Biological data analysis using the InterMine API (Online)
Organizer: University of Cambridge
Host institution: University of Cambridge Bioinformatics Training
Start: Tuesday, 17 November 2020 @ 13:00
End: Tuesday, 17 November 2020 @ 16:00
Venue: Craik-Marshall Building
Country: United Kingdom
Postcode: CB2 3ARTarget audience:
- This course is aimed at <b>bench biologists and bioinformaticians</b> who are interested in large scale and/or automated analysis of their own or existing data against large biological datasets
- or who are interested in graphs and other visualisations of data generated through an InterMine search.
- The course is also suitable for anyone wanting to know what an API is and how the ability to access data programmatically could help them in their research.
- This course is for researchers from a broad biological background as the techniques learned can be applied to any InterMine database
- covering a diverse range of organisms and biological data.
- Graduate students
- Postdocs and Staff members from the University of Cambridge
- Institutions and other external Institutions or individuals
PLEASE NOTE The Bioinformatics Team are presently teaching as many courses live online. We aim to simulate the classroom experience as closely as possible, with opportunities for one-to-one discussion with tutors and a focus on interactivity throughout.
InterMine is a freely available open-source data warehouse built specifically for the integration and analysis of complex biological data sets.
InterMine-based data analysis platforms are available for many organisms including mouse, rat, budding yeast, plants (over 87 plant genomes), nematodes, fly, zebrafish, Hymenoptera, Planaria, and more recently human.
Genomic and proteomic data within InterMine databases includes pathways, gene expression, interactions, sequence variants, GWAS, regulatory data and protein expression.
InterMine provides sophisticated query and visualisation tools both through a web interface and a powerful web service API, with multiple language bindings including Python and R.
This course will focus on programmatic access to InterMine through the API and InterMine searches will be done using Python and R scripts. The exercises will mainly use the fly, human and mouse databases, but the course is applicable to anyone working with data for which an InterMine database is available (a comprehensive list of InterMine databases is available here.
This event is organised alongside a half day course on Biological data analysis using the InterMine User Interface. More information on this event are available [ https://training.csx.cam.ac.uk/bioinformatics/course/bioinfo-intermine here].
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