Difference between revisions of "QLanners Week 13"
From LMU BioDB 2017
(started weekly journal page week 13) |
(added more fields) |
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Used the gene HSF1, which is a transcription factor, to determine which fields should be pulled from each database. | Used the gene HSF1, which is a transcription factor, to determine which fields should be pulled from each database. | ||
| + | |||
| + | General info we want about each gene: | ||
| + | *Gene ID from each database | ||
| + | *Description/Function (ensembl) | ||
| + | *DNA Sequence (ensembl) | ||
| + | *Protein Sequence (UniProt) | ||
| + | *Locus tag (NCBI) | ||
| + | *Also Known As (NCBI) | ||
| + | *Interactions with other genes | ||
| + | *Consensus Sequence (JASPAR) | ||
| + | *Expression (SGD) | ||
| + | *Regulation (SGD) | ||
| + | *Interaction (SGD) | ||
| + | *Similar Proteins (UniProt) | ||
| + | *Gene Ontology (SGD - see if we can find it on UniProt) | ||
We decided that from JASPAR we will pull: | We decided that from JASPAR we will pull: | ||
| − | * | + | *Gene ID |
| + | *Sequence Logo | ||
| + | *Frequency Matrix | ||
Latest revision as of 23:57, 28 November 2017
Used the gene HSF1, which is a transcription factor, to determine which fields should be pulled from each database.
General info we want about each gene:
- Gene ID from each database
- Description/Function (ensembl)
- DNA Sequence (ensembl)
- Protein Sequence (UniProt)
- Locus tag (NCBI)
- Also Known As (NCBI)
- Interactions with other genes
- Consensus Sequence (JASPAR)
- Expression (SGD)
- Regulation (SGD)
- Interaction (SGD)
- Similar Proteins (UniProt)
- Gene Ontology (SGD - see if we can find it on UniProt)
We decided that from JASPAR we will pull:
- Gene ID
- Sequence Logo
- Frequency Matrix
