6123887
doi
10.5281/zenodo.6123887
oai:zenodo.org:6123887
user-galaxy-training
Joan Herisson
INRAE
Guillaume Gricourt
INRAE
DUIGOU Thomas
INRAE
Galaxy Training Data for "Designing plasmids encoding predicted pathways by using the BASIC assembly method"
BAZI KABBAJ Kenza
INRAE
info:eu-repo/semantics/openAccess
Creative Commons Attribution 4.0 International
https://creativecommons.org/licenses/by/4.0/legalcode
basic assembly
dnabot
genetic design
<p>This dataset provides the data needed for the Galaxy BASIC assembly workflow training tutorial (<a href="https://galaxy-synbiocad.org">https://galaxy-synbiocad.org</a>). This workflow provides a pathway to design plasmids encoding predicted metabolic pathways using the BASIC assembly method (<a href="https://doi.org/10.1021/sb500356d">https://doi.org/10.1021/sb500356d</a>). It generates scripts allowing the automatic construction of these plasmids using an Opentrons liquid handling robot. After downloading these scripts on a computer connected to an Opentrons (<a href="https://opentrons.com">https://opentrons.com</a>), the user can perform the automatic construction of the plasmids on the bench.</p>
<p>The content of the dataset is as follows:</p>
<ul>
<li>
<p>an SBML file modeling a heterologous pathway producing lycopene such as those produced by the Pathway Analysis Workflow (<a href="https://galaxy-synbiocad.org">https://galaxy-synbiocad.org</a>).</p>
</li>
<li>
<p>a CSV file listing the parts to be used (linkers, backbone and promoters) in the constructions.</p>
</li>
<li>
<p>two YAML files providing two examples of settings, i.e. providing the identifiers of the laboratory equipment and the parameters of the DNA robot.</p>
</li>
</ul>
Zenodo
2022-02-17
info:eu-repo/semantics/other
6123886
user-galaxy-training
1659602213.884824
611
md5:cd2fd9d51d0efabf0cebba5528c19a80
https://zenodo.org/records/6123887/files/parts_for_lycopene.csv
2960
md5:42a22f09d181c87900c0499eb0833d57
https://zenodo.org/records/6123887/files/dnabot_london_settings.yaml
2960
md5:9c482a9b310a4f71cc07b8fbf1008387
https://zenodo.org/records/6123887/files/dnabot_paris_settings.yaml
32035
md5:9edb348686bf95421a6f06125152a89b
https://zenodo.org/records/6123887/files/rp_002_0011.xml
public
10.5281/zenodo.6123886
isVersionOf
doi