We are organising this workshop of high quality, for the participants interested to explore the plant genomics resources and tools available at Ensembl database. In this workshop, different trainers from European Bioinformatics Institute (EMBL-EBI) and Ensembl will provide the hands-on training sessions of "Ensembl Plants browser and REST API workshop". This workshop will be equally useful for the researchers working in the area of plant sciences.    

 

Who can participate: Students (B.Sc./B.Tech/M.Sc./M.Tech), Research Fellows, PhD Student, Faculty, Scientists, and Company Personals. 

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Workshop Schedule

Date: January 15-26, 2024

Time: 6:30 PM - 8:00 PM Indian Standard time (IST)

 

Registration

Last date of registration: January 14, 2024

Registration Fee: Rs. 500/- Indian Participants, $15 (USD) for International Participants.

 

Certification

E-certificates to all the registered participants, issued by European Bioinformatics Institute (EMBL-EBI), European Molecular Biology Laboratory, Wellcome Genome Campus, Cambridge, UK.

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Highlights

• The entire workshop will be online and interactive.

• We will provide the link (e.g. Webex) to join the workshop a day before the event.

• Participants do not need to install any software package/tool for this workshop.

• No programming or knowledge of Bioinformatics required.

• Workshop material will be available for the registered participants. 

• All the training sessions will be delivered by EMBL-EBI project leaders (resource persons). 

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Prerequisites

• Participants must have access to the laptop/desktop with a stable internet connection.

• Elementary knowledge of molecular biology/genetics.

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Help and Support

support@nextgenhelper.com

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Pre-course survey (Please fill this form before registration)

Click Here

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Workshop Material

Click Here

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Day 1, January 15, 2024

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06:30 - 08:00 PM: Introduction to Ensembl Plants: origin, goals and organisation of the Ensembl project

Day 2, January 16, 2024

06:30 - 08:00 PM: Genes and Transcripts: visualising and exporting data for plant genes and transcripts

Day 3, January 17, 2024

6:30 - 8:00 PM : Variation: SNPs and other polymorphisms, structural variants

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Day 4, January 18, 2024

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6:30 - 8:00 PM: Ensembl Plants Comparative Genomics

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Day 5, January 19, 2024

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6:30 - 8:00 PM: Data export with BioMart: retrieving genomic information using a web interface (no programming required).

Day 6, January 20, 2024

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7:00 - 8:00 PM: Basics of 'R' - I

Day 7, January 21, 2024

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7:00 - 8:00 PM: Basics of 'R' - II

Day 8, January 22, 2024

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6:30 - 8:00 PM: Exporting genomic data using the Ensembl REST API: exploring endpoints

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Day 9, January 23, 2024

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6:30 - 8:00 PM: Writing scripts to retreive genomic data using the Ensembl REST API

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Day 10, January 24, 2024

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6:30 - 8:00 PM: Using results from the Ensembl REST API: fetching specific data points and exploring other content types 

Day 11, January 25, 2024

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6:30 - 8:00 PM: Linking endpoints from the Ensembl REST API to form complex queries

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Day 12, January 26, 2024

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6:30 - 8:00 PM: Accessing POST queries in the Ensembl REST API: bulk REST API calls and rate limiting