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ZSO 2 bioinformatica
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ZSO 2 - Uitgewerkte oefeningen van ZSO 2 van bioinformatica, biomedische wetenschappen UHasselt
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ZSO 2 – BIOINFORMATICAOPDRACHTEN
OEFENING 1
VOER EEN ALIGNMENT UIT VAN ONDERSTAANDE 2 NUCLEOTIDE SEQUENTIES MET ZOWEL BLAST
EN CLUSTAL OMEGA (HTTP://WWW.EBI.AC.UK/TOOLS/MSA/ ). VERGELIJK DE BEKOMEN
RESULTATEN. WAT IS HET VERSCHIL TUSSEN BEIDE ALIGNMENTS? WELK RESULTAAT DENK JE
DAT HET BESTE PAST EN WAAROM?
>seq1
AATGCTGTACGTACGCTAGCTA
>seq2
AATGCCGTACGCACACTAGCTCA
I. clustal omega
*de volledige sequenties zo kopiëren zoals ze hierboven staat om foutmeldingen te
vermijden, dan krijgen we: https://www.ebi.ac.uk/Tools/services/web/toolresult.ebi?
jobId=clustalo-I20191206-102411-0742-54290390-p2m
II. BLAST
*bij de BLAST naar onderaan scrollen en hier zoeken naar global alignment, daar de twee
sequenties ingeven: https://blast.ncbi.nlm.nih.gov/Blast.cgi
, OEFENING 2 - MULTIPLE SEQUENCE ALIGNMENTS
VOER EEN MULTIPLE ALIGNMENT UIT VAN ONDERSTAANDE 4 MIRNA PRECURSOREN MET
CLUSTAL OMEGA. BESPREEK DE FYLOGENETISCHE VERWANTSCHAP.
Globaal bekijken => clustal en we kunnen ook de fylogenie bekijken hiermee
>hsa-mir-377
UUGAGCAGAGGUUGCCCUUGGUGAAUUCGCUUUAUUUAUGUUGAAUCACACAAAGGCAACUUUUGUU
UG
>mmu-mir-377
UGAGCAGAGGUUGCCCUUGGUGAAUUCGCUUUAUUGAUGUUGAAUCACACAAAGGCAACUUUUGUUU
G
>rno-mir-377
CUUGAGCAGAGGUUGCCCUUGGUGAAUUCGCUUUAUUGAUGUUGAAUCACACAAAGGCAACUUUUGGU
UGAG
>hsa-mir-539
AUACUUGAGGAGAAAUUAUCCUUGGUGUGUUCGCUUUAUUUAUGAUGAAUCAUACAAGGACAAUUUC
UUUUUGAGUA
*op de website voor clustal omega de vier mRNA sequenties ingeven (aanpassen naar RNA)
en dan krijgen we: https://www.ebi.ac.uk/Tools/services/web/toolresult.ebi?jobId=clustalo-
I20191206-104133-0907-67098636-p1m
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