, an edge between nodes means these metabolites are reaction partners

_comp: entire network after removal of duplicated edges _del: taken from the entire network the largest connected subgraph after deletion of a set of nodes

betw: betweeness of nodes clos: closeness of nodes neigh: neighbours node_degree: number of edges per node path: shortest paths ...

Creator: Sebastian Curth

Submitter: Sebastian Curth

Investigations: Modular Model Building

Studies: Reactome Analysis

Assays: Graph Analysis, KEGG Data Mining

Created: 11th Dec 2012 at 10:54, Last updated: 11th Dec 2012 at 12:00

Visualisation of Reaction Networks in C. acetobutylicum

COSMIC

RCM: Reaction-Compound Mapping, an edge between nodes means reaction contains metabolite MMM: Metabolite-Metabolite Mapping, an edge between nodes means these metabolites are reaction partners

_comp: entire network after removal of duplicated edges _del: taken from the entire network the largest connected subgraph after deletion of a set of nodes _upload: entire network before removal of duplicated edges

X_depthY: subgraphs where X is a chosen central component and Y is the Yth of neighbour to ...

Creator: Sebastian Curth

Submitter: Sebastian Curth

Investigations: Modular Model Building

Studies: Reactome Analysis

Assays: Graph Analysis, KEGG Data Mining

Created: 11th Dec 2012 at 10:43