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Scientific topics: Molecular interactions, pat... 


Accessing fine-grained Molecular Interactions data with IntAct

This webinar will provide an introduction to molecular interactions and how to find these through the molecular interaction database IntAct.  We will demonstrate examples of how you can search for interaction data using advanced filter options, how to create molecular interaction networks using...

Scientific topics: Molecular interactions, pathways and networks, Protein interactions

Resource type: Recorded webinar

A guide to molecular interactions

During this webinar, we will give you an introduction to molecular interactions and how to find these through the molecular interaction database IntAct. We will show you examples of how you can search for interaction data, how to create molecular interaction networks using our network viewer...

Scientific topics: Molecular interactions, pathways and networks

Resource type: Recorded webinar

IntAct

This quick tour provides a brief introduction to the EMBL-EBI's molecular interactions database, IntAct.

Scientific topics: Molecular interactions, pathways and networks

Keywords: Molecular interaction data

Resource type: e-learning

Biomedicine, supercomputers and simulations: in silico experiments and its applications in cancer research

At the lowest scale, PhysiCell uses BioFVM solver to simulate the chemical microenvironment using partial differential equations which model the diffusion, uptake and secretion of substrates and signalling molecules. At the cell scale, PhysiCell uses mechanical equations to model individual cell...

Scientific topics: Simulation experiment, Personalised medicine, Molecular interactions, pathways and networks

Operations: Modelling and simulation

Keywords: HPC, Biomodelling, cell simulations

Resource type: Webinar

Tutorial on CARNIVAL

This is a tutorial to guide the analysis of RNAseq dataset using footprint based tools such as DOROTHEA, PROGENY and CARNIVAL

Scientific topics: Molecular interactions, pathways and networks, Gene expression, Omics, RNA-Seq

Operations: Network analysis, RNA-Seq analysis

Keywords: HPC, Signaling, RNAseq, transcriptomics

Resource type: Tutorial

Tutorial on CellNOpt

This tutorial aims to be an introduction to
i) the preparation of the Prior knowledge network (PKN) of signaling pathways and
ii) the training of the PKN against biochemical data to create cell-specific models.

Scientific topics: Personalised medicine, Simulation experiment, Molecular interactions, pathways and networks, Transcription factors and regulatory sites

Operations: Modelling and simulation

Keywords: HPC, Biomodelling, Signalling

Resource type: Tutorial

Introduction to qualitative modelling with MaBoSS

Boolean modelling uses a simple representation of biological entities as either active or inactive, and describes their relations with logical formulas. MaBoSS extends Boolean modelling by adding a notion of continuous time, with the introduction of rates of (in)activation. This enable the...

Scientific topics: Simulation experiment, Personalised medicine, Molecular interactions, pathways and networks, Statistics and probability

Operations: Modelling and simulation

Keywords: HPC, Biomodelling, cell simulations, Boolean

Resource type: Webinar

STRING exercises

Hands-on exercises using the STRING, STITCH, and DISEASES databases through their respective web interfaces. The exercises will teach you how to:

  • retrieve a STRING network for a protein of interest *...

Scientific topics: Bioinformatics, Molecular interactions, pathways and networks, Protein interactions

Cytoscape stringApp exercises

Hands-on exercises using the stringApp for Cytoscape to retrieve molecular networks from the STRING and STITCH databases.

The exercises will teach you how to:

  • retrieve...

Scientific topics: Bioinformatics, Molecular interactions, pathways and networks, Protein interactions, Proteomics, Data visualisation

EMBO 2015

Link to the GitHub repository containing all the training materials made available for the 2015 EMBO event held at TGAC

Scientific topics: Molecular interactions, pathways and networks, Protein binding sites

Keywords: Bioinformatics, Multiple sequence alignment, Network visualization, Protein protein interaction networks