Difference between revisions of "Johnllopez Week 14"

Revision as of 01:46, 5 December 2017

Electronic Lab Notebook

Pulling Data

Thanks to Corrine Wong, I was able to use the following table to figure out what processes had to be made in order to pull certain data from the functions:

NCBI

• Locus tag < Parse from page https://www.ncbi.nlm.nih.gov/gene/854068
• Gene ID < Parse from conversion algorithm

UniProt

• Protein type/name <Parse XML?
• Protein sequence <Parse XML
• Gene ID <Parse XML
• Similar proteins <Could not find on XML, found on Page

Ensembl

• DNA sequence < Pull from http://www.ensembl.org/Saccharomyces_cerevisiae/Transcript/Sequence_cDNA?db=core;g=YJL128C;r=X:178097-180103;t=YJL128C
• Gene description < Pulled from JSON
• Gene ID < Pulled from JSON / Conversion Necessary

SGD

• Gene ID < Pulled from JSON/ Possible conversion necessary
• Gene expression < NO IDEA HOW WE CAN PULL THIS
• Gene regulation <Pull from page https://www.yeastgenome.org/locus/S000005446
• Gene ontology <SUummary in JSON

JASPAR

• Sequence logo
• Frequency matrixon her

Learning XML DOM

Working with JSON

Acknowledgements and References

Acknowledgements

References