UCD Conway Institute of Biomolecular & Biomedical Research
Graduate Modules 2013/2014
CNWY40090: Introduction to ‘Omic’ & Advanced Imaging Technologies
Credits: 5
Module Co-ordinator: Matthias Wilm, (matthias.wilm@ucd.ie)
Schedule: February 7th – March 12th 2014 (Friday, Monday/Wednesdays: 10am-1pm)
Venue: Various, as listed
Date & Time
Session & Topic
Co-ordinator
February 07 2014
L1 9.00 – 10.00**
L2 10.30 – 11.30
L3 11:30 – 12.30
Conway Undergrad. Lab. 1
Proteomics Session 1
Dolores Cahill
To cover:
L1: Types of protein and antibody arrays; Protein sources; Formats
Generation of protein and antibody arrays (D. Cahill)
L2: Study of Protein Protein Interaction Networks Using Array
Based Proteomics (David O'Connell)
L3: Applications of high content arrays in biomarker discovery,
with examples in cancer and auto-immune disease (Sara O’Kane)
February 10 2014
L1 10.00 – 11.00
L2 11.00 – 12.00
L3 12:00 – 1.00
Conway Sem Rm 2
Proteomics Session 2
To cover:
L1: Introduction to proteomics and MS (M. Wilm)
L2: Quantitative proteomics (M. Wilm)
L3: Clinical Applications (S. Pennington)
Matthias Wilm
February 17 2014
L1 10.00 – 11.15
L2 11.30 – 1.00
Conway Sem Rm 2
Bioinformatics Session 1
To cover:
What is bioinformatics?
The uses and misuses of bioinformatics
Sequence formats, databases and associated query tools
Peadar O’Gaora
UCD Conway Institute of Biomolecular & Biomedical Research
Graduate Modules 2013/2014
CNWY40090: Introduction to ‘Omic’ & Advanced Imaging Technologies
February 19 2014
L1 10.00 – 11.15
L2 11.30 – 1.00
Conway Undergrad. Lab. 1
Bioinformatics Session 2
To cover:
Complete genome projects and resources
Accessing complete genome data
Homology searching and multiple sequence alignment
Peadar O’Gaora
February 24 2014
L1 10.00 – 11.15
L2 11.30 – 1.00
Conway Sem Rm 2
Genomics & Transcriptomics Session 1
To cover:
Genomics –
▪ General understanding of the principals of genomics
▪ Constructing genome maps
▪ Genome sequencing
▪ Genomic variation
Transcriptomics –
▪ General understanding of transcriptomics
▪ Regulation of the transcriptome
▪ Microarray technology (its advantages and disadvantages)
Sean Ennis & Jai
Mehta
February 26 2014
L1 10.00 – 11.15
L2 11.30 – 1.00
Conway Sem Rm 2
Genomics & Transcriptomics Session 2
To cover:
Genomics –
▪ Application of genome maps to trait / disease
identification
▪ Genetic /genomic disease diagnostics and personalised
medicine
▪ Emerging technological advances and bioinformatics in
genomics
Transcriptomics –
▪ Bioinformatics and software or microarray data analysis
▪ Microarray data sharing in life science
▪ Transcriptome profiling in diagnostics and
pharmacogenomics and its challenges for the future
S Ennis & J Mehta
February 28 2014
L1 10.00 – 1.00
5 x 30min lectures
Conway Undergrad. Lab. 1
Advanced Imaging Technologies Session 1 - In vivo Imaging
To cover
 Principles and applications of the major in vivo diagnostic
imaging technologies used in medical practice, including
CT, PET/CT, MRI, ultrasound.
Kathleen Curran
March 03 2014
L1 10.00 – 11.15
L2 11.30 – 1.00
Conway Sem Rm 2
Flow Cytometry - Basic Principles, Practice & Application
To cover:
▪ Basic principles of flow cytometry & cell sorting
▪ Outline of sample preparation, the analysis and reanalysis
Alfonso Blanco
UCD Conway Institute of Biomolecular & Biomedical Research
Graduate Modules 2013/2014
CNWY40090: Introduction to ‘Omic’ & Advanced Imaging Technologies
▪
of the data produced in a flow cytometer.
Applications of flow cytometry & cell sorting
March 10 2014
L1 10.00 – 11.15
L2 11.30 – 1.00
Conway Sem Rm 2
Advanced Imaging Technologies Session 2: History of Imaging
Technologies, Basic Principles of Imaging
To cover:
▪ Brief history of imaging including significant advances in
the past decade and the importance of imaging
technologies to research.
▪ Basic principles of imaging methodologies and current
technologies
▪ Imaging of molecules in fixed and live cells and tissues.
▪ Introduction to the specific detection of genes, proteins
and organelles using immunohistochemistry, laser
confocal, spinning disc microscopy
Dimitri Scholz
March 12 2014
L1 10.00 – 11.15
L2 11.30 – 1.00
Conway Lecture Theatre
Advanced Imaging Technologies Session 3: Electron microscopy
& Emerging Technologies
To cover:
▪ Emerging technologies: Total Internal Reflection
Fluorescence (TIRF), two-photon microscopy, Fluorescent
Life Time Imaging Microscopy (FLIM), FRAP, FRET etc.
▪ Spatial resolution. Introduction to TEM, SEM
▪ Focus on specific technologies – correlative light-electron
microscopy (CLEM) and EM tomography.
D Scholz