14: Alder H, Taccioli C, Chen H, Jiang Y, Smalley KJ, Fadda P, Ozer HG, Huebner

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1 1: Fiorenzano A, Pascale E, Gagliardi M, Terreri S, Papa M, Andolfi G, Galasso M, Tagliazucchi GM, Taccioli C, Patriarca EJ, Cimmino A, Matarazzo MR, Minchiotti G, Fico A. An Ultraconserved Element Containing lncrna Preserves Transcriptional Dynamics and Maintains ESC Self-Renewal. Stem Cell Reports Mar 13;10(3): doi: /j.stemcr Epub 2018 Feb 15. PubMed PMID: : Fong LY, Jing R, Smalley KJ, Taccioli C, Fahrmann J, Barupal DK, Alder H, Farber JL, Fiehn O, Croce CM. Integration of metabolomics, transcriptomics, and microrna expression profiling reveals a mir-143-hk2-glucose network underlying zinc-deficiency-associated esophageal neoplasia. Oncotarget Jun 9;8(47): doi: /oncotarget ecollection 2017 Oct 10. PubMed PMID: ; PubMed Central PMCID: PMC : Pichiorri F, Suh SS, Rocci A, De Luca L, Taccioli C, Santhanam R, Zhou W, Benson DM Jr, Hofmainster C, Alder H, Garofalo M, Di Leva G, Volinia S, Lin HJ, Perrotti D, Kuehl M, Aqeilan RI, Palumbo A, Croce CM. Downregulation of p53-inducible micrornas 192, 194, and 215 Impairs the p53/mdm2 Autoregulatory Loop in Multiple Myeloma Development. Cancer Cell Aug 8;30(2): doi: /j.ccell Epub 2016 Aug 8. PubMed PMID: : Fong LY, Taccioli C, Jing R, Smalley KJ, Alder H, Jiang Y, Fadda P, Farber JL, Croce CM. MicroRNA dysregulation and esophageal cancer development depend on the extent of zinc dietary deficiency. Oncotarget Mar 8;7(10): doi: /oncotarget PubMed PMID: ; PubMed Central PMCID: PMC : Taccioli C, Sorrentino G, Zannini A, Caroli J, Beneventano D, Anderlucci L, Lolli M, Bicciato S, Del Sal G. MDP, a database linking drug response data to

2 genomic information, identifies dasatinib and statins as a combinatorial strategy to inhibit YAP/TAZ in cancer cells. Oncotarget Nov 17;6(36): doi: /oncotarget PubMed PMID: ; PubMed Central PMCID: PMC : Caroli J, Taccioli C, De La Fuente A, Serafini P, Bicciato S. APTANI: a computational tool to select aptamers through sequence-structure motif analysis of HT-SELEX data. Bioinformatics Jan 15;32(2): doi: /bioinformatics/btv545. Epub 2015 Sep 22. PubMed PMID: : Taccioli C, Garofalo M, Chen H, Jiang Y, Tagliazucchi GM, Di Leva G, Alder H, Fadda P, Middleton J, Smalley KJ, Selmi T, Naidu S, Farber JL, Croce CM, Fong LY. Repression of Esophageal Neoplasia and Inflammatory Signaling by Anti-miR-31 Delivery In Vivo. J Natl Cancer Inst Aug 18;107(11). pii: djv220. doi: /jnci/djv220. Print 2015 Nov. PubMed PMID: ; PubMed Central PMCID: PMC : García-Cruz R, Camats M, Calin GA, Liu CG, Volinia S, Taccioli C, Croce CM, Bach-Elias M. The role of p19 and p21 H-Ras proteins and mutants in mirna expression in cancer and a Costello syndrome cell model. BMC Med Genet Jul 3;16:46. doi: /s z. PubMed PMID: ; PubMed Central PMCID: PMC : Cieri N, Oliveira G, Greco R, Forcato M, Taccioli C, Cianciotti B, Valtolina V, Noviello M, Vago L, Bondanza A, Lunghi F, Marktel S, Bellio L, Bordignon C, Bicciato S, Peccatori J, Ciceri F, Bonini C. Generation of human memory stem T cells after haploidentical T-replete hematopoietic stem cell transplantation. Blood Apr 30;125(18): doi: / blood Epub 2015 Mar 3. PubMed PMID:

3 10: Lomonaco V, Martoglia R, Mandreoli F, Anderlucci L, Emmett W, Bicciato S, Taccioli C. UCbase 2.0: ultraconserved sequences database (2014 update). Database (Oxford) Jun 19;2014. pii: bau062. doi: /database/ bau062. Print PubMed PMID: ; PubMed Central PMCID: PMC : Di Leva G, Piovan C, Gasparini P, Ngankeu A, Taccioli C, Briskin D, Cheung DG, Bolon B, Anderlucci L, Alder H, Nuovo G, Li M, Iorio MV, Galasso M, Santhanam R, Marcucci G, Perrotti D, Powell KA, Bratasz A, Garofalo M, Nephew KP, Croce CM. Estrogen mediated-activation of mir-191/425 cluster modulates tumorigenicity of breast cancer cells depending on estrogen receptor status. PLoS Genet. 2013;9(3):e doi: /journal.pgen Epub 2013 Mar 7. Erratum in: PLoS Genet Apr;9(4). doi: /annotation/92dfa670-d431-4d68-b70b-706df1f93e46. Ramasamy, Santhanam [corrected to Santhanam, Ramasamy]. PubMed PMID: ; PubMed Central PMCID: PMC : Nakanishi H, Taccioli C, Palatini J, Fernandez-Cymering C, Cui R, Kim T, Volinia S, Croce CM. Loss of mir-125b-1 contributes to head and neck cancer development by dysregulating TACSTD2 and MAPK pathway. Oncogene Feb 6;33(6): doi: /onc Epub 2013 Feb 18. PubMed PMID: ; PubMed Central PMCID: PMC : Visani M, de Biase D, Marucci G, Taccioli C, Baruzzi A, Pession A; PERNO Study Group. Definition of mirnas expression profile in glioblastoma samples: the relevance of non-neoplastic brain reference. PLoS One. 2013;8(1):e doi: /journal.pone Epub 2013 Jan 29. PubMed PMID: ; PubMed Central PMCID: PMC : Alder H, Taccioli C, Chen H, Jiang Y, Smalley KJ, Fadda P, Ozer HG, Huebner

4 K, Farber JL, Croce CM, Fong LY. Dysregulation of mir-31 and mir-21 induced by zinc deficiency promotes esophageal cancer. Carcinogenesis Sep;33(9): doi: /carcin/bgs204. Epub 2012 Jun 10. PubMed PMID: ; PubMed Central PMCID: PMC : Piovan C, Palmieri D, Di Leva G, Braccioli L, Casalini P, Nuovo G, Tortoreto M, Sasso M, Plantamura I, Triulzi T, Taccioli C, Tagliabue E, Iorio MV, Croce CM. Oncosuppressive role of p53-induced mir-205 in triple negative breast cancer. Mol Oncol Aug;6(4): doi: /j.molonc Epub 2012 Apr 19. PubMed PMID: ; PubMed Central PMCID: PMC : de Biase D, Visani M, Morandi L, Marucci G, Taccioli C, Cerasoli S, Baruzzi A, Pession A; PERNO Study Group. mirnas expression analysis in paired fresh/frozen and dissected formalin fixed and paraffin embedded glioblastoma using real-time pcr. PLoS One. 2012;7(4):e doi: /journal.pone Epub 2012 Apr 18. PubMed PMID: ; PubMed Central PMCID: PMC : Taccioli C, Chen H, Jiang Y, Liu XP, Huang K, Smalley KJ, Farber JL, Croce CM, Fong LY. Dietary zinc deficiency fuels esophageal cancer development by inducing a distinct inflammatory signature. Oncogene Oct 18;31(42): doi: /onc Epub 2011 Dec 19. PubMed PMID: ; PubMed Central PMCID: PMC : Visone R, Veronese A, Rassenti LZ, Balatti V, Pearl DK, Acunzo M, Volinia S, Taccioli C, Kipps TJ, Croce CM. mir-181b is a biomarker of disease progression in chronic lymphocytic leukemia. Blood Sep 15;118(11): doi: /blood Epub 2011 Jun 2. PubMed PMID: ; PubMed Central PMCID: PMC : Taccioli C, Tegnér J, Maselli V, Gomez-Cabrero D, Altobelli G,

5 Emmett W, Lescai F, Gustincich S, Stupka E. ParkDB: a Parkinson's disease gene expression database. Database (Oxford) May 18;2011:bar007. doi: /database/bar007. Print PubMed PMID: ; PubMed Central PMCID: PMC : Thompson LH, Whiston RA, Rakhimov Y, Taccioli C, Liu CG, Croce C, Metcalfe SM. A LIF/Nanog axis is revealed in T lymphocytes that lack MARCH-7, a RINGv E3 ligase that regulates the LIF-receptor. Cell Cycle Oct 15;9(20): Epub 2010 Oct 4. PubMed PMID: ; PubMed Central PMCID: PMC : Pichiorri F, Suh SS, Rocci A, De Luca L, Taccioli C, Santhanam R, Zhou W, Benson DM Jr, Hofmainster C, Alder H, Garofalo M, Di Leva G, Volinia S, Lin HJ, Perrotti D, Kuehl M, Aqeilan RI, Palumbo A, Croce CM. Downregulation of p53-inducible micrornas 192, 194, and 215 impairs the p53/mdm2 autoregulatory loop in multiple myeloma development. Cancer Cell Oct 19;18(4): doi: /j.ccr Erratum in: Cancer Cell Aug 8;30(2): PubMed PMID: ; PubMed Central PMCID: PMC : Wan SG, Taccioli C, Jiang Y, Chen H, Smalley KJ, Huang K, Liu XP, Farber JL, Croce CM, Fong LY. Zinc deficiency activates S100A8 inflammation in the absence of COX-2 and promotes murine oral-esophageal tumor progression. Int J Cancer Jul 15;129(2): doi: /ijc Epub 2010 Nov 9. PubMed PMID: ; PubMed Central PMCID: PMC : Tili E, Michaille JJ, Liu CG, Alder H, Taccioli C, Volinia S, Calin GA, Croce CM. GAM/ZFp/ZNF512B is central to a gene sensor circuitry involving cell-cycle regulators, TGF{beta} effectors, Drosha and micrornas with opposite oncogenic potentials. Nucleic Acids Res Nov;38(21): doi: /nar/gkq637. Epub 2010 Jul 17. PubMed PMID: ; PubMed Central PMCID:

6 PMC : Tili E, Michaille JJ, Adair B, Alder H, Limagne E, Taccioli C, Ferracin M, Delmas D, Latruffe N, Croce CM. Resveratrol decreases the levels of mir-155 by upregulating mir-663, a microrna targeting JunB and JunD. Carcinogenesis Sep;31(9): doi: /carcin/bgq143. Epub 2010 Jul 9. PubMed PMID: ; PubMed Central PMCID: PMC : Volinia S, Galasso M, Costinean S, Tagliavini L, Gamberoni G, Drusco A, Marchesini J, Mascellani N, Sana ME, Abu Jarour R, Desponts C, Teitell M, Baffa R, Aqeilan R, Iorio MV, Taccioli C, Garzon R, Di Leva G, Fabbri M, Catozzi M, Previati M, Ambs S, Palumbo T, Garofalo M, Veronese A, Bottoni A, Gasparini P, Harris CC, Visone R, Pekarsky Y, de la Chapelle A, Bloomston M, Dillhoff M, Rassenti LZ, Kipps TJ, Huebner K, Pichiorri F, Lenze D, Cairo S, Buendia MA, Pineau P, Dejean A, Zanesi N, Rossi S, Calin GA, Liu CG, Palatini J, Negrini M, Vecchione A, Rosenberg A, Croce CM. Reprogramming of mirna networks in cancer and leukemia. Genome Res May;20(5): doi: /gr PubMed PMID: ; PubMed Central PMCID: PMC : Di Leva G, Gasparini P, Piovan C, Ngankeu A, Garofalo M, Taccioli C, Iorio MV, Li M, Volinia S, Alder H, Nakamura T, Nuovo G, Liu Y, Nephew KP, Croce CM. MicroRNA cluster and estrogen receptor alpha interactions in breast cancer. J Natl Cancer Inst May 19;102(10): doi: /jnci/djq102. Epub 2010 Apr 13. PubMed PMID: ; PubMed Central PMCID: PMC : Munker R, Liu CG, Taccioli C, Alder H, Heerema N. MicroRNA profiles of drug-resistant myeloma cell lines. Acta Haematol. 2010;123(4): doi: / Epub 2010 Mar 31. PubMed PMID: ; PubMed Central PMCID: PMC

7 28: Braconi C, Valeri N, Gasparini P, Huang N, Taccioli C, Nuovo G, Suzuki T, Croce CM, Patel T. Hepatitis C virus proteins modulate microrna expression and chemosensitivity in malignant hepatocytes. Clin Cancer Res Feb 1;16(3): doi: / CCR Epub 2010 Jan 26. PubMed PMID: ; PubMed Central PMCID: PMC : Ueda T, Volinia S, Okumura H, Shimizu M, Taccioli C, Rossi S, Alder H, Liu CG, Oue N, Yasui W, Yoshida K, Sasaki H, Nomura S, Seto Y, Kaminishi M, Calin GA, Croce CM. Relation between microrna expression and progression and prognosis of gastric cancer: a microrna expression analysis. Lancet Oncol Feb;11(2): doi: /S (09) Epub 2009 Dec 18. PubMed PMID: ; PubMed Central PMCID: PMC : Garofalo M, Di Leva G, Romano G, Nuovo G, Suh SS, Ngankeu A, Taccioli C, Pichiorri F, Alder H, Secchiero P, Gasparini P, Gonelli A, Costinean S, Acunzo M, Condorelli G, Croce CM. mir-221&222 regulate TRAIL resistance and enhance tumorigenicity through PTEN and TIMP3 downregulation. Cancer Cell Dec 8;16(6): doi: /j.ccr PubMed PMID: ; PubMed Central PMCID: PMC : Visone R, Rassenti LZ, Veronese A, Taccioli C, Costinean S, Aguda BD, Volinia S, Ferracin M, Palatini J, Balatti V, Alder H, Negrini M, Kipps TJ, Croce CM. Karyotype-specific microrna signature in chronic lymphocytic leukemia. Blood Oct 29;114(18): doi: /blood Epub 2009 Aug 28. PubMed PMID: ; PubMed Central PMCID: PMC : Ghosh AK, Shanafelt TD, Cimmino A, Taccioli C, Volinia S, Liu CG, Calin GA, Croce CM, Chan DA, Giaccia AJ, Secreto C, Wellik LE, Lee YK, Mukhopadhyay D, Kay NE. Aberrant regulation of pvhl levels by microrna promotes the HIF/ VEGF axis in

8 CLL B cells. Blood May 28;113(22): doi: /blood Epub 2009 Mar 31. PubMed PMID: ; PubMed Central PMCID: PMC : Taccioli C, Wan SG, Liu CG, Alder H, Volinia S, Farber JL, Croce CM, Fong LY. Zinc replenishment reverses overexpression of the proinflammatory mediator S100A8 and esophageal preneoplasia in the rat. Gastroenterology Mar; 136(3): doi: /j.gastro Epub 2008 Nov 24. PubMed PMID: ; PubMed Central PMCID: PMC : Sampath D, Calin GA, Puduvalli VK, Gopisetty G, Taccioli C, Liu CG, Ewald B, Liu C, Keating MJ, Plunkett W. Specific activation of microrna106b enables the p73 apoptotic response in chronic lymphocytic leukemia by targeting the ubiquitin ligase Itch for degradation. Blood Apr 16;113(16): doi: /blood Epub 2008 Dec 18. PubMed PMID: ; PubMed Central PMCID: PMC : Quaresima B, Romeo F, Faniello MC, Di Sanzo M, Liu CG, Lavecchia A, Taccioli C, Gaudio E, Baudi F, Trapasso F, Croce CM, Cuda G, Costanzo F. BRCA1 5083del19 mutant allele selectively up-regulates periostin expression in vitro and in vivo. Clin Cancer Res Nov 1;14(21): doi: / CCR PubMed PMID: : Taccioli C, Fabbri E, Visone R, Volinia S, Calin GA, Fong LY, Gambari R, Bottoni A, Acunzo M, Hagan J, Iorio MV, Piovan C, Romano G, Croce CM. UCbase & mirfunc: a database of ultraconserved sequences and microrna function. Nucleic Acids Res Jan;37(Database issue):d41-8. doi: /nar/ gkn702. Epub 2008 Oct 22. PubMed PMID: ; PubMed Central PMCID: PMC : Pichiorri F, Suh SS, Ladetto M, Kuehl M, Palumbo T, Drandi D, Taccioli C,

9 Zanesi N, Alder H, Hagan JP, Munker R, Volinia S, Boccadoro M, Garzon R, Palumbo A, Aqeilan RI, Croce CM. MicroRNAs regulate critical genes associated with multiple myeloma pathogenesis. Proc Natl Acad Sci U S A Sep 2;105(35): doi: /pnas Epub 2008 Aug 26. PubMed PMID: ; PubMed Central PMCID: PMC : Calin GA, Cimmino A, Fabbri M, Ferracin M, Wojcik SE, Shimizu M, Taccioli C, Zanesi N, Garzon R, Aqeilan RI, Alder H, Volinia S, Rassenti L, Liu X, Liu CG, Kipps TJ, Negrini M, Croce CM. MiR-15a and mir-16-1 cluster functions in human leukemia. Proc Natl Acad Sci U S A Apr 1;105(13): doi: /pnas Epub 2008 Mar 24. PubMed PMID: ; PubMed Central PMCID: PMC : Garofalo M, Quintavalle C, Di Leva G, Zanca C, Romano G, Taccioli C, Liu CG, Croce CM, Condorelli G. MicroRNA signatures of TRAIL resistance in human non-small cell lung cancer. Oncogene Jun 19;27(27): doi: /onc Epub 2008 Feb 4. PubMed PMID: : Mascellani N, Liu X, Rossi S, Marchesini J, Valentini D, Arcelli D, Taccioli C, Helmer Citterich M, Liu CG, Evangelisti R, Russo G, Santos JM, Croce CM, Volinia S. Compatible solutes from hyperthermophiles improve the quality of DNA microarrays. BMC Biotechnol Nov 23;7:82. PubMed PMID: ; PubMed Central PMCID: PMC : Iorio MV, Visone R, Di Leva G, Donati V, Petrocca F, Casalini P, Taccioli C, Volinia S, Liu CG, Alder H, Calin GA, Ménard S, Croce CM. MicroRNA signatures in human ovarian cancer. Cancer Res Sep 15;67(18): PubMed PMID: : Calin GA, Liu CG, Ferracin M, Hyslop T, Spizzo R, Sevignani C, Fabbri M, Cimmino A, Lee EJ, Wojcik SE, Shimizu M, Tili E, Rossi S, Taccioli

10 C, Pichiorri F, Liu X, Zupo S, Herlea V, Gramantieri L, Lanza G, Alder H, Rassenti L, Volinia S, Schmittgen TD, Kipps TJ, Negrini M, Croce CM. Ultraconserved regions encoding ncrnas are altered in human leukemias and carcinomas. Cancer Cell Sep;12(3): PubMed PMID: : Bloomston M, Frankel WL, Petrocca F, Volinia S, Alder H, Hagan JP, Liu CG, Bhatt D, Taccioli C, Croce CM. MicroRNA expression patterns to differentiate pancreatic adenocarcinoma from normal pancreas and chronic pancreatitis. JAMA May 2;297(17): PubMed PMID: