1 / 10

Introduction to Bioinformatics: DNA Transcription and Translation Exercises

This document outlines basic bioinformatics tasks related to DNA transcription and translation. It introduces essential concepts by guiding you through examples such as converting a given DNA sequence into RNA and subsequently into an amino acid sequence. Additionally, it covers calculating Hamming distance between sequences and finding optimal alignments using the BLOSUM62 substitution matrix. This resource is designed for beginners in bioinformatics, providing hands-on practice to reinforce theoretical knowledge.

darena
Télécharger la présentation

Introduction to Bioinformatics: DNA Transcription and Translation Exercises

An Image/Link below is provided (as is) to download presentation Download Policy: Content on the Website is provided to you AS IS for your information and personal use and may not be sold / licensed / shared on other websites without getting consent from its author. Content is provided to you AS IS for your information and personal use only. Download presentation by click this link. While downloading, if for some reason you are not able to download a presentation, the publisher may have deleted the file from their server. During download, if you can't get a presentation, the file might be deleted by the publisher.

E N D

Presentation Transcript

  1. Introduction to Bioinformatics Örnekler Doç. Dr. Nizamettin AYDIN n.aydin@bahcesehir.edu.tr “INTRODUCTION TO BIOINFORMATICS” “SPRING 2005” “Dr. N AYDIN”

  2. Örnek 1 • Aşağıda verilen DNA yı RNA ya kopyalayın (transcription). Bulduğunuz genetik kodu kullanarak DNA yı amino asit dizisine (sequence of aminoacids) dönüştürünüz (translation) • TCATAATACGTTTTGTATTCGCCAGCGCTTCGGTGT “INTRODUCTION TO BIOINFORMATICS” “SPRING 2005” “Dr. N AYDIN”

  3. Çözüm 1... • DNA yı kopyalamak için önce G yerine C, C yerine G, T yerine A ve A yerine T yazarak DNA nın bir kopyasını çıkarın. • TCATAATACGTTTTGTATTCGCCAGCGCTTCGGTGT • AGTATTATGCAAAACATAAGCGGTCGCGAAGCCACA • RNA için Thymine (T) baselerini e a Uracil (U) le değiştirin: • AGUAUUAUGCAAAACAUAAGCGGUCGCGAAGCCACA • Genetic kodu bulmak için RNA dizisini üçlü gruplara ayırın: • AGU AUU AUG CAA AAC AUA AGC GGU CGC GAA GCC ACA “INTRODUCTION TO BIOINFORMATICS” “SPRING 2005” “Dr. N AYDIN”

  4. Çözüm 1... • Genetic code tablosundan üçlü gruplara (codon) karşı gelen amino asitleri yazın. Örneğin AGU Serine (ser veya S), AUU Isoleucine (Ile veya I) olur: • SIMQNISGREAT ------------------------------------------------------- • Ödev: Yukarıdaki işlemleri yapan bir Perl programı yazınız “INTRODUCTION TO BIOINFORMATICS” “SPRING 2005” “Dr. N AYDIN”

  5. Genetic Code A=Ala=Alanine C=Cys=Cysteine D=Asp=Aspartic acid E=Glu=Glutamic acid F=Phe=Phenylalanine G=Gly=Glycine H=His=Histidine I=Ile=Isoleucine K=Lys=Lysine L=Leu=Leucine M=Met=Methionine N=Asn=Asparagine P=Pro=Proline Q=Gln=Glutamine R=Arg=Arginine S=Ser=Serine T=Thr=Threonine V=Val=Valine W=Trp=Tryptophan Y=Tyr=Tyrosine “INTRODUCTION TO BIOINFORMATICS” “SPRING 2005” “Dr. N AYDIN”

  6. Alıştırma 1 • Yukarıdaki örnekte verilen DNA dizisinin başından bir harf silin ve aynı işlemi tekrarlayın. Sonuç ne olur, yorumlayın. “INTRODUCTION TO BIOINFORMATICS” “SPRING 2005” “Dr. N AYDIN”

  7. Örnek 2 • Aşağıda verilen iki dizide Hamming uzaklığı (Hamming distance) nedir • BIOINFORMATICS_IS_THE • BEST_FOR_STRUCTURE_PREDICTION “INTRODUCTION TO BIOINFORMATICS” “SPRING 2005” “Dr. N AYDIN”

  8. Çözüm 2 • Hamming uzaklığını hesaplamak için hizali dizilerdeki karşılıklı aynı olmayan elemanları sayıyoruz: BIOINFORMATICS_IS_THE BEST_FOR_STRUCTURE_PREDICTION 16 “INTRODUCTION TO BIOINFORMATICS” “SPRING 2005” “Dr. N AYDIN”

  9. Örnek 3 • Aşağıdaki iki dizi için, BLOSUM62 substitution matrix ini kullanarak en iyi hizalanışı (best alignment) bulun. • FYGNYK • DGSFNW “INTRODUCTION TO BIOINFORMATICS” “SPRING 2005” “Dr. N AYDIN”

  10. BLOSUM62 Substitution Matrix • Zero: by chance • + more than chance • - less than chance • Arranged by • Sidegroups • So, high scoring • in the end boxes • Example • M,I,L,V • Interchangeable “INTRODUCTION TO BIOINFORMATICS” “SPRING 2005” “Dr. N AYDIN”

More Related