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Items: 1 to 50 of 80

1.

Phase separation drives X-chromosome inactivation: a hypothesis.

Cerase A, Armaos A, Neumayer C, Avner P, Guttman M, Tartaglia GG.

Nat Struct Mol Biol. 2019 May;26(5):331-334. doi: 10.1038/s41594-019-0223-0. No abstract available.

PMID:
31061525
2.

Posttranscriptional regulation of colonic epithelial repair by RNA binding protein IMP1/IGF2BP1.

Chatterji P, Williams PA, Whelan KA, Samper FC, Andres SF, Simon LA, Parham LR, Mizuno R, Lundsmith ET, Lee DS, Liang S, Wijeratne HS, Marti S, Chau L, Giroux V, Wilkins BJ, Wu GD, Shah P, Tartaglia GG, Hamilton KE.

EMBO Rep. 2019 Jun;20(6). pii: e47074. doi: 10.15252/embr.201847074. Epub 2019 May 6.

PMID:
31061170
3.

Post-transcriptional regulatory patterns revealed by protein-RNA interactions.

Zanzoni A, Spinelli L, Ribeiro DM, Tartaglia GG, Brun C.

Sci Rep. 2019 Mar 13;9(1):4302. doi: 10.1038/s41598-019-40939-2.

4.

The moonlighting RNA-binding activity of cytosolic serine hydroxymethyltransferase contributes to control compartmentalization of serine metabolism.

Guiducci G, Paone A, Tramonti A, Giardina G, Rinaldo S, Bouzidi A, Magnifico MC, Marani M, Menendez JA, Fatica A, Macone A, Armaos A, Tartaglia GG, Contestabile R, Paiardini A, Cutruzzolà F.

Nucleic Acids Res. 2019 Feb 27. pii: gkz129. doi: 10.1093/nar/gkz129. [Epub ahead of print]

5.

RNA as a key factor in driving or preventing self-assembly of the TAR DNA-binding protein 43.

Zacco E, Graña-Montes R, Martin SR, de Groot NS, Alfano C, Tartaglia GG, Pastore A.

J Mol Biol. 2019 Apr 5;431(8):1671-1688. doi: 10.1016/j.jmb.2019.01.028. Epub 2019 Feb 8.

6.

An Integrative Study of Protein-RNA Condensates Identifies Scaffolding RNAs and Reveals Players in Fragile X-Associated Tremor/Ataxia Syndrome.

Cid-Samper F, Gelabert-Baldrich M, Lang B, Lorenzo-Gotor N, Ponti RD, Severijnen LWFM, Bolognesi B, Gelpi E, Hukema RK, Botta-Orfila T, Tartaglia GG.

Cell Rep. 2018 Dec 18;25(12):3422-3434.e7. doi: 10.1016/j.celrep.2018.11.076.

7.

A Method for RNA Structure Prediction Shows Evidence for Structure in lncRNAs.

Delli Ponti R, Armaos A, Marti S, Tartaglia GG.

Front Mol Biosci. 2018 Dec 3;5:111. doi: 10.3389/fmolb.2018.00111. eCollection 2018.

8.

Insights on protein thermal stability: a graph representation of molecular interactions.

Miotto M, Olimpieri PP, Di Rienzo L, Ambrosetti F, Corsi P, Lepore R, Tartaglia GG, Milanetti E.

Bioinformatics. 2018 Dec 10. doi: 10.1093/bioinformatics/bty1011. [Epub ahead of print]

PMID:
30535291
9.

RNAct: Protein-RNA interaction predictions for model organisms with supporting experimental data.

Lang B, Armaos A, Tartaglia GG.

Nucleic Acids Res. 2019 Jan 8;47(D1):D601-D606. doi: 10.1093/nar/gky967.

10.

SAMMSON fosters cancer cell fitness by concertedly enhancing mitochondrial and cytosolic translation.

Vendramin R, Verheyden Y, Ishikawa H, Goedert L, Nicolas E, Saraf K, Armaos A, Delli Ponti R, Izumikawa K, Mestdagh P, Lafontaine DLJ, Tartaglia GG, Takahashi N, Marine JC, Leucci E.

Nat Struct Mol Biol. 2018 Nov;25(11):1035-1046. doi: 10.1038/s41594-018-0143-4. Epub 2018 Oct 29.

11.

Protein Syndesmos is a novel RNA-binding protein that regulates primary cilia formation.

Avolio R, Järvelin AI, Mohammed S, Agliarulo I, Condelli V, Zoppoli P, Calice G, Sarnataro D, Bechara E, Tartaglia GG, Landriscina M, Castello A, Esposito F, Matassa DS.

Nucleic Acids Res. 2018 Dec 14;46(22):12067-12086. doi: 10.1093/nar/gky873.

12.

FUS Phase Separation Is Modulated by a Molecular Chaperone and Methylation of Arginine Cation-π Interactions.

Qamar S, Wang G, Randle SJ, Ruggeri FS, Varela JA, Lin JQ, Phillips EC, Miyashita A, Williams D, Ströhl F, Meadows W, Ferry R, Dardov VJ, Tartaglia GG, Farrer LA, Kaminski Schierle GS, Kaminski CF, Holt CE, Fraser PE, Schmitt-Ulms G, Klenerman D, Knowles T, Vendruscolo M, St George-Hyslop P.

Cell. 2018 Apr 19;173(3):720-734.e15. doi: 10.1016/j.cell.2018.03.056.

13.

Protein complex scaffolding predicted as a prevalent function of long non-coding RNAs.

Ribeiro DM, Zanzoni A, Cipriano A, Delli Ponti R, Spinelli L, Ballarino M, Bozzoni I, Tartaglia GG, Brun C.

Nucleic Acids Res. 2018 Jan 25;46(2):917-928. doi: 10.1093/nar/gkx1169.

14.

Discovering the 3' UTR-mediated regulation of alpha-synuclein.

Marchese D, Botta-Orfila T, Cirillo D, Rodriguez JA, Livi CM, Fernández-Santiago R, Ezquerra M, Martí MJ, Bechara E, Tartaglia GG; Catalan MSA Registry (CMSAR).

Nucleic Acids Res. 2017 Dec 15;45(22):12888-12903. doi: 10.1093/nar/gkx1048.

15.

Neuronal intranuclear (hyaline) inclusion disease and fragile X-associated tremor/ataxia syndrome: a morphological and molecular dilemma.

Gelpi E, Botta-Orfila T, Bodi L, Marti S, Kovacs G, Grau-Rivera O, Lozano M, Sánchez-Valle R, Muñoz E, Valldeoriola F, Pagonabarraga J, Tartaglia GG, Milà M.

Brain. 2017 Aug 1;140(8):e51. doi: 10.1093/brain/awx156. No abstract available.

PMID:
28899011
16.

Spinal motor neuron protein supersaturation patterns are associated with inclusion body formation in ALS.

Ciryam P, Lambert-Smith IA, Bean DM, Freer R, Cid F, Tartaglia GG, Saunders DN, Wilson MR, Oliver SG, Morimoto RI, Dobson CM, Vendruscolo M, Favrin G, Yerbury JJ.

Proc Natl Acad Sci U S A. 2017 May 16;114(20):E3935-E3943. doi: 10.1073/pnas.1613854114. Epub 2017 Apr 10.

17.

Quantitative predictions of protein interactions with long noncoding RNAs.

Cirillo D, Blanco M, Armaos A, Buness A, Avner P, Guttman M, Cerase A, Tartaglia GG.

Nat Methods. 2016 Dec 29;14(1):5-6. doi: 10.1038/nmeth.4100. No abstract available.

PMID:
28032625
18.

A high-throughput approach to profile RNA structure.

Delli Ponti R, Marti S, Armaos A, Tartaglia GG.

Nucleic Acids Res. 2017 Mar 17;45(5):e35. doi: 10.1093/nar/gkw1094.

19.

Advances in the characterization of RNA-binding proteins.

Marchese D, de Groot NS, Lorenzo Gotor N, Livi CM, Tartaglia GG.

Wiley Interdiscip Rev RNA. 2016 Nov;7(6):793-810. doi: 10.1002/wrna.1378. Epub 2016 Aug 8. Review.

20.

The Grand Challenge of Characterizing Ribonucleoprotein Networks.

Tartaglia GG.

Front Mol Biosci. 2016 Jun 9;3:24. doi: 10.3389/fmolb.2016.00024. eCollection 2016. No abstract available.

21.

A Concentration-Dependent Liquid Phase Separation Can Cause Toxicity upon Increased Protein Expression.

Bolognesi B, Lorenzo Gotor N, Dhar R, Cirillo D, Baldrighi M, Tartaglia GG, Lehner B.

Cell Rep. 2016 Jun 28;16(1):222-231. doi: 10.1016/j.celrep.2016.05.076. Epub 2016 Jun 16.

22.

Molecular Pathophysiology of Fragile X-Associated Tremor/Ataxia Syndrome and Perspectives for Drug Development.

Botta-Orfila T, Tartaglia GG, Michalon A.

Cerebellum. 2016 Oct;15(5):599-610. doi: 10.1007/s12311-016-0800-2. Review.

PMID:
27277287
23.

Non-random distribution of homo-repeats: links with biological functions and human diseases.

Lobanov MY, Klus P, Sokolovsky IV, Tartaglia GG, Galzitskaya OV.

Sci Rep. 2016 Jun 3;6:26941. doi: 10.1038/srep26941.

24.
25.

ALS/FTD Mutation-Induced Phase Transition of FUS Liquid Droplets and Reversible Hydrogels into Irreversible Hydrogels Impairs RNP Granule Function.

Murakami T, Qamar S, Lin JQ, Schierle GS, Rees E, Miyashita A, Costa AR, Dodd RB, Chan FT, Michel CH, Kronenberg-Versteeg D, Li Y, Yang SP, Wakutani Y, Meadows W, Ferry RR, Dong L, Tartaglia GG, Favrin G, Lin WL, Dickson DW, Zhen M, Ron D, Schmitt-Ulms G, Fraser PE, Shneider NA, Holt C, Vendruscolo M, Kaminski CF, St George-Hyslop P.

Neuron. 2015 Nov 18;88(4):678-90. doi: 10.1016/j.neuron.2015.10.030. Epub 2015 Oct 29.

26.

catRAPID signature: identification of ribonucleoproteins and RNA-binding regions.

Livi CM, Klus P, Delli Ponti R, Tartaglia GG.

Bioinformatics. 2016 Mar 1;32(5):773-5. doi: 10.1093/bioinformatics/btv629. Epub 2015 Oct 31.

27.

A Computational Approach for the Discovery of Protein-RNA Networks.

Marchese D, Livi CM, Tartaglia GG.

Methods Mol Biol. 2016;1358:29-39. doi: 10.1007/978-1-4939-3067-8_2.

PMID:
26463375
28.

By the company they keep: interaction networks define the binding ability of transcription factors.

Cirillo D, Botta-Orfila T, Tartaglia GG.

Nucleic Acids Res. 2015 Oct 30;43(19):e125. doi: 10.1093/nar/gkv607. Epub 2015 Jun 18.

29.

The H50Q mutation induces a 10-fold decrease in the solubility of α-synuclein.

Porcari R, Proukakis C, Waudby CA, Bolognesi B, Mangione PP, Paton JF, Mullin S, Cabrita LD, Penco A, Relini A, Verona G, Vendruscolo M, Stoppini M, Tartaglia GG, Camilloni C, Christodoulou J, Schapira AH, Bellotti V.

J Biol Chem. 2015 Jan 23;290(4):2395-404. doi: 10.1074/jbc.M114.610527. Epub 2014 Dec 10.

30.

SeAMotE: a method for high-throughput motif discovery in nucleic acid sequences.

Agostini F, Cirillo D, Ponti RD, Tartaglia GG.

BMC Genomics. 2014 Oct 23;15:925. doi: 10.1186/1471-2164-15-925.

31.

ccSOL omics: a webserver for solubility prediction of endogenous and heterologous expression in Escherichia coli.

Agostini F, Cirillo D, Livi CM, Delli Ponti R, Tartaglia GG.

Bioinformatics. 2014 Oct 15;30(20):2975-7. doi: 10.1093/bioinformatics/btu420. Epub 2014 Jul 1.

32.

Discovery of protein-RNA networks.

Cirillo D, Livi CM, Agostini F, Tartaglia GG.

Mol Biosyst. 2014 Jul;10(7):1632-42. doi: 10.1039/c4mb00099d. Epub 2014 Apr 23. Review.

PMID:
24756571
33.

ALMOST: an all atom molecular simulation toolkit for protein structure determination.

Fu B, Sahakyan AB, Camilloni C, Tartaglia GG, Paci E, Caflisch A, Vendruscolo M, Cavalli A.

J Comput Chem. 2014 May 30;35(14):1101-5. doi: 10.1002/jcc.23588. Epub 2014 Mar 27.

PMID:
24676684
34.

The cleverSuite approach for protein characterization: predictions of structural properties, solubility, chaperone requirements and RNA-binding abilities.

Klus P, Bolognesi B, Agostini F, Marchese D, Zanzoni A, Tartaglia GG.

Bioinformatics. 2014 Jun 1;30(11):1601-8. doi: 10.1093/bioinformatics/btu074. Epub 2014 Feb 3.

35.

Constitutive patterns of gene expression regulated by RNA-binding proteins.

Cirillo D, Marchese D, Agostini F, Livi CM, Botta-Orfila T, Tartaglia GG.

Genome Biol. 2014 Jan 2;15(1):R13. doi: 10.1186/gb-2014-15-1-r13.

36.

Widespread aggregation and neurodegenerative diseases are associated with supersaturated proteins.

Ciryam P, Tartaglia GG, Morimoto RI, Dobson CM, Vendruscolo M.

Cell Rep. 2013 Nov 14;5(3):781-90. doi: 10.1016/j.celrep.2013.09.043. Epub 2013 Oct 31.

37.

Principles of self-organization in biological pathways: a hypothesis on the autogenous association of alpha-synuclein.

Zanzoni A, Marchese D, Agostini F, Bolognesi B, Cirillo D, Botta-Orfila M, Livi CM, Rodriguez-Mulero S, Tartaglia GG.

Nucleic Acids Res. 2013 Dec;41(22):9987-98. doi: 10.1093/nar/gkt794. Epub 2013 Sep 3.

38.

catRAPID omics: a web server for large-scale prediction of protein-RNA interactions.

Agostini F, Zanzoni A, Klus P, Marchese D, Cirillo D, Tartaglia GG.

Bioinformatics. 2013 Nov 15;29(22):2928-30. doi: 10.1093/bioinformatics/btt495. Epub 2013 Aug 23.

39.

Physicochemical principles of protein aggregation.

Bolognesi B, Tartaglia GG.

Prog Mol Biol Transl Sci. 2013;117:53-72. doi: 10.1016/B978-0-12-386931-9.00003-9. Review.

PMID:
23663965
40.

Neurodegenerative diseases: quantitative predictions of protein-RNA interactions.

Cirillo D, Agostini F, Klus P, Marchese D, Rodriguez S, Bolognesi B, Tartaglia GG.

RNA. 2013 Feb;19(2):129-40. doi: 10.1261/rna.034777.112. Epub 2012 Dec 21.

41.

X-inactivation: quantitative predictions of protein interactions in the Xist network.

Agostini F, Cirillo D, Bolognesi B, Tartaglia GG.

Nucleic Acids Res. 2013 Jan 7;41(1):e31. doi: 10.1093/nar/gks968. Epub 2012 Oct 22.

42.

Neurodegeneration as an RNA disorder.

Johnson R, Noble W, Tartaglia GG, Buckley NJ.

Prog Neurobiol. 2012 Dec;99(3):293-315. doi: 10.1016/j.pneurobio.2012.09.006. Epub 2012 Oct 10. Review.

PMID:
23063563
43.

A rationally designed six-residue swap generates comparability in the aggregation behavior of α-synuclein and β-synuclein.

Roodveldt C, Andersson A, De Genst EJ, Labrador-Garrido A, Buell AK, Dobson CM, Tartaglia GG, Vendruscolo M.

Biochemistry. 2012 Nov 6;51(44):8771-8. doi: 10.1021/bi300558q. Epub 2012 Oct 22.

PMID:
23003198
44.

DnaK functions as a central hub in the E. coli chaperone network.

Calloni G, Chen T, Schermann SM, Chang HC, Genevaux P, Agostini F, Tartaglia GG, Hayer-Hartl M, Hartl FU.

Cell Rep. 2012 Mar 29;1(3):251-64. doi: 10.1016/j.celrep.2011.12.007. Epub 2012 Mar 8.

45.

Expression in drosophila of tandem amyloid β peptides provides insights into links between aggregation and neurotoxicity.

Speretta E, Jahn TR, Tartaglia GG, Favrin G, Barros TP, Imarisio S, Lomas DA, Luheshi LM, Crowther DC, Dobson CM.

J Biol Chem. 2012 Jun 8;287(24):20748-54. doi: 10.1074/jbc.M112.350124. Epub 2012 Mar 29.

46.

Sequence-based prediction of protein solubility.

Agostini F, Vendruscolo M, Tartaglia GG.

J Mol Biol. 2012 Aug 10;421(2-3):237-41. doi: 10.1016/j.jmb.2011.12.005. Epub 2011 Dec 9.

PMID:
22172487
47.

ALS mutations in FUS cause neuronal dysfunction and death in Caenorhabditis elegans by a dominant gain-of-function mechanism.

Murakami T, Yang SP, Xie L, Kawano T, Fu D, Mukai A, Bohm C, Chen F, Robertson J, Suzuki H, Tartaglia GG, Vendruscolo M, Kaminski Schierle GS, Chan FT, Moloney A, Crowther D, Kaminski CF, Zhen M, St George-Hyslop P.

Hum Mol Genet. 2012 Jan 1;21(1):1-9. doi: 10.1093/hmg/ddr417. Epub 2011 Sep 23.

48.

Disulfide bonds reduce the toxicity of the amyloid fibrils formed by an extracellular protein.

Mossuto MF, Bolognesi B, Guixer B, Dhulesia A, Agostini F, Kumita JR, Tartaglia GG, Dumoulin M, Dobson CM, Salvatella X.

Angew Chem Int Ed Engl. 2011 Jul 25;50(31):7048-51. doi: 10.1002/anie.201100986. Epub 2011 Jun 10. No abstract available.

49.

Metastability of native proteins and the phenomenon of amyloid formation.

Baldwin AJ, Knowles TP, Tartaglia GG, Fitzpatrick AW, Devlin GL, Shammas SL, Waudby CA, Mossuto MF, Meehan S, Gras SL, Christodoulou J, Anthony-Cahill SJ, Barker PD, Vendruscolo M, Dobson CM.

J Am Chem Soc. 2011 Sep 14;133(36):14160-3. doi: 10.1021/ja2017703. Epub 2011 Aug 19.

PMID:
21650202
50.

Predicting protein associations with long noncoding RNAs.

Bellucci M, Agostini F, Masin M, Tartaglia GG.

Nat Methods. 2011 Jun;8(6):444-5. doi: 10.1038/nmeth.1611. No abstract available.

PMID:
21623348

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