Opgeloste oefeningen vanuit de les ter voorbereiding voor het examen Bioinformatica. Door deze oefeningen te kennen & aan de hand van de uitwerking erlangs behaalde ik een 16/20 in eerste zit.
OEFENINGEN & OPLOSSINGEN
LES 1 – INTRODUCTIE DATABANKEN
- Zonder PMID; enkel nummer ingeven
- Which gene → E2F1
- NM identifier → NM_005225.3
- Display FASTA, genbank en Graphics → gelukt
- Download Genbank flatfile → gelukt
- Download flatfile using DBFetch → website van
slides ervoor gebruiken en daar invullen
UniProt nummer → P69905
FASTA download → gelukt (eerste FASTA optie)
GFF download → gelukt
- Pubmed ID: PMID: 7926722
- IN UNIPROT → Signal sequentie: (control+F naar
signal) of via ‘PTM/Processing’ 1-25 →
MENSLRCVWVPKLAFVLFGASLFSA (staat gewoon
onder het pijltje)
SOX 2
- 1 mRNA
- Regulation of embryonic development
- mRNA & protein: check
- Meerdere bindingen van structuren: entrezgene →
sox2 ingeven → hierop klikken → rechts staat lijst
met ‘relevante information’ → hier staat 3D
structures (kan je de PDB ID vinden van alle
structuren)
- Uniprot: Family & Domains → InterPro → scrollen
naar beneden ‘domains’ → overzicht als je hierover
gaat met muis
MYC
- 2 mRNA
- Proto-oncogen: role in cell cycle progression,
apoptosis and cellular transformation
- mRNA & protein: van isoform2 check
- 12 structuren
- 8 domeinen vermeld bij InterPRO
1
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