Research Vacancies

Post-Doctoral Researcher

Job Posted: 12 May 2017
Closing Date for Applications: 29 May 2017
School: APC Microbiome Institute
College: College of Medicine and Health
Contract Type: Fixed Term Whole-Time
Job Type: Research
Salary: €36,488 - €43,394 p.a.

Position Summary

Background to Research Environment: The APC Microbiome Institute was formed in 2003 with funding from Science Foundation Ireland and over the last decade the APC Microbiome Institute has established itself as one of the leading global centres in gut microbiota and gut inflammation research. The APC Microbiome Institute has made several landmark discoveries and has published over 1300 research articles in peer-reviewed journals, generating many journal covers and associated editorials. The scientific organisation of the APC Microbiome Institute consists of several integrated research themes or ‘Spokes’ which are supported by multiple shared core technology platforms. The APC Microbiome Institute has significant strengths in microbiology, mucosal immunology, Inflammatory Bowel Disease (IBD) research, bioinformatics, pre-clinical and translational IBD research and is comprised of several multi-disciplinary teams investigating how the gut microbiome interacts with host systems to regulate human health and disease.  

Unique Position ID: 7m

Required Qualifications/Experience: PhD (bioinformatics, computer science or biostatistics) and possessing experience with analysis of high-throughput datasets and integrative analysis of diverse omics datasets from different platforms. Must also have proven ability to conduct independent research to a very high level.

Description of project and role: We are seeking a highly motivated computational biologist/bioinformatician to join the APC’s Gut Inflammation Research Spoke to drive the discovery and validation of novel therapeutic targets in Inflammatory Bowel Disease (IBD) for the development of innovative medicines. The overall goal of our group is to identify and validate several new therapeutic targets for patients with IBD. Using functional genomics approaches, we will discover and map the cellular secretome-receptome inflammatory network in IBD and identify mediators and their specific receptor- mediated signalling pathways that drive inflammation in this disease. The successful applicant will analyse and integrate next generation sequencing (NGS) datasets (RNA-seq, ChIP-seq, DNA-seq) with the goal of identifying and validating new therapeutic targets for patients with IBD, including those patients that do not respond satisfactorily to current therapeutic approaches such as anti-TNF biologics. The successful candidate will apply their extensive experience in the collection, mining, integration and visualization of multiple -omics data sets, including genomics (Immunochip), transcriptomics (ChIPseq, RNAseq, Nanaostring), proteomics, RNAi screen data, flow data and clinical metadata to advance our biologic understanding of the secretome-receptome signalling networks driving inflammation and immunopathology in IBD. In this position, the individual is expected to make major scientific contributions to the research goals and milestones of the Gut Inflammation Spoke. The position will also provide the opportunity to develop leadership skills by providing guidance and mentorship to an active post-graduate community. The appointee will have the opportunity to collaborate with other bioinformaticians and research groups working on gut microbiome analysis in different projects. The successful candidate must be capable of working independently, of developing and applying computational solutions to biological questions, and of mentoring graduate students

Preferred Qualifications/Experience:

  • Background and working knowledge in algorithms, scientific computing, machine learning or statistics.

  • Significant experience with analysis of NGS datasets (RNA-seq, ChIP-seq, DNA-seq).

  • Experience with R/bioconductor, C/C++, Java, Perl, python, PLINK and the Unix (Linux) environment.
  • Experience in Gene Set Enrichment Analysis (GSEA) and data visualization approaches desirable.

  • Excellent verbal and written communication skills.

  • Ability to work effectively in a highly collaborative research environment is required.
  • Track record of independent critical thinking and scientific achievement evidenced by publication record.

Post duration: 1 year

Salary:€36,488 -€43,394 p.a

Project: APC3/Spoke 7

Key Duties and Responsibilities

This title will apply to newly qualified Post-Doctoral Researchers and will be considered as a period of training as the researcher will have dual goals in terms of the research project and their own career development. The researcher will be mentored by a Principal Investigator (PI). It is expected that a researcher would spend not more than 3 years at the Post Doctoral level, subject to the term of the project and would then be eligible to compete for a Senior Post Doctoral post advertised by the University.

The primary focus of the Postdoctoral Researcher will be research however a particular emphasis during this stage should include;

  • To conduct a specified programme of research under the supervision and direction of a Principal Investigator/Project Leader.
  • To engage in appropriate training and professional development opportunities as required by the Principal Investigator, School or College in order to develop research skills and competencies.
  • To gain experience in grant writing.
  • To engage in the dissemination of the results of the research in which they are engaged, as directed by, with the support of and under the supervision of a Principal Investigator.
  • To become familiar with the publication process.
  • To acquire generic and transferable skills (including project management, business skills and postgraduate mentoring/supervision).
  • To engage in the wider research and scholarly activities of the research group, School or College.
  • To interact closely with postgraduate research students who are studying for a Masters or a PhD and possibly have an agreed role in supporting these students in their day to day research in conjunction with an academic supervisor.
  • To carry out administrative work to support the programme of research.
  • To carry out additional duties as may reasonably be required within the general scope and level of the post.
  • To contribute to costing research grant proposals and assist in the financial management of a research project.


  • A PhD qualification.
  • Appropriate research experience.
  • Appropriate technical competence and accomplishment.
  • A capability of working within a project team to achieve results.
  • Good communication, organisation and interpersonal skills.
  • A commitment to gaining practical experience working on a research project.
  • Ability to work well within a team.
  • Please note that Garda vetting and international police clearance check may form part of the selection process.

For Informal Enquiries on the post candidates should contact:

Name: Dr. Ken Nally

Title: APC Microbiome Institute Principal Investigator & Lecturer in School of Biochemistry and Cell Biology

Email Address:

Telephone: +353 21 4901302

To Apply:

Please submit a 1 page cover letter quoting the UniqueID:7m, your C.V and the contacts of at least two referees to, +353 21 4901430, on or before the closing date of May 29th 2017.

Supplementary Information on the Department/Research Centre and the post is available at the following URL:

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