Johnllopez Week 14
From LMU BioDB 2017
Contents
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
Individual Journal Entries and Assignments
- Week 1
- Week 2
- Week 3
- Week 4
- Week 5
- Week 6
- Week 7
- Week 8
- Week 9
- Week 10
- Week 11
- Week 12
- Week 14
- Week 15
Class Assignments
- Week 1
- Week 2
- Week 3
- Week 4
- Week 5
- Week 6
- Week 7
- Week 8
- Week 9
- Week 10
- Week 11
- Week 12
- Week 14
- Week 15
Class Weekly Journal Entries / Project Weekly Journal Entries
- Class Weekly Journal 1
- Class Weekly Journal 2
- Class Weekly Journal 3
- Class Weekly Journal 4
- Class Weekly Journal 5
- Class Weekly Journal 6
- Class Weekly Journal 7
- Class Weekly Journal 8
- Class Weekly Journal 9
- Class Weekly Journal 10
- Class Weekly Journal 11
- Project Journal Week 12
- Project Journal Week 14
- Project Journal Week 15
My Page
