Leveraging Existing Biological Data and Making Sense of it
-
Show
-
The value of Open and standardised data
-
How to generate and find these data
-
How to access and use them
-
Some examples
-
- Introduction
- No data, no fun
- Objectives / material
- Open science
- FAIR data
- Ontologies
- Data sources - databases
- Working with these databases - GUI/API
- Sharing data
- Graphs/Networks
- Knowledge Graphs
- Use case
- Tools
- GraphML
- QA
-
A parasite's perspective on data sharing YoSon Park; Casey S Greene Gigascience
-
Network biology: understanding the cell's functional organization Albert-László Barabási; Zoltán N. Oltvai Nat. Reviews Genetics
-
Data-Driven Synthetic Cell Factories Development for Industrial Biomanufacturing Zhenkun Shi; Pi Liu; Xiaoping Liao; Zhitao Mao; Jianqi Zhang; Qinhong Wang; Jibin Sun; Hongwu Ma; Yanhe Ma BioDesign Research
-
Cameo: A Python Library for Computer Aided Metabolic Engineering and Optimization of Cell Factories João G. R. Cardoso; Kristian Jensen; Christian Lieven; Anne Sofie Lærke Hansen; Svetlana Galkina; Moritz Beber; Emre Özdemir; Markus J. Herrgård; Henning Redestig; Nikolaus Sonnenschein ACS Synthetic Biology
-
Automating the design-build-test-learn cycle towards next-generation bacterial cell factories Nicolás Gurdo; Daniel C. Volke; Douglas McCloskey; Pablo Iván Nikel New Biotechnology
-
Nine quick tips for analyzing network data Vincent Miele; Catherine Matias; Stéphane Robin; Stéphane Dray PLOS Computational Biology
-
Sharing biological data: why, when, and how Samantha L. Wilson; Gregory P. Way; Wout Bittremieux; Jean-Paul Armache; Melissa A. Haendel; Michael M. Hoffman FEBS Letters
-
The role of ontologies in biological and biomedical research: a functional perspective Robert Hoehndorf; Paul N. Schofield; Georgios V. Gkoutos Briefings in Bioinformatics
-
The OBO Foundry: coordinated evolution of ontologies to support biomedical data integration Barry Smith; Michael Ashburner; Cornelius Rosse; Jonathan Bard; William Bug; Werner Ceusters; Louis J Goldberg; Karen Eilbeck; ...; Richard H Scheuermann, Nigam Shah, Patricia L Whetzel & Suzanna Lewis Nature Biotechnology