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List of works by Gianluca Bontempi

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

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

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

article published in 2008
Predicting prognosis using molecular profiling in estrogen receptor-positive breast cancer treated with tamoxifen

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

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

scientific article published on May 2015
Information-theoretic inference of large transcriptional regulatory networks.

scientific article published on January 2007
A three-gene model to robustly identify breast cancer molecular subtypes

scientific article published on 18 January 2012
A comparative study of survival models for breast cancer prognostication based on microarray data: does a single gene beat them all?

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

scientific article published on 16 February 2007
Association between the PNPLA3 (rs738409 C>G) variant and hepatocellular carcinoma: Evidence from a meta-analysis of individual participant data

scientific article
Multifactorial approach to predicting resistance to anthracyclines

scientific article published on 21 March 2011
A comprehensive overview of Infinium HumanMethylation450 data processing

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

scientific journal article
Comparison of prognostic gene expression signatures for breast cancer

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

scientific article
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
Evidence of galectin-1 involvement in glioma chemoresistance

scientific article
mRMRe: an R package for parallelized mRMR ensemble feature selection

scientific article
Comparison and validation of genomic predictors for anticancer drug sensitivity

scientific article published on 26 January 2013
Portraying breast cancers with long noncoding RNAs.

scientific article published on 02 September 2016
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
On the impact of entropy estimation on transcriptional regulatory network inference based on mutual information.

scientific article published on 12 January 2009
A fuzzy gene expression-based computational approach improves breast cancer prognostication

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

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

scientific article published on 12 June 2017
Nucleolus and c-Myc: potential targets of cardenolide-mediated antitumor activity

scientific article published in May 2008
UNBS5162, a novel naphthalimide that decreases CXCL chemokine expression in experimental prostate cancers

scientific article published on June 2008
DNA methylation-based immune response signature improves patient diagnosis in multiple cancers

scientific article published on 17 July 2017
SpidermiR: An R/Bioconductor Package for Integrative Analysis with miRNA Data

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

scientific article published on 9 July 2015
Inference and validation of predictive gene networks from biomedical literature and gene expression data

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

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

scientific article published on 6 January 2018
How interacting pathways are regulated by miRNAs in breast cancer subtypes

scientific article
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
A technological platform for cerebral palsy - the ICT4Rehab project

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

scientific article published on 19 July 2017
Distributed Principal Component Analysis for Wireless Sensor Networks

scientific article (publication date: 11 August 2008)
Protect us from poor-quality medical research

scientific article published on 01 May 2018
Experimental assessment of static and dynamic algorithms for gene regulation inference from time series expression data.

scientific article
Comprehensive identification of long noncoding RNAs in colorectal cancer.

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
Relevance of different prior knowledge sources for inferring gene interaction networks

scientific article published on 24 June 2014
D-peaks: a visual tool to display ChIP-seq peaks along the genome

scientific article published on September 2012
Genome-wide gene expression profiling to predict resistance to anthracyclines in breast cancer patients

scientific article

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