Advanced bioinformatics for biotechnology
A.A. 2018/2019
Obiettivi formativi
The course will present some of the most widely used experimental techniques based on next-generation sequencing (NGS). Different state of the art approaches to the bioinformatic analysis of NGS data will be outlined both in theory and in practice. During lab classes, students will apply different bioinformatic tools to selected case studies
Risultati apprendimento attesi
Non definiti
Periodo: Secondo semestre
Modalità di valutazione: Esame
Giudizio di valutazione: voto verbalizzato in trentesimi
Corso singolo
Questo insegnamento non può essere seguito come corso singolo. Puoi trovare gli insegnamenti disponibili consultando il catalogo corsi singoli.
Programma e organizzazione didattica
Edizione unica
Responsabile
Periodo
Secondo semestre
Programma
- Next generation sequencing in modern biology
- Genetic and epigenetic regulation of transcription
- Chromatin Immunoprecipitation followed by sequencing (ChIP-Seq): genome wide mapping of transcription factor binding and histone modifications.
- ChIP-Seq data analysis: read mapping
- ChIP-Seq data analysis: peak calling for the identification of transcription factor binding sites
- ChIP-Seq data analysis: genome segmentation for the mapping of histone modifications
- ChIP-Seq data post processing: identification of transcription factor binding sites; identification and characterization of target genes.
- Gene expression and transcriptome analysis
- Oligonucleotide microarrays and next generation sequencing of RNAs (RNA-Seq)
- Microarray data analysis: identification of differential expression
- RNA-Seq data analysis: read mapping and assembly, identification of alternative splicing
- RNA-Seq data analysis: computing transcript levels
- RNA-Seq data analysis: identification of differential expression
- Integrated analysis of ChIP- and RNA-Seq data
- Genetic and epigenetic regulation of transcription
- Chromatin Immunoprecipitation followed by sequencing (ChIP-Seq): genome wide mapping of transcription factor binding and histone modifications.
- ChIP-Seq data analysis: read mapping
- ChIP-Seq data analysis: peak calling for the identification of transcription factor binding sites
- ChIP-Seq data analysis: genome segmentation for the mapping of histone modifications
- ChIP-Seq data post processing: identification of transcription factor binding sites; identification and characterization of target genes.
- Gene expression and transcriptome analysis
- Oligonucleotide microarrays and next generation sequencing of RNAs (RNA-Seq)
- Microarray data analysis: identification of differential expression
- RNA-Seq data analysis: read mapping and assembly, identification of alternative splicing
- RNA-Seq data analysis: computing transcript levels
- RNA-Seq data analysis: identification of differential expression
- Integrated analysis of ChIP- and RNA-Seq data
Prerequisiti
Written test
Metodi didattici
Lectures and lab exercises, where each student will have a personal computer at his/her disposal
Materiale di riferimento
Slides, notes and selected articles will be provided
Docente/i
Ricevimento:
Martedì o Venerdì, 15.00- 17.00
Via Celoria 26 (Dip. BioScienze)/Online previo appuntamento