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List of works by Francesca Cordero

A Modular Database Architecture Enabled to Comparative Sequence Analysis

A computational analysis of S-(2-succino)cysteine sites in proteins.

scientific article published on 14 November 2015

A mathematical-biological joint effort to investigate the tumor-initiating ability of Cancer Stem Cells

scientific article

A new protein motif extraction framework based on constrained co-clustering

scholarly article published 2009

A versatile mathematical work-flow to explore how Cancer Stem Cell fate influences tumor progression

scientific article published on June 2015

Altered Fecal Small RNA Profiles in Colorectal Cancer Reflect Gut Microbiome Composition in Stool Samples

scientific article published on 17 September 2019

Alternative splicing detection workflow needs a careful combination of sample prep and bioinformatics analysis.

scientific article published on June 2015

An integrated approach of immunogenomics and bioinformatics to identify new Tumor Associated Antigens (TAA) for mammary cancer immunological prevention

scientific article published in December 2005

Apoptosis induced by piroxicam plus cisplatin combined treatment is triggered by p21 in mesothelioma

scientific article

Biologic Data of Cynomolgus Monkeys Maintained under Laboratory Conditions

scientific article (publication date: 2016)

Cancer stem cell based adjuvant for oncoantingen-driven vaccination

Chimera: a Bioconductor package for secondary analysis of fusion products

scientific article published on 6 October 2014

Co-clustering numerical data under user-defined constraints

article

Combinatorial pooling enables selective sequencing of the barley gene space

scientific article (publication date: April 2013)

Correction for Tarallo et al., "Altered Fecal Small RNA Profiles in Colorectal Cancer Reflect Gut Microbiome Composition in Stool Samples"

scientific article published on 18 February 2020

Dissecting an alternative splicing analysis workflow for GeneChip Exon 1.0 ST Affymetrix arrays

scientific article

Dissecting the genomic activity of a transcriptional regulator by the integrative analysis of omics data.

scientific article published on 17 August 2017

Erratum to: 'NETTAB 2014: From high-throughput structural bioinformatics to integrative systems biology'.

scientific article published on 29 July 2016

Gene Ontology Rewritten for Computing Gene Functional Similarity

article

Genome-Wide Search for Splicing Defects Associated with Amyotrophic Lateral Sclerosis (ALS)

Genome-wide activity of unliganded estrogen receptor-α in breast cancer cells.

scientific article published on 17 March 2014

Genomic lens on neuroglobin transcription.

scientific article

Guest Editorial

HashClone: a new tool to quantify the minimal residual disease in B-cell lymphoma from deep sequencing data

scientific article published on 23 November 2017

Inflammation and breast cancer. Inflammatory component of mammary carcinogenesis in ErbB2 transgenic mice

scientific article

Integrative Analysis of Novel Metabolic Subtypes in Pancreatic Cancer Fosters New Prognostic Biomarkers

scientific article published on 27 February 2019

Luminal breast cancer-specific circular RNAs uncovered by a novel tool for data analysis.

scientific article published on 19 February 2018

Luminal long non-coding RNAs regulated by estrogen receptor alpha in a ligand-independent manner show functional roles in breast cancer

scientific article published on 28 November 2015

MMP23B expression and protein levels in blood and urine are associated with bladder cancer

scientific article published on 01 October 2018

Markovian Agents Population Models to Study Cancer Evolution

Mathematical Approach to Predict the Drug Effects on Cancer Stem Cell Models

Metagenomic analysis of colorectal cancer datasets identifies cross-cohort microbial diagnostic signatures and a link with choline degradation

scientific article published on 01 April 2019

Microarray data analysis and mining approaches

scientific article

Multi-level model for the investigation of oncoantigen-driven vaccination effect

scientific article

Mutant SOD1 and mitochondrial damage alter expression and splicing of genes controlling neuritogenesis in models of neurodegeneration.

scientific article published on 25 January 2011

NETTAB 2014: From high-throughput structural bioinformatics to integrative systems biology.

scientific article

On the Use of Stochastic Petri Nets in the Analysis of Signal Transduction Pathways for Angiogenesis Process

article

Ontology-Driven Co-clustering of Gene Expression Data

article

Optimizing a massive parallel sequencing workflow for quantitative miRNA expression analysis

scientific article

Peculiar Genes Selection: A new features selection method to improve classification performances in imbalanced data sets

scientific article published on 14 August 2017

Post-treatment recovery of suboptimal DNA repair capacity and gene expression levels in colorectal cancer patients

article

Pregnancy Epigenetic Signature in T Helper 17 and T Regulatory Cells in Multiple Sclerosis

scientific article published on 01 January 2018

RRE: a tool for the extraction of non-coding regions surrounding annotated genes from genomic datasets

scientific article

Restructuring the gene ontology to emphasise regulative pathways and to improve gene similarity queries

scientific article published on 21 July 2011

Selection of suitable reference genes for accurate normalization of gene expression profile studies in non-small cell lung cancer

scientific article published on 26 July 2006

SeqBox: RNAseq/ChIPseq reproducible analysis on a consumer game computer.

scientific article published in March 2018

Sequencing of 15 622 gene-bearing BACs clarifies the gene-dense regions of the barley genome

scientific article published on 07 August 2015

Simplification of a complex signal transduction model using invariants and flow equivalent servers

article

Small Nucleolar RNAs Determine Resistance to Doxorubicin in Human Osteosarcoma

scientific article published on 24 June 2020

State of art fusion-finder algorithms are suitable to detect transcription-induced chimeras in normal tissues?

scientific article

State-of-the-art fusion-finder algorithms sensitivity and specificity

scientific article

Tackling the DREAM Challenge for Gene Regulatory Networks Reverse Engineering

article

The molecular landscape of colorectal cancer cell lines unveils clinically actionable kinase targets

scientific article published on 30 April 2015

oneChannelGUI: a graphical interface to Bioconductor tools, designed for life scientists who are not familiar with R language

scientific article published on 17 September 2007

rCASC: reproducible classification analysis of single-cell sequencing data

scientific article published on 01 September 2019

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