Dissertation topics suggested by the teacher.
Requirements:
- be able to use a command line.
- basic knowledge in programming (Bash, Python, R).
- basic concepts in statistics.
- time to dedicate to the project.
Mining of genome databases for population genomics studies.
- implementation of pipelines for data and meta-data retrieval.
- implementation of pipelines for data and meta data curation.
Analysis of NGS data forpopulation genomics studies
- dealing with genomic data (up to 56Gb per sample; up to 500 samples).
- processing of raw data (quality check and Sequence alignment).
- detection of variants (SNPs, Indels, CNVs, Chromosomal rearrangement).
- filtering of variants. use of variats for population genomics studies.
Analysis of NGS sequencing data for viromics and One Health applications.
- dealing with genomic and transcriptomic data.
- processing of raw data (quality check and Sequence alignment).
- implementation of pipelines for viral sequences detection.
Analysis of genotype data for population genomics studies
- Genome-wide association studies (GWAS) (univariate statistics, multivariate statistics).
- Detection of Runs of homozygosity (ROHs).
- Selection Signature Analyses.
- implementation of machine learning-based pipelines.
Analysis of metabolomics data in pigs
- implementation of pipelines for data curation.
- implementation of pipelines for data analysies (univariate statistics, multivariate statistics, machine learning).
- implementation of pipelines for data annotation.
Recent dissertations supervised by the teacher.
Second cycle degree programmes dissertations
- Comparative Analysis of Fusion Detection Algorithms for Identifying ALK Fusions in Lung Adenocarcinoma
