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Items: 1 to 50 of 213

1.

CoCUN, a Novel Ubiquitin Binding Domain Identified in N4BP1.

Nepravishta R, Ferrentino F, Mandaliti W, Mattioni A, Weber J, Polo S, Castagnoli L, Cesareni G, Paci M, Santonico E.

Biomolecules. 2019 Jul 17;9(7). pii: E284. doi: 10.3390/biom9070284.

2.

Metformin Delays Satellite Cell Activation and Maintains Quiescence.

Pavlidou T, Marinkovic M, Rosina M, Fuoco C, Vumbaca S, Gargioli C, Castagnoli L, Cesareni G.

Stem Cells Int. 2019 Apr 24;2019:5980465. doi: 10.1155/2019/5980465. eCollection 2019.

3.

Fibro-adipogenic progenitors of dystrophic mice are insensitive to NOTCH regulation of adipogenesis.

Marinkovic M, Fuoco C, Sacco F, Cerquone Perpetuini A, Giuliani G, Micarelli E, Pavlidou T, Petrilli LL, Reggio A, Riccio F, Spada F, Vumbaca S, Zuccotti A, Castagnoli L, Mann M, Gargioli C, Cesareni G.

Life Sci Alliance. 2019 Jun 25;2(3). pii: e201900437. doi: 10.26508/lsa.201900437. Print 2019 Jun.

4.

Lowe Syndrome-linked endocytic adaptors direct membrane cycling kinetics with OCRL in Dictyostelium discoideum.

Luscher A, Fröhlich F, Barisch C, Littlewood C, Metcalfe J, Leuba F, Palma A, Pirruccello M, Cesareni G, Stagi M, Walther TC, Soldati T, De Camilli P, Swan LE.

Mol Biol Cell. 2019 Jun 19:mbcE18080510. doi: 10.1091/mbc.E18-08-0510. [Epub ahead of print]

PMID:
31216233
5.

Osteogenic differentiation of skeletal muscle progenitor cells is activated by the DNA damage response.

Rosina M, Langone F, Giuliani G, Cerquone Perpetuini A, Reggio A, Calderone A, Fuoco C, Castagnoli L, Gargioli C, Cesareni G.

Sci Rep. 2019 Apr 1;9(1):5447. doi: 10.1038/s41598-019-41926-3.

6.

Corrigendum: 3D hydrogel environment rejuvenates aged pericytes for skeletal muscle tissue engineering.

Fuoco C, Sangalli E, Vono R, Testa S, Sacchetti B, Latronico MVG, Bernardini S, Madeddu P, Cesareni G, Seliktar D, Rizzi R, Bearzi C, Cannata SM, Spinetti G, Gargioli C.

Front Physiol. 2019 Mar 11;10:199. doi: 10.3389/fphys.2019.00199. eCollection 2019.

7.

The immunosuppressant drug azathioprine restrains adipogenesis of muscle Fibro/Adipogenic Progenitors from dystrophic mice by affecting AKT signaling.

Reggio A, Spada F, Rosina M, Massacci G, Zuccotti A, Fuoco C, Gargioli C, Castagnoli L, Cesareni G.

Sci Rep. 2019 Mar 13;9(1):4360. doi: 10.1038/s41598-019-39538-y.

8.

CUBAN, a Case Study of Selective Binding: Structural Details of the Discrimination between Ubiquitin and NEDD8.

Santonico E, Nepravishta R, Mandaliti W, Castagnoli L, Cesareni G, Paci M.

Int J Mol Sci. 2019 Mar 8;20(5). pii: E1185. doi: 10.3390/ijms20051185.

9.

CausalTAB: the PSI-MITAB 2.8 updated format for signalling data representation and dissemination.

Perfetto L, Acencio ML, Bradley G, Cesareni G, Del Toro N, Fazekas D, Hermjakob H, Korcsmaros T, Kuiper M, Lægreid A, Lo Surdo P, Lovering RC, Orchard S, Porras P, Thomas PD, Touré V, Zobolas J, Licata L.

Bioinformatics. 2019 Feb 21. pii: btz132. doi: 10.1093/bioinformatics/btz132. [Epub ahead of print]

PMID:
30793173
10.

Selectivity of the CUBAN domain in the recognition of ubiquitin and NEDD8.

Castagnoli L, Mandaliti W, Nepravishta R, Valentini E, Mattioni A, Procopio R, Iannuccelli M, Polo S, Paci M, Cesareni G, Santonico E.

FEBS J. 2019 Feb;286(4):653-677. doi: 10.1111/febs.14752. Epub 2019 Feb 5.

11.

Gene Regulatory Network Modeling of Macrophage Differentiation Corroborates the Continuum Hypothesis of Polarization States.

Palma A, Jarrah AS, Tieri P, Cesareni G, Castiglione F.

Front Physiol. 2018 Nov 27;9:1659. doi: 10.3389/fphys.2018.01659. eCollection 2018.

12.

Group I Paks support muscle regeneration and counteract cancer-associated muscle atrophy.

Cerquone Perpetuini A, Re Cecconi AD, Chiappa M, Martinelli GB, Fuoco C, Desiderio G, Castagnoli L, Gargioli C, Piccirillo R, Cesareni G.

J Cachexia Sarcopenia Muscle. 2018 Aug;9(4):727-746. doi: 10.1002/jcsm.12303. Epub 2018 May 21.

13.

Encompassing new use cases - level 3.0 of the HUPO-PSI format for molecular interactions.

Sivade Dumousseau M, Alonso-López D, Ammari M, Bradley G, Campbell NH, Ceol A, Cesareni G, Combe C, De Las Rivas J, Del-Toro N, Heimbach J, Hermjakob H, Jurisica I, Koch M, Licata L, Lovering RC, Lynn DJ, Meldal BHM, Micklem G, Panni S, Porras P, Ricard-Blum S, Roechert B, Salwinski L, Shrivastava A, Sullivan J, Thierry-Mieg N, Yehudi Y, Van Roey K, Orchard S.

BMC Bioinformatics. 2018 Apr 11;19(1):134. doi: 10.1186/s12859-018-2118-1.

14.

SPV: a JavaScript Signaling Pathway Visualizer.

Calderone A, Cesareni G.

Bioinformatics. 2018 Aug 1;34(15):2684-2686. doi: 10.1093/bioinformatics/bty188.

15.

Combining Phosphoproteomics Datasets and Literature Information to Reveal the Functional Connections in a Cell Phosphorylation Network.

Sacco F, Perfetto L, Cesareni G.

Proteomics. 2018 Mar;18(5-6):e1700311. doi: 10.1002/pmic.201700311. Review.

PMID:
29280302
16.

Single-cell mass cytometry and transcriptome profiling reveal the impact of graphene on human immune cells.

Orecchioni M, Bedognetti D, Newman L, Fuoco C, Spada F, Hendrickx W, Marincola FM, Sgarrella F, Rodrigues AF, Ménard-Moyon C, Cesareni G, Kostarelos K, Bianco A, Delogu LG.

Nat Commun. 2017 Oct 24;8(1):1109. doi: 10.1038/s41467-017-01015-3.

17.

DISNOR: a disease network open resource.

Lo Surdo P, Calderone A, Iannuccelli M, Licata L, Peluso D, Castagnoli L, Cesareni G, Perfetto L.

Nucleic Acids Res. 2018 Jan 4;46(D1):D527-D534. doi: 10.1093/nar/gkx876.

18.

Regulation of myoblast differentiation by metabolic perturbations induced by metformin.

Pavlidou T, Rosina M, Fuoco C, Gerini G, Gargioli C, Castagnoli L, Cesareni G.

PLoS One. 2017 Aug 31;12(8):e0182475. doi: 10.1371/journal.pone.0182475. eCollection 2017.

19.

SIGNOR: A Database of Causal Relationships Between Biological Entities-A Short Guide to Searching and Browsing.

Lo Surdo P, Calderone A, Cesareni G, Perfetto L.

Curr Protoc Bioinformatics. 2017 Jun 27;58:8.23.1-8.23.16. doi: 10.1002/cpbi.28.

PMID:
28654729
20.

Microfluidic-enhanced 3D bioprinting of aligned myoblast-laden hydrogels leads to functionally organized myofibers in vitro and in vivo.

Costantini M, Testa S, Mozetic P, Barbetta A, Fuoco C, Fornetti E, Tamiro F, Bernardini S, Jaroszewicz J, Święszkowski W, Trombetta M, Castagnoli L, Seliktar D, Garstecki P, Cesareni G, Cannata S, Rainer A, Gargioli C.

Biomaterials. 2017 Jul;131:98-110. doi: 10.1016/j.biomaterials.2017.03.026. Epub 2017 Mar 23.

21.

Both Intrinsic Substrate Preference and Network Context Contribute to Substrate Selection of Classical Tyrosine Phosphatases.

Palma A, Tinti M, Paoluzi S, Santonico E, Brandt BW, Hooft van Huijsduijnen R, Masch A, Heringa J, Schutkowski M, Castagnoli L, Cesareni G.

J Biol Chem. 2017 Mar 24;292(12):4942-4952. doi: 10.1074/jbc.M116.757518. Epub 2017 Feb 3.

22.

The cell-autonomous mechanisms underlying the activity of metformin as an anticancer drug.

Sacco F, Calderone A, Castagnoli L, Cesareni G.

Br J Cancer. 2016 Dec 6;115(12):1451-1456. doi: 10.1038/bjc.2016.385. Epub 2016 Nov 22. Review.

23.

Profiling Phosphopeptide-Binding Domain Recognition Specificity Using Peptide Microarrays.

Tinti M, Panni S, Cesareni G.

Methods Mol Biol. 2017;1518:177-193.

PMID:
27873207
24.

A subset of RAB proteins modulates PP2A phosphatase activity.

Sacco F, Mattioni A, Boldt K, Panni S, Santonico E, Castagnoli L, Ueffing M, Cesareni G.

Sci Rep. 2016 Sep 9;6:32857. doi: 10.1038/srep32857.

25.

Activation of the Pro-Oxidant PKCβII-p66Shc Signaling Pathway Contributes to Pericyte Dysfunction in Skeletal Muscles of Patients With Diabetes With Critical Limb Ischemia.

Vono R, Fuoco C, Testa S, Pirrò S, Maselli D, Ferland McCollough D, Sangalli E, Pintus G, Giordo R, Finzi G, Sessa F, Cardani R, Gotti A, Losa S, Cesareni G, Rizzi R, Bearzi C, Cannata S, Spinetti G, Gargioli C, Madeddu P.

Diabetes. 2016 Dec;65(12):3691-3704. Epub 2016 Sep 6.

26.

Structural studies and SH3 domain binding properties of a human antiviral salivary proline-rich peptide.

Righino B, Pirolli D, Radicioni G, Marzano V, Longhi R, Arcovito A, Sanna MT, De Rosa MC, Paoluzi S, Cesareni G, Messana I, Castagnola M, Vitali A.

Biopolymers. 2016 Sep;106(5):714-25. doi: 10.1002/bip.22889.

PMID:
27272460
27.

Deep Proteomics of Breast Cancer Cells Reveals that Metformin Rewires Signaling Networks Away from a Pro-growth State.

Sacco F, Silvestri A, Posca D, Pirrò S, Gherardini PF, Castagnoli L, Mann M, Cesareni G.

Cell Syst. 2016 Mar 23;2(3):159-71. doi: 10.1016/j.cels.2016.02.005. Epub 2016 Mar 3.

28.

Characterization by mass cytometry of different methods for the preparation of muscle mononuclear cells.

Spada F, Fuoco C, Pirrò S, Paoluzi S, Castagnoli L, Gargioli C, Cesareni G.

N Biotechnol. 2016 Sep 25;33(5 Pt A):514-23. doi: 10.1016/j.nbt.2015.12.007. Epub 2016 Jan 7.

29.

Tools and data services registry: a community effort to document bioinformatics resources.

Ison J, Rapacki K, Ménager H, Kalaš M, Rydza E, Chmura P, Anthon C, Beard N, Berka K, Bolser D, Booth T, Bretaudeau A, Brezovsky J, Casadio R, Cesareni G, Coppens F, Cornell M, Cuccuru G, Davidsen K, Vedova GD, Dogan T, Doppelt-Azeroual O, Emery L, Gasteiger E, Gatter T, Goldberg T, Grosjean M, Grüning B, Helmer-Citterich M, Ienasescu H, Ioannidis V, Jespersen MC, Jimenez R, Juty N, Juvan P, Koch M, Laibe C, Li JW, Licata L, Mareuil F, Mičetić I, Friborg RM, Moretti S, Morris C, Möller S, Nenadic A, Peterson H, Profiti G, Rice P, Romano P, Roncaglia P, Saidi R, Schafferhans A, Schwämmle V, Smith C, Sperotto MM, Stockinger H, Vařeková RS, Tosatto SC, de la Torre V, Uva P, Via A, Yachdav G, Zambelli F, Vriend G, Rost B, Parkinson H, Løngreen P, Brunak S.

Nucleic Acids Res. 2016 Jan 4;44(D1):D38-47. doi: 10.1093/nar/gkv1116. Epub 2015 Nov 3.

30.

SIGNOR: a database of causal relationships between biological entities.

Perfetto L, Briganti L, Calderone A, Cerquone Perpetuini A, Iannuccelli M, Langone F, Licata L, Marinkovic M, Mattioni A, Pavlidou T, Peluso D, Petrilli LL, Pirrò S, Posca D, Santonico E, Silvestri A, Spada F, Castagnoli L, Cesareni G.

Nucleic Acids Res. 2016 Jan 4;44(D1):D548-54. doi: 10.1093/nar/gkv1048. Epub 2015 Oct 13.

31.

Alterations in the phosphoproteomic profile of cells expressing a non-functional form of the SHP2 phosphatase.

Corallino S, Iwai LK, Payne LS, Huang PH, Sacco F, Cesareni G, Castagnoli L.

N Biotechnol. 2016 Sep 25;33(5 Pt A):524-36. doi: 10.1016/j.nbt.2015.08.002. Epub 2015 Aug 24.

PMID:
26316256
32.

Metformin Induces Apoptosis and Downregulates Pyruvate Kinase M2 in Breast Cancer Cells Only When Grown in Nutrient-Poor Conditions.

Silvestri A, Palumbo F, Rasi I, Posca D, Pavlidou T, Paoluzi S, Castagnoli L, Cesareni G.

PLoS One. 2015 Aug 20;10(8):e0136250. doi: 10.1371/journal.pone.0136250. eCollection 2015.

33.

The hierarchical organization of natural protein interaction networks confers self-organization properties on pseudocells.

Galeota E, Gravila C, Castiglione F, Bernaschi M, Cesareni G.

BMC Syst Biol. 2015;9 Suppl 3:S3. doi: 10.1186/1752-0509-9-S3-S3. Epub 2015 Jun 1.

34.

Metformin protects skeletal muscle from cardiotoxin induced degeneration.

Langone F, Cannata S, Fuoco C, Lettieri Barbato D, Testa S, Nardozza AP, Ciriolo MR, Castagnoli L, Gargioli C, Cesareni G.

PLoS One. 2014 Dec 2;9(12):e114018. doi: 10.1371/journal.pone.0114018. eCollection 2014.

35.

The adapter protein CD2AP binds to p53 protein in the cytoplasm and can discriminate its polymorphic variants P72R.

Panni S, Salvioli S, Santonico E, Langone F, Storino F, Altilia S, Franceschi C, Cesareni G, Castagnoli L.

J Biochem. 2015 Feb;157(2):101-11. doi: 10.1093/jb/mvu059. Epub 2014 Sep 26.

PMID:
25261582
36.

VirusMentha: a new resource for virus-host protein interactions.

Calderone A, Licata L, Cesareni G.

Nucleic Acids Res. 2015 Jan;43(Database issue):D588-92. doi: 10.1093/nar/gku830. Epub 2014 Sep 12.

37.

RNF11 is a GGA protein cargo and acts as a molecular adaptor for GGA3 ubiquitination mediated by Itch.

Santonico E, Mattioni A, Panni S, Belleudi F, Mattei M, Torrisi MR, Cesareni G, Castagnoli L.

Oncogene. 2015 Jun;34(26):3377-90. doi: 10.1038/onc.2014.256. Epub 2014 Sep 8.

PMID:
25195858
38.

3D hydrogel environment rejuvenates aged pericytes for skeletal muscle tissue engineering.

Fuoco C, Sangalli E, Vono R, Testa S, Sacchetti B, Latronico MV, Bernardini S, Madeddu P, Cesareni G, Seliktar D, Rizzi R, Bearzi C, Cannata SM, Spinetti G, Gargioli C.

Front Physiol. 2014 May 30;5:203. doi: 10.3389/fphys.2014.00203. eCollection 2014. Erratum in: Front Physiol. 2019 Mar 11;10:199.

39.

KinomeXplorer: an integrated platform for kinome biology studies.

Horn H, Schoof EM, Kim J, Robin X, Miller ML, Diella F, Palma A, Cesareni G, Jensen LJ, Linding R.

Nat Methods. 2014 Jun;11(6):603-4. doi: 10.1038/nmeth.2968. No abstract available.

PMID:
24874572
40.

Combining affinity proteomics and network context to identify new phosphatase substrates and adapters in growth pathways.

Sacco F, Boldt K, Calderone A, Panni S, Paoluzi S, Castagnoli L, Ueffing M, Cesareni G.

Front Genet. 2014 May 7;5:115. doi: 10.3389/fgene.2014.00115. eCollection 2014.

41.

Specificity of ε and non-ε isoforms of arabidopsis 14-3-3 proteins towards the H+-ATPase and other targets.

Pallucca R, Visconti S, Camoni L, Cesareni G, Melino S, Panni S, Torreri P, Aducci P.

PLoS One. 2014 Mar 6;9(6):e90764. doi: 10.1371/journal.pone.0090764. eCollection 2014.

42.

The MIntAct project--IntAct as a common curation platform for 11 molecular interaction databases.

Orchard S, Ammari M, Aranda B, Breuza L, Briganti L, Broackes-Carter F, Campbell NH, Chavali G, Chen C, del-Toro N, Duesbury M, Dumousseau M, Galeota E, Hinz U, Iannuccelli M, Jagannathan S, Jimenez R, Khadake J, Lagreid A, Licata L, Lovering RC, Meldal B, Melidoni AN, Milagros M, Peluso D, Perfetto L, Porras P, Raghunath A, Ricard-Blum S, Roechert B, Stutz A, Tognolli M, van Roey K, Cesareni G, Hermjakob H.

Nucleic Acids Res. 2014 Jan;42(Database issue):D358-63. doi: 10.1093/nar/gkt1115. Epub 2013 Nov 13.

43.

mentha: a resource for browsing integrated protein-interaction networks.

Calderone A, Castagnoli L, Cesareni G.

Nat Methods. 2013 Aug;10(8):690-1. doi: 10.1038/nmeth.2561. No abstract available.

PMID:
23900247
44.

The SH2 domain interaction landscape.

Tinti M, Kiemer L, Costa S, Miller ML, Sacco F, Olsen JV, Carducci M, Paoluzi S, Langone F, Workman CT, Blom N, Machida K, Thompson CM, Schutkowski M, Brunak S, Mann M, Mayer BJ, Castagnoli L, Cesareni G.

Cell Rep. 2013 Apr 25;3(4):1293-305. doi: 10.1016/j.celrep.2013.03.001. Epub 2013 Mar 28.

45.

Exploring the diversity of SPRY/B30.2-mediated interactions.

Perfetto L, Gherardini PF, Davey NE, Diella F, Helmer-Citterich M, Cesareni G.

Trends Biochem Sci. 2013 Jan;38(1):38-46. doi: 10.1016/j.tibs.2012.10.001. Epub 2012 Nov 17. Review.

PMID:
23164942
46.

Mapping the human phosphatome on growth pathways.

Sacco F, Gherardini PF, Paoluzi S, Saez-Rodriguez J, Helmer-Citterich M, Ragnini-Wilson A, Castagnoli L, Cesareni G.

Mol Syst Biol. 2012;8:603. doi: 10.1038/msb.2012.36.

47.

Reply to: Cisplatin-induced primordial follicle oocyte killing and loss of fertility are not prevented by imatinib.

Maiani E, Di Bartolomeo C, Klinger FG, Cannata SM, Bernardini S, Chateauvieux S, Mack F, Mattei M, De Felici M, Diederich M, Cesareni G, Gonfloni S.

Nat Med. 2012 Aug;18(8):1172-4. doi: 10.1038/nm.2852. No abstract available.

PMID:
22869180
48.

HuPho: the human phosphatase portal.

Liberti S, Sacco F, Calderone A, Perfetto L, Iannuccelli M, Panni S, Santonico E, Palma A, Nardozza AP, Castagnoli L, Cesareni G.

FEBS J. 2013 Jan;280(2):379-87. doi: 10.1111/j.1742-4658.2012.08712.x. Epub 2012 Aug 24.

49.

Oxidative Stress, DNA Damage, and c-Abl Signaling: At the Crossroad in Neurodegenerative Diseases?

Gonfloni S, Maiani E, Di Bartolomeo C, Diederich M, Cesareni G.

Int J Cell Biol. 2012;2012:683097. doi: 10.1155/2012/683097. Epub 2012 Jun 18.

50.

Special issue - modular protein domains.

Sudol M, Cesareni G, Superti-Furga G, Just W.

FEBS Lett. 2012 Aug 14;586(17):2571. doi: 10.1016/j.febslet.2012.06.005. Epub 2012 Jun 17. No abstract available.

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