1. Genomics – Proteomics Core
Facility
PROTEOcore

2. ORGANISATION –
PROTEOcore
Microarray System
Cell culture
laboratory biology
Transgenic animal
model
Proteomics DNA Sequencing
Laboratory Post-genomic
Bioinformatics & Histology, cytology,
Biostatistics morphology
Imaging
High throughput Glassware & Lab
maintenance
analytical chemistry
Translational
research

3. Research & Co-operation
– Alliance of local members of the cluster by
competition and supply relationships or
common interests
– examples at ILS:

4. Research Topics

5. Technology Transfer Management
Biomedical Informatics
Joint technology platforms
Genomics / proteomics Molecular farming
Agro-biotechnology
Moleculebank Microbial genomics /
proteomics / transcriptomics
omics
High throughput screening Fermentation/Bioprotect
Transcriptomics DNS → animal breeding
Metabolomics
Safety pharmacology
Safety pharmacology
Microarray platform
measurement
Oral antidiabetics
Biomedical
Proteomic platform Sclerosis Multiplex, POCD,
Alzheimer
Nanotechnology Chemiotherapy
Enriched egg

6. Proteomics – Genomics
Even more different…
Gene/ RNA Protein
dynamic dynamic
Handle Stable molecules Fragile molecules
Handling cheap/ easy Handling dependent
Minimal modification Labile modification
Works in isolation Protein-interaction
Localization dependent
Tech Sequencing (established) MS related (not yet)
DNA array / genotyping/ Protein Chip (not yet)
HTP expression / CGH/ Antibodies array (not yet)

7. PROTEOcore – Research &
Co-operation
– Indication areas at ILS
• Diseases of the Central Nervous System;
• Inflammatory Diseases; Food Allergens
• Cancer; Biomarkers (proteins, peptides)
• Proteomics (food proteins and bioactive peptides)
• Probiotics, Functional Food.
– Indication areas are based on:
• Regional resources, know how and research co-
operations within the local institutes and companies
• Global market expectations
–  Focus increases the efficiency of Innovation

8. J Assouline, Genome-wide measurement of gene expression

9. MIAME - cADN
• Sample QC
microarray
• Sample MIAME
treatment
• Metadata Hybridization protocol
• mARNs
QC
Extraction protocol
QC Sample Hybridization Array
• Target
preparation • Array design QC
(labeling) - QC
• Image acquisition and
quantification
• Database building QC • Statistical analysis
• Filtering • Data mining
• Normalization
6 STEPS of a Microarray Experiment (S. Sansone)

10. PROTEOMICS
• Sample preparation
• 1st dimension (1D)
– Gel-based
– Gel free
• 2nd dimension (2D)
• Detection of protein spots
• Imaging analysis & 2D gel databases
• Spot handling: excision, in gel digestion

11. Proteomics

12. • Need of standards in Proteomics
• HUPO-PSI
– Organization
– Standard data formats
– MIAPEs
• PEFF: A Common Sequence Database
Format in Proteomics
• PRIDE
• Standard data format converters

16. Future vision
• Continue work on important data analysis problems in
bioinformatics and language technology
– Applications, including fielded and commercialized ones
– Theory and method development
– Collaboration across units, disciplines, industry
• Future emphasis on
– Mining rich public biological databases
• Discovery of patterns in complex irregular structures,
discovery of similarities and analogies
– Methods for semantic analysis of large text collections
• language and domain-independence, efficiency

17. USAMV Rector supports
• Doru PAMFIL, PhD — an accomplished professor of
genetics, he has expertise in the management of many
national and international projects and veteran of
large, public research institutions.
– Throughout his career he has focused on
expanding undergraduate research opportunities
and improving the education and professional
experience of graduate students, with a focus on
underrepresented groups.
– Pamfil’s academic work focuses on Biotechnology
(marker assisted selection, detection of
GMOs, genetic
transformation, micropropagation, microbiology).
The GMOs Laboratory – CERTOMG - was included
in EUROPEAN NETWORK OF GMO
LABORATORIES (ENGL) in 2009
"The problem solving, systems thinking, and teamwork aspects of biotechnology can benefit all students,
whether or not they ever pursue an scientific career," said Doru PAMFIL, Rector of the University of
Agricultural Sciences and Veterinary Medicine of Cluj-Napoca, head of INSTITUTE OF LIFE SCIENCES
(LIS).
"An biotechnology education and science curricula that does not include at least some exposure to
biotechnology is a lost opportunity for students and for the nation."
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18. • For more information on
future partnerships, contact
Dr. Ramona SUHAROSCHI
Email: laslora@yahoo.com
Helping Hands for Addressing
Tel/fax:+40 264 425575
Excellence in Research, Education
and Training Needs for
Biotechnology Calea Floresti 64
400509, Cluj-Napoca
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