Difference between revisions of "Stephen Louie Week 5"
From LMU BioDB 2013
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*Observed "General Annotations" section. Section contained details such as functions, structure, and location. | *Observed "General Annotations" section. Section contained details such as functions, structure, and location. | ||
*Accessed "Cross-references" section. Observed was was found in several databases. | *Accessed "Cross-references" section. Observed was was found in several databases. | ||
| − | **EMBL: | + | **EMBL: Contained basic sequence information on genomic DNA and mRNA. Also contained visual display of base pair sequences with specific areas of interest. |
| − | **Interpro: | + | **Interpro: Contained textual summary of protein families detailing functions, effects, and structure. |
| − | **PDB: | + | **PDB: Contained a 3D structure of the protein with basic information of the structure's function. |
| − | **Pfam: | + | **Pfam: Contained a 3D structure of the protein. Also contained a list of internal and external database links of the protein. |
| − | **RefSeq: | + | **RefSeq: Contained a list of scholarly works which pertain to the protein. |
| − | **GeneID: | + | **GeneID: Contained basic information of gene. Aslo contained summary of protein function. Contained visual of gene with detailed information on specific sequences. |
*Observed "Ontologies" section. Section contained words and phrases that pertained to the protein's relevance. | *Observed "Ontologies" section. Section contained words and phrases that pertained to the protein's relevance. | ||
*Observed "Sequence annotation(Features)" section. Section listed the Amino acid sequence and detailed what function each position affected. | *Observed "Sequence annotation(Features)" section. Section listed the Amino acid sequence and detailed what function each position affected. | ||
*Switched interface between TXT (flat), XML (tags), RDF/XML (web), GFF (Genomic specialized), and FASTA (Sequence information) formats. | *Switched interface between TXT (flat), XML (tags), RDF/XML (web), GFF (Genomic specialized), and FASTA (Sequence information) formats. | ||
==Summary== | ==Summary== | ||
Revision as of 05:24, 27 September 2013
Lab Journal
- Accessed UniProt website
- Entered Primary Ascension Number:P00533 into Query. Was taken to page P00533 (EGFR_HUMAN) with alternate name "Epidermal growth factor receptor"
- Observed "Names and origin" section. Section contains protein names with alternative names. It also contains the gene names and synonyms. The organism of interest is listed. The taxonomic identifier and its lineage is listed as well.
- Observed "References" section. Section contained list of papers and journals used in research.
- Observed "General Annotations" section. Section contained details such as functions, structure, and location.
- Accessed "Cross-references" section. Observed was was found in several databases.
- EMBL: Contained basic sequence information on genomic DNA and mRNA. Also contained visual display of base pair sequences with specific areas of interest.
- Interpro: Contained textual summary of protein families detailing functions, effects, and structure.
- PDB: Contained a 3D structure of the protein with basic information of the structure's function.
- Pfam: Contained a 3D structure of the protein. Also contained a list of internal and external database links of the protein.
- RefSeq: Contained a list of scholarly works which pertain to the protein.
- GeneID: Contained basic information of gene. Aslo contained summary of protein function. Contained visual of gene with detailed information on specific sequences.
- Observed "Ontologies" section. Section contained words and phrases that pertained to the protein's relevance.
- Observed "Sequence annotation(Features)" section. Section listed the Amino acid sequence and detailed what function each position affected.
- Switched interface between TXT (flat), XML (tags), RDF/XML (web), GFF (Genomic specialized), and FASTA (Sequence information) formats.
