Giovanna Ambrosini

+41 21 693 09 57
+41 21 693 88 36
Office:
AAB 1 21
EPFL
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VPO
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VPO-SE
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OHS
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COSEC-SV
EPFL SV PTECH BICC
AAB 1 19 (Bâtiment AAB)
Station 19
1015 Lausanne
Web site: Web site: https://bix.epfl.ch
EPFL SV ISREC UPBRI
SV 2830 (Bâtiment SV)
Station 19
1015 Lausanne
Web site: Web site: https://brisken-lab.epfl.ch
Current Position
Senior Scientist, School of Life Sciences, Philipp Bucher Group, École Polythechnique Fédérale de Lausanne, Lausanne.Honors
Admitted to the Collegio Ghislieri in Pavia for my Bachelor's degree at the University of Pavia. The Ghislieri College (Ital. Collegio Ghislieri), founded in 1567 by Pope Pius V, is one of the most ancient colleges in Pavia and co-founder of the IUSS, located in Pavia as well. Collegio Ghislieri is a 450 years old Italian institution committed to promote University studies on the basis of merit, hosting around 200 pupils (males and females) who attend all faculties in Pavia State University, offering them logistic and cultural opportunities such as scholarships, lectures, conferences, a 100.000 volumes library (the third one among private libraries in Northern Italy), foreign languages courses. Each year about 30 new students coming from all over the country are selected by public contest.Professional course
University Assistant
University of Bern, Switzerland
1995-1997
Fellow in the EP Division ATD group at CERN
development of Data Acquisition Systems
1998-1999
Software Engineer
R&D department
Lightning Instrumentation SA, Lausanne
1999-2000
Systems Engineer
Linux Architect
Creative Electronics Systems, Geneva
2000-2002
Bioinformatician
Swiss Institute for Experimental Cancer Research (ISREC), Lausanne/Epalinges
2002-2007
Bioinformatician and software engineer
École Polytechnique Fédérale de Lausanne (EPFL), Lausanne
2007-current
Education
Ph.D. in Physics
High Energy Physics at CERN, Geneva, Switzerland
University of Pavia, Italy
Oct 1995.
Laurea, the italian equivalent of a Bachelors degree
in Mathematical and Physical Sciences
University of Pavia, Italy
July the 19th 1991.
Publications
Infoscience publications
PUBLICATIONS
Integrating distribution kinetics and toxicodynamics to assess repeat dose neurotoxicity in vitro using human BrainSpheres: a case study on amiodarone
Frontiers In Pharmacology. 2023-09-06. DOI : 10.3389/fphar.2023.1248882.MarrowQuant 2.0: A Digital Pathology Workflow Assisting Bone Marrow Evaluation in Experimental and Clinical Hematology
Modern Pathology. 2023. DOI : 10.1016/j.modpat.2022.100088.Epithelial-mesenchymal plasticity determines estrogen receptor positive breast cancer dormancy and epithelial reconversion drives recurrence
Nature Communications. 2022-08-25. DOI : 10.1038/s41467-022-32523-6.Abstract 2993: Intraductal xenografts model ERα-positive invasive lobular carcinoma of the breast
2021-07-01. p. 2993-2993. DOI : 10.1158/1538-7445.AM2021-2993.Contraceptive progestins with androgenic properties stimulate breast epithelial cell proliferation
Embo Molecular Medicine. 2021-05-27. DOI : 10.15252/emmm.202114314.Intraductal xenografts show lobular carcinoma cells rely on their own extracellular matrix and LOXL1
EMBO Molecular Medicine. 2021-02-22. DOI : 10.15252/emmm.202013180.Insights gained from a comprehensive all-against-all transcription factor binding motif benchmarking study
Genome Biology. 2020-05-11. DOI : 10.1186/s13059-020-01996-3.The secreted protease Adamts18 links hormone action to activation of the mammary stem cell niche
Nature Communications. 2020-03-26. DOI : 10.1038/s41467-020-15357-y.EPD in 2020: enhanced data visualization and extension to ncRNA promoters
Nucleic Acids Research. 2020-01-08. DOI : 10.1093/nar/gkz1014.Common genetic variants associated with Parkinson's disease display widespread signature of epigenetic plasticity
Scientific Reports. 2019-12-05. DOI : 10.1038/s41598-019-54865-w.Short-lived AUF1 p42-binding mRNAs of RANKL and BCL6 have two distinct instability elements each
Plos One. 2018-11-12. DOI : 10.1371/journal.pone.0206823.PWMScan: a fast tool for scanning entire genomes with a position-specific weight matrix
Bioinformatics. 2018-03-05. DOI : 10.1093/bioinformatics/bty127.MGA repository: a curated data resource for ChIP-seq and other genome annotated data
Nucleic Acids Research. 2018. DOI : 10.1093/nar/gkx995.SMiLE-seq identifies binding motifs of single and dimeric transcription factors
Nature methods. 2017. DOI : 10.1038/nmeth.4143.The eukaryotic promoter database in its 30th year: focus on non-vertebrate organisms
Nucleic Acids Research. 2017. DOI : 10.1093/nar/gkw1069.SNP2TFBS - a database of regulatory SNPs affecting predicted transcription factor binding site affinity
Nucleic acids research. 2016. DOI : 10.1093/nar/gkw1064.The ChIP-Seq tools and web server: a resource for analyzing ChIP-seq and other types of genomic data
BMC genomics. 2016. DOI : 10.1186/s12864-016-3288-8.Influence of Rotational Nucleosome Positioning on Transcription Start Site Selection in Animal Promoters
PLoS Comput Biol. 2016. DOI : 10.1371/journal.pcbi.1005144.The SIB Swiss Institute of Bioinformatics' resources: focus on curated databases
Nucleic Acids Research. 2016. DOI : 10.1093/nar/gkv1310.The Eukaryotic Promoter Database: expansion of EPDnew and new promoter analysis tools
Nucleic Acids Research. 2015. DOI : 10.1093/nar/gku1111.Principles of ChIP-seq Data Analysis Illustrated with Examples
2014. 2nd International Work-Conference on Bioinformatics and Biomedical Engineering (IWBBIO), Granada, SPAIN, APR 07-09, 2014. p. 682-694.Nuclear Factor I genomic binding associates with chromatin boundaries
BMC Genomics. 2013. DOI : 10.1186/1471-2164-14-99.EPD and EPDnew, high-quality promoter resources in the next-generation sequencing era
Nucleic Acids Research. 2013. DOI : 10.1093/nar/gks1233.Critical assessment of automated flow cytometry data analysis techniques
Nature Methods. 2013. DOI : 10.1038/nmeth.2365.Nuclear factor I revealed as family of promoter binding transcription activators
Bmc Genomics. 2011. DOI : 10.1186/1471-2164-12-181.ZFN-Site searches genomes for zinc finger nuclease target sites and off-target sites
BMC Bioinformatics. 2011. DOI : 10.1186/1471-2105-12-152.A gene-rich, transcriptionally active environment and the pre-deposition of repressive marks are predictive of susceptibility to KRAB/KAP1-mediated silencing
BMC genomics. 2011. DOI : 10.1186/1471-2164-12-378.KRAB-Zinc Finger Proteins and KAP1 Can Mediate Long-Range Transcriptional Repression through Heterochromatin Spreading
PLoS genetics. 2010. DOI : 10.1371/journal.pgen.1000869.Nucleosome eviction from MHC class II promoters controls positioning of the transcription start site
Nucleic acids research. 2009. DOI : 10.1093/nar/gkp116.Selected publications
C. Iseli, G. Ambrosini, P. Bucher, and C. V. Jongeneel In PLoS ONE, volume 2, page e579, 2007. |
Indexing strategies for rapid searches of short words in genome sequences |
G. Ambrosini, V. Praz, V. Jagannathan, and P. Bucher In Nucleic Acids Res, volume 31, number 13, pages 3618-20, 2003. |
Signal search analysis server |