Postdoc (Adjunct) in the Laboratory of Functional and Structural Genomics

Postdoc (Adjunct) in the Laboratory of Functional and Structural Genomics

University of Warsaw - Centre of New Technologies

Warsaw, Poland

Project description:

The main aim of this project is to determine how the spatial organization of the genome changes upon replication stress and how these changes help to protect the cell from the harmful consequences of this stress. By using the most modern methods relying on nextgeneration sequencing, we will compare the three-dimensional structure of the genome in correctly replicating cells and those exposed to replication stress. DNA regions that are particularly susceptible to stress-related damage will also be identified allowing to generate a comprehensive, genome-wide map of fragile sites in human cells. It will enable us to determine the characteristic features of those sites and subsequently to get novel insights into the causes of their breakage. In addition, we will investigate the consequences of permanent 3D changes emerging in cells due to replication stress in terms of their potential contribution to the development of cancer. Based on the obtained results, a computational model, determining genomic sites, where the damage may initiate or stimulate the development of cancer, will be created. Additionally, we will develop new tools enabling modeling of structural elements of DNA such as single DNA loops and dynamics of their formation. The execution of the project will significantly broaden our understanding of the mutual relations between replication stress, the spatial structure of the genome, and genetic instability. In addition, the obtained results can potentially be used in the diagnosis and therapy of diseases associated with chromosome fragility, such as cancer, autism, or mental developmental disorders.

Key responsibilities include:

  • Performing RNA-seq;
  • Performing ChIP-seq, ATAC-seq, iBLESS experiments;
  • Performing ChIA-PET, Hi-C and Hi-ChIP experiments;
  • Analyzing the experimental data, formulating biological hypotheses;
  • Bioinformatics data analysis of genomics data, such as iBLESS, Hi-C, HiChIP, ChIA-PET, ChIA-Drop, HiChIP, ATAC-seq, ChIP-seq, and RNAseq experimental data;
  • Commitment and full-time effort to the project;
  • Initiative in identifying and resolving problems relating to the research;
  • Management of His or Her work efficiently and increase the visibility through the publications;
  • Active participation in weekly lab meetings, scientific seminars and international conferences;
  • Publications and individual Young Researchers grants preparation;
  • Lab management tasks and daily operational support of the laboratory (in cooperation with the administrative and project department); planning purchases of laboratory equipment and reagents needed for experiments; control of the procurement process, preparation of tender documentation for the purchase of articles necessary for the efficient operation of the laboratory; supervision over the flow of documentation, invoicing; controlling the budget.

Profile of candidates/requirements:

Essential qualifications:

The competition is open to persons who meet the conditions specified in:

  • Act of 20 July 2018 Law on higher education and science (Journal of Laws of 2021, item 478) and the Statutes of the University of Warsaw;
  • Regulations on the allocation of resources for the implementation of tasks financed by the National Science Centre for 3D replication OPUS grant “Multiscale spatial reorganization of chromatin in response to replication stress and its role in cellular protection against genomic instability”;
  • PhD degree in molecular biology, genomics, bioinformatics or related discipline. The PhD degree should be obtained before the date of employment in the project.

We allow for a short (~a few months) modification of the date of starting employment in line with the candidate’s preferences. The possibility of starting employment at a later date shall be agreed upon with the project leader.

  • Excellent knowledge of English;
  • Team work skills and experience;
  • Documented experience with the whole genome sequencing, epigenomic and 3D genomics dataset production and analysis;
  • Biological knowledge and technical experience of chromatin-related genomics experiments: DNA sequencing, epigenomics, RNAseq, ATACses, HiC, HiChIP, ChIA-PET, iBLESS;
  • Bioinformatics and basic knowledge of chromatin-related genomics toolboxes and pipelines used in DNA sequencing, epigenomics, RNAseq, ATAC-seq data analysis, HiC, HiChIP, ChIA-PET, iBLESS;
  • Knowledge of basic molecular biology techniques (electrophoresis, PCR, qPCR), experience in human cell lines culture;
  • Documented experience in next generation sequencing methods of DNA for human cell lines and individuals;
  • Essential requirements cover the ability to work in collaboration with others, within a large research team, performing several parallel scientific tasks, independent thinking and finally the ability to deliver publishable results;
  • Needed the highly motivated individuals willing to work in an interdisciplinary environment under stress and with strict deadlines.

The candidate should hold a PhD degree for no longer than 7 years before the date of signing an employment agreement in the project. The PhD degree should be obtained in a country of the EU, EFTA, OECD or nostrified on the date of employment at the latest.

The following will be an asset:

  • Preferred experience in human or mammalian DNA sequencing, epigenomics, RNAseq, ATAC-seq, HiC techniques that spans both experimental methods and bioinformatics software;
  • Priority will be given to candidates with expertise relevant to the OPUS project and in agreement with the general profile of the laboratory. Preliminary experimental work done by applicant in the context of 3DGenomics will be treated as the strong asset.

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© EuroJobsites 2021

EuroJobsites is a registered company number: 4694396 VAT number: GB 880 9055 04

Registered address: EuroJobsites Ltd, Unit 8, Kingsmill Business Park, Kingston Upon Thames, London, KT1 3GZ, United Kingdom

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