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Functional Genomics and Bioinformatics

University of Padova

Main Areas of Interest

In our Functional Genomics laboratory, we analyse effects of non-coding RNAs in several pathologies and in particular in skeletal muscle plasticity and in melanoma progression.

In our laboratory genome wide studies (microarray and DNA/RNA sequencing) are usually used as screening approaches. We have Agilent microarray and Ion PGM sequencing platforms. This approach allows us to have a broad view of the biological problem. For this reason, we analyse data in our own laboratory performing the identification of differentially expressed genes and/or pathways affected. Moreover, we use bioinformatics to predict microRNA (miRNA) and long noncoding RNA (lncRNA) functions. In the case of miRNA analyses, predicted targets are experimentally validated (a) by luciferase assay, (b) by modulating their expression in vitro or in vivo to evaluate if the target is modulated or (c) by high-throughput sequencing of RNA isolated by crosslinking immunoprecipitation (HITS-CLIP). The function of lncRNAs is predicted by their expression correlation with coding genes and than validated by altering lncRNA expression to evaluate if also coding genes are influenced. Alternatively, we perform Chromatin isolation by RNA purification (ChIRP) to identify proteins and DNA fragments associated with lncRNAs. We perform gene expression of specific miRNAs, lncRNAs and coding RNAs using qRT-PCR or digital PCR. Our laboratory is equipped with the BioRad CFX96, CFX384, digital droplet PCR and 7500 Applied Biosystems qRT-PCR systems and with Agilent Bioanalyzer for RNA/DNA quality control.

Functional analyses are performed both in vitro using our cell culture facility and in vivo using our mice host facility associated with imaging analyses. We can access to optical and electron microscopy facility of the Department of Biology to produce images we use to analyse skeletal muscle and mitochondrial structure.

Techniques You Will Learn

In this period people can be hosted in our laboratory to study how miRNAs and lncRNAs interact each other to modulate skeletal muscle function. People can experiment gene cloning, in vitro and in vivo transfections, gene expression analysis and fluorescent microscopy. Alternatively, people can be involved in the production of a stable cell line expressing specific miRNAs and genes to identify their function in cell spreading activity. People can use cell cultures, in vitro assays, in vitro and in vivo transfections and analyse mitochondrial function. Recently, we published a paper about the modulation of antigen presentation through a specific miRNA. We have already opened this collaboration with the group of Prof. Marina De Bernard of the Department of Biology (University of Padova, Italy) to identify other miRNAs involved in the modulation of antigen presentation and host people can experiment gene cloning, in vitro transfection, FACS, western blot techniques and functional analyses to evaluate effects of an altered antigen presentation by macrophages. All the three offer include the possibility to manage genome wide data to understand why the specific genes and non-coding RNAs are studied.

Curriculum

Can Be Customized

Accommodation

Try Airbnb

Fees and Program Logistics

This program has the following durations available:

Duration	Fee
2 weeks	$875.00
6 weeks	$1,500.00
12 weeks	$2,750.00

This program allows Merit Applications. This program allows merit-based applications for virtual and onsite clinical and research programs. If you are successfully awarded under this category, Trialect or the host mentor will cover the tuition fee only. All applications will be evaluated based on merit. Due to the high level of competition, the chances of being selected under the merit category are quite limited.

Who Can Apply

Medical students and scientists can apply

Host Details

Host Name: Stefano Cagnin

Affiliation: University of Padova

Address: via U. Bassi 58/B 35121 Padova, Italy

Website URL: http://www.unipd.it/international-highlights/node/68

Disclaimer:It is mandatory that all applicants carry workplace liability insurance, e.g., https://www.protrip-world-liability.com (Erasmus students use this package and typically costs around 5 € per month - please check) in addition to health insurance when you join any of the onsite Trialect partnered fellowships.

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Onsite/On-Campus Program

Fellowship - Basic/Translational/Clinical Research Program

Italy

Application Review Deadline:

Dec 1st, 2024

Apply Now

Program Logistics and Administrative Fees

This program has the following durations available:

Duration	Fee
2 weeks	$875.00
6 weeks	$1,500.00
12 weeks	$2,750.00

Questions and Answers

Commonly asked questions about this program from the host and other attendees.

I am an Entomologist (PhD), my main research interests is Functional Genomics and Bioinformatic, computational Biology. Am I eligible to apply?

Please reach us at support@trialect.com

Is there any possibility for the scholarship opportunities in order to attend this fellowship?

You can visit our grant portal at https://trialect.com/program-grants-list

Please I am a PhD medical Microbiology student from Ghana offered priority in this training. I want to know if there is any sponsorship package I can apply to?

All applications go through an internal review process and are categorized accordingly. For grants, you can visit our grant portal at https://trialect.com/program-grants-list