Research Project Portals



RESEARCH ASSOCIATE IN COMPUTATIONAL POPULATION GENETICS (GENOME RUSSIA CONSORTIUM)

Applications are invited for a Postdoctoral Research Scientist in Computational Population Genetics to join Centre for Genome Bioinformatics at Saint Petersburg State University. The purpose of this role is to contribute to population genetics research in the framework of Genome Russia Consortium, leading on research projects and facilitating the projects of colleagues. The overarching aim of the Genome Russia project is a comprehensive characterisation of genetic variation landscape in the Peoples of the Russian Federation. The post entails development of analytical approaches and application of existing computational methods to analyse whole genome sequencing data (WGS) to generate new insights into population history, genogeography and migration patterns. The position requires outstanding quantitative and analytical skills. We are looking for candidates with PhD level education in applied mathematics, computer science, statistical genetics, engineering, bioinformatics/ computational biology or neighbouring disciplines.

The position requires the ability to independently take responsibility over your project, strong teamwork and communication skills, reliability, attention to details and effective time management. We are a multinational research group and our official communication language is English.


RESPONSIBILITIES

  • Conduct population genetics analyses of population genetics data (PCA, admixtire, f-statistics etc.) generated in the framework of Genome Russia project and similar initiatives. This may include the development of novel methodologies.
  • Develop and maintain analytical pipelines for data processing
  • Be responsible for ensuring the quality of the data, conceiving and applying tests to check data for errors and inconsistencies.
  • Apply existing statistical and computational tools for genomics data analysis.
  • Work closely with collaborators providing regular progress reports.
  • Attend appropriate scientific seminars and meetings and remain up to date with developments in the relevant fields.
  • Contribute major or significant parts to manuscripts, presentations and other means of disseminating results.
  • Represent the research group at external meetings/seminars, either with other members of the group or alone.
  • Keep accurate records of experimental plans, work and results.
  • Be responsible for the careful storage and curation of project data to maximise usability and to ensure security.
  • Communicate with the group head on a regular basis, ensuring that they are kept fully up to date with progress and difficulties in the research projects.

SELECTION CRITERIA

ESSENTIAL

  • PhD, or equivalent experience in applied mathematics, computer science, statistical genetics, bioinformatics/computational biology or neighbouring disciplines.
  • Computational skills using a high-level computer programming language (e.g. Python, R, Perl) and with the LINUX/UNIX environment
  • Ability to work both independently and as part of a team to manage the day-to-day running of a research project.
  • A proven ability to think critically about scientific analysis in order to ensure robust results.
  • Experience of contributing to high-impact scientific papers as evidenced by publications.
  • Excellent interpersonal skills with good spoken and written English
  • An active interest in undertaking scientific research and the ability to learn new techniques and apply them to a high standard

DESIRABLE

  • Understanding of concepts in genetics, in particular population genetics.
  • Previous experience in processing and analysis of working with genomic data (e.g. next generation sequencing data)
  • Previous experience in development of analytical solutions for analysis of complex heterogeneous omics data
  • Experience in High Performance Computing environment and pipeline development for reliable and reproducible data processing
  • Low-level programming experience (for example, C++, Java).
  • Good verbal communications such as giving talks at conferences or seminars at external institutions.

Initial appointment is one year, with possible extension. We offer competitive salary (which can be discussed at the interview) and a budget for conference travel. Applications should include a CV, cover letter, certificates, expected availability date, list of publications and other scientific outputs (e.g. software) and addresses of two referees.

Please send your application and/or questions regarding the post to: This email address is being protected from spambots. You need JavaScript enabled to view it.



RESEARCH ASSOCIATE IN COMPUTATIONAL GENOMICS

Applications are invited for a Postdoctoral Research Scientist in Computational Genomics to join Centre for Genome Bioinformatics at Saint Petersburg State University.

The purpose of this role is to contribute to develop strategies for genomics data analytics focusing on problems relating to genome stability maintenance. The post entails development of analytical approaches and application of existing computational methods to analyse large omics datasets to generate new insights into population genetics, cancer genomics and evolution, genome integrity. The position requires outstanding quantitative and analytical skills. We are looking for candidates with PhD level education in applied mathematics, computer science, bioinformatics/ computational biology or cancer systems biology and neighbouring disciplines. Molecular/Cell biologists with strong programming skills are also welcome to apply.

The position requires the ability to independently take responsibility over your project, strong teamwork and communication skills, reliability, attention to details and effective time management.

We are a multinational research group and our official communication language is English.


RESPONSIBILITIES

  • Take overall responsibility and leadership for the delivery of specific analytical projects that will make a significant contribution to the scientific objectives of the overall research goals ensuring appropriate levels of integration with the analysis team and more widely with collaborators and colleagues.
  • Conduct statistical analyses of large-scale genomic datasets and sequencing data focusing on genomic rearrangements. This may include the development of novel methodologies.
  • Develop and maintain analytical workflows for data processing and data analytics`
  • Be responsible for ensuring the quality of the data, conceiving and applying tests to check data for errors and inconsistencies..
  • Attend appropriate scientific seminars and meetings and remain up to date with developments in the relevant fields.
  • Contribute major or significant parts to manuscripts, presentations and other means of disseminating results.
  • Represent the research group at external meetings/seminars, either with other members of the group or alone.
  • Keep accurate records of experimental plans, work and results.
  • Be responsible for the careful storage and curation of project data to maximise usability and to ensure security.
  • Communicate with the group head on a regular basis, ensuring that they are kept fully up to date with progress and difficulties in the research projects.

SELECTION CRITERIA

ESSENTIAL

  • PhD, or equivalent experience in applied mathematics, computer science, molecular/cell biology, bioinformatics/computational biology or neighbouring disciplines.
  • Computational skills using a high-level computer programming language (e.g. Python, R, Perl) and with the LINUX/UNIX environment.
  • Previous experience in development of analytical solutions for analysis of complex heterogeneous omics data.
  • Ability to work both independently and as part of a team to manage the day-to-day running of a research project.
  • A proven ability to think critically about scientific analysis in order to ensure robust results.
  • Experience of contributing to high-impact scientific papers as evidenced by publications.
  • Excellent interpersonal skills with good spoken and written English
  • An active interest in undertaking scientific research and the ability to learn new techniques and apply them to a high standard

DESIRABLE

  • Understanding of concepts in cancer genomics, and in particular mechanisms of genome stability maintenance.
  • Experience in High Performance Computing environment and pipeline development for reliable and reproducible data processing
  • Low-level programming experience (for example, C++, Java).
  • Good verbal communications such as giving talks at conferences or seminars at external institutions.

Initial appointment is one year, with possible extension. We offer competitive salary (which can be discussed at the interview) and a budget for conference travel.

Applications should include a CV, cover letter, certificates, expected availability date, list of publications and other scientific outputs (e.g. software) and addresses of two referees.

Please send your application and/or questions regarding the post to: This email address is being protected from spambots. You need JavaScript enabled to view it.

Genome Russia Project

Genes are the basic “instruction book” for the cells that make up our bodies, and are made out of DNA. The DNA of a person is more than 99% the same as the DNA of any other unrelated person. But no two people have exactly the same DNA except identical twins. Differences in DNA are called genetic variations. They explain some of the physical differences among people, and partly explain why some people get diseases like cancer, diabetes, asthma, and depression, while others do not. Such diseases may also be affected by factors like diet, exercise, smoking, and pollution in the environment, which makes it hard to figure out which genes affect the diseases.

GWATCH - web-based genome browser for genome-wide association studies

GWATCH is a web-based genome browser designed to automate analysis, visualization and release of data from genome-wide association studies (GWAS) and whole genome sequence association studies of genetic epidemiological cohorts. For any association study, GWATCH allows cataloging and viewing of significant statistical results of association tests (p-values, odds ratios, hazard ratios and others) for single or multiple variants (SNP, indels, CNV), for single or multiple tests.

Genome-based Mycobacterium Tuberculosis Variation Database

Comparative genomics of Mycobacterium tuberculosis clinical strains spread in Russia – is one of the research projects conducted at Theodosius Dobzhansky Center for Genome Bioinformatics. We are studying genomic signatures associated with M. tuberculosis clinical and microbiological features. A Database of M. tuberculosis Genome Variations (GMTV) developed by our team, integrates clinical, epidemiological and microbiological information with genome variations based on whole genome sequencing data. This research is conducted in collaboration with St. Petersburg Research institute of Phthisiopulmonology and St. Petersburg Pasteur Institute, and supported by St. Petersburg State University and Russian Foundation for Basic Research (RFBR) grants.

Single-cell analysis of tumor-microenvironment interactions in follicular lymphoma

Follicular lymphoma

Follicular Lymphoma (FL) is a slow-growing cancer of the lymphatic system, which affects one in every three thousand individuals. While existing frontline therapies are effective at suppressing FL, it remains an incurable disease with a median survival of 8-10 years. A fifth of the patients develop resistance to the standard treatment within the first two years. Understanding the mechanisms facilitating resistance and identifying early molecular prognostic indicators remains a high priority.

Theodosius Dobzhansky

Geneticist & Evolutionary Biologist
 
Theodosius Dobzhansky American geneticist and evolutionary biologist and a central figure in the field of evolutionary biology is recognized for...

Heads of the Center

Anastasia Samsonova

Professor, Head of the Centre

Publications


Alexander Kanapin

Professor, co-Head of the Centre

Publications

Stephen J O'Brien

Chief Scientific Officer
 
I welcome you to the Site of the brand new Center of Genome Informatics at St Petersburg State University. The...

Lab's news

SPBU on web site published an article about achievement of the Center and published article.

September, 27 2019 ( Friday at 2pm: Dr. Kirill Vinnikov from Hawaii University (USA) and head of the lab at the Far Eastern Federal University (Vladivostok) "Exome sequencing of non-model species"