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Items: 1 to 20 of 100

1.

ClusterScan: simple and generalistic identification of genomic clusters.

Volpe M, Miralto M, Gustincich S, Sanges R.

Bioinformatics. 2018 Jun 15. doi: 10.1093/bioinformatics/bty486. [Epub ahead of print]

PMID:
29912285
2.

Structural determinants of the SINE B2 element embedded in the long non-coding RNA activator of translation AS Uchl1.

Podbevšek P, Fasolo F, Bon C, Cimatti L, Reißer S, Carninci P, Bussi G, Zucchelli S, Plavec J, Gustincich S.

Sci Rep. 2018 Feb 16;8(1):3189. doi: 10.1038/s41598-017-14908-6.

3.

Identification of functional features of synthetic SINEUPs, antisense lncRNAs that specifically enhance protein translation.

Takahashi H, Kozhuharova A, Sharma H, Hirose M, Ohyama T, Fasolo F, Yamazaki T, Cotella D, Santoro C, Zucchelli S, Gustincich S, Carninci P.

PLoS One. 2018 Feb 7;13(2):e0183229. doi: 10.1371/journal.pone.0183229. eCollection 2018.

4.

FANTOM5 CAGE profiles of human and mouse samples.

Noguchi S, Arakawa T, Fukuda S, Furuno M, Hasegawa A, Hori F, Ishikawa-Kato S, Kaida K, Kaiho A, Kanamori-Katayama M, Kawashima T, Kojima M, Kubosaki A, Manabe RI, Murata M, Nagao-Sato S, Nakazato K, Ninomiya N, Nishiyori-Sueki H, Noma S, Saijyo E, Saka A, Sakai M, Simon C, Suzuki N, Tagami M, Watanabe S, Yoshida S, Arner P, Axton RA, Babina M, Baillie JK, Barnett TC, Beckhouse AG, Blumenthal A, Bodega B, Bonetti A, Briggs J, Brombacher F, Carlisle AJ, Clevers HC, Davis CA, Detmar M, Dohi T, Edge ASB, Edinger M, Ehrlund A, Ekwall K, Endoh M, Enomoto H, Eslami A, Fagiolini M, Fairbairn L, Farach-Carson MC, Faulkner GJ, Ferrai C, Fisher ME, Forrester LM, Fujita R, Furusawa JI, Geijtenbeek TB, Gingeras T, Goldowitz D, Guhl S, Guler R, Gustincich S, Ha TJ, Hamaguchi M, Hara M, Hasegawa Y, Herlyn M, Heutink P, Hitchens KJ, Hume DA, Ikawa T, Ishizu Y, Kai C, Kawamoto H, Kawamura YI, Kempfle JS, Kenna TJ, Kere J, Khachigian LM, Kitamura T, Klein S, Klinken SP, Knox AJ, Kojima S, Koseki H, Koyasu S, Lee W, Lennartsson A, Mackay-Sim A, Mejhert N, Mizuno Y, Morikawa H, Morimoto M, Moro K, Morris KJ, Motohashi H, Mummery CL, Nakachi Y, Nakahara F, Nakamura T, Nakamura Y, Nozaki T, Ogishima S, Ohkura N, Ohno H, Ohshima M, Okada-Hatakeyama M, Okazaki Y, Orlando V, Ovchinnikov DA, Passier R, Patrikakis M, Pombo A, Pradhan-Bhatt S, Qin XY, Rehli M, Rizzu P, Roy S, Sajantila A, Sakaguchi S, Sato H, Satoh H, Savvi S, Saxena A, Schmidl C, Schneider C, Schulze-Tanzil GG, Schwegmann A, Sheng G, Shin JW, Sugiyama D, Sugiyama T, Summers KM, Takahashi N, Takai J, Tanaka H, Tatsukawa H, Tomoiu A, Toyoda H, van de Wetering M, van den Berg LM, Verardo R, Vijayan D, Wells CA, Winteringham LN, Wolvetang E, Yamaguchi Y, Yamamoto M, Yanagi-Mizuochi C, Yoneda M, Yonekura Y, Zhang PG, Zucchelli S, Abugessaisa I, Arner E, Harshbarger J, Kondo A, Lassmann T, Lizio M, Sahin S, Sengstag T, Severin J, Shimoji H, Suzuki M, Suzuki H, Kawai J, Kondo N, Itoh M, Daub CO, Kasukawa T, Kawaji H, Carninci P, Forrest ARR, Hayashizaki Y.

Sci Data. 2017 Aug 29;4:170112. doi: 10.1038/sdata.2017.112.

5.

Neuronal hemoglobin affects dopaminergic cells' response to stress.

Codrich M, Bertuzzi M, Russo R, Francescatto M, Espinoza S, Zentilin L, Giacca M, Cesselli D, Beltrami AP, Ascenzi P, Zucchelli S, Persichetti F, Leanza G, Gustincich S.

Cell Death Dis. 2017 Jan 5;8(1):e2538. doi: 10.1038/cddis.2016.458.

6.

Huntingtin polyQ Mutation Impairs the 17β-Estradiol/Neuroglobin Pathway Devoted to Neuron Survival.

Nuzzo MT, Fiocchetti M, Totta P, Melone MAB, Cardinale A, Fusco FR, Gustincich S, Persichetti F, Ascenzi P, Marino M.

Mol Neurobiol. 2017 Oct;54(8):6634-6646. doi: 10.1007/s12035-016-0337-x. Epub 2016 Dec 12.

PMID:
27957684
7.

The Yin and Yang of nucleic acid-based therapy in the brain.

Gustincich S, Zucchelli S, Mallamaci A.

Prog Neurobiol. 2017 Aug;155:194-211. doi: 10.1016/j.pneurobio.2016.11.001. Epub 2016 Nov 22. Review.

8.

Engineering Translation in Mammalian Cell Factories to Increase Protein Yield: The Unexpected Use of Long Non-Coding SINEUP RNAs.

Zucchelli S, Patrucco L, Persichetti F, Gustincich S, Cotella D.

Comput Struct Biotechnol J. 2016 Oct 27;14:404-410. eCollection 2016. Review.

9.

Identification of antisense long noncoding RNAs that function as SINEUPs in human cells.

Schein A, Zucchelli S, Kauppinen S, Gustincich S, Carninci P.

Sci Rep. 2016 Sep 20;6:33605. doi: 10.1038/srep33605.

10.

Isoforms of the Erythropoietin receptor in dopaminergic neurons of the Substantia Nigra.

Marcuzzi F, Zucchelli S, Bertuzzi M, Santoro C, Tell G, Carninci P, Gustincich S.

J Neurochem. 2016 Nov;139(4):596-609. doi: 10.1111/jnc.13757. Epub 2016 Sep 30.

11.

Olfactory Receptors in Non-Chemosensory Organs: The Nervous System in Health and Disease.

Ferrer I, Garcia-Esparcia P, Carmona M, Carro E, Aronica E, Kovacs GG, Grison A, Gustincich S.

Front Aging Neurosci. 2016 Jul 5;8:163. doi: 10.3389/fnagi.2016.00163. eCollection 2016. Review.

12.

Synthetic long non-coding RNAs [SINEUPs] rescue defective gene expression in vivo.

Indrieri A, Grimaldi C, Zucchelli S, Tammaro R, Gustincich S, Franco B.

Sci Rep. 2016 Jun 6;6:27315. doi: 10.1038/srep27315.

13.

Effects of Pin1 Loss in Hdh(Q111) Knock-in Mice.

Agostoni E, Michelazzi S, Maurutto M, Carnemolla A, Ciani Y, Vatta P, Roncaglia P, Zucchelli S, Leanza G, Mantovani F, Gustincich S, Santoro C, Piazza S, Del Sal G, Persichetti F.

Front Cell Neurosci. 2016 May 2;10:110. doi: 10.3389/fncel.2016.00110. eCollection 2016.

14.

The Constrained Maximal Expression Level Owing to Haploidy Shapes Gene Content on the Mammalian X Chromosome.

Hurst LD, Ghanbarian AT, Forrest AR; FANTOM consortium, Huminiecki L.

PLoS Biol. 2015 Dec 18;13(12):e1002315. doi: 10.1371/journal.pbio.1002315. eCollection 2015 Dec.

15.

Application of Gene Expression Trajectories Initiated from ErbB Receptor Activation Highlights the Dynamics of Divergent Promoter Usage.

Carbajo D, Magi S, Itoh M, Kawaji H, Lassmann T, Arner E, Forrest AR, Carninci P, Hayashizaki Y, Daub CO; FANTOM consortium, Okada-Hatakeyama M, Mar JC.

PLoS One. 2015 Dec 14;10(12):e0144176. doi: 10.1371/journal.pone.0144176. eCollection 2015.

16.

Identification of novel proteins binding the AU-rich element of α-prothymosin mRNA through the selection of open reading frames (RIDome).

Patrucco L, Peano C, Chiesa A, Guida F, Luisi I, Boria I, Mignone F, De Bellis G, Zucchelli S, Gustincich S, Santoro C, Sblattero D, Cotella D.

RNA Biol. 2015;12(12):1289-300. doi: 10.1080/15476286.2015.1107702.

17.

Blood transcriptomics of drug-naïve sporadic Parkinson's disease patients.

Calligaris R, Banica M, Roncaglia P, Robotti E, Finaurini S, Vlachouli C, Antonutti L, Iorio F, Carissimo A, Cattaruzza T, Ceiner A, Lazarevic D, Cucca A, Pangher N, Marengo E, di Bernardo D, Pizzolato G, Gustincich S.

BMC Genomics. 2015 Oct 28;16:876. doi: 10.1186/s12864-015-2058-3.

18.

SINEUPs: A new class of natural and synthetic antisense long non-coding RNAs that activate translation.

Zucchelli S, Cotella D, Takahashi H, Carrieri C, Cimatti L, Fasolo F, Jones MH, Sblattero D, Sanges R, Santoro C, Persichetti F, Carninci P, Gustincich S.

RNA Biol. 2015;12(8):771-9. doi: 10.1080/15476286.2015.1060395. Review.

19.

Engineering mammalian cell factories with SINEUP noncoding RNAs to improve translation of secreted proteins.

Patrucco L, Chiesa A, Soluri MF, Fasolo F, Takahashi H, Carninci P, Zucchelli S, Santoro C, Gustincich S, Sblattero D, Cotella D.

Gene. 2015 Sep 15;569(2):287-93. doi: 10.1016/j.gene.2015.05.070. Epub 2015 Jun 2.

PMID:
26045368
20.

SINEUPs are modular antisense long non-coding RNAs that increase synthesis of target proteins in cells.

Zucchelli S, Fasolo F, Russo R, Cimatti L, Patrucco L, Takahashi H, Jones MH, Santoro C, Sblattero D, Cotella D, Persichetti F, Carninci P, Gustincich S.

Front Cell Neurosci. 2015 May 13;9:174. doi: 10.3389/fncel.2015.00174. eCollection 2015.

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