Senior Scientist, School of Life Sciences, Philipp Bucher Group, École Polythechnique Fédérale de Lausanne, Lausanne.
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.
|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|
|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.|
A. Coudray; A. M. Battenhouse; P. Bucher; V. R. Iyer : Detection and benchmarking of somatic mutations in cancer genomes using RNA-seq data; PeerJ. 2018-07-31. DOI : 10.7717/peerj.5362.
G. Ambrosini; R. Groux; P. Bucher : PWMScan: a fast tool for scanning entire genomes with a position-specific weight matrix; Bioinformatics. 2018-03-05. DOI : 10.1093/bioinformatics/bty127.
R. Dréos; G. Ambrosini; R. Groux; R. C. Périer; P. Bucher : MGA repository: a curated data resource for ChIP-seq and other genome annotated data; Nucleic Acids Research. 2018. DOI : 10.1093/nar/gkx995.
A. Isakova; R. Groux; M. Imbeault; P. Rainer; D. Alpern et al. : SMiLE-seq identifies binding motifs of single and dimeric transcription factors; Nature methods. 2017. DOI : 10.1038/nmeth.4143.
R. Dreos; G. Ambrosini; R. Groux; R. Cavin Périer; P. Bucher : The eukaryotic promoter database in its 30th year: focus on non-vertebrate organisms; Nucleic Acids Research. 2017. DOI : 10.1093/nar/gkw1069.
S. Kumar; G. Ambrosini; P. Bucher : SNP2TFBS - a database of regulatory SNPs affecting predicted transcription factor binding site affinity; Nucleic acids research. 2016. DOI : 10.1093/nar/gkw1064.
G. Ambrosini; R. Dreos; S. Kumar; P. Bucher : 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.
R. Dreos; G. Ambrosini; P. Bucher : Influence of Rotational Nucleosome Positioning on Transcription Start Site Selection in Animal Promoters; PLoS Comput Biol. 2016. DOI : 10.1371/journal.pcbi.1005144.
L. A. Bultet; J. Aguilar Rodriguez; C. H. Ahrens; E. L. Ahrne; N. Ai et al. : The SIB Swiss Institute of Bioinformatics' resources: focus on curated databases; Nucleic Acids Research. 2016. DOI : 10.1093/nar/gkv1310.
R. Dreos; G. Ambrosini; R. C. Perier; P. Bucher : The Eukaryotic Promoter Database: expansion of EPDnew and new promoter analysis tools; Nucleic Acids Research. 2015. DOI : 10.1093/nar/gku1111.
G. Ambrosini; R. Dreos; P. Bucher : Principles of ChIP-seq Data Analysis Illustrated with Examples; Proceedings Iwbbio 2014: International Work-Conference On Bioinformatics And Biomedical Engineering, Vols 1 And 2. 2014.
M. Pjanic; C. D. Schmid; A. Gaussin; G. Ambrosini; J. Adamcik et al. : Nuclear Factor I genomic binding associates with chromatin boundaries; BMC Genomics. 2013. DOI : 10.1186/1471-2164-14-99.
A. Pedrocchi; S. Ferrante; E. Ambrosini; M. Gandolla; C. Casellato et al. : MUNDUS project: MUltimodal Neuroprosthesis for daily Upper limb Support; Journal Of Neuroengineering And Rehabilitation. 2013. DOI : 10.1186/1743-0003-10-66.
R. Dreos; G. Ambrosini; R. Cavin Perier; P. Bucher : EPD and EPDnew, high-quality promoter resources in the next-generation sequencing era; Nucleic Acids Research. 2013. DOI : 10.1093/nar/gks1233.
N. Aghaeepour; G. Finak; D. Dougall; K. AH; P. Mah et al. : Critical assessment of automated flow cytometry data analysis techniques; Nature Methods. 2013. DOI : 10.1038/nmeth.2365.
M. Pjanic; P. Pjanic; C. Schmid; G. Ambrosini; A. Gaussin et al. : Nuclear factor I revealed as family of promoter binding transcription activators; Bmc Genomics. 2011. DOI : 10.1186/1471-2164-12-181.
T. J. Cradick; G. Ambrosini; C. Iseli; P. Bucher; A. P. McCaffrey : ZFN-Site searches genomes for zinc finger nuclease target sites and off-target sites; BMC Bioinformatics. 2011. DOI : 10.1186/1471-2105-12-152.
S. Meylan; A. C. Groner; G. Ambrosini; N. Malani; S. Quenneville et al. : 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.
A. C. Groner; S. Meylan; A. Ciuffi; N. Zangger; G. Ambrosini et al. : KRAB-Zinc Finger Proteins and KAP1 Can Mediate Long-Range Transcriptional Repression through Heterochromatin Spreading; PLoS genetics. 2010. DOI : 10.1371/journal.pgen.1000869.
E. Leimgruber; Q. Seguín-Estévez; I. Dunand-Sauthier; N. Rybtsova; C. D. Schmid et al. : Nucleosome eviction from MHC class II promoters controls positioning of the transcription start site; Nucleic acids research. 2009. DOI : 10.1093/nar/gkp116.
|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|