GenSAS: Genome Sequence Annotation Server, a Tool for Online Annotation and Curation Dorrie Main,...
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Transcript of GenSAS: Genome Sequence Annotation Server, a Tool for Online Annotation and Curation Dorrie Main,...
![Page 1: GenSAS: Genome Sequence Annotation Server, a Tool for Online Annotation and Curation Dorrie Main, Taein Lee, Ping Zheng, Sook Jung, Stephen P. Ficklin,](https://reader035.fdocuments.us/reader035/viewer/2022062314/56649dd15503460f94ac713c/html5/thumbnails/1.jpg)
GenSAS: Genome Sequence Annotation Server, a Tool for Online Annotation and Curation
Dorrie Main, Taein Lee, Ping Zheng, Sook Jung, Stephen P. Ficklin, Jodi Humann, Jill Wegrzyn and David Neale
![Page 2: GenSAS: Genome Sequence Annotation Server, a Tool for Online Annotation and Curation Dorrie Main, Taein Lee, Ping Zheng, Sook Jung, Stephen P. Ficklin,](https://reader035.fdocuments.us/reader035/viewer/2022062314/56649dd15503460f94ac713c/html5/thumbnails/2.jpg)
What is GenSAS?
• It is a web-based Genome Sequence Annotation Server • A one-stop website with a single graphical interface for running multiple structural and functional annotation tools • Enables the visualization and manual curation of genome sequences
![Page 3: GenSAS: Genome Sequence Annotation Server, a Tool for Online Annotation and Curation Dorrie Main, Taein Lee, Ping Zheng, Sook Jung, Stephen P. Ficklin,](https://reader035.fdocuments.us/reader035/viewer/2022062314/56649dd15503460f94ac713c/html5/thumbnails/3.jpg)
Easy sequence input and task
creation
User accounts allow for easy access to DNA sequences, tasks, and results
Multiple annotation tools are
available in GenSAS
![Page 4: GenSAS: Genome Sequence Annotation Server, a Tool for Online Annotation and Curation Dorrie Main, Taein Lee, Ping Zheng, Sook Jung, Stephen P. Ficklin,](https://reader035.fdocuments.us/reader035/viewer/2022062314/56649dd15503460f94ac713c/html5/thumbnails/4.jpg)
Sequences can be pasted or uploaded
Sequences are saved in the
user associated database and selected for analysis
A customized task can be created by
selecting from the list of tools
Customize the settings for each tool
![Page 5: GenSAS: Genome Sequence Annotation Server, a Tool for Online Annotation and Curation Dorrie Main, Taein Lee, Ping Zheng, Sook Jung, Stephen P. Ficklin,](https://reader035.fdocuments.us/reader035/viewer/2022062314/56649dd15503460f94ac713c/html5/thumbnails/5.jpg)
Parameter windows allow user to adjust settings and use custom databases for
each tool
![Page 6: GenSAS: Genome Sequence Annotation Server, a Tool for Online Annotation and Curation Dorrie Main, Taein Lee, Ping Zheng, Sook Jung, Stephen P. Ficklin,](https://reader035.fdocuments.us/reader035/viewer/2022062314/56649dd15503460f94ac713c/html5/thumbnails/6.jpg)
Tasks are given custom names and added added to the task queue
• Multiple tasks can be added
• Users are sent email notifications upon task execution and completion
![Page 7: GenSAS: Genome Sequence Annotation Server, a Tool for Online Annotation and Curation Dorrie Main, Taein Lee, Ping Zheng, Sook Jung, Stephen P. Ficklin,](https://reader035.fdocuments.us/reader035/viewer/2022062314/56649dd15503460f94ac713c/html5/thumbnails/7.jpg)
Graphical display of results for editing and manual curation
Zoom in and out
Navigate by sliding the sequence or by position See the task settings
and tools
Create a custom layer from data or import a layer of
data
Name of analysis
Save the layer data and filter the results
![Page 8: GenSAS: Genome Sequence Annotation Server, a Tool for Online Annotation and Curation Dorrie Main, Taein Lee, Ping Zheng, Sook Jung, Stephen P. Ficklin,](https://reader035.fdocuments.us/reader035/viewer/2022062314/56649dd15503460f94ac713c/html5/thumbnails/8.jpg)
Zoom to see the sequence
Add elements from other layers to custom layer
Save the custom
layer in gff3 or Chado database format
![Page 9: GenSAS: Genome Sequence Annotation Server, a Tool for Online Annotation and Curation Dorrie Main, Taein Lee, Ping Zheng, Sook Jung, Stephen P. Ficklin,](https://reader035.fdocuments.us/reader035/viewer/2022062314/56649dd15503460f94ac713c/html5/thumbnails/9.jpg)
Further Development of GenSAS
• Add the ability to assign tasks to multiple sequences at once and run the same tool with different settings in the same task
• Add more analysis tools and protein and transcript information to layer data
• Enable users to add sub-accounts for group editing of annotations
• Implement transfer of data to a Chado database and full integration with Tripal
• Develop a virtual machine so users can install GenSAS as a stand-alone program
![Page 10: GenSAS: Genome Sequence Annotation Server, a Tool for Online Annotation and Curation Dorrie Main, Taein Lee, Ping Zheng, Sook Jung, Stephen P. Ficklin,](https://reader035.fdocuments.us/reader035/viewer/2022062314/56649dd15503460f94ac713c/html5/thumbnails/10.jpg)
Funding provided by