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Items: 1 to 20 of 47

1.

Differential regulation of RNA polymerase III genes during liver regeneration.

Yeganeh M, Praz V, Carmeli C, Villeneuve D, Rib L, Guex N, Herr W, Delorenzi M, Hernandez N; CycliX consortium .

Nucleic Acids Res. 2018 Dec 29. doi: 10.1093/nar/gky1282. [Epub ahead of print]

PMID:
30597109
2.

BioLQM: A Java Toolkit for the Manipulation and Conversion of Logical Qualitative Models of Biological Networks.

Naldi A.

Front Physiol. 2018 Nov 19;9:1605. doi: 10.3389/fphys.2018.01605. eCollection 2018.

3.

Transcranial Color-Coded Sonography for Monitoring Idiopathic Intracranial Hypertension.

Naldi A, Lochner P, Canu P, Settembre R, Alessi S, Sanguigni S.

Ultraschall Med. 2018 Nov 20. doi: 10.1055/a-0783-2541. [Epub ahead of print]

PMID:
30458558
4.

Cycles of gene expression and genome response during mammalian tissue regeneration.

Rib L, Villeneuve D, Minocha S, Praz V, Hernandez N, Guex N, Herr W; CycliX Consortium.

Epigenetics Chromatin. 2018 Sep 12;11(1):52. doi: 10.1186/s13072-018-0222-0.

5.

Prediction of Mutations to Control Pathways Enabling Tumor Cell Invasion with the CoLoMoTo Interactive Notebook (Tutorial).

Levy N, Naldi A, Hernandez C, Stoll G, Thieffry D, Zinovyev A, Calzone L, Paulevé L.

Front Physiol. 2018 Jul 6;9:787. doi: 10.3389/fphys.2018.00787. eCollection 2018.

6.

GOATOOLS: A Python library for Gene Ontology analyses.

Klopfenstein DV, Zhang L, Pedersen BS, Ramírez F, Warwick Vesztrocy A, Naldi A, Mungall CJ, Yunes JM, Botvinnik O, Weigel M, Dampier W, Dessimoz C, Flick P, Tang H.

Sci Rep. 2018 Jul 18;8(1):10872. doi: 10.1038/s41598-018-28948-z.

7.

The CoLoMoTo Interactive Notebook: Accessible and Reproducible Computational Analyses for Qualitative Biological Networks.

Naldi A, Hernandez C, Levy N, Stoll G, Monteiro PT, Chaouiya C, Helikar T, Zinovyev A, Calzone L, Cohen-Boulakia S, Thieffry D, Paulevé L.

Front Physiol. 2018 Jun 19;9:680. doi: 10.3389/fphys.2018.00680. eCollection 2018.

8.

Logical Modeling and Analysis of Cellular Regulatory Networks With GINsim 3.0.

Naldi A, Hernandez C, Abou-Jaoudé W, Monteiro PT, Chaouiya C, Thieffry D.

Front Physiol. 2018 Jun 19;9:646. doi: 10.3389/fphys.2018.00646. eCollection 2018.

9.

Neuronal erythropoietin overexpression is protective against kanamycin-induced hearing loss in mice.

Bächinger D, Horvath L, Eckhard A, Goosmann MM, Honegger T, Gassmann M, Vogel J, Naldi AM.

Toxicol Lett. 2018 Jul;291:121-128. doi: 10.1016/j.toxlet.2018.04.007. Epub 2018 Apr 11.

PMID:
29654830
10.

Longitudinal Assessment of Transorbital Sonography, Visual Acuity, and Biomarkers for Inflammation and Axonal Injury in Optic Neuritis.

Lochner P, Cantello R, Fassbender K, Lesmeister M, Nardone R, Siniscalchi A, Clemente N, Naldi A, Coppo L, Brigo F, Comi C.

Dis Markers. 2017;2017:5434310. doi: 10.1155/2017/5434310. Epub 2017 Sep 11.

11.

MaBoSS 2.0: an environment for stochastic Boolean modeling.

Stoll G, Caron B, Viara E, Dugourd A, Zinovyev A, Naldi A, Kroemer G, Barillot E, Calzone L.

Bioinformatics. 2017 Jul 15;33(14):2226-2228. doi: 10.1093/bioinformatics/btx123.

PMID:
28881959
12.

The measuring of substantia nigra hyperechogenicity in an Italian cohort of Parkinson disease patients: a case/control study (NOBIS Study).

Prati P, Bignamini A, Coppo L, Naldi A, Comi C, Cantello R, Gusmaroli G, Walter U.

J Neural Transm (Vienna). 2017 Jul;124(7):869-879. doi: 10.1007/s00702-017-1724-9. Epub 2017 Apr 27.

PMID:
28451942
13.

Diurnal regulation of RNA polymerase III transcription is under the control of both the feeding-fasting response and the circadian clock.

Mange F, Praz V, Migliavacca E, Willis IM, Schütz F, Hernandez N; CycliX Consortium.

Genome Res. 2017 Jun;27(6):973-984. doi: 10.1101/gr.217521.116. Epub 2017 Mar 24.

14.

Erratum: The combination of the functionalities of feedback circuits is determinant for the attractors' number and size in pathway-like Boolean networks.

Azpeitia E, Muñoz S, González-Tokman D, Martínez-Sánchez ME, Weinstein N, Naldi A, Álvarez-Buylla ER, Rosenblueth DA, Mendoza L.

Sci Rep. 2017 Mar 22;7:44964. doi: 10.1038/srep44964. No abstract available.

15.

Reconstruction and signal propagation analysis of the Syk signaling network in breast cancer cells.

Naldi A, Larive RM, Czerwinska U, Urbach S, Montcourrier P, Roy C, Solassol J, Freiss G, Coopman PJ, Radulescu O.

PLoS Comput Biol. 2017 Mar 17;13(3):e1005432. doi: 10.1371/journal.pcbi.1005432. eCollection 2017 Mar.

16.

Can neuroimaging differentiate PFO and AF-related cardioembolic stroke from the other embolic sources? Clinical-radiological correlation on a retrospective study.

Stecco A, Quagliozzi M, Soligo E, Naldi A, Cassarà A, Coppo L, Rosso R, Bongo AS, Amatuzzo P, Buemi F, Guenzi E, Carriero A.

Radiol Med. 2017 Jun;122(6):412-418. doi: 10.1007/s11547-017-0738-6. Epub 2017 Feb 21.

PMID:
28224399
17.

The combination of the functionalities of feedback circuits is determinant for the attractors' number and size in pathway-like Boolean networks.

Azpeitia E, Muñoz S, González-Tokman D, Martínez-Sánchez ME, Weinstein N, Naldi A, Álvarez-Buylla ER, Rosenblueth DA, Mendoza L.

Sci Rep. 2017 Feb 10;7:42023. doi: 10.1038/srep42023. Erratum in: Sci Rep. 2017 Mar 22;7:44964.

18.

Geometric analysis of pathways dynamics: Application to versatility of TGF-β receptors.

Samal SS, Naldi A, Grigoriev D, Weber A, Théret N, Radulescu O.

Biosystems. 2016 Nov;149:3-14. doi: 10.1016/j.biosystems.2016.07.004. Epub 2016 Jul 21.

19.

Erratum to: Feasibility and usefulness of ultrasonography in idiopathic intracranial hypertension or secondary intracranial hypertension.

Lochner P, Brigo F, Zedde ML, Sanguigni S, Coppo L, Nardone R, Naldi A, Sola D, Stolz E.

BMC Neurol. 2016 Jul 1;16(1):94. No abstract available.

20.

Feasibility and usefulness of ultrasonography in idiopathic intracranial hypertension or secondary intracranial hypertension.

Lochner P, Brio F, Zedde ML, Sanguigni S, Coppo L, Nardone R, Naldi A, Sola D, Stolz E.

BMC Neurol. 2016 Jun 2;16:85. doi: 10.1186/s12883-016-0594-3. Erratum in: BMC Neurol. 2016;16:94.

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