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SOMS HANDS-ON RESEARCH EXPERIENCE

If you love research as much as we do, you won’t miss the opportunity to spend a couple of extra days in the lab! Every year, SOMS organizes SHARE – a summer programme that lets you work with a specialist in various laboratories around Bucharest, become familiar with medical research and share your experience during our social events. If you don’t have a place to stay in Bucharest, accommodation is available for the duration of the program. SHARE has been possible thanks to researchers from The Victor Babes Institute of Research in Pathology and The National Institute of Infectious Diseases Prof. Dr. Matei Balş. New labs will be added.

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Bioinformatics Lab – Single cell RNA-Seq pipeline for immunology and aging research
Bioinformatics Lab – Adaptive Immune Receptor Repertoire (AIRR) research project

Background: Immune cells have variable regions in their DNA that result in a diversity of antibodies, as well as B and T-cell receptors. By extracting the variable regions from RNA-Seq of blood and other tissues that contain immune cells it is possible to:

  • Identify part of the immune and vaccination history of the patients
  • Detect known autoimmune antibodies and T/B cell receptors to select the most promising gene therapy targets
  • Observe population-diversity and age-related changes

Project objectives:

  • Investigating aging-related changes of the adaptive immune repertoire
  • Auto-antibody analysis and identification of putative targets for CRISPR-based gene therapies in autoimmune-diseases
  • Vaccination and disease history diagnostics

Intern’s responsibilities: The project will involve assisting in:

  • Establishing AIRR pipelines based on RNA-Seq and single-cell RNA-Seq data
  • Sequence and frequency analysis of the clonotypes
  • Selection of the regions for potential gene therapies

Location: Institute of Biochemistry

Supervisors: Robi Tăcutu PhD, Anton Yurievich Kulaga M.Phil

Project Period: 50 days, either on-site or remote.

Eligibility criteria: Students with an interest in biomedical research

Recommended skills:

  • Some Linux knowledge (basics of bash)
  • Some programming experience with either Python, R or Scala
  • Familiarity with BLAST search and sequence alignment
  • Basic knowledge of statistics
  • Any experience with NGS pipelines
  • Any experience with docker or singularity containers
  • Any data science and/or machine learning skills
  • Interest in either immunology or/and aging research

Deadline: 7th of July, 10pm

Number of available places: 1

Background: By extending the analysis techniques already implemented in our group to single-cell data extracted from aging cells, we can identify genes whose participation in the aging process has been previously obscured by averaging effects (sequencing whole cell populations). Moreover, single-cell RNA-Seq can be used for the disease and immunity diagnostic and is a common source for Adaptive Immune Receptor Repertoire (AIRR) sequencing. scRNA-Seq is also actively used in oncology and regenerative medicine.

Project objectives:

  • Identifying scRNA-Seq data sources relevant for aging or autoimmunity research
  • Upgrading existing RNA-Seq pipeline to support single-cell sequencing data
  • Extraction of immune repertoires from scRNA-Seq data

Intern’s responsibilities: The selected interns will be assisting in building the sc-RNA-Seq pipeline and identifying data-sources of interest for aging and autoimmunity research. They will also assist developers of AIRR-Seq pipeline in the implementing the extraction of repertoire data from sc-RNA-Seq.

Location: Institute of Biochemistry

Supervisors: Robi Tăcutu PhD, Anton Yurievich Kulaga M.Phil

Project Period: 30 days, either on-site or remote.

Eligibility criteria: Students with an interest in biomedical research.

 

Recommended skills:

  • Some Linux knowledge (basics of bash)
  • Some programming experience with either Python, R or Scala
  • Basic knowledge of statistics
  • Basic knowledge about next generation sequencing
  • Basic SQL skills Optional skills/qualities that will help during the internship:
  • Any experience with NGS pipelines
  • Any experience with docker or singularity containers
  • Any data science and/or machine learning skills
  • Interest in either ageing research, regenerative medicine or immunology

Deadline: 7th of July, 10pm

Number of available places: 1

Microbiology Laboratory

Description: Microbiology imposes great public health problems nowadays and research on antibiotics is crucial for the continuation of this kind of treatment in the near future. Information about antimicrobial resistance incidence, prevalence, and trends must be gathered in order to assure the viability of this type of therapy. In this internship, students will be immersed in a research laboratory environment and will learn how to perform basic microbiology techniques.

Location: Prof. Dr. Matei Bals National Institute of Infectious Diseases

Project Period: 2 weeks during the summer of 2019

Eligibility criteria: Student at Carol Davila University of Medicine and Pharmacy, Bucharest, Romania – 2-6 year of study

Deadline: 16th of June, 10pm

Number of available places: 1

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