denbi-modsim.github.io

Virtual 2 Day Workshop SABIO-RK and FAIRDOMHub / FAIRDOM-SEEK

Educators:

Xiaoming Hu, Maja Rey, Andreas Weidemann, Ulrike Wittig

Date:

SABIO-RK: 25-NOV-2024 2:00 pm - 5:00pm (CET / UTC +1)

FAIRDOM-SEEK: 26-NOV-2024 2:00 pm - 6:00pm (CET / UTC +1)

Location:

Online Conferencing (Link will be provided to Registered and confirmed participants)

Day 1:

SABIO-RK (https://sabiork.h-its.org/) is a manually curated database for biochemical reactions and their kinetic properties. Data are mainly extracted from literature and include detailed information about biochemical reactions, their kinetic rate equations with parameters and experimental conditions.

Agenda:

Introduction to SABIO-RK
Hands-on session: manual search and export functionalities
Hands-on session: programmatic access

Requirements:

For the SABIO-RK hands-on session you will need Python and the Python library Requests.

Day 2:

FAIRDOMHub (https://fairdomhub.org/) is a free research data management platform built upon the FAIRDOM-SEEK software (http://fairdomseek.org). FAIRDOM-SEEK is an open source tool for uploading, organizing, sharing and publishing scientific research data. FAIRDOM-SEEK contains specific features for systems biologists for data and model management.

Agenda:

Introduction to FAIRDOMHub / FAIRDOM-SEEK
Hands-on session:
- Storage and exchange of data and models according to the FAIR principles
- Modeling specific functionalities in FAIRDOMHub / FAIRDOM-SEEK
Demo of programmatic access

Registration

This workshop is part of the de.NBI SysBio Workshop series 2024. more information