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51

Identifying Hubs in Protein Interaction Networks

Vallabhajosyula, Ravishankar R., Chakravarti, Deboki, Lutfeali, Samina, Ray, Animesh, Raval, Alpan, Di Bernardo, Diego

Journal:

Year:

2009

Language:

english

File:

PDF, 493 KB

english, 2009

52

Transcriptional network dynamics in macrophage activation

Roland Nilsson, Vladimir B. Bajic, Harukazu Suzuki, Diego di Bernardo, Johan Björkegren, Shintaro Katayama, James F. Reid, Matthew J. Sweet, Manuela Gariboldi, Piero Carninci, Yosihide Hayashizaki, Da

Journal:

Year:

2006

Language:

english

File:

PDF, 787 KB

english, 2006

53

Metabolic Regulation of the Ultradian Oscillator Hes1 by Reactive Oxygen Species

Ventre, Simona, Indrieri, Alessia, Fracassi, Chiara, Franco, Brunella, Conte, Ivan, Cardone, Luca, di Bernardo, Diego

Journal:

Journal of Molecular Biology

Year:

2015

Language:

english

File:

PDF, 1.49 MB

english, 2015

54

In Vivo Real-Time Control of Gene Expression: A Comparative Analysis of Feedback Control Strategies in Yeast

Fiore, Gianfranco, Perrino, Giansimone, di Bernardo, Mario, di Bernardo, Diego

Journal:

ACS Synthetic Biology

Year:

2015

Language:

english

File:

PDF, 2.80 MB

english, 2015

55

Fibroblast growth factor signalling controls nervous system patterning and pigment cell formation in Ciona intestinalis

Racioppi, Claudia, Kamal, Ashwani K., Razy-Krajka, Florian, Gambardella, Gennaro, Zanetti, Laura, di Bernardo, Diego, Sanges, Remo, Christiaen, Lionel A., Ristoratore, Filomena

Journal:

Nature Communications

Year:

2014

Language:

english

File:

PDF, 3.81 MB

english, 2014

56

Control of gene expression for the study of neurodegenerative disorders: a proof-of-principle experimental study

Perrino, Giansimone, Wilson, Cathal, Santorelli, Marco, di Bernardo, Diego

Journal:

IFAC-PapersOnLine

Year:

2016

Language:

english

File:

PDF, 586 KB

english, 2016

57

Gene Set-Based Module Discovery Decodes cis-Regulatory Codes Governing Diverse Gene Expression across Human Multiple Tissues

Niida, Atsushi, Imoto, Seiya, Yamaguchi, Rui, Nagasaki, Masao, Miyano, Satoru, Di Bernardo, Diego

Journal:

Year:

2010

Language:

english

File:

PDF, 1.67 MB

english, 2010

58

Signaling Cascades Modulate the Speed of Signal Propagation through Space

Govern, Christopher C., Chakraborty, Arup K., Di Bernardo, Diego

Journal:

Year:

2009

Language:

english

File:

PDF, 318 KB

english, 2009

59

From a discrete to continuous actuation for improved real-time control of gene expression in mammalian cells

Postiglione, Lorena, Santorelli, Marco, Tumaini, Barbara, di Bernardo, Diego

Journal:

IFAC-PapersOnLine

Year:

2016

Language:

english

File:

PDF, 683 KB

english, 2016

60

Modelling cardiac repolarisation for the study of the T wave: effect of repolarisation sequence

Diego di Bernardo, Alan Murray

Journal:

Chaos, Solitons & Fractals

Year:

2002

Language:

english

File:

PDF, 277 KB

english, 2002

61

A Yeast Synthetic Network for In Vivo Assessment of Reverse-Engineering and Modeling Approaches

Irene Cantone, Lucia Marucci, Francesco Iorio, Maria Aurelia Ricci, Vincenzo Belcastro, Mukesh Bansal, Stefania Santini, Mario di Bernardo, Diego di Bernardo, Maria Pia Cosma

Journal:

Year:

2009

Language:

english

File:

PDF, 999 KB

english, 2009

62

In-Vivo Real-Time Control of Protein Expression from Endogenous and Synthetic Gene Networks

Menolascina, Filippo, Fiore, Gianfranco, Orabona, Emanuele, De Stefano, Luca, Ferry, Mike, Hasty, Jeff, di Bernardo, Mario, di Bernardo, Diego, Gabhann, Feilim Mac

Journal:

PLoS Computational Biology

Year:

2014

Language:

english

File:

PDF, 2.32 MB

english, 2014

63

A transcriptomic study of Williams-Beuren syndrome associated genes in mouse embryonic stem cells

De Cegli, Rossella, Iacobacci, Simona, Fedele, Anthony, Ballabio, Andrea, di Bernardo, Diego

Journal:

Scientific Data

Year:

2019

File:

PDF, 1.49 MB

2019

64

Psychiatric Phenocopy Syndrome of Behavioral Frontotemporal Dementia: Behavioral and Cognitive Fingerprint

Bussè, Cinzia, Pettenuzzo, Ilaria, Pompanin, Sara, Roiter, Beatrice, di Bernardo, Gian Antonio, Zorzi, Giovanni, Fragiacomo, Federica, Gazzola, Gianmarco, Cecchin, Diego, Pigato, Giorgio, Cagnin, Anna

Journal:

Journal of Alzheimer's Disease

Year:

2019

File:

PDF, 148 KB

2019

65

Effect of Lead Exclusion for the Manual Measurement of QT Dispersion

PHILIP LANGLEY, DIEGO DI BERNARDO, ALAN MURRAY

Journal:

Pacing and Clinical Electrophysiology

Year:

2001

Language:

english

File:

PDF, 248 KB

english, 2001

66

CoGemiR: A comparative genomics microRNA database

Vincenza Maselli, Diego Di Bernardo, Sandro Banfi

Journal:

Year:

2008

Language:

english

File:

PDF, 1.28 MB

english, 2008

67

Computational framework for the prediction of transcription factor binding sites by multiple data integration

Alberto Ambesi-Impiombato, Mukesh Bansal, Pietro Liò, Diego di Bernardo

Journal:

BMC Neuroscience

Year:

2006

Language:

english

File:

PDF, 662 KB

english, 2006

68

Directed Partial Correlation: Inferring Large-Scale Gene Regulatory Network through Induced Topology Disruptions

Yuan, Yinyin, Li, Chang-Tsun, Windram, Oliver, Di Bernardo, Diego

Journal:

Year:

2011

Language:

english

File:

PDF, 2.21 MB

english, 2011

69

Identification of Candidate Small-Molecule Therapeutics to Cancer by Gene-Signature Perturbation in Connectivity Mapping

McArt, Darragh G., Zhang, Shu-Dong, Di Bernardo, Diego

Journal:

Year:

2011

Language:

english

File:

PDF, 264 KB

english, 2011

70

A Systems Biology Approach to Transcription Factor Binding Site Prediction

Zhou, Xiang, Sumazin, Pavel, Rajbhandari, Presha, Califano, Andrea, Di Bernardo, Diego

Journal:

Year:

2010

Language:

english

File:

PDF, 487 KB

english, 2010

71

A Curated Database of miRNA Mediated Feed-Forward Loops Involving MYC as Master Regulator

El Baroudi, Mariama, Corà, Davide, Bosia, Carla, Osella, Matteo, Caselle, Michele, Di Bernardo, Diego

Journal:

Year:

2011

Language:

english

File:

PDF, 338 KB

english, 2011

72

A reverse-engineering approach to dissect post-translational modulators of transcription factor’s activity from transcriptional data

Gambardella, Gennaro, Peluso, Ivana, Montefusco, Sandro, Bansal, Mukesh, Medina, Diego L., Lawrence, Neil, di Bernardo, Diego

Journal:

BMC Bioinformatics

Year:

2015

Language:

english

File:

PDF, 888 KB

english, 2015

73

Linking network topology to function

di Bernardo, Diego

Journal:

Physics of Life Reviews

Year:

2016

Language:

english

File:

PDF, 141 KB

english, 2016

74

The impact of microRNAs on transcriptional heterogeneity and gene co-expression across single embryonic stem cells

Gambardella, Gennaro, Carissimo, Annamaria, Chen, Amy, Cutillo, Luisa, Nowakowski, Tomasz J., di Bernardo, Diego, Blelloch, Robert

Journal:

Nature Communications

Year:

2017

Language:

english

File:

PDF, 1.13 MB

english, 2017

75

Eugene – A Domain Specific Language for Specifying and Constraining Synthetic Biological Parts, Devices, and Systems

Bilitchenko, Lesia, Liu, Adam, Cheung, Sherine, Weeding, Emma, Xia, Bing, Leguia, Mariana, Anderson, J. Christopher, Densmore, Douglas, Di Bernardo, Diego

Journal:

Year:

2011

Language:

english

File:

PDF, 1.51 MB

english, 2011

76

Reconstitution of an ultradian oscillator in mammalian cells by a synthetic biology approach

Santorelli, Marco, Perna, Daniela, Isomura, Akihiro, Garzilli, Immacolata, Annunziata, Francesco, Postiglione, Lorena, Tumaini, Barbara, Kageyama, Ryoichiro, di Bernardo, Diego

Journal:

ACS Synthetic Biology

Year:

2018

Language:

english

File:

PDF, 1.37 MB

english, 2018

77

Computer Model for Study of Cardiac Repolarization

DIEGO di BERNARDO, ALAN MURRAY

Journal:

Journal of Cardiovascular Electrophysiology

Year:

2000

Language:

english

File:

PDF, 2.18 MB

english, 2000

78

Identification of small molecules enhancing autophagic function from drug network analysis

Iorio, Francesco, Isacchi, Antonella, di Bernardo, Diego, Brunetti-Pierri, Nicola

Journal:

Year:

2010

Language:

english

File:

PDF, 388 KB

english, 2010

79

In Silico Simulation of Corticosteroids Effect on an NFkB- Dependent Physicochemical Model of Systemic Inflammation

Foteinou, Panagiota T., Calvano, Steve E., Lowry, Stephen F., Androulakis, Ioannis P., Di Bernardo, Diego

Journal:

Year:

2009

Language:

english

File:

PDF, 596 KB

english, 2009

80

The Structure of the EU Mediasphere

Flaounas, Ilias, Turchi, Marco, Ali, Omar, Fyson, Nick, De Bie, Tijl, Mosdell, Nick, Lewis, Justin, Cristianini, Nello, Di Bernardo, Diego

Journal:

Year:

2010

Language:

english

File:

PDF, 469 KB

english, 2010

81

[IEEE 2010 49th IEEE Conference on Decision and Control (CDC) - Atlanta, GA, USA (2010.12.15-2010.12.17)] 49th IEEE Conference on Decision and Control (CDC) - Design and implementation of a feedback control strategy for IRMA, a novel synthetic gene regulatory network

Menolascina, Filippo, di Bernardo, Mario, di Bernardo, Diego

Year:

2010

Language:

english

File:

PDF, 202 KB

english, 2010

82

Signal Response Sensitivity in the Yeast Mitogen-Activated Protein Kinase Cascade

Thalhauser, Craig J., Komarova, Natalia L., Di Bernardo, Diego

Journal:

Year:

2010

Language:

english

File:

PDF, 547 KB

english, 2010

83

Engineering and control of biological systems: A new way to tackle complex diseases

Filippo Menolascina, Velia Siciliano, Diego di Bernardo

Journal:

Year:

2012

Language:

english

File:

PDF, 375 KB

english, 2012

84

Drug-set enrichment analysis: a novel tool to investigate drug mode of action

Napolitano, Francesco, Sirci, Francesco, Carrella, Diego, di Bernardo, Diego

Journal:

Year:

2015

Language:

english

File:

PDF, 444 KB

english, 2015

85

Combining flux balance analysis and model checking for metabolic network validation and analysis

Pagliarini, Roberto, Sangiovanni, Mara, Peron, Adriano, di Bernardo, Diego

Journal:

Natural Computing

Year:

2015

Language:

english

File:

PDF, 2.12 MB

english, 2015

86

Colocalization of Coregulated Genes: A Steered Molecular Dynamics Study of Human Chromosome 19

Di Stefano, Marco, Rosa, Angelo, Belcastro, Vincenzo, di Bernardo, Diego, Micheletti, Cristian, Wasserman, Wyeth W.

Journal:

PLoS Computational Biology

Year:

2013

Language:

english

File:

PDF, 4.79 MB

english, 2013

87

Computational Drug Networks: a computational approach to elucidate drug mode of action and to facilitate drug repositioning for neurodegenerative diseases

Sirci, Francesco, Napolitano, Francesco, di Bernardo, Diego

Journal:

Drug Discovery Today: Disease Models

Year:

2017

Language:

english

File:

PDF, 783 KB

english, 2017

88

Linear Control Theory for Gene Network Modeling

Shin, Yong-Jun, Bleris, Leonidas, Di Bernardo, Diego

Journal:

Year:

2010

Language:

english

File:

PDF, 1.08 MB

english, 2010

89

T-Wave Shape in Clinical Research

di Bernardo, Diego, Murray, Alan

Journal:

Year:

2001

File:

PDF, 9 KB

2001

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