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The Non-Coding RNA Journal Club: Highlights on Recent Papers-8.
Tarallo S, Pardini B, Fox AH, Ingram H, Taccioli C, Taube JH, Mani SA.Noncoding RNA. 2021 Mar 19;7(1):23. doi: 10.3390/ncrna7010023.PMID: 33808546 Free PMC article.
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Successful extraction of insect DNA from recent copal inclusions: limits and perspectives.
Modi A, Vergata C, Zilli C, Vischioni C, Vai S, Tagliazucchi GM, Lari M, Caramelli D, Taccioli C.Sci Rep. 2021 Mar 25;11(1):6851. doi: 10.1038/s41598-021-86058-9.PMID: 33767248 Free PMC article.
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Correction: MicroRNA signatures of TRAIL resistance in human non-small cell lung cancer.
Garofalo M, Quintavalle C, Di Leva G, Zanca C, Romano G, Taccioli C, Liu CG, Croce CM, Condorelli G.Oncogene. 2021 Feb;40(6):1204. doi: 10.1038/s41388-020-01608-1.PMID: 33398039 No abstract available.
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GMIEC: a shiny application for the identification of gene-targeted drugs for precision medicine.
Malagoli Tagliazucchi G, Taccioli C.BMC Genomics. 2020 Sep 10;21(1):619. doi: 10.1186/s12864-020-06996-y.PMID: 32912170 Free PMC article.
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Differences in local population history at the finest level: the case of the Estonian population.
Pankratov V, Montinaro F, Kushniarevich A, Hudjashov G, Jay F, Saag L, Flores R, Marnetto D, Seppel M, Kals M, Võsa U, Taccioli C, Möls M, Milani L, Aasa A, Lawson DJ, Esko T, Mägi R, Pagani L, Metspalu A, Metspalu M.Eur J Hum Genet. 2020 Nov;28(11):1580-1591. doi: 10.1038/s41431-020-0699-4. Epub 2020 Jul 25.PMID: 32712624 Free PMC article.
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6
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DNA sequence symmetries from randomness: the origin of the Chargaff's second parity rule.
Fariselli P, Taccioli C, Pagani L, Maritan A.Brief Bioinform. 2021 Mar 22;22(2):2172-2181. doi: 10.1093/bib/bbaa041.PMID: 32266404 Free PMC article.
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Abrogation of esophageal carcinoma development in miR-31 knockout rats.
Fong LY, Taccioli C, Palamarchuk A, Tagliazucchi GM, Jing R, Smalley KJ, Fan S, Altemus J, Fiehn O, Huebner K, Farber JL, Croce CM.Proc Natl Acad Sci U S A. 2020 Mar 17;117(11):6075-6085. doi: 10.1073/pnas.1920333117. Epub 2020 Mar 2.PMID: 32123074 Free PMC article.
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8
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Bressan E, Ferroni L, Gardin C, Bellin G, Sbricoli L, Sivolella S, Brunello G, Schwartz-Arad D, Mijiritsky E, Penarrocha M, Penarrocha D, Taccioli C, Tatullo M, Piattelli A, Zavan B.Materials (Basel). 2019 Jun 25;12(12):2036. doi: 10.3390/ma12122036.PMID: 31242601 Free PMC article.
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Human-like hyperplastic prostate with low ZIP1 induced solely by Zn deficiency in rats.
Fong LY, Jing R, Smalley KJ, Wang ZX, Taccioli C, Fan S, Chen H, Alder H, Huebner K, Farber JL, Fiehn O, Croce CM.Proc Natl Acad Sci U S A. 2018 Nov 20;115(47):E11091-E11100. doi: 10.1073/pnas.1813956115. Epub 2018 Nov 5.PMID: 30397150 Free PMC article.
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Guichard E, Peona V, Malagoli Tagliazucchi G, Abitante L, Jagoda E, Musella M, Ricci M, Rubio-Roldán A, Sarno S, Luiselli D, Pettener D, Taccioli C, Pagani L, Garcia-Perez JL, Boattini A.Mob DNA. 2018 Aug 15;9:28. doi: 10.1186/s13100-018-0133-4. eCollection 2018.PMID: 30147753 Free PMC article.
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11
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Ricci M, Peona V, Guichard E, Taccioli C, Boattini A.J Mol Evol. 2018 Jun;86(5):311. doi: 10.1007/s00239-018-9850-z.PMID: 29943091 Free PMC article.
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Transposable Elements Activity is Positively Related to Rate of Speciation in Mammals.
Ricci M, Peona V, Guichard E, Taccioli C, Boattini A.J Mol Evol. 2018 Jun;86(5):303-310. doi: 10.1007/s00239-018-9847-7. Epub 2018 May 31.PMID: 29855654 Free PMC article.
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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.Stem Cell Reports. 2018 Mar 13;10(3):1102-1114. doi: 10.1016/j.stemcr.2018.01.014. Epub 2018 Feb 15.PMID: 29456181 Free PMC article.
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14
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Fong LY, Jing R, Smalley KJ, Taccioli C, Fahrmann J, Barupal DK, Alder H, Farber JL, Fiehn O, Croce CM.Oncotarget. 2017 Jun 9;8(47):81910-81925. doi: 10.18632/oncotarget.18434. eCollection 2017 Oct 10.PMID: 29137232 Free PMC article.
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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.Cancer Cell. 2016 Aug 8;30(2):349-351. doi: 10.1016/j.ccell.2016.07.007. Epub 2016 Aug 8.PMID: 27505674 Free article. No abstract available.
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Fong LY, Taccioli C, Jing R, Smalley KJ, Alder H, Jiang Y, Fadda P, Farber JL, Croce CM.Oncotarget. 2016 Mar 8;7(10):10723-38. doi: 10.18632/oncotarget.7561.PMID: 26918602 Free PMC article.
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17
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Taccioli C, Sorrentino G, Zannini A, Caroli J, Beneventano D, Anderlucci L, Lolli M, Bicciato S, Del Sal G.Oncotarget. 2015 Nov 17;6(36):38854-65. doi: 10.18632/oncotarget.5749.PMID: 26513174 Free PMC article.
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Caroli J, Taccioli C, De La Fuente A, Serafini P, Bicciato S.Bioinformatics. 2016 Jan 15;32(2):161-4. doi: 10.1093/bioinformatics/btv545. Epub 2015 Sep 22.PMID: 26395772
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Repression of Esophageal Neoplasia and Inflammatory Signaling by Anti-miR-31 Delivery In Vivo.
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.J Natl Cancer Inst. 2015 Aug 18;107(11):djv220. doi: 10.1093/jnci/djv220. Print 2015 Nov.PMID: 26286729 Free PMC article.
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GarcĂa-Cruz R, Camats M, Calin GA, Liu CG, Volinia S, Taccioli C, Croce CM, Bach-Elias M.BMC Med Genet. 2015 Jul 3;16:46. doi: 10.1186/s12881-015-0184-z.PMID: 26138095 Free PMC article.
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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.Blood. 2015 Apr 30;125(18):2865-74. doi: 10.1182/blood-2014-11-608539. Epub 2015 Mar 3.PMID: 25736310 Free article. Clinical Trial.
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UCbase 2.0: ultraconserved sequences database (2014 update).
Lomonaco V, Martoglia R, Mandreoli F, Anderlucci L, Emmett W, Bicciato S, Taccioli C.Database (Oxford). 2014 Jun 19;2014:bau062. doi: 10.1093/database/bau062. Print 2014.PMID: 24951797 Free PMC article.
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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.PLoS Genet. 2013;9(3):e1003311. doi: 10.1371/journal.pgen.1003311. Epub 2013 Mar 7.PMID: 23505378 Free PMC article.
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Nakanishi H, Taccioli C, Palatini J, Fernandez-Cymering C, Cui R, Kim T, Volinia S, Croce CM.Oncogene. 2014 Feb 6;33(6):702-12. doi: 10.1038/onc.2013.13. Epub 2013 Feb 18.PMID: 23416980 Free PMC article.
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Visani M, de Biase D, Marucci G, Taccioli C, Baruzzi A, Pession A; PERNO Study Group.PLoS One. 2013;8(1):e55314. doi: 10.1371/journal.pone.0055314. Epub 2013 Jan 29.PMID: 23383149 Free PMC article.
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Dysregulation of miR-31 and miR-21 induced by zinc deficiency promotes esophageal cancer.
Alder H, Taccioli C, Chen H, Jiang Y, Smalley KJ, Fadda P, Ozer HG, Huebner K, Farber JL, Croce CM, Fong LY.Carcinogenesis. 2012 Sep;33(9):1736-44. doi: 10.1093/carcin/bgs204. Epub 2012 Jun 10.PMID: 22689922 Free PMC article.
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Oncosuppressive role of p53-induced miR-205 in triple negative breast cancer.
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.Mol Oncol. 2012 Aug;6(4):458-72. doi: 10.1016/j.molonc.2012.03.003. Epub 2012 Apr 19.PMID: 22578566 Free PMC article.
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de Biase D, Visani M, Morandi L, Marucci G, Taccioli C, Cerasoli S, Baruzzi A, Pession A; PERNO Study Group.PLoS One. 2012;7(4):e35596. doi: 10.1371/journal.pone.0035596. Epub 2012 Apr 18.PMID: 22530056 Free PMC article.
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29
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Taccioli C, Chen H, Jiang Y, Liu XP, Huang K, Smalley KJ, Farber JL, Croce CM, Fong LY.Oncogene. 2012 Oct 18;31(42):4550-8. doi: 10.1038/onc.2011.592. Epub 2011 Dec 19.PMID: 22179833 Free PMC article.
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miR-181b is a biomarker of disease progression in chronic lymphocytic leukemia.
Visone R, Veronese A, Rassenti LZ, Balatti V, Pearl DK, Acunzo M, Volinia S, Taccioli C, Kipps TJ, Croce CM.Blood. 2011 Sep 15;118(11):3072-9. doi: 10.1182/blood-2011-01-333484. Epub 2011 Jun 2.PMID: 21636858 Free PMC article.
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31
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ParkDB: a Parkinson's disease gene expression database.
Taccioli C, Tegnér J, Maselli V, Gomez-Cabrero D, Altobelli G, Emmett W, Lescai F, Gustincich S, Stupka E.Database (Oxford). 2011 May 18;2011:bar007. doi: 10.1093/database/bar007. Print 2011.PMID: 21593080 Free PMC article.
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Thompson LH, Whiston RA, Rakhimov Y, Taccioli C, Liu CG, Croce C, Metcalfe SM.Cell Cycle. 2010 Oct 15;9(20):4213-21. doi: 10.4161/cc.9.20.13543. Epub 2010 Oct 4.PMID: 20962578 Free PMC article.
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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.Cancer Cell. 2010 Oct 19;18(4):367-81. doi: 10.1016/j.ccr.2010.09.005.PMID: 20951946 Free PMC article.
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Wan SG, Taccioli C, Jiang Y, Chen H, Smalley KJ, Huang K, Liu XP, Farber JL, Croce CM, Fong LY.Int J Cancer. 2011 Jul 15;129(2):331-45. doi: 10.1002/ijc.25688. Epub 2010 Nov 9.PMID: 20857495 Free PMC article.
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Tili E, Michaille JJ, Liu CG, Alder H, Taccioli C, Volinia S, Calin GA, Croce CM.Nucleic Acids Res. 2010 Nov;38(21):7673-88. doi: 10.1093/nar/gkq637. Epub 2010 Jul 17.PMID: 20639536 Free PMC article.
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Tili E, Michaille JJ, Adair B, Alder H, Limagne E, Taccioli C, Ferracin M, Delmas D, Latruffe N, Croce CM.Carcinogenesis. 2010 Sep;31(9):1561-6. doi: 10.1093/carcin/bgq143. Epub 2010 Jul 9.PMID: 20622002 Free PMC article.
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Reprogramming of miRNA networks in cancer and leukemia.
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.Genome Res. 2010 May;20(5):589-99. doi: 10.1101/gr.098046.109.PMID: 20439436 Free PMC article.
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MicroRNA cluster 221-222 and estrogen receptor alpha interactions in breast cancer.
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.J Natl Cancer Inst. 2010 May 19;102(10):706-21. doi: 10.1093/jnci/djq102. Epub 2010 Apr 13.PMID: 20388878 Free PMC article.
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MicroRNA profiles of drug-resistant myeloma cell lines.
Munker R, Liu CG, Taccioli C, Alder H, Heerema N.Acta Haematol. 2010;123(4):201-4. doi: 10.1159/000302889. Epub 2010 Mar 31.PMID: 20357429 Free PMC article. No abstract available.
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Braconi C, Valeri N, Gasparini P, Huang N, Taccioli C, Nuovo G, Suzuki T, Croce CM, Patel T.Clin Cancer Res. 2010 Feb 1;16(3):957-66. doi: 10.1158/1078-0432.CCR-09-2123. Epub 2010 Jan 26.PMID: 20103677 Free PMC article.
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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.Lancet Oncol. 2010 Feb;11(2):136-46. doi: 10.1016/S1470-2045(09)70343-2. Epub 2009 Dec 18.PMID: 20022810 Free PMC article.
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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.Cancer Cell. 2009 Dec 8;16(6):498-509. doi: 10.1016/j.ccr.2009.10.014.PMID: 19962668 Free PMC article.
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43
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Karyotype-specific microRNA signature in chronic lymphocytic leukemia.
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.Blood. 2009 Oct 29;114(18):3872-9. doi: 10.1182/blood-2009-06-229211. Epub 2009 Aug 28.PMID: 19717645 Free PMC article.
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Aberrant regulation of pVHL levels by microRNA promotes the HIF/VEGF axis in CLL B cells.
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.Blood. 2009 May 28;113(22):5568-74. doi: 10.1182/blood-2008-10-185686. Epub 2009 Mar 31.PMID: 19336759 Free PMC article.
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Taccioli C, Wan SG, Liu CG, Alder H, Volinia S, Farber JL, Croce CM, Fong LY.Gastroenterology. 2009 Mar;136(3):953-66. doi: 10.1053/j.gastro.2008.11.039. Epub 2008 Nov 24.PMID: 19111725 Free PMC article.
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Sampath D, Calin GA, Puduvalli VK, Gopisetty G, Taccioli C, Liu CG, Ewald B, Liu C, Keating MJ, Plunkett W.Blood. 2009 Apr 16;113(16):3744-53. doi: 10.1182/blood-2008-09-178707. Epub 2008 Dec 18.PMID: 19096009 Free PMC article.
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47
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BRCA1 5083del19 mutant allele selectively up-regulates periostin expression in vitro and in vivo.
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.Clin Cancer Res. 2008 Nov 1;14(21):6797-803. doi: 10.1158/1078-0432.CCR-07-5208.PMID: 18980973 Free article.
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UCbase & miRfunc: a database of ultraconserved sequences and microRNA function.
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.Nucleic Acids Res. 2009 Jan;37(Database issue):D41-8. doi: 10.1093/nar/gkn702. Epub 2008 Oct 22.PMID: 18945703 Free PMC article.
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MicroRNAs regulate critical genes associated with multiple myeloma pathogenesis.
Pichiorri F, Suh SS, Ladetto M, Kuehl M, Palumbo T, Drandi D, Taccioli C, Zanesi N, Alder H, Hagan JP, Munker R, Volinia S, Boccadoro M, Garzon R, Palumbo A, Aqeilan RI, Croce CM.Proc Natl Acad Sci U S A. 2008 Sep 2;105(35):12885-90. doi: 10.1073/pnas.0806202105. Epub 2008 Aug 26.PMID: 18728182 Free PMC article.
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MiR-15a and miR-16-1 cluster functions in human leukemia.
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.Proc Natl Acad Sci U S A. 2008 Apr 1;105(13):5166-71. doi: 10.1073/pnas.0800121105. Epub 2008 Mar 24.PMID: 18362358 Free PMC article.
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MicroRNA signatures of TRAIL resistance in human non-small cell lung cancer.
Garofalo M, Quintavalle C, Di Leva G, Zanca C, Romano G, Taccioli C, Liu CG, Croce CM, Condorelli G.Oncogene. 2008 Jun 19;27(27):3845-55. doi: 10.1038/onc.2008.6. Epub 2008 Feb 4.PMID: 18246122
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Compatible solutes from hyperthermophiles improve the quality of DNA microarrays.
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.BMC Biotechnol. 2007 Nov 23;7:82. doi: 10.1186/1472-6750-7-82.PMID: 18036223 Free PMC article.
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MicroRNA signatures in human ovarian cancer.
Iorio MV, Visone R, Di Leva G, Donati V, Petrocca F, Casalini P, Taccioli C, Volinia S, Liu CG, Alder H, Calin GA, MĂ©nard S, Croce CM.Cancer Res. 2007 Sep 15;67(18):8699-707. doi: 10.1158/0008-5472.CAN-07-1936.PMID: 17875710 Free article.
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Ultraconserved regions encoding ncRNAs are altered in human leukemias and carcinomas.
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 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.Cancer Cell. 2007 Sep;12(3):215-29. doi: 10.1016/j.ccr.2007.07.027.PMID: 17785203 Free article.
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Bloomston M, Frankel WL, Petrocca F, Volinia S, Alder H, Hagan JP, Liu CG, Bhatt D, Taccioli C, Croce CM.JAMA. 2007 May 2;297(17):1901-8. doi: 10.1001/jama.297.17.1901.PMID: 17473300
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