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Group

Group Leader

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Rory Johnson

rory.johnson[at]ucd.ie

2020- Associate Professor, University College Dublin

2020- Adjunct Assistant Professor, University of Bern

2018 Visiting Fellow at Chinese Academy of Sciences (Guangzhou Institute of Biomedicine & Health)

2016-2021 Junior Group Leader, Swiss National Centre for Competence in Research in RNA & Disease

2014-2015 Diploma in Management for Scientists and Researchers (Instituto de Empresa, Madrid)

2010-2016 Ramón y Cajal Fellow / Staff Scientist, Centre for Genomic Regulation (with Roderic Guigó)

2007-2009 Postdoc, Genome Institute of Singapore (with Lawrence W. Stanton)

2002-2007 Wellcome Trust PhD, University of Leeds (with Noel J. Buckley)

1996-2000 MSci Physics, Imperial College (London)

Linkedin

Google Scholar

ORCID

Web of Science

UCD page

Group Members

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Hugo Guillen-Ramirez

Marie Skłodowska-Curie Actions Postdoctoral Fellow

Education: BSc in Computer Systems Engineering (Instituto Tecnological de Tepic, Mexico); MSc in Computer Science (CICESE Research Centre, Mexico); PhD in Computer Science (CICESE Research Centre, Mexico).
Field: ncRNA annotation and machine learning applied to RNA.
Project: Annotation of lncRNA elements
Links: Google Scholar, LinkedIn, ORCID, ResearchGate
Contact: hugo.guillenramirez[at]ucd.ie

Tina Uroda

Marie Skłodowska-Curie Actions Postdoctoral Fellow


Education: BSc in Biotechnology and Pharmaceutical Research (Department of Biotechnology, University of Rijeka, Croatia); MSc in Pharmaceutical Research and Development (Department of Biotechnology, University of Rijeka, Croatia); PhD, European Molecular Biology Laboratory EMBL, Grenoble, and Universite Grenoble Alpes.
Field: CRISPR-Cas9 and Genome Editing of LncRNAs, LncRNA Localisation.
Projects: The elements of long noncoding RNA function. 
Contact: tina.uroda[at]ucd.ie

Michela Coan

DEVELOPMED Postdoctoral Fellow

BSc in Health Biotechnology (University of Udine)

MSc in Biotechnology (University of Trieste)

PhD (Italian National Cancer Institute, CRO and University of Verona)

michela.coan[at]ucd.ie

Sunandini Ramnarayanan

PhD student (Funded by SFI CRT Genomics Data Science & MSCA-Integrate)

Education: BS-MS in Biology (IISER, Mohali)

Field: Cancer driver analysis, CRISPR screen design, long non-coding RNAs

Project: Data-driven discovery of cancer driver long non-coding RNAs

Contact: sunandini.ramnarayanan@ucdconnect.ie

Ai Ming Tham

PhD student (Funded by Irish Research Council)

Education: BSc (Hons) Cell and Molecular Biology, University College Dublin

Field: CRISPR Prime Editing, driver mutations, long non-coding RNAs

Projects: Experimental modelling tumour mutations in long non-coding RNAs using CRISPR Prime Editing

Contact: ai.tham@ucdconnect.ie

Nivedha Balaji

PhD student (Funded by SBES, University College Dublin)


Education: B.Sc. in Microbiology, University of Madras

                   MS in Biological Sciences, Indian Institute of Science Education and Research                     Mohali (IISER Mohali)
Field: CRISPR Genome Editing, long non-coding RNAs, 3D spheroids
Project: Discovering long non-coding RNAs as novel therapeutic targets using 3D cancer    cell models

Linkedin
Contact: nivedha.balaji@ucdconnect.ie

Roofiya Koya

PhD student (Funded by SFI's Centre for Research Training in Genomics Data Science)

Education: B.Tech in Electronics and Communication Engineering, Cochin University of                         Science and Technology, India

                   M.Sc in Data Science and Analytics, University College Cork, Ireland

Field: CRISPR-Cas9, Analysis of LncRNAs data

Project: Data analysis and CRISPR-Cas genome-editing for precision oncology

LinkedIn

Contact: roofiya.koya@ucd.ie

Yifan Yu

PhD student (Funded by Chinese Scholarship Council)

Education: BSc  Bioinformatics, Southern University of Science and Technology, China

Field: CRISPR screening, long non-coding RNAs

Project: Data-driven prioritization of targets for RNA therapeutics

Links: LinkedIn, Github

Contact: yifan.yu@ucdconnect.ie

Dylan Harvey 

PhD student (Funded by Irish Research Council)

Education: BSc Biochemistry, University of Galway
                   MSc Biological and Biomolecular Science, University College Dublin
Field: lncRNA evolution
Project: Evolution of lncRNAs

LinkedIn
Contactdylan.harvey@ucdconnect.ie

Ines Jover Bravo

Lab Manager & Research Associate

Education: Honours BSc in Biotechnology (University of Zaragoza, Spain)

                   MSc in Biological & Biomolecular Sciences (University College Dublin, Ireland)

Field: CRISPR-Cas9 and Genome Editing of LncRNAs, LncRNA Localisation

Project: The elements of long noncoding RNA function.

LinkedIn

Contact: ines.joverbravo@ucd.ie

Former Members

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Panagiotis Chouvardas

Postdoc with SNF Sinergia Projects

LinkedIn

Where is he now? Postdoc with Marianna Kruithof-de Julio group at Department for BioMedical Research at University of Bern

Sandra Zywssig

Research Assistant

LinkedIn

Where is she now? Research Associate with Smart Surgical Instruments and Medical Devices Group at the University of Bern

Carlos Pulido-Quetglas

PhD student

Where is he now? Postdoc with Dirk Fasshauer, University of Lausanne

Núria Bosch

PhD student

Where is she now? Postdoc with Jolanda van Leeuwen, University of Lausanne

Roberta Esposito

Education: BSc in Biology (University Federico II, Italy); MSc in Molecular Diagnostics (University Federico II, Italy); PhD, Institute of Genetics and Biophysics - CNR of Naples.
Field: CRISPR-Cas9 and Genome Editing of lncRNAs
Project: CRISPR-Cas9 screening for identification of lncRNAs in drug resistance
Links: ResearchGate, Google Scholar
Contact: roberta.esposito[at]dbmr.unibe.ch

​Where is she now? Senior Postdoc at Department for Biomedical Research, Bern

Taisia Polidori​

​MSc Biology for Molecular, Cellular and Pathophysiological Research (University of Roma Tre, Italy)

PhD (University of Bern)

taisia.polidor[at]dbmr.unibe.ch

Where is she now? Clinical trials manager, Bern

​Adrienne Vancura

​PhD student

​BSc in Biology (University of Bern);

MSc in Biochemistry and Cancer Biology (University of Amsterdam)

adrienne.vancura@dbmr.unibe.ch

linkedin

Where is she now? Postdoc at Whitehead Institute with Richard Young​

Dominik Meise
Bioinformatician

BSc in Biology (University of Bern);

MSc in Bioinformatics and Computational Biology (University of Bern)

dominik.meise[at]dbmr.unibe.ch

Where is he now? Software engineer at Ender Diagnostics

Andrés Lanzós

Education: BSc in Biology (University of Vigo, Spain); MSc in Bioinformatics for Health Science (Pompeu Fabra University, Spain); PhD in Biomedical Sciences (University of Bern, Switzerland)

Field: Cancer genomics and LncRNA drivers identification  

Projects: Bioinformatic analysis of lncRNAs implicated in cancer

Links: Google Scholar, LinkedIn, ORCID, Publons, ResearchGate, Twitter

Contact: andreslanzos@runbox.com

Where is he now? Bioinformatician at Biognosys

Alessandra Stuerchler

NCCR Predoc Programme

Education:  BSc in Biology (University of Lausanne, Switzerland); MSc in Molecular Biology (ETH Zürich, Switzerland); NCCR RNA&Disease Predoc Program (University of Bern, Switzerland).

Field: Bioinformatics of lncRNA features and functional domains

Project: Relationship between exons and functional domains in lncRNAs.

​Links: Linkedin

 

Contact: ale.stuerchler@gmail.com

Bernard Merlin

​​Education:  BTech in Biotechnology (Anna University, India); MSc in Molecular Life Sciences (University of Bern, Switzerland)

Field: Bioinformatics of lncRNA features and functional domains

Project: Validation of cancer driver lncRNAs with CRISPRa

 

Contact: bernard.merlin@students.unibe.ch

Chantal Bachmann

MSc student

David Mas

MSc student

Kyriakos Schwarz

MSc student

Education: BSc in Computer Science (University of Applied Sciences FHNW, Switzerland); MSc in Bioinformatics and Computational Biology  (University of Bern, Switzerland)

Field: Cancer genomics and LncRNA drivers identification  

Projects: Bioinformatic analysis of lncRNAs implicated in cancer

Links: LinkedIn

Contact: kyriakos.schwarz@students.unibe.ch

Joana Carlevaro

PhD student and PostDoc

Education: BSc in Human Biology (Universitat Pompeu Fabra, Spain); MSc in Bioinformatics for Health Science (Pompeu Fabra University, Spain); PhD in Classification and Functional Prediction of LncRNAs (Graduate School for Cellular and Biomedical Sciences, University of Bern)

Field: Bioinformatics and genomics, lncRNA features, RNA expression  

Projects: Characterisation and classification of lncRNAs

Links: ResearchGate, LinkedIn, ORCID

Contact: joana.carlevaro@dbmr.unibe.ch

Where is she now? Bioinformatician in Didier Trono's lab at EPFL.

Judith Bergadà

MSc student

Education: BSc in Industrial Technology Engineering (Polytechnic University of Catalonia, Spain); MSc in Bioinformatics and Computational Biology  (University of Bern, Switzerland)

Field: Analysis of CRISPR-Cas9 screenings 

Projects: Bioinformatic design of pipelines for CRISPR-Cas9 screening analysis

Contact: judith.bergadapijuan@students.unibe.ch

Mina Zamani

Visiting scientist

Education: BSc in Cellular and Molecular Biology-Genetics (University of Shahrekord, Iran); MSc in Genetics (Tarbiat Modares University, Iran)

Field: Study of the expression and function of lncRNAs implicated in cancer

Projects: Functional characterization of lncRNA using CRISPR-Cas system

Links: Google Scholar, ResearchGate

Contact: mina.zamani@dbmr.unibe.ch

Monalisa Das

Visiting scientist

Monica Torres

MSc student

Tatjana Zoller

MSc student

Education: BSc in Biochemestry (University of Bern, Switzerland); MSc in Molecular Life Science (University of Bern, Switzerland)

Field: lncRNA localization

Projects: Functional characterization of lncRNA based on localization

Contact: tatjana.zoller@students.unibe.ch

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