List of works - Gianluca Bontempi

4-IBP, a sigma1 receptor agonist, decreases the migration of human cancer cells, including glioblastoma cells, in vitro and sensitizes them in vitro and in vivo to cytotoxic insults of proapoptotic and proautophagic drugs

scientific article published on May 2007

A comparative study of survival models for breast cancer prognostication based on microarray data: does a single gene beat them all?

scientific article

A comprehensive overview of Infinium HumanMethylation450 data processing

scientific article

A fuzzy gene expression-based computational approach improves breast cancer prognostication

scientific article

A technological platform for cerebral palsy - the ICT4Rehab project

scientific article

A three-gene model to robustly identify breast cancer molecular subtypes

scientific article published on 18 January 2012

Association between the PNPLA3 (rs738409 C>G) variant and hepatocellular carcinoma: Evidence from a meta-analysis of individual participant data

scientific article

Biological Processes Associated with Breast Cancer Clinical Outcome Depend on the Molecular Subtypes

article published in 2008

CancerSubtypes: an R/Bioconductor package for molecular cancer subtype identification, validation, and visualization.

scientific article published on 12 June 2017

Combination of Gene Expression Signature and Model for End-stage Liver Disease Score Predicts Survival of Patients With Severe Alcoholic Hepatitis

scientific article published on 17 November 2017

Comparison and validation of genomic predictors for anticancer drug sensitivity

scientific article published on 26 January 2013

Comparison of prognostic gene expression signatures for breast cancer

scientific article

Comprehensive identification of long noncoding RNAs in colorectal cancer.

scientific article

Credit Card Fraud Detection: A Realistic Modeling and a Novel Learning Strategy.

scientific article

D-peaks: a visual tool to display ChIP-seq peaks along the genome

scientific article published on September 2012

DNA methylation-based immune response signature improves patient diagnosis in multiple cancers

scientific article published on 17 July 2017

Definition of clinically distinct molecular subtypes in estrogen receptor-positive breast carcinomas through genomic grade

scientific article

Distributed Principal Component Analysis for Wireless Sensor Networks

scientific article (publication date: 11 August 2008)

Effect of 21 different nitrogen sources on global gene expression in the yeast Saccharomyces cerevisiae

scientific article published on 16 February 2007

Evidence of galectin-1 involvement in glioma chemoresistance

scientific article

Experimental assessment of static and dynamic algorithms for gene regulation inference from time series expression data.

scientific article

Galectin 1 proangiogenic and promigratory effects in the Hs683 oligodendroglioma model are partly mediated through the control of BEX2 expression

scientific article published on May 2009

Genome-wide gene expression profiling to predict resistance to anthracyclines in breast cancer patients

scientific article

How interacting pathways are regulated by miRNAs in breast cancer subtypes

scientific article

In-Silico Integration Approach to Identify a Key miRNA Regulating a Gene Network in Aggressive Prostate Cancer.

scientific article published on 19 March 2018

Inference and validation of predictive gene networks from biomedical literature and gene expression data

scientific article

Information-theoretic inference of large transcriptional regulatory networks.

scientific article published on January 2007

Integration of multiple networks and pathways identifies cancer driver genes in pan-cancer analysis.

scientific article published on 6 January 2018

Integrative Analysis with Monte Carlo Cross-Validation Reveals miRNAs Regulating Pathways Cross-Talk in Aggressive Breast Cancer

scientific article published on 9 July 2015

Knocking down galectin 1 in human hs683 glioblastoma cells impairs both angiogenesis and endoplasmic reticulum stress responses

scientific article

Long-term in vitro treatment of human glioblastoma cells with temozolomide increases resistance in vivo through up-regulation of GLUT transporter and aldo-keto reductase enzyme AKR1C expression

scientific article

Long-term temozolomide treatment induces marked amino metabolism modifications and an increase in TMZ sensitivity in Hs683 oligodendroglioma cells

scientific article

Machine learning techniques to identify putative genes involved in nitrogen catabolite repression in the yeast Saccharomyces cerevisiae

scientific article

Multifactorial approach to predicting resistance to anthracyclines

scientific article published on 21 March 2011

Multiple-input multiple-output causal strategies for gene selection

scientific article

New functionalities in the TCGAbiolinks package for the study and integration of cancer data from GDC and GTEx

scientific article published on 05 March 2019

Novel promoters and coding first exons in DLG2 linked to developmental disorders and intellectual disability.

scientific article published on 19 July 2017

Nucleolus and c-Myc: potential targets of cardenolide-mediated antitumor activity

scientific article published in May 2008

Ocean plankton. Determinants of community structure in the global plankton interactome

scientific article published on May 2015

On the impact of entropy estimation on transcriptional regulatory network inference based on mutual information.

scientific article published on 12 January 2009

Portraying breast cancers with long noncoding RNAs.

scientific article published on 02 September 2016

Predicting prognosis using molecular profiling in estrogen receptor-positive breast cancer treated with tamoxifen

scientific article

Predictive networks: a flexible, open source, web application for integration and analysis of human gene networks

scientific article published on 16 November 2011

Protect us from poor-quality medical research

scientific article published on 01 May 2018

Relevance of different prior knowledge sources for inferring gene interaction networks

scientific article published on 24 June 2014

Role of muscarinic receptors in the contraction of jejunal smooth muscle in the horse: An in vitro study

scientific article published on 11 July 2017

STAT1 is a master regulator of pancreatic {beta}-cell apoptosis and islet inflammation

scientific journal article

SpidermiR: An R/Bioconductor Package for Integrative Analysis with miRNA Data

scientific article

Study of Meta-analysis strategies for network inference using information-theoretic approaches.

scientific article published on 6 May 2017

TCGA Workflow: Analyze cancer genomics and epigenomics data using Bioconductor packages

scientific article

TCGAbiolinks: an R/Bioconductor package for integrative analysis of TCGA data

scientific article

Temporal profiling of cytokine-induced genes in pancreatic β-cells by meta-analysis and network inference

scientific article published on 24 January 2014

UNBS5162, a novel naphthalimide that decreases CXCL chemokine expression in experimental prostate cancers

scientific article published on June 2008

Using shRNA experiments to validate gene regulatory networks

scientific article

mRMRe: an R package for parallelized mRMR ensemble feature selection

scientific article

minet: A R/Bioconductor package for inferring large transcriptional networks using mutual information

scientific article

List of works by Gianluca Bontempi

4-IBP, a sigma1 receptor agonist, decreases the migration of human cancer cells, including glioblastoma cells, in vitro and sensitizes them in vitro and in vivo to cytotoxic insults of proapoptotic and proautophagic drugs

A comparative study of survival models for breast cancer prognostication based on microarray data: does a single gene beat them all?

A comprehensive overview of Infinium HumanMethylation450 data processing

A fuzzy gene expression-based computational approach improves breast cancer prognostication

A technological platform for cerebral palsy - the ICT4Rehab project

A three-gene model to robustly identify breast cancer molecular subtypes

Association between the PNPLA3 (rs738409 C>G) variant and hepatocellular carcinoma: Evidence from a meta-analysis of individual participant data

Biological Processes Associated with Breast Cancer Clinical Outcome Depend on the Molecular Subtypes

CancerSubtypes: an R/Bioconductor package for molecular cancer subtype identification, validation, and visualization.

Combination of Gene Expression Signature and Model for End-stage Liver Disease Score Predicts Survival of Patients With Severe Alcoholic Hepatitis

Comparison and validation of genomic predictors for anticancer drug sensitivity

Comparison of prognostic gene expression signatures for breast cancer

Comprehensive identification of long noncoding RNAs in colorectal cancer.

Credit Card Fraud Detection: A Realistic Modeling and a Novel Learning Strategy.

D-peaks: a visual tool to display ChIP-seq peaks along the genome

DNA methylation-based immune response signature improves patient diagnosis in multiple cancers

Definition of clinically distinct molecular subtypes in estrogen receptor-positive breast carcinomas through genomic grade

Distributed Principal Component Analysis for Wireless Sensor Networks

Effect of 21 different nitrogen sources on global gene expression in the yeast Saccharomyces cerevisiae

Evidence of galectin-1 involvement in glioma chemoresistance

Experimental assessment of static and dynamic algorithms for gene regulation inference from time series expression data.

Galectin 1 proangiogenic and promigratory effects in the Hs683 oligodendroglioma model are partly mediated through the control of BEX2 expression

Genome-wide gene expression profiling to predict resistance to anthracyclines in breast cancer patients

How interacting pathways are regulated by miRNAs in breast cancer subtypes

In-Silico Integration Approach to Identify a Key miRNA Regulating a Gene Network in Aggressive Prostate Cancer.

Inference and validation of predictive gene networks from biomedical literature and gene expression data

Information-theoretic inference of large transcriptional regulatory networks.

Integration of multiple networks and pathways identifies cancer driver genes in pan-cancer analysis.

Integrative Analysis with Monte Carlo Cross-Validation Reveals miRNAs Regulating Pathways Cross-Talk in Aggressive Breast Cancer

Knocking down galectin 1 in human hs683 glioblastoma cells impairs both angiogenesis and endoplasmic reticulum stress responses

Long-term in vitro treatment of human glioblastoma cells with temozolomide increases resistance in vivo through up-regulation of GLUT transporter and aldo-keto reductase enzyme AKR1C expression

Long-term temozolomide treatment induces marked amino metabolism modifications and an increase in TMZ sensitivity in Hs683 oligodendroglioma cells

Machine learning techniques to identify putative genes involved in nitrogen catabolite repression in the yeast Saccharomyces cerevisiae

Multifactorial approach to predicting resistance to anthracyclines

Multiple-input multiple-output causal strategies for gene selection

New functionalities in the TCGAbiolinks package for the study and integration of cancer data from GDC and GTEx

Novel promoters and coding first exons in DLG2 linked to developmental disorders and intellectual disability.

Nucleolus and c-Myc: potential targets of cardenolide-mediated antitumor activity

Ocean plankton. Determinants of community structure in the global plankton interactome

On the impact of entropy estimation on transcriptional regulatory network inference based on mutual information.

Portraying breast cancers with long noncoding RNAs.

Predicting prognosis using molecular profiling in estrogen receptor-positive breast cancer treated with tamoxifen

Predictive networks: a flexible, open source, web application for integration and analysis of human gene networks

Protect us from poor-quality medical research

Relevance of different prior knowledge sources for inferring gene interaction networks

Role of muscarinic receptors in the contraction of jejunal smooth muscle in the horse: An in vitro study

STAT1 is a master regulator of pancreatic {beta}-cell apoptosis and islet inflammation

SpidermiR: An R/Bioconductor Package for Integrative Analysis with miRNA Data

Study of Meta-analysis strategies for network inference using information-theoretic approaches.

TCGA Workflow: Analyze cancer genomics and epigenomics data using Bioconductor packages

TCGAbiolinks: an R/Bioconductor package for integrative analysis of TCGA data

Temporal profiling of cytokine-induced genes in pancreatic β-cells by meta-analysis and network inference

UNBS5162, a novel naphthalimide that decreases CXCL chemokine expression in experimental prostate cancers

Using shRNA experiments to validate gene regulatory networks

mRMRe: an R package for parallelized mRMR ensemble feature selection

minet: A R/Bioconductor package for inferring large transcriptional networks using mutual information