Modalità d'esame
<p>oral exam</p>
Prerequisiti
PhD students
Programma insegnamento
1) A primer on regulation of gene expression and statistical considerations
2) RNA-seq: how it works
3) Sequence quality control and mapping algorithms
4) Introduction to long-read sequencing (L. Pandolfini)
5) Hands-on: Long Read Sequencing Data Formats (L. Pandolfini)
6) Detection of differential gene expression
7) Clustering and other methods to reduce dimensionality
8) Gene Ontology and Gene Set Enrichment
9) Network analysis
10) RNA metabolism: splicing, stability & decay (L. Pandolfini)
11) Epitranscriptomics (L. Pandolfini)
12) Applications of network analysis to the brain
13) Hands-on: Analysis of differential expression using DESeq2
14) Hands-on: Analysis of GO terms and pathways using WebGestalt
15) Riboseq e miRNAs
16) Single-cell RNA-seq, methods and analysis
17) Single-cell RNA-seq, applications to the nervous system
18) Methods for spatial transcriptomics
19) ScRNA and vertebrate brain evolution (L. Pandolfini)
20) Patchseq and STARMAP
21) hands-on: exploration of ScRNAseq data
22) Proteome analysis by mass-spectroscopy
23) Local synaptic translation
24) Epigenetic analysis: DNA methylation and
ChIP-seq
25) Chromatin 3D conformation and evolution (L. Pandolfini)
26) Examples of epigenetic studies in the nervous system
27) Hands-on: Exploration of ENCODE datasets (L. Pandolfini)
28) - Comparative Genomics 1/3: from Assembly to Evolution (L. Pandolfini)
29) - Comparative Genomics 2/3: Gene Synteny (L. Pandolfini)
30) - Comparative Genomics 3/3: Advanced Transgenesis (L. Pandolfini)
Riferimenti bibliografici
Cellerino & Sanguanini "Transcriptome analysis" Ed. Scuola Normale and articles from scientific journals