Job Information
- Organisation/Company
- Trinity College Dublin
- Department
- Mechanical, Manufacturing and Biomedical Engineering
- Research Field
- Biological sciences » Biological engineeringMedical sciences » MedicineChemistry » BiochemistryEngineering » Biomedical engineeringEngineering » Biomaterial engineeringComputer science » Modelling toolsBiological sciences » Botany
- Researcher Profile
- First Stage Researcher (R1)
- Country
- Ireland
- Application Deadline
- Type of Contract
- Temporary
- Job Status
- Full-time
- Hours Per Week
- 40
- Offer Starting Date
- Is the job funded through the EU Research Framework Programme?
- H2020 / Marie Skłodowska-Curie Actions
- Reference Number
- MSCA-DN-flIMAGIN3D
- Marie Curie Grant Agreement Number
- 10107350
- Is the Job related to staff position within a Research Infrastructure?
- No
Offer Description
We have two available positions vacant in this MSCA-DN Project. Ideally these are with a start date of September 1st 2023
Project 9: Mapping the O2 microenvironment, photosynthesis and respiratory activity in biofilms and 3D bioprinted constructs
Objectives:
3D mapping of the chemical microenvironment in microbial biofilms remains a major challenge to our understanding of this most common microbial lifestyle. Our team and collaborators will develop new experimental platforms for
1) the application of O2 sensing probes compatible with PLIM and FLIM platforms in biofilms,
2) the incorporation of such sensing probes within functionalized bioinks, and
3) realizing 3D mapping of O2 and biomass in natural and bioprinted biofilms containing phototrophic and heterotrophic microbes. Together with collaborators, we will also explore imaging of NAD(P)H and develop computational models for O2 dynamics and distribution in such structures.
Host Academic Institution: University of Copenhagen
Email: mkuhl@bio.ku.dk
Project 10: Pooled FLIM screening to efficiently elucidate cell signalling
Objectives:
1) In a pooled screening concept, we will use (existing) viral CRISPR gene knockout libraries to effectively knock down one single gene per cell in a large population of cells. This results in a mix of ~ 21,000 knockdown cells representing all genes (except for the lethal ones). We have shown that using the new FLIM instrumentation we can perform dynamic screens at ~150,000 cells in parallel on a single coverslip, and we developed technology to analyse signals and pick out individual hits (cells with an aberrant phenotype) within a single afternoon. Thus, a 100-fold covering of the entire genome should be feasible within 1-2 weeks already, and this may be further optimized.
2) Given the vast amount of data generated using this screen we will use innovate machine learning algorithms to classify knockouts in a step-wise and logical sequence c) Focusing initially on the cAMP response signalling cascade; we will rank the machine learning parameters according to their statistical weightings and delineate specific pathways using conventional cell biological methods.
Host Academic Institution: Netherlands Cancer Institute
Email: k.jalink@nki.nl
Requirements
- Research Field
- Biological sciences » Biological engineering
- Education Level
- Bachelor Degree or equivalent
- Research Field
- Engineering » Biomedical engineering
- Education Level
- Bachelor Degree or equivalent
- Research Field
- Medical sciences » Other
- Education Level
- Bachelor Degree or equivalent
- Research Field
- Computer science » Modelling tools
- Education Level
- Bachelor Degree or equivalent
- Research Field
- Engineering » Biomaterial engineering
- Education Level
- Bachelor Degree or equivalent
- Research Field
- Chemistry » Biochemistry
- Education Level
- Bachelor Degree or equivalent
Please, only applicants with relevant experience and background will be considered.
These positions start from 1st July- 1st September (starting date is negotiable)
Eligibility criteria: We welcome applications rom candidates of any
nationality completing the following criteria:
- Candidates must not have resided or carried out their main activity (work, studies, etc.) in the country of the first recruiting organization for more than 12 months in the 3 years immediately prior to their recruitment. The date of recruitment means the first day of the employment of the researcher for the purposes of the action (i.e. the starting date indicated in the employment contract/equivalent direct contract).
- Candidates shall, at the date of recruitment by the host organization, be in the first four years of their research careers and have not been awarded a doctoral degree.
- Candidates must have a master's degree or equivalent diploma in biomedical engineering, computer engineering, biomedical sciences, biochemistry, Materials or related disciplines.
- Candidates may be required to provide documentation proving their eligibility for recruitment, i.e. to provide supporting documentation proving their place(s) of residence or work during the previous 3 years.
Candidates must have a high level of proficiency in written and spoken English, which will be
assessed with the application and the interview, respectively.
- Languages
- ENGLISH
- Level
- Excellent
Additional Information
Please email a two page CV, details of referees and transcripts of all academic records to date- all together in one .pdf file. Please email to the contacts provided with the subject heading 'FLIMAGIN3D DC Application'
Only shortlisted applicants will be contacted, after which candidates will be invited to an online interview. If you have any accessibility issues please highlight them to monaghmi@tcd.ie and we will ensure that they are accomodated for.
Work Location(s)
- Number of offers available
- 1
- Company/Institute
- University of Copenhagen
- Country
- Denmark
- Geofield
- Number of offers available
- 1
- Company/Institute
- Netherlands Cancer Institute
- Country
- Netherlands
- Geofield
Where to apply
- monaghmi@tcd.ie
- Website
Contact
- City
- Dublin
- Website
- monaghmi@tcd.iek.jalink@nki.nlmkuhl@bio.ku.dk