Lab 6: Model Organism Databases
Goals:
1. Identify mutant phenotypes/strains for your model organism homologs. Check PubMed as well.
Do they have similar phenotypes as your human disease or trait?
If so, can you think of how you could use this model organism wisely in your Aims.
2. Use the wealth of knowledge you find on these organismal databases to your advantage.
Read and immerse yourself in what each mutant or phenotype is know in that particular model organism.
Please be prepared to tell why the organism you chose would be an excellent model to study the process you are interested in. Justify your reasons as it relates to your disease phenotype(s).
*Starting thinking about how you could use genome-wide CRISPR screens to identify new factors that might regulate the process you are interested in studying further.
Model Organism Databases: check their phenotypes and GO terms, +++
Wormbase
Flybase
MGI: Mouse Database
RGD: Rat Database
ZFIN: Zebrafish Database
TAIR: Arabidopsis Database
Xenopus: Xenbase
SGD: Saccharomyces Genome Database
Pombase: Saccharomyces pombe Genome Database
Cellular Phenotypes Database (Human)
**Allied Model Organism Database: https://www.alliancegenome.org/
CRISPR Resources:
Doudna Lab: https://doudnalab.org/research_areas/crispr-systems/
Charpentier Lab: www.emmanuelle-charpentier-lab.org/
CRISPR Genome Engineering (Zhang Lab-MIT): http://crispr.mit.edu
Ideas for your project:
You could identify genes involved fat metabolism using a genome-wide CRISPR screen in C. elegans.
Or a genome-wide screen in Drosophila to identify genes involved in muscle development?
Or a genome-wide screen in zebrafish to identify genes involved in blood vessel formation?
1. Identify mutant phenotypes/strains for your model organism homologs. Check PubMed as well.
Do they have similar phenotypes as your human disease or trait?
If so, can you think of how you could use this model organism wisely in your Aims.
2. Use the wealth of knowledge you find on these organismal databases to your advantage.
Read and immerse yourself in what each mutant or phenotype is know in that particular model organism.
Please be prepared to tell why the organism you chose would be an excellent model to study the process you are interested in. Justify your reasons as it relates to your disease phenotype(s).
*Starting thinking about how you could use genome-wide CRISPR screens to identify new factors that might regulate the process you are interested in studying further.
Model Organism Databases: check their phenotypes and GO terms, +++
Wormbase
Flybase
MGI: Mouse Database
RGD: Rat Database
ZFIN: Zebrafish Database
TAIR: Arabidopsis Database
Xenopus: Xenbase
SGD: Saccharomyces Genome Database
Pombase: Saccharomyces pombe Genome Database
Cellular Phenotypes Database (Human)
**Allied Model Organism Database: https://www.alliancegenome.org/
CRISPR Resources:
Doudna Lab: https://doudnalab.org/research_areas/crispr-systems/
Charpentier Lab: www.emmanuelle-charpentier-lab.org/
CRISPR Genome Engineering (Zhang Lab-MIT): http://crispr.mit.edu
Ideas for your project:
You could identify genes involved fat metabolism using a genome-wide CRISPR screen in C. elegans.
Or a genome-wide screen in Drosophila to identify genes involved in muscle development?
Or a genome-wide screen in zebrafish to identify genes involved in blood vessel formation?