Position title: Post-Doctoral Research Fellow in Bioinformatics - Microbiome Research Centre
Employer: UNSW
Closing date: 11pm, 25th March 2021
Brief position description: Opportunity for an early career researcher to undertake bioinformatic analysis and interpretation of data across a large number of research projects at the Microbiome Research Centre (MRC).
1-year Fixed-term, Full-time (35 hr/week) opportunity based at St George Hospital in Sydney.
Job website: https://external-careers.jobs.unsw.edu.au/cw/en/job/501320/postdoctoral-research-fellow-in-bioinformatics-microbiome-research-centre
Contact name: Merita O'Connell
Bioinformatics Research Officer @ NSW
Position title: Bioinformatics Research Officer
Employer: University of Sydney
Closing date: 31 March 2021
Brief position description: The Bioinformatics Research Officer will join the newly established Ancestry & Health Genomics Laboratory at the Charles Perkins Centre, as an active research member of the University of Sydney’s School of Medical Sciences (SoMS), while working closely with his/her lab affiliates at the Laboratory for Human Comparative and Prostate Cancer Genomics located at The Kinghorn Cancer Centre, as part of the Garvan Institute of Medical Research.
This newly funded project is aimed at identifying mutational signatures of persistent endocrine disrupting pollutants driving aggressive prostate cancer. The project is prefaced on the hypothesis that environmental carcinogens have left an ‘exposure record’ identifiable as mutational signatures (patterns of genomic variation) in the genomes of exposed tumours. The aim, to use genome profiling and multi-omic synergistic interrogation, to identify a carcinogenic agent driving global disparities in aggressive prostate cancer.
The Bioinformatics Research Officer will focus on the implementation and development of statistical/computational tools to analyse next-generation sequencing (NGS) data to identify somatic variations associated with prostate cancer outcomes, global health disparity and carcinogenic drivers. You will be responsible for the analyses of cancer genome samples sequenced for the purposes of this project. This includes the maintenance, benchmarking, and continuous improvement of our analysis pipelines, as well as participation in the downstream analyses and interpretation, presentation and publications. The successful candidate will apply and implement various tools and algorithms to analyse cancer sequencing data, collaborate with Laboratory Team members to develop new tools and analytics, while taking a lead on moving new projects forward with regards to the integration of multi-omic datasets that will resonate from this project. The successful candidate will report directly to the Laboratory Head.
Job website: http://usyd.wd3.myworkdayjobs.com/USYD_EXTERNAL_CAREER_SITE
Contact name: Vanessa Hayes
Contact email: v.hayes@garvan.org.au
Research Officer @ NSW
Position title: Research Officer
Employer: Garvan Institute of Medical Research
Closing date: 2/04/2021
Brief position description: The Opportunity
We are seeking a fresh PhD graduate to join our recently established Gut omics group at the Garvan Institute of Medical Research. In this role, you will integrate single-cell transcriptomics and computational analysis technologies to investigate the cellular environments underpinning inflammatory bowel disease (IBD) and intestinal cancer. We recently uncovered complex spatial zonation of immune cells and microbiota in the healthy human colon (James et al, Nat. Immunol, 2020) and described the cellular networks underpinning recruitment and organisation of immune cells into the gut in paediatric Crohn’s disease.
We aim to build on these findings in IBD, but we also welcome your creative input and will encourage you to apply for independent research fellowships to support your career progression. You will have research independence and benefit from support and mentorship from a world-class research and technical team in single cell genomics offered by the Garvan-Weizmann Centre for Cellular Genomics.
This is a two year full-time, fixed term position with the possibility to extend. This role reports to Dr. Kylie James, Group Leader, Immunogenomics of Inflammatory Bowel Disease at Garvan.
Key Responsibilities
Conceiving, designing and carrying out single-cell experiments in line with the research theme.
Computational analysis of single cell datasets.
Collaborating closely with clinicians and members of the Garvan-Weizmann Centre for Cellular Genomics.
Collecting and processing patients’ samples in a reasonable timeframe.
Producing results, generating publication-quality images and text, and leading the development of peer-reviewed publications.
Presenting research methods and results at national and international conferences.
Producing and submitting fellowship and other funding applications.
Engaging within the team and with supervisors at weekly meetings.
Keeping up-to-date with safety training.
About You
In order to be successful in this position, you will demonstrate the following key skills and attributes:
A PhD in Cellular Biology, Computational Biology or a related field.
Experience with cellular analysis techniques including flow cytometry, cell sorting using FACS and MACS, gene and protein expression analysis, microscopic imaging, histology, pathology, gene profiling.
Experience with one or more programming languages (R/Python) is required.
Highly collaborative, being able to build and maintain scientific relationships within the team; comfortable engaging with complex discussions through remote means.
Outstanding communication skills, including both oral and written presentation for a variety of audiences, being able to present research data at national/ international scientific conferences and to contribute to and lead papers, grants, and technical reports.
Highly organised with the ability to work effectively within a team and independently.
Willingness to learn new wet-lab and computational analysis skills.
Ability to work in a highly interdisciplinary environment and drive scientific and technical innovation with other members of the group, the research community and public.
Previous experience with scientific and medical writing and publications in peer-reviewed journals.
How to Apply
We are open for AU/NZ or overseas talent. We are actively looking to hire for this role and will be reviewing applications as received. Candidates are encouraged to submit their application along with a cover letter attached with the CV as one document, as soon as possible. If you think you’re the right person for this role, don’t delay. We’d love to hear how your capabilities, achievements and experience set you apart.
Job website: https://garvan.wd3.myworkdayjobs.com/en-US/garvan_institute/job/Sydney/Research-Officer--RO-_PRF5835-1
Contact name: Michelle Earle
Contact email: talent@garvan.org.au
Bioinformatics research assistant @ VIC
Position title: Bioinformatics research assistant
Employer: Hogan Laboratory, Peter MacCallum Cancer Centre
Closing date: 25/03/2021
Brief position description: An opportunity exists for a talented and motivated Research Assistant to work with Professor Ben Hogan and Dr Lizzie Mason in the Program for Organogenesis and Cancer, at the Peter MacCallum Cancer Centre.
The Hogan Laboratory is a cross-disciplinary team that aims to understand the development of lymphatic vasculature (lymphangiogenesis), which plays an important role in the metastatic spread of cancer. The computational team applies bioinformatic and statistical methodologies to provide new insights into the molecular mechanisms that underpin developmental and pathological lymphangiogenesis. They are developing a comprehensive, single cell transcriptomic atlas of lymphangiogenesis, and using systems biology to derive the regulatory networks governing cell fate transitions in developmental, and pathological settings. The computational team have collaborative relationships with statistical and bioinformatic research groups throughout the Parkville precinct.
The successful candidate will have an Honour’s or Master’s degree in Bioinformatics, Computational Biology, Systems Biology or Computer Science. The candidate will have strong computational skills and experience applying them in the analysis of bulk and or single cell transcriptomic data.
Job website: http://petermac.mercury.com.au/ViewPosition.aspx?id=UnxDgndmz9w=&jbc=ere
Contact name: Elizabeth Mason
Contact email: Elizabeth.Mason@petermac.org
Genome Informatician @ SA
Position title: Genome Informatician
Employer: SA Pathology - Statewide Clinical Support Services
Closing date: 9th March 2021
Brief position description: - Contributes to the development of analysis pipelines for application to infectious diseases
- Contributes to the delivery of high-throughput microbial genomic testing technologies as part of the public health response to outbreaks and surveillance due to infectious diseases.
- Maintaining microbial genomic analysis pipelines for diagnostic and public health applications.
- Understanding and experience in phylogenomic analysis
Contributes to the delivery of NGS testing by:
- Identifying, evaluating and implementing software solutions for data analysis
- Automating NGS data analysis pipelines
- Maintaining currency of annotation resources
- Maintaining database of sequence variants
- Applying specialist knowledge of genome analysis to perform analysis of next-generation sequencing data
- Education and training of other staff within the MID directorate in the use of software tools and data analysis pipelines
Job website: http://careers.pageuppeople.com/532/caw/en/job/748898/genome-informatician
Contact name: Lex Leong
Contact email: lex.leong@sa.gov.au
Production Bioinformatician @ NSW
Position title: Production Bioinformatician
Employer: Garvan Institute of Medical Research
Closing date: 15/3/2021
Brief position description: The Garvan Institute of Medical Research brings together world-leading basic and translational researchers with expert clinicians to break down barriers between traditional scientific disciplines and find solutions to disease. Founded in 1963, Garvan’s mission is to harness all the information encoded in our genome to better diagnose, treat, predict and prevent disease.
Our scientists work across four intersecting research themes: medical genomics, epigenetics, and cellular genomics; diseases of immunity and inflammation; cancer; and diseases of ageing affecting bone, brain and metabolism. And three major Centres: the Kinghorn Centre for Clinical Genomics, the Garvan-Weizmann Centre for Cellular Genomics, and the Centre for Population Genomics.
This position will be collaborating with both the Kinghorn Centre for Clinical Genomics (KCCG) and the Garvan-Weizmann Centre for Cellular Genomics (GWCCG)
The Opportunity
The Production Bioinformatician will oversee the development, implementation and support of software and computational pipelines to translate raw single cell sequence data through to researchers. In addition, the production bioinformatician will deploy and support tools to assist researchers and clinicians with their genomic research.
The role will focus on supporting robust and production scale pipelines that run on either local or national HPC systems, as well as cloud services.
This is a unique opportunity for a bioinformatician to get exposure to research in single cell transcriptomics, genomics and epigenetics. This is a one-year full-time, fixed term role with a high possibility to extend, reporting to Joseph Copty - Bioinformatics Lead (KCCG Sequencing lab) and working closely with the GWCCG team. There is remote working flexibility with an option to choose your own days of work on site.
Key Responsibilities
Develop, implement and maintain the computational infrastructures required to support the analysis of high-throughput genome and single cell sequencing data.
Support the translation of new computational techniques from a research setting to production scale tools.
Design and implement pipelines to run on the internal and external high performance compute infrastructure and commercial clouds (AWS, GCP, Azure).
Deploy and support research tools for genomic variant filtration and interpretation.
Contribute code and features to open source bioinformatics tools.
Assist collaborators in data analysis and to check the validity of experimental results.
Create computational solutions to generate automated reports from raw high-throughput sequence data
Establish and maintain excellent records of the computational analysis and techniques for all projects in KCCG and GWCCG
About You
In order to be successful in this position, you will demonstrate the following key skills and attributes:
Bachelor degree (or higher) in Bioinformatics, Computer Science or related fields
Expertise in computational bioinformatics techniques, with a special focus on single cell transcriptomics, genomics and epigenetics
Demonstrated experience in the development and implementation of new and cutting-edge bioinformatics tools and pipelines using workflow languages
Strong skills in Linux command line and scripting languages (Python, Bash, R or other)
Experience with source code management tools (git preferred)
Experience in cloud infrastructure
Experience in using high performance computers (HPC) and job schedulers (e.g. PBS pro, SGE).
Demonstrated experience in containerisation using Docker and/or Singularity
Demonstrated experience in the development and implementation of new and cutting-edge bioinformatics tools and pipelines using workflow languages
Demonstrate experience in SQL and NoSQL based Databases
Desirable
Demonstrated experience in containerisation using Docker and/or Singularity
Knowledge of web frameworks: Django, Flask etc. is a plus
Experience with laboratory information management systems (LIMS)
Excellent written and oral communication, representation and interpersonal skills essential for interaction with internal and external stakeholders, including KCCG and GWCCG leaders
Excellent problem solving abilities and strong attention to detail
Ability to work independently
How to Apply
Only applicants with full work rights can apply. We are actively looking to hire for this role preferably by this month, so candidates are encouraged to submit their application along with a cover letter attached with the CV as one document, as soon as possible. If you think you’re the right person for this role, don’t delay as we’re assessing applications as they are received. We’d love to hear how your capabilities, achievements and experience set you apart.
Job website: https://garvan.wd3.myworkdayjobs.com/en-US/garvan_institute/job/Sydney/Production-Bioinformaticiann_PRF5816
Contact name: Michelle Earle
Contact email: m.earle@garvan.org.au
Computational Biologist/Bioinformatician @ South Australia
Position title: Computational Biologist/Bioinformatician
Employer: South Australian Genomics Centre (SAGC)
Closing date: 5th March, 2021
Brief position description: Key responsibilities include:
- Provide collaborative analysis support to SAGC clients with bioinformatics components of their projects.
- Develop efficient analysis and data integration strategies for projects involving multiple omics approaches and techniques, including genomics, transcriptomics, epigenomics, metagenomics, metabolomics and proteomics.
- Lead or assist with drafting publications and scientific reports relating to the projects across academic, industry and government areas.
- Contribute to development of competitive funding applications.
Job website: http://www.seek.com.au/job/51434189
Contact name: Jimmy Breen
Contact email: jimmy.breen@sahmri.com
Bioinformatician (Proteomics) in Computational Functional Genomics @ NSW
Position title: Bioinformatician (Proteomics) in Computational Functional Genomics
Employer: Children's Medical Research Institute
Closing date: 1st March 2021
Brief position description: We are seeking a qualified Bioinformatician / Data Scientist to join the Functional Genomics program with a focus on proteomics. This role will involve supporting researchers from the CMRI and collaborating institutions in the analysis of proteomics data of rare genetic diseases, cancers and disease modelling. The successful applicant will have opportunities to explore and interrogate a diverse range of data, including transcriptomics and proteomics data. Additionally, the successful applicant will work alongside highly experienced research data scientists/bioinformaticians.
Job website: https://www.cmrijeansforgenes.org.au/about/careers
Contact name: Patrick Tam
Contact email: ptam@cmri.org.au
Computational Biologist @ NSW
Position title: Computational Biologist
Employer: Garvan Institute of Medical Research
Closing date: 28/02/2021
Brief position description: The Garvan Institute of Medical Research brings together world-leading basic and translational researchers with expert clinicians to break down barriers between traditional scientific disciplines and find solutions to disease. Founded in 1963, Garvan’s mission is to harness all the information encoded in our genome to better diagnose, treat, predict and prevent disease.
Our scientists work across four intersecting research themes: medical genomics, epigenetics, and cellular genomics; diseases of immunity and inflammation; cancer; and diseases of ageing affecting bone, brain and metabolism. And three major Centres: the Kinghorn Centre for Clinical Genomics, the Garvan-Weizmann Centre for Cellular Genomics, and the Centre for Population Genomics.
The Kinghorn Centre for Clinical Genomics (KCCG) advances the use of genomic information in patient care. KCCG acts as a mechanism to translate genomic research information into patient care. To do this KCCG employs experts in genomics including researchers, bioinformaticians, clinicians, educators and software engineers. We use and develop multi-omics based technology to enhance diagnosis and treatment for patients.
The Opportunity
KCCG's Computational Biology Group is a newly established group focusing on genomics and biomedical data analysis, combining computational skills with biological domain expertise. The group applies and develops computational methods to better understand human disease. We take a collaborative approach, working closely with experimental researchers to tackle problems that address critical unmet medical needs.
We have multiple positions for computational scientists at different levels who are looking for an opportunity to establish themselves in a new team. Successful candidates will work on genomics studies with experimental researchers across research themes at Garvan and KCCG. Example projects from Cancer Genomics include liquid biopsy analyses to monitor cancer patients, single-cell analyses of clinical trial samples, genomics study of patients with an unusual response to therapy to understand underlying molecular mechanisms. Successful candidates will contribute to the different phases of genomics studies, including design and planning, data analysis, interpretation and manuscript writing.
Key Responsibilities
This position will be responsible for helping to provide direction and support in genomics studies. This will include:
Analysis of high-throughput datasets, including quality control, unsupervised and supervised analyses, with an emphasis on biological interpretation
Preparing figures for publication, contributing to manuscript writing
Experimental design and planning
Creating and maintaining modular, reusable and reproducible workflows through use of container and workflow management technologies
Developing best practices for computational workflows through evaluation/benchmarking of existing methods and/or original method development
Import and analysis of external datasets as resource or for validation purposes
Staying abreast on advances in genomics, computational methods, as well as building and maintaining biological domain expertise
Contribute to internal education programs through mentoring, technical supervision, code reviews
Occasionally represent KCCG at events, or talks with external stakeholders
About You
The following key skills and attributes are essential to undertaking the role:
PhD degree in a related area of science or engineering
Good knowledge of biology
Good statistical knowledge and programming skills
Previous experience working with next-generation sequencing data, e.g. RNA-seq, targeted or whole genome sequencing, ChIP-seq, ATAC-seq, single-cell sequencing
Publication record commensurate with experience
Comfortable working with Unix and in an HPC environment
Proficient in at least one scripting language (R, Python, Perl)
Familiar with version control systems
Highly developed written and verbal communications skills
Project management skills
Able to work independently
Desired
Postdoctoral research experience
Interest in biomedical data science, including statistical, machine learning, and visualisation methods
Interest in personalised medicine and clinical genomics
Experience with R/Bioconductor
Experience working with single-cell sequencing data
Experience with software containers, workflow management systems, databases, cloud computing
How to Apply
Australian/NZ citizen, permanent resident or other applicants with full working rights can only apply. To apply for this position, please submit your application including CV and cover letter addressing the above criteria. As we will be reviewing applications as they are received, we encourage you to submit yours as soon as possible.
Job website: http://garvan.wd3.myworkdayjobs.com/en-US/garvan_institute/job/Sydney/Computational-Biologist_PRF5804-1
Contact name: Michelle Earle
Contact email: m.earle@garvan.org.au
Research Officer, Computational Cancer Biology and Bioinformatics @ Melbourne
Position title: Research Officer, Computational Cancer Biology and Bioinformatics
Employer: Walter and Eliza Hall Institute of Medical Research
Closing date: Feb 1, 2021, 5:00pm
Brief position description:
An exciting new opportunity exists for a talented bioinformatics researcher to join the Davis Laboratory in the Bioinformatics Division at WEHI.
The position will involve the development of new research methods in computational cancer biology involving the analysis of data from newly emerging technologies such as spatial transcriptomics and spatial proteomics. This position will present ample opportunities to participate in active collaborative research projects across Australia. The successful candidate will also have the opportunity to supervise post-graduate students and participate in the development of new research directions and projects.
The Davis Laboratory applies mathematical, statistical, and computational approaches to drive new cancer discoveries using a combination of large, heterogeneous datasets and targeted experimental data. A major focus of their work is reconstruction of mechanisms of regulation involved in cancer progression and metastasis as well as response to therapy and development of resistance. This is a highly multi-disciplinary research laboratory, and post-doctoral staff and students come from a variety of backgrounds, including statistics, mathematical biology, bioengineering, computer science and genetics.
A position description is available here.
Selection Criteria
Personal qualities
Excellent attention to detail, ensuring that data analysis, new methods and software implementations are of high-quality and accessible to other researchers
Highly collaborative with excellent communication skills and the ability to work constructively in a team environment
Ability to manage time effectively and be reliable and approachable
A passion to work at the intersection of computational research, bioinformatics and biomedical research
Knowledge and skills
A PhD in a relevant discipline such as bioinformatics, computational biology, computer science, statistics, mathematics, physics or biology with strong and demonstrated computational skills
Strong programming and data analysis skills, and a knowledge of the R and/or python programming language(s)
Experience applying analytical and computational skills to large, complex data, including gene expression, proteomics and clinical data
Excellent time management, writing and communication skills.
Knowledge or understanding of cancer biology would be highly regarded
An excellent academic record and achievements
Demonstrated ability and potential for excellence and productivity in research
Research experience that has resulted in publications, conference papers or reports, or an excellent PhD thesis.
Terms of appointment
The position will be for 2 years in a full-time capacity. Salary is Academic Level A6-A8 ($90,053-$96,661). Up to 17% superannuation and very attractive salary packaging options are available.
How to apply
General enquiries can be directed to Melissa Davis; davis.m@wehi.edu.au
Please email your application including cover letter, CV and a letter addressing the key selection criteria in pdf format to jobapplications@wehi.edu.au, quoting the reference WEHIDAMD211220
Job website: www.wehi.edu.au/research-officer-computational-cancer-biology-and-bioinformatics
Contact name: Melissa Davis
Contact email: davis.m@wehi.edu.au