Research Assistant / Research Associate / Research Fellow @ SA

Position title: Research Assistant / Research Associate / Research Fellow

Employer: University of South Australia

Closing date: Sunday 29 January 2023

Brief position description: Research Level ARA / ARAS

The Research Assistant / Research Associate will contribute to bioinformatics support for the neuroblastoma-related MRFF-funded projects carried out by the Cell Signalling Laboratory, Neurovascular Research Laboratory and Gene Regulation Section of the Centre for Cancer Biology (CCB), the Tissue Architecture and Organ Function Laboratory and other CCB projects as appropriate. 

Research Level BRF

The Research Fellow will implement and conduct high quality bioinformatics research and report on research outcomes in line with research goals and milestones of the Centre for Cancer Biology, facilitating collaboration and translation of research findings.

Job website: https://workingatunisa.nga.net.au/cp/index.cfm?event=jobs.checkJobDetailsNewApplication&returnToEvent=jobs.listJobs&jobid=77A7B78C-739A-C7BE-A6AF-C91D691D0740&CurATC=External&CurBID=62AFB35D%2D9273%2D4A11%2D8DCC%2D9DB401354197&JobListID=22fc4f47%2De994%2D46a3%2Db8c9%2D9bc901269f43&jobsListKey=5c05790e%2D290f%2D4eca%2D80ca%2D1fa17944a724&persistVariables=CurATC,CurBID,JobListID,jobsListKey,JobID&lid=37083460088

Contact name: Greg Goodall

Contact email: greg.goodall@unisa.edu.au

Software Engineer / Bioinformatician

Position title: Software Engineer / Bioinformatician

Employer: Microba Life Sciences

Closing date: Until Filled

Brief position description: Software engineer / production bioinformatician required for world-leading Brisbane-based microbiome company.

Microba’s vision is to improve human health with precision microbiome science. We are an awarded early/mid-stage Brisbane-based microbiome company. Microba offers services to consumers, health care practitioners, clinicians, academic and corporate clients. We conduct our own internal research programs and have microbiome derived therapeutic assets in preclinical development. Microba operate a multi-purpose laboratory with high throughput DNA sequencing and bacterial culturing capacity, a fully cloud-based scalable bioinformatics platform, advanced AI/ML analytics, purpose-built system logistics and process automation. We are a diverse multidisciplinary team motived by challenging problems at the forefront of microbiome science, genomics, product development and drug discovery. Microba is principled in scientific rigour and follows good scientific, engineering and quality processes.

We are seeking an enthusiastic and talented software engineer / production bioinformatician. You will be responsible for development, operation and maintenance of our bioinformatics platform. This includes all stages of the agile software development lifecycle as well as operation of the platform to deliver data and results across a wide range of commercial and clinical products within defined turn-around times. This role can be tailored to your skills and experience. The role is 2/3 software engineering and 1/3 production bioinformatics. This is a rare opportunity to apply your skills to an innovative platform that is delivering genomics-based technologies.

Skills and Qualifications
1. Highly motivated, excellent communicator and team player
2. High attention to detail and perseverance to solve problems
3. Intermediate to advanced software engineering skills in Python and/or Java
4. Intermediate to advanced unit-testing experience
5. Intermediate to advanced Linux skills (shell)
6. Basic to intermediate expertise with cloud (GCP/AWS)
7. Good understanding of Docker and containerized applications (i.e. Kubernetes)
8. Experience with API development using Java / Spring boot a bonus
9. Basic to advanced bioinformatics (genome informatics) experience
10. Understanding of core molecular biology concepts within microbial genomics and microbial ecology a bonus

Key activities/duties
1. Scope and design data processing and automation software
2. Develop new software, ensuring extensive unit-test coverage
3. Follow coding conventions and version-control practices
4. Implement new features/bug fixes to existing software
5. Participate in code reviews for other team members
6. Operate the bioinformatics platform within a small team to process metagenomics and other genomic data into results for reporting and product services and delivery (bioinformatics production / services)
7. Productionise scientific / bioinformatics software into workflows
8. Participate in stand-ups, scoping, planning and refining sessions
9. Identify and implement improvements, both software and bioinformatic related

Microba values diversity, inclusion, our team culture, professional and personal development, and our company vision. We promote a fast-paced, fun, and productive culture, the team enjoys working hard to achieve our ambitious goals and celebrating our wins. Some perks of working for Microba include:
• Work from home policy for two days a week, if desired
• Weekly PT and pilates sessions, if desired
• Regular complimentary gut microbiome testing, if desired
• All you can drink kombucha, fresh fruit etc in the office
• Participation in the Microba Employee Share Scheme

This is a full-time position commencing immediately and will remain open until filled. Please reach out to David Wood to discuss further.

Job website: http://microba.com/

Contact name: David Wood

Contact email: david.wood@microba.com

Senior Software Engineer

Position title: Senior Software Engineer

Employer: Centre for Population Genomics

Closing date: Until filled

Brief position description: The Centre for Population Genomics is looking for a Senior Software Engineer. You will be responsible for leading the production workflows group within the software team, focussing on designing and implementing large scale genomic analysis methods (using and extending frameworks like Hail) that feed into web-based tools (like the gnomAD browser or seqr) for providing intuitive access to complex scientific datasets.

This role will be a part of a small, high-energy software engineering team that will work in close collaboration with the Centre’s genomic analysis teams. You will lead the group that develops the workflow framework and infrastructure that’s used continuously by the Centre’s core pipelines used for large cohort and rare disease analysis, iterating with the computational biologists and population geneticists in the analysis teams on the productionization of their analysis methods.

All software developed by the Centre will be open-source and designed using best practices to ensure widespread use by the wider scientific community, and rapid translation into impact on human biology and medicine. You will work in an environment that combines the intellectual freedom and collaboration of academia with rigorous, open software development practices. To make sure our solutions prove useful for the wider genomics community, we’ll be working closely with partners like the Broad Institute.

The role comes with a competitive base salary, salary packaging benefits, and full flexibility to work remotely. This is a four-year full-time role with high possibility to extend.

Job website: http://populationgenomics.org.au/careers

Contact name: Leonhard Gruenschloss

Contact email: careers@populationgenomics.org.au

Centre for Population Genomics

Position title: Computational Biologist (Population Analysis)

Employer: Centre for Population Genomics

Closing date: Until filled

Brief position description: We are seeking a Computational Biologist to process and analyse large-scale population genomic datasets using cloud-based pipelines. You will be part of a team responsible for aggregating public resources with data generated through new sequencing projects to create a novel resource for human genetics that reflects the remarkable population diversity of Australia. Initially this role will involve contributing to the development of cloud-based analysis pipelines for performing tasks such as variant calling, quality control and ancestry inference, and then using these pipelines to build a gnomAD-like resource.

Job website: http://populationgenomics.org.au/careers

Contact name: Katie de Lange

Contact email: careers@populationgenomics.org.au

Computational Biologist (Rare Disease)

Position title: Computational Biologist (Rare Disease)

Employer: Centre for Population Genomics

Closing date: Until filled

Brief position description: We are seeking a Computational Biologist to contribute to the development of novel analysis pipelines to interrogate genome, RNA-seq, long read data from rare disease patients and their family members, with the goal of improving the diagnosis of severe genetic diseases. This will require the development of novel analysis approaches and rigorous benchmarking of existing approaches. This role will involve working closely with CPG analysts and rare disease reseachers from accross Australia to enable patient diagnosis. The role will also require close coordination with the CPG software engineering team to ensure the method developed can be integrated into our scalable cloud-based production pipelines.

Job website: http://populationgenomics.org.au/careers/

Contact name: Cas Simons

Contact email: careers@populationgenomics.org.au

Statistical Geneticist

Position title: Statistical Geneticist

Employer: Centre for Population Genomics

Closing date: Until filled

Brief position description: We are seeking a Statistician or Statistical Geneticist to contribute to the development and deployment of novel methods to perform robust, efficient analysis of large-scale genomic datasets. This will include partnering closely with trainees, computational biologists, bioinformaticians and software developers from across the Centre for Population Genomics to consult on existing methods, contribute to the development of novel solutions, and scale prototypes into cloud computing pipelines suitable for processing data at scale. Examples of initial focus areas include the evaluation and implementation of local ancestry methods and/or other approaches to more accurately represent data from highly diverse and admixed populations, and the development of statistically robust methods to jointly analyse rare and complex variation from whole genome sequences in conjunction with single-cell RNA sequencing data from thousands of individuals.

Job website: http://populationgenomics.org.au/careers

Contact name: Katie de Lange

Contact email: careers@populationgenomics.org.au

Genomic Data Coordinator

Position title: Genomic Data Coordinator

Employer: Centre for Population Genomics

Closing date: Until filled

Brief position description: We are seeking a Genomic Data Coordinator to contribute to the ingestion and management of large genomic data sets. The Genomic Data Coordinator will become an integral member of a highly collaborative team, of research staff, software engineers, and project managers focused on understanding the causes of rare genetic disorders. This individual will be directly responsible for coordinating and undertaking the ingestion of large genomic datasets into the CPG. The role requires a combination of both strong communication skills needed to engage with stakeholders and the technical competency required to handle large genomic data sets and initiate data analysis using established production pipelines.

Job website: http://populationgenomics.org.au/careers

Contact name: Cas Simons

Contact email: careers@populationgenomics.org.au

Bioinformatician

Position title: Bioinformatician

Employer: Centre for Population Genomics

Closing date: Until filled

Brief position description: We are seeking a Bioinformatician to help drive the development of cloud-based analysis pipelines for large-scale genomic datasets, both through the scaling-up of existing tools and the implementation of novel analytical methods as open-source software solutions. Initially this role will involve the extension of pipelines for processing sequencing data from thousands of individuals, leveraging tools like hail to perform efficient read alignment, variant calling and quality control. Additional focus areas could include the implementation of local ancestry methods and/or other approaches to more accurately represent data from highly diverse and admixed populations, and the scaling up of novel methods to jointly analyse rare and complex variation from whole genome sequences in conjunction with single-cell RNA sequencing data from thousands of individuals.

Job website: http://populationgenomics.org.au/careers

Contact name: Katie de Lange

Contact email: careers@populationgenomics.org.au

Full-Stack Software Engineer

Position title: Full-Stack Software Engineer

Employer: Centre for Population Genomics

Closing date: Until filled

Brief position description: The Centre for Population Genomics is looking for a Full-Stack Software Engineer. You’ll be responsible for designing and implementing large scale genomic analysis methods (using and extending frameworks like Hail) in conjunction with web-based tools (like the gnomAD browser or seqr) for providing intuitive access to complex scientific datasets.

This role will be a part of a small, high-energy software engineering team that will work in close collaboration with the Centre’s genomic analysis teams. The latter will consist of computational biologists and population geneticists, who will iterate with you on analysis methods, tools, interfaces, and visualizations. There will be a huge opportunity to work on projects across the full stack, as the infrastructure, tools, and workflows you’ll develop will drive both the frontend and backend requirements.

All software developed by the Centre will be open-source and designed using best practices to ensure widespread use by the wider scientific community, and rapid translation into impact on human biology and medicine. You will work in an environment that combines the intellectual freedom and collaboration of academia with rigorous, open software development practices. To make sure our solutions prove useful for the wider genomics community, we’ll be working closely with partners like the Broad Institute.

The role comes with a competitive base salary, salary packaging benefits, and full flexibility to work remotely. This is a four-year full-time role with high possibility to extend.

Job website: http://populationgenomics.org.au/careers

Contact name: Leonhard Gruenschloss

Contact email: careers@populationgenomics.org.au

Post Doctoral Research Officer - Bioinformatics @ VIC

Position title: Post Doctoral Research Officer - Bioinformatics

Employer: St Vincent's Institute of Medical Research

Closing date: 30 November 2022

Brief position description: The DNA Repair and Recombination Laboratory is an established research group at SVI, focused on understanding the genetic control of DNA repair and recombination and the role that these processes play in inheritance and oncofertility. You will bring your skills as a bioinformatician and will work closely with wetlab researchers in the same team for all experimental stages from planning through to data analysis. You will be a self-motivated researcher with a PhD, first author publications and strengths in bioinformatics, genomics and/or digital image analysis, statistics, computation, and reproducible analyses. The role will be a mixture of semi-autonomous research and providing support as required to the wetlab part of the team. You may have the opportunity to develop your own research projects by negotiation.

To address our biological questions, we use a number of tools that produce large datasets which includes: histological and immunofluorescence microscopy, bulk high-throughput sequencing of genomic DNA, single-cell sequencing of genomic DNA, whole animal phenotyping from pedigrees, and other cell-based phenotypic datasets. The team is specifically interested in performing discovery research and identifying and characterizing phenotypes which in turn improves our understanding of our biological interests.

Having a diverse workforce that represents the global and Australian community is very important to our team and we actively encourage applications from Aboriginal and Torres Strait Islanders, people with disabilities, from culturally and linguistically diverse backgrounds, LGBTQIA+ people, and all genders.

NHMRC-funded Position
We are seeking a self-motivated and passionate bioinformatics postdoc to join the DNA Repair and Recombination Laboratory team headed by Associate Professor Wayne Crismani. This role involves:

Performing exploratory data analysis in the areas of genetics and image analysis
Exploratory data analyses should produce hypotheses which can be tested
Advising wet lab scientists on data practices
Wrangling high throughput screening datasets
Package development where appropriate

Essential selection criteria:
Enthusiasm for science is a must
PhD in a computational discipline and demonstrable experience bioinformatics, genomics and genetics.
Proficiency in computer programming and scripting in one or more of the following languages: R, Python, C++, Go, Nim, Rust, Java, Perl, SQL.

If you would like to read more about this position and find application instructions please visit our website:
https://www.svi.edu.au/careers_students/careers/current_vacancies/#Post%20Doctoral%20Research%20Officer%20-%20Bioinformatics

Job website:https://www.svi.edu.au/careers_students/careers/current_vacancies/#Post%20Doctoral%20Research%20Officer%20-%20Bioinformatics

Contact name: Wayne Crismani

Contact email: wcrismani@svi.edu.au