Publications by authors named "Francesco Ferrari"

88Publications

Differentiation and localization of interneurons in the developing spinal cord depends on DOT1L expression.

Mol Brain 2020 05 29;13(1):85. Epub 2020 May 29.

Department of Molecular Embryology, Institute of Anatomy and Cell Biology, Faculty of Medicine, Albert-Ludwigs-University Freiburg, 79104, Freiburg, Germany.

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http://dx.doi.org/10.1186/s13041-020-00623-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7260853PMC
May 2020

Dynamical properties of Néel and valence-bond phases in the J -J model on the honeycomb lattice.

J Phys Condens Matter 2020 Jun;32(27):274003

Institute for Theoretical Physics, Goethe University Frankfurt, Max-von-Laue-Straße 1, D-60438 Frankfurt a.M., Germany. SISSA-International School for Advanced Studies, Via Bonomea 265, I-34136 Trieste, Italy.

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http://dx.doi.org/10.1088/1361-648X/ab7f6eDOI Listing
June 2020

HiCBricks: building blocks for efficient handling of large Hi-C datasets.

Bioinformatics 2019 Nov 7. Epub 2019 Nov 7.

IFOM, the FIRC Institute of Molecular Oncology, Milan, Italy.

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http://dx.doi.org/10.1093/bioinformatics/btz808DOI Listing
November 2019

Computational Biology Solutions to Identify Enhancers-target Gene Pairs.

Comput Struct Biotechnol J 2019 14;17:821-831. Epub 2019 Jun 14.

IFOM, The FIRC Institute of Molecular Oncology, Milan, Italy.

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http://dx.doi.org/10.1016/j.csbj.2019.06.012DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6611831PMC
June 2019

Hi-C analysis: from data generation to integration.

Biophys Rev 2019 Feb 20;11(1):67-78. Epub 2018 Dec 20.

IFOM, the FIRC Institute of Molecular Oncology, Milan, Italy.

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http://dx.doi.org/10.1007/s12551-018-0489-1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6381366PMC
February 2019

Pollutants in Plastics within the North Pacific Subtropical Gyre.

Environ Sci Technol 2018 01 21;52(2):446-456. Epub 2017 Dec 21.

Wageningen Marine Research, Wageningen University & Research , P.O. Box 68, 1970 AB IJmuiden, The Netherlands.

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http://dx.doi.org/10.1021/acs.est.7b04682DOI Listing
January 2018

Comparison of computational methods for Hi-C data analysis.

Nat Methods 2017 Jul 12;14(7):679-685. Epub 2017 Jun 12.

Dept. of Life Sciences, Center for Genome Research, University of Modena and Reggio Emilia, Modena, Italy.

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http://www.nature.com/doifinder/10.1038/nmeth.4325
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http://dx.doi.org/10.1038/nmeth.4325DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5493985PMC
July 2017

Streptococcus Pneumoniae Detection Long Time After Death in a Fatal Case of Waterhouse-Friderichsen Syndrome.

Am J Forensic Med Pathol 2017 Mar;38(1):18-20

From the *Forensic Medicine Unit, Section of Public Health and Human Sciences, Department of Medical and Surgical Specialties, Radiological Sciences and Public Health, and †Microbiology Section, Department of Molecular and Translational Medicine, University of Brescia, Brescia, Italy.

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http://dx.doi.org/10.1097/PAF.0000000000000284DOI Listing
March 2017

The effect of particle properties on the depth profile of buoyant plastics in the ocean.

Sci Rep 2016 10 10;6:33882. Epub 2016 Oct 10.

Aquatic Ecology and Water Quality Management Group, Department of Environmental Sciences, Wageningen University &Research, P.O. Box 47, 6700 AA Wageningen, The Netherlands.

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http://dx.doi.org/10.1038/srep33882DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5056413PMC
October 2016

Standard of care and guidelines in prevention and diagnosis of venous thromboembolism: medico-legal implications.

Monaldi Arch Chest Dis 2016 06 22;84(1-2):25. Epub 2016 Jun 22.

University of Brescia.

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http://dx.doi.org/10.4081/monaldi.2015.25DOI Listing
June 2016

Standard of care and guidelines in prevention and diagnosis of venous thromboembolism: medico-legal implications.

Monaldi Arch Chest Dis 2016 06 22;84(1-2):25. Epub 2016 Jun 22.

University of Brescia.

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http://dx.doi.org/10.4081/monaldi.2015.25DOI Listing
June 2016

Comprehensive analysis of promoter-proximal RNA polymerase II pausing across mammalian cell types.

Genome Biol 2016 06 3;17(1):120. Epub 2016 Jun 3.

Department of Cardiology, Boston Children's Hospital, Boston, MA, 02115, USA.

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http://dx.doi.org/10.1186/s13059-016-0984-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4893286PMC
June 2016

REDUCTION OF VITREOUS PROSTAGLANDIN E2 LEVELS AFTER TOPICAL ADMINISTRATION OF INDOMETHACIN 0.5%, BROMFENAC 0.09%, AND NEPAFENAC 0.1.

Retina 2016 Jun;36(6):1227-31

*Department of Medical and Surgical Specialties, Radiological Sciences and Public Health, University of Brescia, Brescia, Italy; †Department of Medical and Surgical Specialties, Radiological Sciences and Public Health, Section of Legal Medicine, University of Brescia, Brescia, Italy; and ‡Department of Medicine and Health Sciences, University of Molise, Campobasso, Italy.

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http://dx.doi.org/10.1097/IAE.0000000000000860DOI Listing
June 2016

A comparison of genetically matched cell lines reveals the equivalence of human iPSCs and ESCs.

Nat Biotechnol 2015 Nov 26;33(11):1173-81. Epub 2015 Oct 26.

Department of Molecular Biology, Cancer Center and Center for Regenerative Medicine, Massachusetts General Hospital, Boston, Massachusetts, USA.

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http://dx.doi.org/10.1038/nbt.3388DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4847940PMC
November 2015

Failure to replicate the STAP cell phenomenon.

Nature 2015 Sep;525(7570):E6-9

Stem Cell Transplantation Program, Division of Pediatric Hematology Oncology, Children's Hospital Boston, and Dana-Farber Cancer Institute, Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, Massachusetts 02115, USA.

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http://dx.doi.org/10.1038/nature15513DOI Listing
September 2015

Hallmarks of pluripotency.

Nature 2015 Sep;525(7570):469-78

Stem Cell Transplantation Program, Division of Pediatric Hematology Oncology, Children's Hospital Boston, and Dana-Farber Cancer Institute; Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, Massachusetts 02115, USA.

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http://dx.doi.org/10.1038/nature15515DOI Listing
September 2015

An autopsy study of sudden cardiac death in persons aged 1-40 years in Brescia (Italy).

J Cardiovasc Med (Hagerstown) 2016 Jun;17(6):446-53

Department of Medical and Surgical Specialties, Radiological Sciences and Public Health, Section of Public Health and Human Sciences, Forensic Medicine Unit, University of Brescia, Brescia, Italy.

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http://dx.doi.org/10.2459/JCM.0000000000000234DOI Listing
June 2016

Comparative analysis of metazoan chromatin organization.

Nature 2014 Aug;512(7515):449-52

1] Center for Biomedical Informatics, Harvard Medical School, Boston, Massachusetts 02115, USA [2] Division of Genetics, Department of Medicine, Brigham and Women's Hospital, Harvard Medical School, Boston, Massachusetts 02115, USA [3] Informatics Program, Children's Hospital, Boston, Massachusetts 02215, USA.

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http://dx.doi.org/10.1038/nature13415DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4227084PMC
August 2014

Hydranencephaly in a case of suspected infanticide.

Med Sci Law 2015 Apr 16;55(2):82-5. Epub 2014 Jun 16.

Università degli Studi di Brescia, Italy.

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http://dx.doi.org/10.1177/0025802414536153DOI Listing
April 2015

Hydranencephaly in a case of suspected infanticide.

Med Sci Law 2015 Apr 16;55(2):82-5. Epub 2014 Jun 16.

Università degli Studi di Brescia, Italy.

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http://dx.doi.org/10.1177/0025802414536153DOI Listing
April 2015

Hydranencephaly in a case of suspected infanticide.

Med Sci Law 2015 Apr 16;55(2):82-5. Epub 2014 Jun 16.

Università degli Studi di Brescia, Italy.

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http://dx.doi.org/10.1177/0025802414536153DOI Listing
April 2015

Impact of sequencing depth in ChIP-seq experiments.

Nucleic Acids Res 2014 May 5;42(9):e74. Epub 2014 Mar 5.

Center for Biomedical Informatics, Harvard Medical School, Boston, MA 02115, USA Division of Genetics, Brigham and Women's Hospital & Harvard Medical School, Boston, MA 02115, USA Informatics Program, Children's Hospital, Boston, MA 02115, USA

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http://nar.oxfordjournals.org/content/42/9/e74.full.pdf
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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/gku178DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4027199PMC
May 2014

Transcriptional control of a whole chromosome: emerging models for dosage compensation.

Nat Struct Mol Biol 2014 Feb 5;21(2):118-25. Epub 2014 Feb 5.

1] Department of Medicine, Division of Genetics, Brigham and Women's Hospital, Boston, Massachusetts, USA. [2] Department of Genetics, Harvard Medical School, Boston, Massachusetts, USA.

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http://dx.doi.org/10.1038/nsmb.2763DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4342042PMC
February 2014

Transcriptional control of a whole chromosome: emerging models for dosage compensation.

Nat Struct Mol Biol 2014 Feb 5;21(2):118-25. Epub 2014 Feb 5.

1] Department of Medicine, Division of Genetics, Brigham and Women's Hospital, Boston, Massachusetts, USA. [2] Department of Genetics, Harvard Medical School, Boston, Massachusetts, USA.

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http://dx.doi.org/10.1038/nsmb.2763DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4342042PMC
February 2014

Homicide by blunt trauma in Brescia county (northern Italy) between 1982 and 2012.

Am J Forensic Med Pathol 2014 Mar;35(1):62-7

From the Istituto di Medicina Legale, Università degli Studi di Brescia, Brescia, Italy.

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http://dx.doi.org/10.1097/PAF.0000000000000080DOI Listing
March 2014

Rearranging the chromatin for pluripotency.

Cell Cycle 2014 15;13(2):167-8. Epub 2013 Nov 15.

Massachusetts General Hospital Cancer Center and Center for Regenerative Medicine; Harvard Stem Cell Institute; Boston, MA USA; Howard Hughes Medical Institute and Department of Stem Cell and Regenerative Biology; Harvard University and Harvard Medical School; Cambridge, MA USA.

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http://dx.doi.org/10.4161/cc.27028DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3906226PMC
December 2014

Age-at-death estimation in Caucasian females from the morphological analysis of the sternal end of the fourth rib.

Leg Med (Tokyo) 2013 Jan 9;15(1):47-9. Epub 2012 Aug 9.

Istituto di Medicina Legale, Università degli Studi di Brescia, Piazzale Spedali Civili 1, Brescia, Italy.

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http://linkinghub.elsevier.com/retrieve/pii/S134462231200126
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http://dx.doi.org/10.1016/j.legalmed.2012.07.002DOI Listing
January 2013

Transcriptional profiles underlying vulnerability and resilience in rats exposed to an acute unavoidable stress.

J Neurosci Res 2012 Nov 16;90(11):2103-15. Epub 2012 Jul 16.

Department of Biomedical Sciences; University of Modena and Reggio Emilia, Modena, Italy.

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http://dx.doi.org/10.1002/jnr.23100DOI Listing
November 2012

HIV-positive status and preservation of privacy: a recent decision from the Italian Data Protection Authority on the procedure of gathering personal patient data in the dental office.

J Med Ethics 2012 Jun 7;38(6):386-8. Epub 2012 Feb 7.

Centre of Bioethics Research (with contribution of FondazionePoliambulanza), Forensic Science Department, University of Brescia, Italy.

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http://jme.bmj.com/lookup/doi/10.1136/medethics-2011-100014
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http://dx.doi.org/10.1136/medethics-2011-100014DOI Listing
June 2012

Agalactorrhoea following reductive mastoplasty: a case of permanent impairment evaluation.

Med Sci Law 2011 ;51 Suppl 1:S37-8

Cattedra di Medicina Legale, Università degli Studi di Brescia, Brescia, Italy.

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http://dx.doi.org/10.1258/msl.2010.100050DOI Listing
January 2012

The reconstruction of transcriptional networks reveals critical genes with implications for clinical outcome of multiple myeloma.

Clin Cancer Res 2011 Dec 2;17(23):7402-12. Epub 2011 Sep 2.

Department of Medical Sciences, University of Milan and Hematology, Fondazione IRCCS Ca' Granda Ospedale Maggiore Policlinico, Italy.

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http://dx.doi.org/10.1158/1078-0432.CCR-11-0596DOI Listing
December 2011

PREDA: an R-package to identify regional variations in genomic data.

Bioinformatics 2011 Sep 7;27(17):2446-7. Epub 2011 Jul 7.

Department of Biomedical Sciences, Center for Genome Research, University of Modena and Reggio Emilia, Modena, Italy.

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http://dx.doi.org/10.1093/bioinformatics/btr404DOI Listing
September 2011

The Lkb1 metabolic sensor maintains haematopoietic stem cell survival.

Nature 2010 Dec;468(7324):659-63

Cancer Center and Center for Regenerative Medicine, Massachusetts General Hospital and Harvard Medical School, Boston, Massachusetts 02114, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3037591PMC
http://dx.doi.org/10.1038/nature09572DOI Listing
December 2010

A MicroRNA targeting dicer for metastasis control.

Cell 2010 Jun;141(7):1195-207

Department of Histology, Microbiology and Medical Biotechnologies, University of Padua School of Medicine, viale Colombo 3, 35126 Padua, Italy.

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http://dx.doi.org/10.1016/j.cell.2010.05.017DOI Listing
June 2010

Age estimation from the rib by components method analysis in white males.

Am J Forensic Med Pathol 2010 Mar;31(1):27-33

Department of Forensic Medicine, University of Brescia, Piazzale Spedali Civili 1, 25123, Brescia, Italy.

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http://dx.doi.org/10.1097/paf.0b013e3181c0e7a5DOI Listing
March 2010

Microarray data mining using Bioconductor packages.

BMC Proc 2009 Jul 16;3 Suppl 4:S9. Epub 2009 Jul 16.

Animal Breeding and Genomics Centre, Wageningen University, Marijkeweg 40, P,O, Box 338, 6700 AH, Wageningen, The Netherlands.

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http://dx.doi.org/10.1186/1753-6561-3-S4-S9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2712752PMC
July 2009

A-MADMAN: annotation-based microarray data meta-analysis tool.

BMC Bioinformatics 2009 Jun 29;10:201. Epub 2009 Jun 29.

University of Padova, Department of Biology, Padova, Italy.

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http://dx.doi.org/10.1186/1471-2105-10-201DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2711946PMC
June 2009

PPARdelta is a ligand-dependent negative regulator of vitamin D3-induced monocyte differentiation.

Carcinogenesis 2009 Feb 4;30(2):230-7. Epub 2008 Dec 4.

Department of Biomedical Sciences, University of Modena and Reggio Emilia, 41100 Modena, Italy.

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http://dx.doi.org/10.1093/carcin/bgn272DOI Listing
February 2009

Population data for 15 autosomal STRs loci and 12 Y chromosome STRs loci in a population sample from the Sardinia island (Italy).

Leg Med (Tokyo) 2009 Jan 23;11(1):37-40. Epub 2008 Aug 23.

Department of Forensic Medicine, University of Brescia, Brescia, Italy.

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http://dx.doi.org/10.1016/j.legalmed.2008.06.003DOI Listing
January 2009

Novel definition files for human GeneChips based on GeneAnnot.

BMC Bioinformatics 2007 Nov 15;8:446. Epub 2007 Nov 15.

Department of Biomedical Sciences, University of Modena and Reggio Emilia, via G. Campi 287, 41100, Modena, Italy.

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http://dx.doi.org/10.1186/1471-2105-8-446DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2216044PMC
November 2007

Treatment of the intraabdominal abscesses through percutaneous ultrasound-guided drainage in oncological patients: Clinical and microbiological data.

Surg Endosc 2008 May 18;22(5):1200-5. Epub 2007 Oct 18.

Department of General Surgery and Surgical Oncology, University of Siena, Policlinico S. Maria alle Scotte, Siena, Italy.

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http://link.springer.com/10.1007/s00464-007-9583-3
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http://dx.doi.org/10.1007/s00464-007-9583-3DOI Listing
May 2008

Genomic expression during human myelopoiesis.

BMC Genomics 2007 Aug 3;8:264. Epub 2007 Aug 3.

Department of Biomedical Sciences, University of Modena and Reggio Emilia, via G, Campi 287, 41100, Modena, Italy.

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http://dx.doi.org/10.1186/1471-2164-8-264DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2045681PMC
August 2007

Pathogenesis and evolution of carpal instability: imaging and topography.

Acta Biomed 2006 Dec;77(3):168-80

Section of Radiological Sciences, Department of Clinical Sciences, University Hospital of Parma, Parma, Italy

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December 2006

X-chromosome polymorphism on DXS8378, DXS7132, HPRTB and DXS7423 loci in 130 individuals from Brescia (northern Italy).

Leg Med (Tokyo) 2007 May 10;9(3):158-60. Epub 2007 Jan 10.

Department of Forensic Medicine, University of Brescia, Piazzale Spedali Civili 1, 25123 Brescia, Italy.

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http://dx.doi.org/10.1016/j.legalmed.2006.11.001DOI Listing
May 2007

[Empiric antibiotic therapy in the treatment of postoperative abdominal abscesses. Clinical and microbiological data].

Chir Ital 2006 Jul-Aug;58(4):477-84

Dipartimento di Chirurgia Generale e Oncologica, Università degli Studi di Siena, Policlinico S. Maria alle Scotte, Siena.

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November 2006

Treatment of small hepatocellular carcinoma: a comparison of techniques and long-term results.

Eur J Gastroenterol Hepatol 2006 Jun;18(6):659-72

Department of Radiology, Siena University Hospital, Siena, Italy.

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http://dx.doi.org/10.1097/00042737-200606000-00014DOI Listing
June 2006

Population data for 12 Y-chromosome STRs in a sample from Brescia (northern Italy).

Forensic Sci Int 2005 Aug;152(1):83-7

Department of Forensic Medicine, University of Brescia, Brescia, Italy.

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http://dx.doi.org/10.1016/j.forsciint.2005.02.006DOI Listing
August 2005

US, MRCP, CCT and ERCP: a comparative study in 131 patients with suspected biliary obstruction.

Med Sci Monit 2005 Mar;11(3):MT8-18

Department of Radiology, University Hospital Siena, Siena, Italy.

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March 2005

Treatment of large hepatocellular carcinoma: comparison between techniques and long term results.

Radiol Med 2004 Oct;108(4):356-71

Dipartimento di Scienze Ortopedico-Riabilitative, Radiologiche e Otorinolaringoiatriche DAI dell'immagine, Azienda Ospedaliera Senese, Policlinico Le Scotte, Siena, Italy.

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October 2004

[Recommendations for the use of iodinated contrast media and for magnetic resonance by injection route. Radiological and medico-legal considerations].

Radiol Med 2003 Nov-Dec;106(5-6):556-68

U.O. e Cattedra di Radiologia, Università degli Studi Magna Graecia, Catanzaro, Italy.

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February 2004

Identification of forensic samples by using an infrared-based automatic DNA sequencer.

Croat Med J 2003 Jun;44(3):299-305

Genetics and Molecular Medicine Unit, A. Meyer Hospital, University of Florence, A. Meyer Hospital, Via Luca Giordano 13, 50132 Florence, Italy.

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http://neuron.mefst.hr/docs/CMJ/issues/2003/44/3/12808722.pd
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June 2003

Mixed stains from sexual assault cases: autosomal or Y-chromosome short tandem repeats?

Croat Med J 2003 Jun;44(3):289-92

Institute of Forensic Medicine, University of Brescia, Italy.

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June 2003

From risk-based health surveillance to health promotion: an evidence-based experience in a health care setting.

Int J Occup Med Environ Health 2002 ;15(2):117-20

The Medical School and The School of Occupational Medicine, University of Modena and Reggio Emilia, Italy.

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October 2002

Supraspinatus tendon tears: comparison of US and MR arthrography with surgical correlation.

Eur Radiol 2002 May 7;12(5):1211-7. Epub 2001 Dec 7.

Department of Radiologic and Orthopaedic-Rehabilitative Sciences, University Hospital Siena, 53100 Siena, Italy.

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http://dx.doi.org/10.1007/s00330-001-1183-3DOI Listing
May 2002