Table des matières proposée pour « Environmental Proteomics ans Epigenetics » :
Partim Proteomics: 12h + 3h
Definitions and history (1h)
2D SDS-PAGE (3h)
Principles of mass spectrometry : MS and MS/MS (2h)
Gel-free quantitative proteomics (2h)
Visit of the mass spectrometry platform at UNamur (2h)
Exercise : analysis of a dataset from quantitative proteomics (using Scaffold, PEAKS, Qseq, Skyline,...) (3h)
Analysis of 2 articles in environmental proteomics (1 2D gels ; 1 gel-free) (2h)
Partim Epigenetics: 18h + 15h
Prerequisites (Q/A ; main epigenetic mechanisms) : 1h
book: Introducing Epigenetics: A Graphic Guide (Ennis and Pugh 2016) : https://www.amazon.fr/Introducing-Epigenetics-Graphic-Cath- Ennis/dp/1848318626/ref=sr_1_1?ie=UTF8&qid=1542012634&sr=8- 1&keywords=introducing+epigenetics
Environmental epigenetics : 7h
The unified theory of evolution (+ discussion)
History of epidemiological studies in human populations Process of adaptation/evolution and its limitations:
link environment/epigenome
link epigenome/phenotype
link phenotype/fitness
transgenerational epigenetic inheritance
persistence of epigenetic marks
Population epigenetics and natural epigenetic variability (including clonal species)
The Weissman barrier
The DNA methylation reprogramming and the concept of critical windows How epigenetics can create phenotypic variability ?
Facilitated mutations/cryptic genetic variation
Epimutations and stochasticity > bet-hedging and epigenetics Epigenetic buffering
Epigenetics and diseases : an environmental origin of diseases : 4h (with Aniruddha Chatterjee)
The concept of maladaptive epimutations/epigenetic trap Developmental origin of Health and Diseases (DOHaD) Epigenetic and cancer
Epigenetic and ageing
Epigenetic and neurodegenerative diseases
Epigenetic approaches : 6h (with Aniruddha Chatterjee)
Histones
ncRNA
DNA methylation:
Introduction to DNA methylation techniques and biological perspectives (Genome-wide to target genes)
Pyrosequencing - two applications : LUMA and gene-specific DNAme (FS) Library preparation for RRBS, contrast with WGBS, CpG and non-
CpG, Looking at bisulfite library signatures from FastQC examples
New Trends in methylation: Single cell biology. Integration of methylation with
other omics.
Practical part : (15h) (with Aniruddha Chatterjee)
TP LUMA (4h) (FS + Antoine Wittorski)
Bioinformatic workshop : analysis of a RRBS dataset (9h) Discussion of an article in ecological epigenetics (2h) (FS)
Proposed calendar :
|
Week 1 |
Monday |
Tuesday |
Wednesday |
Thurs |
|
Epigenetics |
2h |
2h |
2h |
2h |
|
Epigenetics TP |
||||
|
Proteomics |
2h |
2h |
2h |
2h + |
|
Week 2 |
Monday |
Tuesday |
Wednesday |
Thurs |
|
Epigenetics |
4h disease |
4h approaches |
2h approaches |
|
|
Epigenetics TP |
3h bioinfo + TP LUMA |
3h bi LUM |
||
|
Proteomics |
||||
day
MS
day
oinfo + TP A
|
Week 3 |
Monday |
Tuesday |
Wednesday |
Thurs |
|
Epigenetics |
||||
|
Epigenetics TP |
||||
|
Proteomics |
| Training | Study programme | Block | Credits | Mandatory |
|---|---|---|---|---|
| Standard | 0 | 4 | ||
| Standard | 0 | 4 | ||
| Standard | 0 | 4 | ||
| Standard | 0 | 4 | ||
| Standard | 1 | 4 | ||
| Standard | 2 | 4 | ||
| Standard | 2 | 4 | ||
| Standard | 2 | 4 |