Sr. Bioinformatician/Bioinformatician, Bienko Group, Erc Consolidator Grant

3 days ago Be among the first 25 applicantsGet AI-powered advice on this job and more exclusive features.APPLICATION CLOSING DATE: September 15th, ****Application InstructionsTo apply, please forward a single document containing:An updated CV.A 1-page motivation letter in English relating your track record to the specifics of the call.Names and contacts of 2 referees.TheHuman Technopole Foundation(HT) is an interdisciplinary research institute, created and supported by the Italian government, whose aim is to develop innovative strategies to promote human health and healthy aging through a multidisciplinary and integrated approach, combining genomics, computational biology, structural biology, neuroscience and health data science.HT scientists work together to enable interdisciplinary research and to create an open, collaborative environment to help promote life science research nationally and internationally.In line with its mission to serve the research community at large, HT operates National Facilities, specifically aimed at making HT's technologies, methods and tools available to the national scientific community.About the lab:The Bienko Group at HT (/) focuses on understanding the fundamental principles that regulate how chromatin is spatially organized in the nucleus of mammalian cells.The group also studies how the three-dimensional (3D) genome structure is affected by complex genomic rearrangements, such as those commonly encountered in human cancers.The group is now inviting outstanding candidates with expertise in NGS bioinformatics and a strong interest in 3D genome biology and cancer genomics, to apply for a position as aBioinformatician/Sr.Bioinformatician.Key tasks and responsibilities:The successful candidate will work in an international and interdisciplinary team, applying state-of-the-art computational tools toinvestigate how complex genomic rearrangements rewire the 3D genome structure and, in turn, affect gene expression.To this end, the successful candidate will analyse a large amount of sequencing datasets that are being generated in the Bienko Lab by applying a variety of omic assays to map the 3D genome, breakome, epigenome, and transcriptome of cells engineered in vitro to harbour chromosomal translocations and other genomic rearrangements, as well as of patient-derived tumor specimens.NGS assays routinely deployed in the Bienko Lab include:(i) whole-genome sequencing (WGS, both short- and long-read);(ii) Hi-C (both bulk and single-cell);(iii) GPSeq, a method previously developed in the Bienko to probe the radial arrangement of chromatin in the cell nucleus (see );(iv) full-length RNA-seq;(v) CUT&RUN;(vi) BLISS, another method previously developed in the Bienko Lab, which maps DNA double-strand breaks (DSBs) genome wide (see ).Specific tasks include:Implement, maintain, and apply state-of-the-art pipelines and software for:(i) processing Hi-C, WGS (both short and long-read), RNA-seq, CUT&Tag, and BLISS data;(ii) calling somatic copy number alterations (SCNAs) and structural variants (SVs) by integrating WGS and Hi-C data;(iii) calling A/B compartments, TADs, and chromatin loops from Hi-C data;(iv) peak calling from CUT&Tag data;(v) gene expression quantification, transcript isoform mapping, gene set enrichment, etc;(vi) multi-omic data integration, including comparison with publically available datasets (e.g., from ENCODE, TCGA, PCWGA).Maintaining and updating the lab's GitHub repositories.Use rigorous statistical methods to study the relationship between linear genome sequence, 3D genome structure, epigenome, and transcriptome.Propose and implement innovative ways of analysing and/or visualizing the available rich datasets.Curate the deposition of the datasets in public repositories, such as ENA or SRA.Work closely with the experimentalists in the group who generate the data analysed, advising on experimental design, providing feedback on data quality, and offering internal workshops to explain the analytical tools used and the obtained results.Producing plots for and participate in writing manuscripts describing the results of the analyses performed by the candidate.See previous work on the research topics of this call:Here's a list of sequencing methods that we have developed over the years:scCircle-seq:scCUTseq:GPSeq: BLISS: CUTseq: Job requirementsOn the closing date for online applications, the candidate must fulfil all the following conditions:M.Sc.degree in Quantitative Biology, Biotechnology, Bioengineering, Genomic Sciences, or equivalent.Candidates with M.Sc.degree in Computer Science, Mathematics or Physics and a genuine interest in learning biology and working on challenging biological problems are also welcome to apply.Fluency in at least one of the following programming languages: Bash, Python or R.Problem-solving and forward-looking personality, i.e., they are motivated to solve challenging problems even if this requires extensive troubleshooting and often revising the original plan.Strong collaborative attitude, i.e., they are strong team players, enjoy brainstorming new ideas and discussing solutions to a challenging problem with others.Willingness to work alongside experimentalists who do not necessarily have a strong background in bioinformatics and statistics, providing an explanation of the computational methods used and analytical results obtained that can be understood by them.Fluency in oral and written English.Preferential requirements:Candidates who have previously worked on the analysis of data produced with one or more of the following methods (as documented in a published paper or M.Sc. thesis) will be given high priority: Hi-C (and derivatives); ChIP-seq; CUT&RUN/CUT&Tag; ATAC-seq; (sc)RNA-seq; WGS/WES.Why Human Technopole:HT seeks scientific excellence, we recruit the best scientific talents through international, open calls.Our working environment is international, friendly, and inclusive.Our scientists work together across disciplines on research topics of biomedical relevance, leveraging synergies between their diverse skillsets and methodological approaches.We believe that highly diverse teams yield the best and most innovative results.We engage in outward-facing scientific activities aimed at benefiting the national and international research community.Training is also at the heart of our activity, with initiatives and opportunities for our staff, including scientific courses, conferences, and workshops.Work-life balance provisions.Italian language training for foreigners.Parental leave up to 1 year and other support for new parents.Support for relocation.Researchers coming to Italy for the first time, or returning after residing abroad, benefit from very attractive income tax benefits.Special consideration will be given to candidates who are part of the protected categories list, according to L. *****.Number of positions offered: 1Salary range: up to 48k, depending on the seniority of the candidate.Contract offered: CCNL Chimico Farmaceutico, Fixed-term 3 years - employee level.The position is based in Milan.Funded by the European Union (ERC, RADIALIS, GA n. *********)Seniority levelSeniority levelAssociateEmployment typeEmployment typeFull-timeJob functionJob functionResearchIndustriesResearch ServicesReferrals increase your chances of interviewing at Human Technopole by 2xSign in to set job alerts for "Bioinformatician" roles.EMEA Marketing Operations Specialist and Data AnalystSTAGE Marketing Data Analyst & CRM Specialist (F/M)Senior Data Analyst | Field Marketing | MILANOSenior Data Analyst | Field Marketing | MILANOData Integration Analyst (EDI Focus) - Prague, CZExperienced Professional | IT Application Data AnalystData Science Business Translator - Sr Analyst / SpecialistData Analyst Marketing & Growth - Italy (They/She/He)We're unlocking community knowledge in a new way.Experts add insights directly into each article, started with the help of 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