Pregled bibliografske jedinice broj: 1180080
Detection of Modified Nucleotides Using Nanopore Sequencing and Deep Learning Methods
Detection of Modified Nucleotides Using Nanopore Sequencing and Deep Learning Methods, 2021., diplomski rad, diplomski, Zagreb
CROSBI ID: 1180080 Za ispravke kontaktirajte CROSBI podršku putem web obrasca
Naslov
Detection of Modified Nucleotides Using Nanopore
Sequencing and Deep Learning Methods
Autori
Deur, Sanja
Vrsta, podvrsta i kategorija rada
Ocjenski radovi, diplomski rad, diplomski
Mjesto
Zagreb
Datum
01.07
Godina
2021
Stranica
45
Mentor
Šikić, Mile
Neposredni voditelj
Stanojević, Dominik
Ključne riječi
epigenetics ; DNA modification ; 5mC methylation ; CpG context ; Nanopore sequencing ; deep learning
Sažetak
In this thesis, a method for DNA base modification detection is developed using Nanopore sequencing and deep learning principles. Nanopore sequencing detects different electrical current signals for different nucleotides, whilst a DNA strand passes through a nanopore. Then, basecalling is performed, translating the detected signals into a DNA sequence. After aligning basecalled reads to the reference, signal points at insertions and deletions should be remapped, using the developed Remapper method. The implementation achieves significant results regarding the runtime, though at the cost of reduced accuracy. Source code is available at https://github.com/sanjadeur/master- thesis/.
Izvorni jezik
Engleski
Znanstvena područja
Računarstvo
POVEZANOST RADA
Projekti:
HRZZ-IP-2018-01-5886 - De novo sastavljanje genoma i metagenoma (SIGMA) (Šikić, Mile, HRZZ ) ( CroRIS)
Ustanove:
Fakultet elektrotehnike i računarstva, Zagreb
