Francesco Iorio

Francesco Iorio

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Francesco Iorio

Francesco Iorio

Publications by authors named "Francesco Iorio"

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JACKS: joint analysis of CRISPR/Cas9 knockout screens.

Genome Res 2019 03 23;29(3):464-471. Epub 2019 Jan 23.

Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridgeshire, CB10 1SA, United Kingdom.

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http://dx.doi.org/10.1101/gr.238923.118DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6396427PMC
March 2019

Drug repurposing: progress, challenges and recommendations.

Nat Rev Drug Discov 2019 Jan 12;18(1):41-58. Epub 2018 Oct 12.

MRC Centre for Drug Safety Science, Department of Molecular and Clinical Pharmacology, University of Liverpool, Liverpool, UK.

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http://www.nature.com/doifinder/10.1038/nrd.2018.168
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http://dx.doi.org/10.1038/nrd.2018.168DOI Listing
January 2019

The germline genetic component of drug sensitivity in cancer cell lines.

Nat Commun 2018 08 23;9(1):3385. Epub 2018 Aug 23.

European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, UK.

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http://www.nature.com/articles/s41467-018-05811-3
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http://dx.doi.org/10.1038/s41467-018-05811-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6107640PMC
August 2018

GDSCTools for mining pharmacogenomic interactions in cancer.

Bioinformatics 2018 04;34(7):1226-1228

Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Cambridge, UK.

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http://dx.doi.org/10.1093/bioinformatics/btx744DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6031019PMC
April 2018

Pathway-based dissection of the genomic heterogeneity of cancer hallmarks' acquisition with SLAPenrich.

Sci Rep 2018 04 30;8(1):6713. Epub 2018 Apr 30.

European Molecular Biology Laboratory - European Bioinformatics Institute, Wellcome Genome Campus, Cambridge, CB10 1SD, UK.

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http://dx.doi.org/10.1038/s41598-018-25076-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5928049PMC
April 2018

Transcription Factor Activities Enhance Markers of Drug Sensitivity in Cancer.

Cancer Res 2018 02 11;78(3):769-780. Epub 2017 Dec 11.

European Molecular Biology Laboratory - European Bioinformatics Institute, Wellcome Genome Campus, Cambridge, United Kingdom.

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http://dx.doi.org/10.1158/0008-5472.CAN-17-1679DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6522379PMC
February 2018

Age and blood transfusion: relationship and prognostic implications in cardiac surgery.

J Thorac Dis 2017 Oct;9(10):3719-3727

Division of Cardiac Surgery, Casa di Cura Montevergine, GVM Care and Research, Mercogliano, Avellino, Italy.

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http://dx.doi.org/10.21037/jtd.2017.08.126DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5723788PMC
October 2017

Efficient randomization of biological networks while preserving functional characterization of individual nodes.

BMC Bioinformatics 2016 Dec 20;17(1):542. Epub 2016 Dec 20.

European Molecular Biology Laboratory - European Bioinformatics Institute, Wellcome Genome Campus, Cambridge, CB10 1SD, UK.

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http://dx.doi.org/10.1186/s12859-016-1402-1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5168876PMC
December 2016

Logic models to predict continuous outputs based on binary inputs with an application to personalized cancer therapy.

Sci Rep 2016 11 23;6:36812. Epub 2016 Nov 23.

Netherlands Cancer Institute, Amsterdam, and The Faculty of EEMCS, Delft University of Technology, Delft, The Netherlands.

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http://dx.doi.org/10.1038/srep36812DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5120272PMC
November 2016

Transcriptional response networks for elucidating mechanisms of action of multitargeted agents.

Drug Discov Today 2016 07 12;21(7):1063-75. Epub 2016 Mar 12.

Institute for Molecular Medicine Finland (FIMM), Biomedicum Helsinki 2U, Tukholmankatu 8, University of Helsinki, Helsinki 00014, Finland; Department of Mathematics and Statistics, Quantum, University of Turku, Turku 20014, Finland.

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http://dx.doi.org/10.1016/j.drudis.2016.03.001DOI Listing
July 2016

Multilevel models improve precision and speed of IC50 estimates.

Pharmacogenomics 2016 05 16;17(7):691-700. Epub 2016 May 16.

Center for Personalized Cancer Treatment (CPCT), Utrecht/Amsterdam, The Netherlands.

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http://dx.doi.org/10.2217/pgs.16.15DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6455999PMC
May 2016

Identification of drug-specific pathways based on gene expression data: application to drug induced lung injury.

Integr Biol (Camb) 2015 Aug;7(8):904-20

Office of Clinical Pharmacology, Office of Translational Science, Center for Drug Evaluation and Research, US Food and Drug Administration, Silver Spring, MD, USA.

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http://xlink.rsc.org/?DOI=C4IB00294F
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http://dx.doi.org/10.1039/c4ib00294fDOI Listing
August 2015

Exploiting combinatorial patterns in cancer genomic data for personalized therapy and new target discovery.

Pharmacogenomics 2014 Dec;15(16):1943-6

European Molecular Biology Laboratory - European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge CB10 1SD, UK.

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http://dx.doi.org/10.2217/pgs.14.157DOI Listing
December 2014

Fast randomization of large genomic datasets while preserving alteration counts.

Bioinformatics 2014 Sep;30(17):i617-23

Fondazione Bruno Kessler, I-38100 Povo (Trento), Italy, European Molecular Biology Laboratory, European Bioinformatics Institute, Cambridge CB10 1SD, UK, Wellcome Trust Sanger Institute, Cambridge CB10 1SD, UK and Universitat Pompeu Fabra, Barcelona 08003, Spain.

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http://dx.doi.org/10.1093/bioinformatics/btu474DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4147926PMC
September 2014

Network based elucidation of drug response: from modulators to targets.

BMC Syst Biol 2013 Dec 13;7:139. Epub 2013 Dec 13.

Telethon Institute of Genetics and Medicine, Naples, Italy.

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http://dx.doi.org/10.1186/1752-0509-7-139DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3878740PMC
December 2013

Transcriptional data: a new gateway to drug repositioning?

Drug Discov Today 2013 Apr 7;18(7-8):350-7. Epub 2012 Aug 7.

EMBL - European Bioinformatics Institute, Wellcome Trust Genome Campus, Cambridge CB10 1SD, UK.

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https://linkinghub.elsevier.com/retrieve/pii/S13596446120027
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http://dx.doi.org/10.1016/j.drudis.2012.07.014DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3625109PMC
April 2013

DvD: An R/Cytoscape pipeline for drug repurposing using public repositories of gene expression data.

Bioinformatics 2013 Jan 4;29(1):132-4. Epub 2012 Nov 4.

European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Cambridge, UK CB10 1SD.

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http://dx.doi.org/10.1093/bioinformatics/bts656DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3530913PMC
January 2013

Cancer develops, progresses and responds to therapies through restricted perturbation of the protein-protein interaction network.

Integr Biol (Camb) 2012 Sep 18;4(9):1038-48. Epub 2012 Jul 18.

Translational Research Laboratory, Breast Cancer Unit, Catalan Institute of Oncology (ICO), Bellvitge Institute for Biomedical Research (IDIBELL), Gran via 199, L'Hospitalet del Llobregat, Barcelona 08908, Catalonia, Spain.

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http://dx.doi.org/10.1039/c2ib20052jDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4699251PMC
September 2012

Artificial neural network analysis of circulating tumor cells in metastatic breast cancer patients.

Breast Cancer Res Treat 2011 Sep 28;129(2):451-8. Epub 2011 Jun 28.

Department of Hematopathology, The University of Texas MD Anderson Cancer Center, 1515 Holcombe Blvd., 77030, Houston, TX, USA.

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http://dx.doi.org/10.1007/s10549-011-1645-5DOI Listing
September 2011

Identification of small molecules enhancing autophagic function from drug network analysis.

Autophagy 2010 Nov 16;6(8):1204-5. Epub 2010 Nov 16.

Telethon Institute of Genetics and Medicine, Naples, Italy.

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http://dx.doi.org/10.1073/pnas.1000138107DOI Listing
November 2010

Aortic valve replacement: a prospective randomized evaluation of mechanical versus biological valves in patients ages 55 to 70 years.

J Am Coll Cardiol 2009 Nov;54(20):1862-8

Cardiac Surgery Unit, University Federico II, School of Medicine, Naples, Italy.

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http://dx.doi.org/10.1016/j.jacc.2009.07.032DOI Listing
November 2009

Influence of prosthesis-patient mismatch on exercise-induced arrhythmias: a further aspect after aortic valve replacement.

J Thorac Cardiovasc Surg 2009 Sep 8;138(3):632-8. Epub 2009 Apr 8.

Department of Cardiac Surgery, University of Naples Federico II, Naples, Italy.

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http://dx.doi.org/10.1016/j.jtcvs.2009.01.009DOI Listing
September 2009

NIRest: a tool for gene network and mode of action inference.

Ann N Y Acad Sci 2009 Mar;1158:257-64

Systems Biology Lab, Telethon Institute of Genetics and Medicine, Naples, Italy.

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http://dx.doi.org/10.1111/j.1749-6632.2008.03761.xDOI Listing
March 2009

Identifying network of drug mode of action by gene expression profiling.

J Comput Biol 2009 Feb;16(2):241-51

Systems and Synthetic Biology Lab, TeleThon Institute of Genetics and Medicine (TIGEM), Naples, Italy.

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http://dx.doi.org/10.1089/cmb.2008.10TTDOI Listing
February 2009