Elia Stupka

Elia Stupka

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Elia Stupka

Elia Stupka

Publications by authors named "Elia Stupka"

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An RNA-Seq atlas of gene expression in mouse and rat normal tissues.

Sci Data 2017 12 12;4:170185. Epub 2017 Dec 12.

Target Discovery, Research Boehringer Ingelheim Pharma GmbH & CoKG, Biberach 88397, Germany.

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http://dx.doi.org/10.1038/sdata.2017.185DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5726313PMC
December 2017

miR-17∼92 family clusters control iNKT cell ontogenesis via modulation of TGF-β signaling.

Proc Natl Acad Sci U S A 2016 12 5;113(51):E8286-E8295. Epub 2016 Dec 5.

Experimental Immunology Unit, Division of Immunology, Transplantation and Infectious Diseases, San Raffaele Scientific Institute, 20132 Milan, Italy;

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http://dx.doi.org/10.1073/pnas.1612024114DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5187732PMC
December 2016

Revealing the acute asthma ignorome: characterization and validation of uninvestigated gene networks.

Sci Rep 2016 Apr 21;6:24647. Epub 2016 Apr 21.

Center for Translational Genomics and Bioinformatics, San Raffaele Scientific Institute, Milan, Italy.

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http://dx.doi.org/10.1038/srep24647DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4838989PMC
April 2016

Exome sequencing and pathway analysis for identification of genetic variability relevant for bronchopulmonary dysplasia (BPD) in preterm newborns: A pilot study.

Clin Chim Acta 2015 Dec 8;451(Pt A):39-45. Epub 2015 Jan 8.

Unit of Genomics for Diagnosis of Human Pathologies, Division of Genetics and Cell Biology, IRCCS Ospedale San Raffaele, Milano, Italy.

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http://dx.doi.org/10.1016/j.cca.2015.01.001DOI Listing
December 2015

Epigenetics and Future Generations.

Bioethics 2015 Oct 3;29(8):580-7. Epub 2015 Feb 3.

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http://dx.doi.org/10.1111/bioe.12150DOI Listing
October 2015

Impact of MS genetic loci on familial aggregation, clinical phenotype, and disease prediction.

Neurol Neuroimmunol Neuroinflamm 2015 Aug 9;2(4):e129. Epub 2015 Jul 9.

Department of Neurology (F.E., C.G., L.F., M.P., M. Radaelli, B.C., L.M., M. Rodegher, V.M., G.C., F.M.B.) and Laboratory of Genetics of Neurological Complex Disorders (F.E., C.G., M.S., F.C., L.F., E.M., S.S., M.P., G.C., F.M.B.), Institute of Experimental Neurology, Division of Neuroscience, and Center for Translational Genomics and Bioinformatics (E.S.), San Raffaele Scientific Institute, Milan, Italy.

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http://dx.doi.org/10.1212/NXI.0000000000000129DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4503410PMC
August 2015

The BioMart community portal: an innovative alternative to large, centralized data repositories.

Authors:
Damian Smedley Syed Haider Steffen Durinck Luca Pandini Paolo Provero James Allen Olivier Arnaiz Mohammad Hamza Awedh Richard Baldock Giulia Barbiera Philippe Bardou Tim Beck Andrew Blake Merideth Bonierbale Anthony J Brookes Gabriele Bucci Iwan Buetti Sarah Burge Cédric Cabau Joseph W Carlson Claude Chelala Charalambos Chrysostomou Davide Cittaro Olivier Collin Raul Cordova Rosalind J Cutts Erik Dassi Alex Di Genova Anis Djari Anthony Esposito Heather Estrella Eduardo Eyras Julio Fernandez-Banet Simon Forbes Robert C Free Takatomo Fujisawa Emanuela Gadaleta Jose M Garcia-Manteiga David Goodstein Kristian Gray José Afonso Guerra-Assunção Bernard Haggarty Dong-Jin Han Byung Woo Han Todd Harris Jayson Harshbarger Robert K Hastings Richard D Hayes Claire Hoede Shen Hu Zhi-Liang Hu Lucie Hutchins Zhengyan Kan Hideya Kawaji Aminah Keliet Arnaud Kerhornou Sunghoon Kim Rhoda Kinsella Christophe Klopp Lei Kong Daniel Lawson Dejan Lazarevic Ji-Hyun Lee Thomas Letellier Chuan-Yun Li Pietro Lio Chu-Jun Liu Jie Luo Alejandro Maass Jerome Mariette Thomas Maurel Stefania Merella Azza Mostafa Mohamed Francois Moreews Ibounyamine Nabihoudine Nelson Ndegwa Céline Noirot Cristian Perez-Llamas Michael Primig Alessandro Quattrone Hadi Quesneville Davide Rambaldi James Reecy Michela Riba Steven Rosanoff Amna Ali Saddiq Elisa Salas Olivier Sallou Rebecca Shepherd Reinhard Simon Linda Sperling William Spooner Daniel M Staines Delphine Steinbach Kevin Stone Elia Stupka Jon W Teague Abu Z Dayem Ullah Jun Wang Doreen Ware Marie Wong-Erasmus Ken Youens-Clark Amonida Zadissa Shi-Jian Zhang Arek Kasprzyk

Nucleic Acids Res 2015 Jul 20;43(W1):W589-98. Epub 2015 Apr 20.

Center for Translational Genomics and Bioinformatics San Raffaele Scientific Institute, Via Olgettina 58, 20132 Milan, Italy Department of Biological Sciences, Faculty of Science, King Abdulaziz University, Jeddah, Saudi Arabia

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http://dx.doi.org/10.1093/nar/gkv350DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4489294PMC
July 2015

The combination of transcriptomics and informatics identifies pathways targeted by miR-204 during neurogenesis and axon guidance.

Nucleic Acids Res 2014 Jul 3;42(12):7793-806. Epub 2014 Jun 3.

Telethon Institute of Genetics and Medicine, Via Pietro Castellino, 111, 80131 Naples, Italy Medical Genetics, Department of Biochemistry, Biophysics and General Pathology, Second University of Naples, 80138 Naples, Italy

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https://academic.oup.com/nar/article-lookup/doi/10.1093/nar/
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http://dx.doi.org/10.1093/nar/gku498DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4081098PMC
July 2014

Dissecting the signaling pathways associated with the oncogenic activity of MLK3 P252H mutation.

BMC Cancer 2014 Mar 14;14:182. Epub 2014 Mar 14.

Instituto de Patologia e Imunologia Molecular da Universidade do Porto, Rua Dr, Roberto Frias, 4200-465 Porto,Portugal.

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http://bmccancer.biomedcentral.com/articles/10.1186/1471-240
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http://dx.doi.org/10.1186/1471-2407-14-182DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3995575PMC
March 2014

Targeted transgene integration overcomes variability of position effects in zebrafish.

Development 2014 Feb;141(3):715-24

School of Clinical and Experimental Medicine, College of Medical and Dental Sciences, University of Birmingham, Edgbaston, B15 2TT, UK.

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http://dx.doi.org/10.1242/dev.100347DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3899822PMC
February 2014

Phylogenomic analyses elucidate the evolutionary relationships of bats.

Curr Biol 2013 Nov 31;23(22):2262-2267. Epub 2013 Oct 31.

School of Biological and Chemical Sciences, Queen Mary University of London, Mile End Road, London E1 4NS, UK. Electronic address:

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http://dx.doi.org/10.1016/j.cub.2013.09.014DOI Listing
November 2013

Genome-wide signatures of convergent evolution in echolocating mammals.

Nature 2013 Oct 4;502(7470):228-31. Epub 2013 Sep 4.

School of Biological and Chemical Sciences, Queen Mary, University of London, London E1 4NS, UK.

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http://dx.doi.org/10.1038/nature12511DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3836225PMC
October 2013

Social Epigenetics and Equality of Opportunity.

Public Health Ethics 2013 Jul 15;6(2):142-153. Epub 2013 Jul 15.

Center for Translational Genomics and Bioinformatics, CEHUM, Universidade Do Minho and San Raffaele Scientific Institute.

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http://dx.doi.org/10.1093/phe/pht019DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3712403PMC
July 2013

Overexpression of facioscapulohumeral muscular dystrophy region gene 1 causes primary defects in myogenic stem cells.

J Cell Sci 2013 May 22;126(Pt 10):2236-45. Epub 2013 Mar 22.

Dulbecco Telethon Institute and Division of Regenerative Medicine, San Raffaele Scientific Institute, 20132 Milano, Italy.

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http://dx.doi.org/10.1242/jcs.121533DOI Listing
May 2013

Epigenetic regulation of survivin by Bmi1 is cell type specific during corticogenesis and in gliomas.

Stem Cells 2013 Jan;31(1):190-202

Blizard Institute, Barts & The London School of Medicine and Dentistry, Queen Mary University of London, London, United Kingdom.

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http://dx.doi.org/10.1002/stem.1274DOI Listing
January 2013

Long non-coding antisense RNA controls Uchl1 translation through an embedded SINEB2 repeat.

Nature 2012 Nov 14;491(7424):454-7. Epub 2012 Oct 14.

Area of Neuroscience, International School for Advanced Studies (SISSA), via Bonomea 265, 34136 Trieste, Italy.

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http://dx.doi.org/10.1038/nature11508DOI Listing
November 2012

Common variants at the MHC locus and at chromosome 16q24.1 predispose to Barrett's esophagus.

Authors:
Zhan Su Laura J Gay Amy Strange Claire Palles Gavin Band David C Whiteman Francesco Lescai Cordelia Langford Manoj Nanji Sarah Edkins Anouk van der Winkel David Levine Peter Sasieni Céline Bellenguez Kimberley Howarth Colin Freeman Nigel Trudgill Art T Tucker Matti Pirinen Maikel P Peppelenbosch Luc J W van der Laan Ernst J Kuipers Joost P H Drenth Wilbert H Peters John V Reynolds Dermot P Kelleher Ross McManus Heike Grabsch Hans Prenen Raf Bisschops Kausila Krishnadath Peter D Siersema Jantine W P M van Baal Mark Middleton Russell Petty Richard Gillies Nicola Burch Pradeep Bhandari Stuart Paterson Cathryn Edwards Ian Penman Kishor Vaidya Yeng Ang Iain Murray Praful Patel Weimin Ye Paul Mullins Anna H Wu Nigel C Bird Helen Dallal Nicholas J Shaheen Liam J Murray Konrad Koss Leslie Bernstein Yvonne Romero Laura J Hardie Rui Zhang Helen Winter Douglas A Corley Simon Panter Harvey A Risch Brian J Reid Ian Sargeant Marilie D Gammon Howard Smart Anjan Dhar Hugh McMurtry Haythem Ali Geoffrey Liu Alan G Casson Wong-Ho Chow Matt Rutter Ashref Tawil Danielle Morris Chuka Nwokolo Peter Isaacs Colin Rodgers Krish Ragunath Chris MacDonald Chris Haigh David Monk Gareth Davies Saj Wajed David Johnston Michael Gibbons Sue Cullen Nicholas Church Ruth Langley Michael Griffin Derek Alderson Panos Deloukas Sarah E Hunt Emma Gray Serge Dronov Simon C Potter Avazeh Tashakkori-Ghanbaria Mark Anderson Claire Brooks Jenefer M Blackwell Elvira Bramon Matthew A Brown Juan P Casas Aiden Corvin Audrey Duncanson Hugh S Markus Christopher G Mathew Colin N A Palmer Robert Plomin Anna Rautanen Stephen J Sawcer Richard C Trembath Ananth C Viswanathan Nicholas Wood Gosia Trynka Cisca Wijmenga Jean-Baptiste Cazier Paul Atherfold Anna M Nicholson Nichola L Gellatly Deborah Glancy Sheldon C Cooper David Cunningham Tore Lind Julie Hapeshi David Ferry Barrie Rathbone Julia Brown Sharon Love Stephen Attwood Stuart MacGregor Peter Watson Scott Sanders Weronica Ek Rebecca F Harrison Paul Moayyedi John de Caestecker Hugh Barr Elia Stupka Thomas L Vaughan Leena Peltonen Chris C A Spencer Ian Tomlinson Peter Donnelly Janusz A Z Jankowski

Nat Genet 2012 Oct 9;44(10):1131-6. Epub 2012 Sep 9.

Wellcome Trust Centre for Human Genetics, Oxford, UK.

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http://dx.doi.org/10.1038/ng.2408DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3459818PMC
October 2012

Characterization of the intronic portion of cadherin superfamily members, common cancer orchestrators.

Eur J Hum Genet 2012 Aug 8;20(8):878-83. Epub 2012 Feb 8.

Instituto de Patologia e Imunologia Molecular da Universidade do Porto, Rua Dr Roberto Frias, s/n, Porto, Portugal.

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http://dx.doi.org/10.1038/ejhg.2012.11DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3400724PMC
August 2012

ParkDB: a Parkinson's disease gene expression database.

Database (Oxford) 2011 18;2011:bar007. Epub 2011 May 18.

UCL, Department of Cancer Biology, University College London, Gower Street, London, UK.

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http://dx.doi.org/10.1093/database/bar007DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3098727PMC
September 2011

Identification of common carp innate immune genes with whole-genome sequencing and RNA-Seq data.

J Integr Bioinform 2011 Sep 12;8(2):169. Epub 2011 Sep 12.

Section Imaging and BioInformatics, Leiden Institute of Advanced Computer Science(LIACS), Leiden University, The Netherlands.

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http://dx.doi.org/10.2390/biecoll-jib-2011-169DOI Listing
September 2011

Promiscuity of enhancer, coding and non-coding transcription functions in ultraconserved elements.

BMC Genomics 2010 Mar 4;11:151. Epub 2010 Mar 4.

Telethon Institute of Genetics and Medicine (TIGEM), via Pietro Castellino 111, 80131 Napoli, Italy.

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http://dx.doi.org/10.1186/1471-2164-11-151DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2847969PMC
March 2010

PRGdb: a bioinformatics platform for plant resistance gene analysis.

Nucleic Acids Res 2010 Jan 11;38(Database issue):D814-21. Epub 2009 Nov 11.

Department of Soil, Plant, Environmental and Animal Production Sciences, University of Naples 'Federico II', Via Università 100, 80055 Portici, Italy.

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http://dx.doi.org/10.1093/nar/gkp978DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2808903PMC
January 2010

The UniTrap resource: tools for the biologist enabling optimized use of gene trap clones.

Nucleic Acids Res 2008 Jan 16;36(Database issue):D741-6. Epub 2007 Oct 16.

Telethon Institute of Genetics and Medicine (TIGEM), Via P. Castellino, 111, 80131, Napoli, Italy.

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http://dx.doi.org/10.1093/nar/gkm825DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2238955PMC
January 2008

Shuffling of cis-regulatory elements is a pervasive feature of the vertebrate lineage.

Genome Biol 2006 ;7(7):R56

Telethon Institute of Genetics and Medicine, Via P, Castellino, 80131 Napoli, Italy.

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http://dx.doi.org/10.1186/gb-2006-7-7-r56DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1779573PMC
May 2007

BASC: an integrated bioinformatics system for Brassica research.

Nucleic Acids Res 2007 Jan 5;35(Database issue):D870-3. Epub 2006 Dec 5.

Plant Biotechnology Centre, Victorian AgriBiosciences Centre, 1 Park Drive, Bundoora, Victoria 3083, Australia.

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http://dx.doi.org/10.1093/nar/gkl998DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1761444PMC
January 2007

Biopipe: a flexible framework for protocol-based bioinformatics analysis.

Genome Res 2003 Aug 17;13(8):1904-15. Epub 2003 Jul 17.

Institute of Molecular and Cell Biology, National University of Singapore, Singapore 117609.

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http://dx.doi.org/10.1101/gr.1363103DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC403782PMC
August 2003

Large-scale open bioinformatics data resources.

Authors:
Elia Stupka

Curr Opin Mol Ther 2002 Jun;4(3):265-74

Institute of Molecular and Cell Biology, Singapore.

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June 2002