Dataset Open Access
Galaxy Training Data for "Designing plasmids encoding predicted pathways by using the BASIC assembly method"
BAZI KABBAJ Kenza; DUIGOU Thomas
Research group(s)
Joan Herisson; Guillaume GricourtThis dataset provides the data needed for the Galaxy BASIC assembly workflow training tutorial (https://galaxy-synbiocad.org). This workflow provides a pathway to design plasmids encoding predicted metabolic pathways using the BASIC assembly method (https://doi.org/10.1021/sb500356d). 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 (https://opentrons.com), the user can perform the automatic construction of the plasmids on the bench.
The content of the dataset is as follows:
-
an SBML file modeling a heterologous pathway producing lycopene such as those produced by the Pathway Analysis Workflow (https://galaxy-synbiocad.org).
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a CSV file listing the parts to be used (linkers, backbone and promoters) in the constructions.
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two YAML files providing two examples of settings, i.e. providing the identifiers of the laboratory equipment and the parameters of the DNA robot.
| Name | Size | |
|---|---|---|
|
dnabot_london_settings.yaml
md5:42a22f09d181c87900c0499eb0833d57 |
3.0 kB | Download |
|
dnabot_paris_settings.yaml
md5:9c482a9b310a4f71cc07b8fbf1008387 |
3.0 kB | Download |
|
parts_for_lycopene.csv
md5:cd2fd9d51d0efabf0cebba5528c19a80 |
611 Bytes | Download |
|
rp_002_0011.xml
md5:9edb348686bf95421a6f06125152a89b |
32.0 kB | Download |
| All versions | This version | |
|---|---|---|
| Views | 140 | 140 |
| Downloads | 497 | 497 |
| Data volume | 4.2 MB | 4.2 MB |
| Unique views | 110 | 110 |
| Unique downloads | 158 | 158 |
- Publication date:
- February 17, 2022
- DOI:
-
- Keyword(s):
- basic assembly dnabot genetic design
- Communities:
- License (for files):
- Creative Commons Attribution 4.0 International