Roberta Bosotti, Phd Email & Phone Number

Italy

The Bioinformatics Italian Society (B.IT.S) is a non profit association with the aim of promoting meeting and discussion among researchers interested in different aspects of the bioinformatics, a multidisciplinary science that study biological problems at molecular and cellular level using computational and informatic models and methods.

Pavia, Lombardia, Italia

Math commission coordinator. Member of Director's staff.

Nerviano (Mi)

Responsible of genomics and bioinformatics activities in support to NMS projects, coordinating the activities of a team of five people: two dedicated to Genomics, with a focus on biomarkers identification and new target characterization, and three to Next Generation Sequencing (NGS) and data analysis.Group capabilities include: Sanger sequencing and oligonucleotide synthesis activities (DNA oligos and siRNA), gene expression analysis by RT-qPCR, microarrays and NGS. In particular: whole… Show more Responsible of genomics and bioinformatics activities in support to NMS projects, coordinating the activities of a team of five people: two dedicated to Genomics, with a focus on biomarkers identification and new target characterization, and three to Next Generation Sequencing (NGS) and data analysis.Group capabilities include: Sanger sequencing and oligonucleotide synthesis activities (DNA oligos and siRNA), gene expression analysis by RT-qPCR, microarrays and NGS. In particular: whole exome and target DNA sequencing, RNA seq and miRNA seq, targeted RNAseq (TreX, Illumina).The group has strong bioinformatics skills applied to NGS data analysis, development of dedicated pipelines and ad hoc tools in support to project activities.Biomarker expert and member of the translational team in support to clinical projects.Principal Investigator (PI) of FRRB2015-0010 project “Single-cell analyses of lymphocytes that infiltrate autoimmunity sites:dissecting immunological mechanisms of rheumatoid arthritis” Show less

Nerviano (Mi)

Genomics Group Leader, in charge of genomics and bioinformatics support to project activities.Responsibilities include the use of bioinformatics approaches with the aim of identifying predictive and/or prognostic biomarkers and the supervision of DNA sequencing and synthesis activities, gene expression analysis by RT-qPCR and microarrays. Analysis of Next Generation Sequencing ( NGS ) data and delevopment of pipelines and dedicated tools for the analysis of gene expression and mutational… Show more Genomics Group Leader, in charge of genomics and bioinformatics support to project activities.Responsibilities include the use of bioinformatics approaches with the aim of identifying predictive and/or prognostic biomarkers and the supervision of DNA sequencing and synthesis activities, gene expression analysis by RT-qPCR and microarrays. Analysis of Next Generation Sequencing ( NGS ) data and delevopment of pipelines and dedicated tools for the analysis of gene expression and mutational data and for the identification of rearranged genes. Development of an integrated platform to store, share and analyse genomics data.Project leader of a project aimed at validating the role of the kinase TRKA as therapeutic target in methastatic colorectal cancerSince 2014 councillor of Bioinformatics ITalian Society (BITS) Show less

In charge of bioinformatics and statistics support to project activities, from early phase to the clinics. Statistical and functional analysis of gene expression data (microarrays, RT-qPCR) in preclinical experiments in order to characterize drug mechanism of action, facilitate the identification of potential side effects and identify biomarkers, then followed in clinical studies. Analysis of Affymetrix data, generated in house, and familiarity with Agilent and Illumina technologies.System… Show more In charge of bioinformatics and statistics support to project activities, from early phase to the clinics. Statistical and functional analysis of gene expression data (microarrays, RT-qPCR) in preclinical experiments in order to characterize drug mechanism of action, facilitate the identification of potential side effects and identify biomarkers, then followed in clinical studies. Analysis of Affymetrix data, generated in house, and familiarity with Agilent and Illumina technologies.System biology approaches to predict drug mode of action from gene expression data.Responsibilities included the evaluation of new technologies and the proposal and management of collaborations with external institutions.In 2007 I have been assigned the Farmindustria award for Pharmacological Research for the work on cross platform microarray analysis, published on BMC Bioinformatics journal.Key skills: R/Bioconductor, Spotfire, Pathway analysis tools (Ingenuity, Panther), PipeLine Pilot Show less

Provision of optimal support for company research projects, through in-depth bioinformatics analysis on genes and proteins, and the implementation of databases for biological knowledge storage.Actively and successfully involved in data mining of Celera database, for the identification of new genes, potentially interesting as new oncological targets. One of the outcomes of this work was the identification of DRF1 as a new activator of the CDC7 kinase, contributing to the comprehension of the… Show more Provision of optimal support for company research projects, through in-depth bioinformatics analysis on genes and proteins, and the implementation of databases for biological knowledge storage.Actively and successfully involved in data mining of Celera database, for the identification of new genes, potentially interesting as new oncological targets. One of the outcomes of this work was the identification of DRF1 as a new activator of the CDC7 kinase, contributing to the comprehension of the biology of CDC7. Support to the creation of a panel of diversity enzymes to be used for kinase selectivity screening (KSS). Based on the kinome tree, representatives of the different kinase subfamilies were selected to be produced and used for assay set up. This panel is now used routinely to profile kinase inhibitor selectivity.Member of the Bioinformatic Steering Committee in charge of Pharmacia global bioinformatics infrastructure development and implementation.Since 2003 ordinary member of Bioinformatics ITalian Society (BITS)Key skills: Homology searches, pairwise comparison and multiple alignments, Phylogenetic trees building, Domain analysis, Genomic analysis (GeneScan, Genewise, GCGassembly, Phrap, CAT, CDS-Celera, Artemis), SQL and Oracle databasesUtilized tools and packages: HMMER, Phylips, Puzzle, ICM, Phylowin, VectorNTI Show less

Stockholm, Sweden

Comparative genomics analysis at CGR (Center for Genomics Research), Karolinska Institutet, Stockholm (Sweden), under the supervision of prof. Erik Sonnhammer.Sequence alignment, phylogenetic analysis, similarity searches (BLAST, HMMER) and protein domain characterization were applied for the identification of a novel homology domain in the N-terminal region of PIK-related and TRRAP subfamilies.Key skills: Homology searches, pairwise comparison and multiple alignments, Phylogenetic… Show more Comparative genomics analysis at CGR (Center for Genomics Research), Karolinska Institutet, Stockholm (Sweden), under the supervision of prof. Erik Sonnhammer.Sequence alignment, phylogenetic analysis, similarity searches (BLAST, HMMER) and protein domain characterization were applied for the identification of a novel homology domain in the N-terminal region of PIK-related and TRRAP subfamilies.Key skills: Homology searches, pairwise comparison and multiple alignments, Phylogenetic trees building, Domain analysis.Utilized tools and packages: HMMER, Phylips, Puzzle, ICM, Phylowin Show less

In charge of cloning and expressing cyclin dependent kinase family members (CDKs) as recombinant proteins either in bacterial (E.coli) or mammalian system (COS-1 cells).Key skills: Molecular biology techniques (gel electrophoresis, enzymatic analysis, PCR, DNA cloning, gel elettroforesi, SDS-PAGE,, Western blot, protein affinity purification) and cell coltures.

Yeast Two-hybrid screening technology was applied to identify new binding partners of the ZAP-70 tyrosine kinase.Key skills: DNA manipulations, expression of recombinant protein in E. coli, yeast and mammalian cells, Two Hybrid System, Western blot, protein affinity purification, In vitro kinase assay

A mutational analysis on recombinant ZAP-70, a protein tyrosine kinase that mediates T-cell antigen receptor (TCR) signalling, was carried out with the aim of better characterize its function in the signal transduction pathway.The mutants were cloned and the obtained plasmids were transfected either in E.coli or mammalian COS-1 cells. The recombinant proteins were purified and their kinase activity evaluated by in vitro kinase assay, with radio-labelled ATP, followed by SDS-page and… Show more A mutational analysis on recombinant ZAP-70, a protein tyrosine kinase that mediates T-cell antigen receptor (TCR) signalling, was carried out with the aim of better characterize its function in the signal transduction pathway.The mutants were cloned and the obtained plasmids were transfected either in E.coli or mammalian COS-1 cells. The recombinant proteins were purified and their kinase activity evaluated by in vitro kinase assay, with radio-labelled ATP, followed by SDS-page and autoradiography.Key skills: cloning, PCR, cell colture, radio labeling of DNA probes. Courses on ionizing radiation safety measures and radioactive samples counting. Show less

Education record

Education record

Education record