1. Project
BCHB697

2. Project
Web-application for exploring rare coding SNPs associated with a disease.
Data sources (provided):
UniProt human proteins with variant annotations
dbSNP variants with (sub)population frequencies
OMIM disease names and ids
BCHB697 - Edwards

3. Project
Transform and load data sources to 3NF relational data-model in MySQL
Extract comprehensive protein and disease JSON documents using SQL selects and load to CouchDB.
Construct static HTML page web-application to search and display protein and disease documents.
BCHB697 - Edwards

4. Project Data sources: uniprot.csv omim.csv dbsnp.csv variation.csv
Protein data
omim.csv
Disease names
dbsnp.csv
dbSNP population frequency
variation.csv
Link UniProt, OMIM, dbSNP accessions
BCHB697 - Edwards

5. Project
Transform and load data sources to 3NF relational data-model in MySQL
Create conceptual, logical data-model
Create physical data-model in MySQL
Use OpenRefine, Excel, Python to create tabular data for loading to MySQL
Use selects to create new derived tables if needed
BCHB697 - Edwards

6. Project
Extract comprehensive protein, variant, and disease JSON documents using SQL selects and load to CouchDB.
Construct select for universal table for protein, variant, and disease.
Generate JSON format output from selects or from export MySQL table.
Use JSON_OBJECT and JSON_ARRAY functions
Load JSON documents to Edwardslab CouchDB
database name "project_<netid>".
BCHB697 - Edwards

7. Project
Construct static HTML page web-application to search and display protein, variant, and disease documents.
Construct single file HTML display pages protein, variant, and disease documents from CouchDB based on URL parameter
Construct single file HTML search pages for protein, variant, and disease, and result tables to issue and display result of CouchDB select.
BCHB697 - Edwards