Profile picture
Données administratives

Giovanna Ambrosini

giovanna.ambrosini@epfl.ch +41 21 693 88 36

Nationalité: Italian and Swiss

EPFL SV PTECH BICC
AAB 1 19 (Bâtiment AAB)
Station 19
1015 Lausanne

Formation

|

1995 – 1995 University of Pavia, Italy

|

1991 – 1991 University of Pavia, Italy

Expériences professionnelles

1995–1997

University of Bern, Switzerland CERN

1998–1999

CERN

1999–2000

Lightning Instrumentation SA, Lausanne

2000–2002

Creative Electronics Systems, Geneva

2002–2007

Swiss Institute for Experimental Cancer Research (ISREC), Lausanne/Epalinges

2007–2007

École Polytechnique Fédérale de Lausanne (EPFL), Lausanne

Publications représentatives

Indexing strategies for rapid searches of short words in genome sequences

C. Iseli, G. Ambrosini, P. Bucher, and C. V. Jongeneel
Published in In PLoS ONE, volume 2, page e579, 2007. in

Signal search analysis server

G. Ambrosini, V. Praz, V. Jagannathan, and P. Bucher
Published in In Nucleic Acids Res, volume 31, number 13, pages 3618-20, 2003. in

LOX Inhibition Disrupts a Collagen-Integrin–MYC Axis to Suppress Progression of Invasive Lobular Carcinoma

R. L. Flaherty; F. Hughes; G. Sflomos; C. Ronchi; H. Kemp  et al.

Cancer Research. 2026. DOI : 10.1158/0008-5472.can-25-3490.

Detailed record

View at publisher

Transcriptional dynamics and chromatin accessibility in the regulation of shade-responsive genes in Arabidopsis

S. Paulišić; A. Boccaccini; R. Dreos; G. Ambrosini; N. Guex  et al.

Genome Biology. 2025. DOI : 10.1186/s13059-025-03901-2.

Detailed record

View at publisher

Laccaria bicolor adapts to phosphate deficiency at the developmental, transcriptional and metabolic levels

A. Loha; S. Bouziri; M. V. Chacón; G. Ambrosini; K. Gutbrod  et al.

Mycorrhiza. 2025. DOI : 10.1007/s00572-025-01236-1.

Detailed record

View at publisher

Cross-platform motif discovery and benchmarking to explore binding specificities of poorly studied human transcription factors

I. E. Vorontsov; I. Kozin; S. Abramov; A. Boytsov; A. Jolma  et al.

Communications Biology. 2025. DOI : 10.1038/s42003-025-08909-9.

Detailed record

View at publisher

A bioengineered human urothelial organoid model reveals the urine-urothelium interplay in tissue resilience and UPEC recurrence in urinary tract infections

G. R. Paduthol; M. Nikolaev; K. Sharma; J. Blanc; K. Tomasek  et al.

2025

Detailed record

View at publisher

LOX inhibition disrupts a collagen-integrin–MYC axis as a translatable targeting strategy in invasive lobular carcinoma

R. L. Flaherty; F. M. Hughes; G. Sflomos; C. Ronchi; H. Kemp  et al.

2025

Detailed record

View at publisher

biogrowleR: Enhancing Longitudinal Data Analysis

C. Ronchi; G. Ambrosini; F. M. Hughes; R. L. Flaherty; H. M. Quinn  et al.

Journal of Mammary Gland Biology and Neoplasia. 2025. DOI : 10.1007/s10911-025-09583-7.

Detailed record

View at publisher

Repairing a deleterious domestication variant in a floral regulator gene of tomato by base editing

A. N. Glaus; M. Brechet; G. Swinnen; L. Lebeigle; J. Iwaszkiewicz  et al.

Nature Genetics. 2025. DOI : 10.1038/s41588-024-02026-9.

Detailed record

View at publisher

DNA methylation by CcrM contributes to genome maintenance in the Agrobacterium tumefaciens plant pathogen

S. Martin; F. Fournes; G. Ambrosini; C. Iseli; K. Bojkowska  et al.

NUCLEIC ACIDS RESEARCH. 2024. DOI : 10.1093/nar/gkae757.

Detailed record

View at publisher

Structural and molecular characterization of astrocyte and vasculature connectivity in the mouse hippocampus and cortex

C. Lorin; R. Guiet; N. Chiaruttini; G. Ambrosini; E. Boci  et al.

Glia. 2024. DOI : 10.1002/glia.24594.

Detailed record

View at publisher

Variant-specific pathophysiological mechanisms of AFF3 differently influence transcriptome profiles

S. Bassani; J. Chrast; G. Ambrosini; N. Voisin; F. Schuetz  et al.

Genome Medicine. 2024. DOI : 10.1186/s13073-024-01339-y.

Detailed record

View at publisher

Inhibition of anti-tumor immunity by melanoma cell-derived Activin-A depends on STING

K. Pinjusic; G. Ambrosini; J. Lourenco; N. Fournier; C. Iseli  et al.

Frontiers In Immunology. 2024. DOI : 10.3389/fimmu.2023.1335207.

Detailed record

View at publisher

Integrating distribution kinetics and toxicodynamics to assess repeat dose neurotoxicity in vitro using human BrainSpheres: a case study on amiodarone

C. Nunes; S. Proenca; G. Ambrosini; D. Pamies; A. Thomas  et al.

Frontiers In Pharmacology. 2023. DOI : 10.3389/fphar.2023.1248882.

Detailed record

View at publisher

MarrowQuant 2.0: A Digital Pathology Workflow Assisting Bone Marrow Evaluation in Experimental and Clinical Hematology

R. Sarkis; O. Burri; C. Royer-Chardon; F. Schyrr; S. Blum  et al.

Modern Pathology. 2023. DOI : 10.1016/j.modpat.2022.100088.

Detailed record

View at publisher

Epithelial-mesenchymal plasticity determines estrogen receptor positive breast cancer dormancy and epithelial reconversion drives recurrence

P. Aouad; Y. Zhang; F. De Martino; C. Stibolt; S. Ali  et al.

Nature Communications. 2022. DOI : 10.1038/s41467-022-32523-6.

Detailed record

View at publisher

Estrogen receptor positive breast cancers have patient specific hormone sensitivities and rely on progesterone receptor

V. Scabia; A. Ayyanan; F. De Martino; A. Agnoletto; L. Battista  et al.

Nature Communications. 2022. DOI : 10.1038/s41467-022-30898-0.

Detailed record

View at publisher

Contraceptive progestins with androgenic properties stimulate breast epithelial cell proliferation

M. Shamseddin; F. De Martino; C. Constantin; V. Scabia; A.-S. Lancelot  et al.

Embo Molecular Medicine. 2021. DOI : 10.15252/emmm.202114314.

Detailed record

View at publisher

Intraductal xenografts show lobular carcinoma cells rely on their own extracellular matrix and LOXL1

G. Sflomos; L. Battista; P. Aouad; F. De Martino; V. Scabia  et al.

EMBO Molecular Medicine. 2021. DOI : 10.15252/emmm.202013180.

Detailed record

View at publisher

Insights gained from a comprehensive all-against-all transcription factor binding motif benchmarking study

G. Ambrosini; I. Vorontsov; D. Penzar; R. Groux; O. Fornes  et al.

Genome Biology. 2020. DOI : 10.1186/s13059-020-01996-3.

Detailed record

View at publisher

The secreted protease Adamts18 links hormone action to activation of the mammary stem cell niche

D. Ataca; P. Aouad; C. Constantin; C. Laszlo; M. Beleut  et al.

Nature Communications. 2020. DOI : 10.1038/s41467-020-15357-y.

Detailed record

View at publisher

EPD in 2020: enhanced data visualization and extension to ncRNA promoters

P. Meylan; R. Dreos; G. Ambrosini; R. Groux; P. Bucher

Nucleic Acids Research. 2020. DOI : 10.1093/nar/gkz1014.

Detailed record

View at publisher

Common genetic variants associated with Parkinson's disease display widespread signature of epigenetic plasticity

A. Sharma; N. Osato; H. Liu; S. Asthana; T. C. Dakal  et al.

Scientific Reports. 2019. DOI : 10.1038/s41598-019-54865-w.

Detailed record

View at publisher

Chromatin 3D interactions mediate genetic effects on gene expression

O. Delaneau; M. Zazhytska; C. Borel; G. Giannuzzi; G. Rey  et al.

2019. 52nd Conference of the European-Society-of-Human-Genetics (ESHG), Gothenburg, Sweden, Jun 15-18, 2019. p. 1044 - 1045.

Detailed record

Chromatin three-dimensional interactions mediate genetic effects on gene expression

O. Delaneau; M. Zazhytska; C. Borel; G. Giannuzzi; G. Rey  et al.

Science. 2019. DOI : 10.1126/science.aat8266.

Detailed record

View at publisher

Short-lived AUF1 p42-binding mRNAs of RANKL and BCL6 have two distinct instability elements each

A. M. Dogar; R. Pauchard-Batschulat; B. Grisoni-Neupert; L. Richman; A. Paillusson  et al.

Plos One. 2018. DOI : 10.1371/journal.pone.0206823.

Detailed record

View at publisher

SNP2TFBS-a database of regulatory SNPs affecting predicted transcription factor binding site affinity

G. Ambrosini; S. Kumar; P. Bucher

2018. 50th European-Society-of-Human-Genetics (ESHG) Conference, Copenhagen, DENMARK, May 27-30, 2017. p. 728 - 728.

Detailed record

Local regulatory networks across two tissues and applications to analyze rare non-coding variants

A. Reymond; O. Delaneau; M. Zazhytska; K. Popadin; S. Kumar  et al.

2018. 50th European-Society-of-Human-Genetics (ESHG) Conference, Copenhagen, Denmark, May 27-30, 2017. p. 44 - 44.

Detailed record

PWMScan: a fast tool for scanning entire genomes with a position-specific weight matrix

G. Ambrosini; R. Groux; P. Bucher

Bioinformatics. 2018. DOI : 10.1093/bioinformatics/bty127.

Detailed record

View at publisher

MGA repository: a curated data resource for ChIP-seq and other genome annotated data

R. Dréos; G. Ambrosini; R. Groux; R. C. Périer; P. Bucher

Nucleic Acids Research. 2018. DOI : 10.1093/nar/gkx995.

Detailed record

View at publisher

SMiLE-seq identifies binding motifs of single and dimeric transcription factors

A. Isakova; R. Groux; M. Imbeault; P. Rainer; D. Alpern  et al.

Nature methods. 2017. DOI : 10.1038/nmeth.4143.

Detailed record

View at publisher

The eukaryotic promoter database in its 30th year: focus on non-vertebrate organisms

R. Dreos; G. Ambrosini; R. Groux; R. Cavin Périer; P. Bucher

Nucleic Acids Research. 2017. DOI : 10.1093/nar/gkw1069.

Detailed record

View at publisher

SNP2TFBS - a database of regulatory SNPs affecting predicted transcription factor binding site affinity

S. Kumar; G. Ambrosini; P. Bucher

Nucleic Acids Research. 2016. DOI : 10.1093/nar/gkw1064.

Detailed record

View at publisher

The ChIP-Seq tools and web server: a resource for analyzing ChIP-seq and other types of genomic data

G. Ambrosini; R. Dreos; S. Kumar; P. Bucher

BMC genomics. 2016. DOI : 10.1186/s12864-016-3288-8.

Detailed record

View at publisher

Influence of Rotational Nucleosome Positioning on Transcription Start Site Selection in Animal Promoters

R. Dreos; G. Ambrosini; P. Bucher

PLoS Comput Biol. 2016. DOI : 10.1371/journal.pcbi.1005144.

Detailed record

View at publisher

The Eukaryotic Promoter Database: expansion of EPDnew and new promoter analysis tools

R. Dreos; G. Ambrosini; R. C. Perier; P. Bucher

Nucleic Acids Research. 2015. DOI : 10.1093/nar/gku1111.

Detailed record

View at publisher

Principles of ChIP-seq Data Analysis Illustrated with Examples

G. Ambrosini; R. Dreos; P. Bucher

2014. 2nd International Work-Conference on Bioinformatics and Biomedical Engineering (IWBBIO), Granada, SPAIN, APR 07-09, 2014. p. 682 - 694.

Detailed record

EPD and EPDnew, high-quality promoter resources in the next-generation sequencing era

R. Dreos; G. Ambrosini; R. Cavin Perier; P. Bucher

Nucleic Acids Research. 2013. DOI : 10.1093/nar/gks1233.

Detailed record

View at publisher

Nuclear Factor I genomic binding associates with chromatin boundaries

M. Pjanic; C. D. Schmid; A. Gaussin; G. Ambrosini; J. Adamcik  et al.

BMC Genomics. 2013. DOI : 10.1186/1471-2164-14-99.

Detailed record

View at publisher

Critical assessment of automated flow cytometry data analysis techniques

N. Aghaeepour; G. Finak; D. Dougall; K. AH; P. Mah  et al.

Nature Methods. 2013. DOI : 10.1038/nmeth.2365.

Detailed record

View at publisher

A gene-rich, transcriptionally active environment and the pre-deposition of repressive marks are predictive of susceptibility to KRAB/KAP1-mediated silencing

S. Meylan; A. C. Groner; G. Ambrosini; N. Malani; S. Quenneville  et al.

BMC genomics. 2011. DOI : 10.1186/1471-2164-12-378.

Detailed record

View at publisher

ZFN-Site searches genomes for zinc finger nuclease target sites and off-target sites

T. J. Cradick; G. Ambrosini; C. Iseli; P. Bucher; A. P. McCaffrey

BMC Bioinformatics. 2011. DOI : 10.1186/1471-2105-12-152.

Detailed record

View at publisher

KRAB-Zinc Finger Proteins and KAP1 Can Mediate Long-Range Transcriptional Repression through Heterochromatin Spreading

A. C. Groner; S. Meylan; A. Ciuffi; N. Zangger; G. Ambrosini  et al.

PLoS genetics. 2010. DOI : 10.1371/journal.pgen.1000869.

Detailed record

View at publisher

Nucleosome eviction from MHC class II promoters controls positioning of the transcription start site

E. Leimgruber; Q. Seguín-Estévez; I. Dunand-Sauthier; N. Rybtsova; C. D. Schmid  et al.

Nucleic Acids Research. 2009. DOI : 10.1093/nar/gkp116.

Detailed record

View at publisher

Indexing strategies for rapid searches of short words in genome sequences

C. Iseli; G. Ambrosini; P. Bucher; C. V. Jongeneel

PLoS ONE. 2007. DOI : 10.1371/journal.pone.0000579.

Detailed record

View at publisher

Signal search analysis server

G. Ambrosini; V. Praz; V. Jagannathan; P. Bucher

Nucleic Acids Research. 2003. DOI : 10.1093/nar/gkg611.

Detailed record

View at publisher