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List of works by Francesco Ferrari

"Jump start and gain" model for dosage compensation in Drosophila based on direct sequencing of nascent transcripts

scientific article published on 31 October 2013

A MicroRNA targeting dicer for metastasis control

scientific article published on June 2010

A comparison of genetically matched cell lines reveals the equivalence of human iPSCs and ESCs

scientific article

A computational procedure to identify significant overlap of differentially expressed and genomic imbalanced regions in cancer datasets

scientific article published on 19 June 2009

A-MADMAN: annotation-based microarray data meta-analysis tool

scientific article published on 29 June 2009

Ascorbic acid prevents loss of Dlk1-Dio3 imprinting and facilitates generation of all-iPS cell mice from terminally differentiated B cells

scientific article

CXCR3 Identifies Human Naive CD8+ T Cells with Enhanced Effector Differentiation Potential

scientific article published on 18 November 2019

Comment on "Drosophila dosage compensation involves enhanced Pol II recruitment to male X-linked promoters".

scientific article published on April 2013

Comparative analysis of metazoan chromatin organization

scientific article

Comparison of computational methods for Hi-C data analysis

scientific article

Complete gene expression profiling of Saccharopolyspora erythraea using GeneChip DNA microarrays

scientific article

Comprehensive analysis of promoter-proximal RNA polymerase II pausing across mammalian cell types

scientific article published on 03 June 2016

Expression profiling of FSHD-1 and FSHD-2 cells during myogenic differentiation evidences common and distinctive gene dysregulation patterns

scientific article

Genome-wide chromatin interactions of the Nanog locus in pluripotency, differentiation, and reprogramming

scientific article published on 9 May 2013

Genomic expression during human myelopoiesis

scientific article

Global chromatin conformation differences in the Drosophila dosage compensated chromosome X

scientific article published on 25 November 2019

Hallmarks of pluripotency

scientific article published on September 2015

Hi-C analysis: from data generation to integration.

scientific article published on 20 December 2018

High-dimensional single cell analysis identifies stem-like cytotoxic CD8+ T cells infiltrating human tumors

scientific article published on 28 August 2018

Htt CAG repeat expansion confers pleiotropic gains of mutant huntingtin function in chromatin regulation

scientific article

Impact of sequencing depth in ChIP-seq experiments.

scientific article

Integrated analysis of microRNA and mRNA expression profiles in physiological myelopoiesis: role of hsa-mir-299-5p in CD34+ progenitor cells commitment

scientific article

Integrative genomics analyses reveal molecularly distinct subgroups of B-cell chronic lymphocytic leukemia patients with 13q14 deletion.

scientific article published on 14 October 2010

KDM2B promotes pancreatic cancer via Polycomb-dependent and -independent transcriptional programs

scientific article

Leveraging three-dimensional chromatin architecture for effective reconstruction of enhancer-target gene regulatory interactions

scientific article published on 01 September 2021

Microarray data mining using Bioconductor packages.

scientific article

Motif discovery in promoters of genes co-localized and co-expressed during myeloid cells differentiation

scientific article published on 05 December 2008

Novel definition files for human GeneChips based on GeneAnnot

scientific article

PPARdelta is a ligand-dependent negative regulator of vitamin D3-induced monocyte differentiation

scientific article

PREDA: an R-package to identify regional variations in genomic data.

scientific article

Phenotypes and gene expression profiles of Saccharopolyspora erythraea rifampicin-resistant (rif) mutants affected in erythromycin production

scientific article published on 30 March 2009

Rearranging the chromatin for pluripotency

scientific article published on 15 November 2013

SAMMY-seq reveals early alteration of heterochromatin and deregulation of bivalent genes in Hutchinson-Gilford Progeria Syndrome

scientific article published on 08 December 2020

The Lkb1 metabolic sensor maintains haematopoietic stem cell survival

scientific article

The histone chaperone CAF-1 safeguards somatic cell identity

scientific article

The reconstruction of transcriptional networks reveals critical genes with implications for clinical outcome of multiple myeloma

scientific article

Transcriptional control of a whole chromosome: emerging models for dosage compensation

scientific article

Transcriptional profiles underlying vulnerability and resilience in rats exposed to an acute unavoidable stress

scientific article published on 16 July 2012

Transcriptional profiling in response to terminal drought stress reveals differential responses along the wheat genome

scientific article

Valproic acid triggers erythro/megakaryocyte lineage decision through induction of GFI1B and MLLT3 expression

scientific article published on 10 August 2012

WoPPER: Web server for Position Related data analysis of gene Expression in Prokaryotes

scientific article

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