Selected peer-reviewed publications
Di Vizio D, Kim J, Hager MH, Morello M, Yang W, Lafargue CJ, True L, Rubin MA, Adam RM, Beroukhim R, Demichelis F, and Freeman MR. Oncosome formation in prostate cancer: Association with a region of frequent chromosomal deletion in metastatic disease. Cancer Res. 2009 Jul 1;69(13):5601-9.
Pflueger D, Rickman DS, Sboner A, Perner S, LaFargue CJ, Svensson MA, Moss BJ, Kitabayashi N, Pan Y, de la Taille A, Kuefer R, Tewari AK, Demichelis F, Chee MS, Gerstein MB, Rubin MA. N-myc downstream regulated gene 1 (NDRG1) is fused to ERG in prostate cancer. Neoplasia 2009, 11(8):804-811.
Rickman DS, Pflueger D, Moss B, VanDoren VE, Chen CX, de la Taille A, Kuefer R, Tewari AK, Setlur SR, Demichelis F, Rubin MA. SLC45A3-ELK4 is a Novel and Frequent ETS Fusion Transcript in Prostate Cancer. Cancer Res 2009;69(7):2734-8.
Demichelis F*, Setlur SR*, Beroukhim R, Perner S, Korbel JO, LaFargue CJ, Pflueger D, Pina C, Hofer MD, Sboner A, Svensson MA, Rickman DS, Urban A, Snyder M, Meyerson M, Lee C, Gerstein MB, Kuefer R, Rubin MA. Distinct Genomic Aberrations Associated With ERG Rearranged Prostate Cancer. Genes, Chromosomes and Cancer, 2009 Apr;48(4):366-80.
Hofer M, Kuefer R, Maier C, Herkommer K, Perner S, Demichelis F, Paiss T, Vogel W, Rubin MA, Hoegel J. Genome-Wide Linkage Analysis of TMPRSS2-ERG Fusion in Familial Prostate Cancer. Cancer Research, 2009, 69(2).
Di Vizio D, Demichelis F, Simonetti S, Pettinato G, Terracciano L, Tornillo L, Freeman MR, Insabato L. 1Skp2 expression is associated with high risk and Elevated Ki67 expression in gastrointestinal stromal tumours. BMC Cancer 2008, Aug 1;123(3):569-76.
Di Vizio D, Adam RM, Kim J, Kim R, Sotgia F, Williams T, Demichelis F, Solomon KR, Loda M, Rubin MA, Lisanti MP, Freeman MR. Caveolin-1 Interacts with a Lipid Raft-associated Population of Fatty Acid Synthase. Cell Cycle 2008 Jul;7(14):2257-67.
Mucci LA, Pawitan Y, Demichelis F, Fall K, Stark JR, Adami H-O, Andersson S-O, Andrén O, Eisenstein AS, Holmberg L, Huang W, Kantoff PW, Kim R, Perner S, Stampfer MJ, Johansson J-E, Rubin MA. Testing a multigene signature of prostate cancer death in the Swedish Watchful Waiting Cohort. Cancer Epidemiol Biomarkers Prev. 2008 Jul;17(7):1682-8.
Demichelis F, Greulich H, Macoska JA, Beroukhim R, Sellers WR, Garraway L, and Rubin MA. SNP Panel Identification Assay (SPIA): a genetic-based assay for the identification of cell lines. Nucleic Acids Res. 2008 Apr;36(7):2446-56.
Setlur SR, Mertz KD, Hoshida Y, Demichelis F, Lupien M, Perner S, Sboner A, Pawitan Y, Andrén O, Johnson LA, Tang J, Adami H-O, Calza S, Chinnaiyan AM, Rhodes D, Tomlins S, Fall K, Mucci LA, Kantoff PW, Stampfer MJ, Andersson S-O, Varenhorst E, Johansson J-E, Brown M, Golub TR, and Rubin MA. TMPRSS2-ERG fusion prostate cancer is a molecularly distinct estrogen-sensitive subclass of aggressive prostate cancer. J Natl Cancer Inst. 2008 Jun 4;100(11):815-25.
Tomlins SA, Rhodes DR, Yu J, Varambally S, Mehra R, Perner S, Demichelis F, Helgeson BE, Laxman B, Morris DS, Cao Q, Cao X, Andrén,O, Fall K, Johnson L, Wei JT, Shah RB, Al-Ahmadie H, Eastham JA, Eggener SE, Fine SW, HotakainenK, Stenman U-H, Tsodikov A, Gerald WL, Lilja H, Reuter VE, Kantoff PW, Scardino PT, Rubin MA, Bjartell AS, Chinnaiyan AM. The Role of SPINK1 in ETS Rearrangement Negative Prostate Cancers. Cancer Cell. 2008 Jun;13(6):519-28.
Perner S, Wagner P, Demichelis F, Mehra R, LaFargue C, Moss B, Arbogast S., Soltermann A., Weder W, Giordano TJ, Beer DG, Rickman DS, Chinnaiyan AM, Moch H, Rubin MA. EML4-ALK fusion lung cancer: a rare acquired event. Neoplasia. 2008 Mar;10(3):298-302.
Mertz KD, Demichelis F, Sboner A, Hirsch MS, Struckmann K, Storz M, Gerstein M, Moch H and Rubin MA. Cytokeratin expression is associated with genomic alterations and prognosis in clear cell renal cell cancer. Int J Cancer. 2008 Aug 1;123(3):569-76.
Beroukhim R, Getz G, et al. Genome-wide analysis of chromosomal aberrations in glioma. Proc Natl Acad Sci U S A. 2007 Dec 11;104(50):20007.
Setlur S*, Royce T*, Sboner A, Mosquera J-M, Demichelis F, Hofer M, Mertz K, Gerstein M, Rubin MA. Integrative Microarray Analysis of Pathways (IMAP) Dysregulated in Metastatic Prostate Cancer. Cancer Research 2007 Nov 1;67(21):10296-10303.
Barry M, Perner S, Demichelis F, and Rubin MA. Interfocal Heterogeneity for TMPRSS2-ERG Fusion in Multifocal Prostate Cancer. Urology. 2007 70(4): 630-633.
Mertz KD, Demichelis F, Kim R, Schraml P, Storz M, Diener PA, Moch H, Rubin MA. Automated Immunofluorescence Analysis defines Microvessel Area as a Prognostic Parameter in Clear Cell Renal Cell Cancer. Hum Pathol. 2007 Oct;38(10):1454-62.
Mosquera J-M, Perner S, Demichelis F, Kim R, Hofer MD, Mertz KD, Paris PL, Simko J, Collins C, Bismar TA, Chinnaiyan AM and Rubin MA. Morphological features of TMPRSS2-ERG Gene Fusion Prostate Cancer. J Pathol. 2007 May;212(1):91-101.
Mertz KD, Setlur SR, Dhanasekaran SM, Demichelis F, Perner S, Tomlins S, Tchinda J, Laxman B, Vessella R, Johnson BE, Beroukhim R, Lee C, Chinnaiyan AM, and Rubin MA. Molecular characterization of the TMPRSS2-ERG gene fusion in the NCI-H660 prostate cancer cell line – a new perspective for an old model. Neoplasia. 2007 Mar;9(3):200-6.
Sboner A, Romanel A, Malossini A, Ciocchetta F, Demichelis F, Azzini I, Blanzieri E and Dell’Anna R (2007), Simple Methods for Peak and Valley Detection in Time Series Microarray Data. Published on Methods of Microarray Data Analysis V McConnell, Patrick; Lin, Simon M.; Hurban, Patrick (Eds.) 2007, XIV, 176 p., 115 illus., Hardcover ISBN: 978-0-387-34568-0 Springers Bioinformatics.
Demichelis F*, Fall K*, Perner S, Andrén O, Mosquera J-M, Pawitan Y, Lee C, Adami H-O, Mucci LA, Kantoff PW, Andersson S-O, Chinnaiyan AM, Johansson J-E, and Rubin MA. TMPRSS2:ERG Gene Fusion Associated with Lethal Prostate Cancer. Oncogene. 2007 Jul 5;26(31):4596-9. (* Co-First Autorship)
Perner S, Mosquera J-M, Demichelis F, et al.TMPRSS2-ERG Fusion Prostate Cancer: an early molecular event associated with invasion. Am J Surg Pathol. 2007 Jun;31(6):882-888.
Demichelis F, Magni P, Piergiorgi P, Rubin MA, Bellazzi R. A Hierarchical Naïve Bayes Model for handling the uncertainty in classification problems: an application to Tissue Microarrays. BMC Bioinformatics 2006 Nov 24;7(1):514.
Perner S*, Demichelis F*, Beroukhim R*, Schmidt FH, Mosquera J-M, Tchinda J, Tomlins SA, Hofer MD, Pienta KG, Kuefer R, Vessella R, Sun X-W, Meyerson ML, Lee C, Sellers WR, Chinnaiyan AM, and Rubin MA. TMPRSS2:ERG Fusion Associated Deletions Provide Insight Into The Heterogeneity Of Prostate Cancer. Cancer Research. 2006 Vol 66:(17):8337-41. (*Co-First Autorship)
Della Mea V, Demichelis F, Viel F, Dalla Palma P, Beltrami CA. User attitudes in analysing digital slides in a quality control test bed: a preliminary study. Comput Methods Programs Biomed. 2006 Vol 82/2 pp 177-186.
Aldovini D*, Demichelis F*, Doglioni C, Di Vizio D, Galligioni E, Brugnara S, Zeni B, Griso C, Pegoraro C, Zannoni M, Gariboldi M, Balladore E, Mezzanzanica D, Canevari S, Barbareschi M. M-Cam Expression as Marker of Poor Prognosis in Epithelial Ovarian Cancer. Int. J. Cancer. 2006: 119, 1920–1926. (* Co-First Autorship)
Bismar TA*, Demichelis F*, Riva A, Kim R, Varambally S, He L, Kutok J, Aster JC, Tang J, Kuefer R, Hofer MD, Febbo PG, Chinnaiyan AM, Rubin MA. Defining Aggressive Prostate Cancer Using a 12 Gene Model. Neoplasia. 2006 Jan;8(1):59-68. (*Co-First Autorship)
Demichelis F, Sboner A, Barbareschi M, Dell’Anna R. TMABoost: an integrated system for comprehensive management of Tissue Microarray data. IEEE Information Technology in Biomedicine. 2006; 10(1): 19-27.
Kim R*, Demichelis F*, Tang J*, Riva A, Shen R, Gibbs DG, Manhavishnu V, Chinnaiyan AM, Rubin MA. PROFILER: AN INTERNET-BASED DATABASE FOR TISSUE MICROARRAY ANALYSIS. BMC Bioinformatics. 2005 Dec 19;6:304. (* Co-First Autorship)
Veeramachaneni S, Demichelis F, Olivetti E, Avesani P. Active Sampling for Knowledge Discovery from Biomedical Data. Proc. Of Conference on Principles and Practice of Knowledge Discovery in Databases (PKDD), Porto, Portugal, October 3-7, 2005.
Dell'Anna R, Demichelis F, Barbareschi M, Sboner A. An automated procedure to properly handle digital images in large scale Tissue Microarray experiments. Comput Methods Programs Biomed. 2005 Sep;79(3):197-208.
Santagata S, Demichelis F, Riva A, Lnu S, Kutok JL, Kim R, Tang J, Chinnaiyan AM, Rubin MA, Aster JC. Jagged1 expression is associated with prostate cancer metastasis and recurrence. Cancer Research. 2004; 64(19):6854-6857.
Ciocchetta F, Dell'Anna R, Demichelis F, Sboner A, Dhillon AP, Dhillon A, Godfrey A, Quaglia A. Knowledge discovery in support of early diagnosis of hepatocellular carcinoma. Proc. of IJNN 2003, Portland, Oregon, 2003.
Demichelis F, Della Mea V, Forti S, Dalla Palma P, Beltrami CA. Digital storage of glass slides as an enabling technology for quality assurance in histo and cytopathology. J Telemed Telecare 2002; 8:138-142.
Demichelis F, Barbareschi M, Dalla Palma P, Forti S. The virtual case. A new method to completely digitise cytological and histological slides. Virchows Archive. 2002; 441: 159-164.
Demichelis F, Barbareschi M, Boi S, Clemente C, Dalla Palma P, Eccher C, Forti S. Robotic Telepathology for intraoperative remote diagnosis using a still–imaging based system. Am J Clin Pathol. 2001; 116:744-752.
Barbareschi M, Demichelis F, Forti S, Dalla Palma P. Digital Pathology: Science Fiction? Int J Surg Pathol. 2000; 8(4):261-263.
Demichelis F, Viliani G, Ruocco G. Properties of the well potential and relaxation processes in a model glass. Phys. Chem. Comm. 2 (1999) 20.
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