Bioinformatics Cloud Engineer

Employer: Microba

Closing date: Until filled

Brief position description: Microba is a new biotech company based in Brisbane providing the world's most accurate gut microbiome testing service direct to the public. We are a diverse skill set team of scientists, commercialisation experts, health practitioners, software developers, marketers and legal experts with a common goal to improve lives through a deeper understanding of the gut microbiome.

Microba is seeking a motivated Cloud Engineer to join the dynamic and hard-working bioinformatics and development teams. We transform trillions of raw DNA sequences into information representing communities of microorganisms living within people. The problems we tackle are challenging, fascinating, and at the forefront of science and IT technology, all within a commercial environment. As a rapidly expanding company, this is a greenfield role, and there is excellent scope for stamping your mark on our platform. 

We are seeking a highly motivated, systematic individual with a positive approach to challenges. You will provide robust and skilled Linux VM and file server system administration, and also take the lead within the group to optimise our cloud infrastructure, data pipelines and disaster recovery systems. You will also have an interest in development, and ideally, an interest in bioinformatics. You are passionate about learning new technologies, then implementing and maintaining these within our environment.

This position offers competitive remuneration and an opportunity to participate in the Employee Share Option Plan. 

Essential skills and experience:

- Expert Linux system administration (Ubuntu), file servers (NFS, Samba), networking, troubleshooting issues.
- Expert cloud optimisation (scale sets, VM load balancing, queuing systems eg RabbitMQ etc)
- Scripting skills (bash, python)
- Highly capable communicator and team player. Understands complex tasks and implements solutions fit for purpose.

Desirable skills and experience:

- Experience with bioinformatic tool sets, especially for whole genome sequencing.
- Dev ops experience with one or more cloud platforms (ideally Microsoft Azure and AWS), as well as automation tools eg. Chef, Puppet etc
- Experience with Docker.
- Further programming experience (eg java, C, web), with a desire to assist to development as time permits
- Efficiency/cost management cloud expertise

Job website: http://www.microba.com

Contact name: David Wood

Contact email: david.wood@microba.com

Senior Scientific Officer, Sydney

Employer: UTS

Closing date: 14 June 2018

Brief position description: A degree in a relevant area such as computing or engineering
Advanced knowledge in the use/application of Python, Arduino, and at least one other programming (eg C, C++, JavaScript, R, Matlab, Perl, or Java) 
Knowledge of software development principles and tools, including demonstrated facility with test frameworks, continuous integration, version control as well as code-level and user documentation.
Capacity to develop knowledge and understanding of high level data management, storage and archiving requirements for C3 that will conform with UTS and external repository protocols. 
Some knowledge of database and web interfaces (such as MySQL, WAMP server, PHP, Apache.NET, THREDDS and OpenDAP).
Knowledge of and experience with Arduino (or similar) microcontrollers and digital communication (e.g. I2C, CAN, SPI, RS-232, or ModBus)
Capacity to develop knowledge of data integration methods, satellite data products and processing tools, visualisation tools and data mining concepts.
Experience designing software/scripts to meet specifications provided by the eventual users
Experience with embedded system programming to read sensor data
Experience with High Performance Computing in a UNIX/Linux environment and managing the data generated

Job website: https://recruitment.uts.edu.au/OA_HTML/OA.jsp?OAFunc=IRC_VIS_VAC_DISPLAY&p_svid=108386&p_spid=3258664

Contact name: Catriona Reid

Contact email: Catriona.reid@uts.edu.au

Post-doctoral Researcher in Bioinformatics and Systems Immunology, Sydney

Employer: UNSW Sydney

Closing date: 15/07/2018

Brief position description: This is an exciting opportunity for junior/midcareer postdocs that wish to pursue an academics career in interdisciplinary environment and work on single cell multi-omics in immunology and virology. We are seeking talented researchers with a background in quantitative disciplines to join an interdisciplinary and vibrant research group at Kirby Institute, University of New South Wales, Sydney Australia.

Job website: http://external-careers.jobs.unsw.edu.au/cw/en/job/492618/postdoctoral-researcher

Contact name: Fabio Luciani

Research assistant in Bioinformatics, Sydney

Employer: UNSW Sydney

Closing date: 30/05/2018

Brief position description: The primary purpose of the Bioinformatician position is to assist in analysing next generation sequencing data via established computational pipelines, as part of the research program in the Viral Immunology Systems Program. These pipelines include viral sequencing analysis and single cell RNAseq

Job website:http://external-careers.jobs.unsw.edu.au/cw/en/job/492632/research-assistant-dry-lab

Contact name: Fabio Luciani

Contact email: luciani@unsw.edu.au

 

Software Developer

Employer: CSL Limited

Closing date: 20 May 2018

Brief position description: We are looking for a Scientific Software Developer within CSL Research. This position offers a unique opportunity to lead, promote, and shape scientific software development. You will work closely with scientists to implement software workflows and pipelines in order to process and organize large-scale datasets that are generated in-house and/or collected from public databases. Liaise with the IT organisation to administer the expansion of the newly established HPC platform and implement software applications that lead to the standardization of data processing, data formats and visualization activities across Research globally.

Job website: https://www.seek.com.au/job/36038812

Senior Research Statistician

Employer: CSL Limited

Closing date: 21 May 2018

Brief position description: In this role you will provide statistical input towards experimental designs, statistical analyses, interpretation and reporting of research studies, in order to ensure efficient use of resources as well as robust conclusions and deliveries following regulatory requirements and guidelines. Oversee statistical design and analysis routines in experiments that translate development strategies into plans to support product development objectives, including process control and validation strategies. Provide statistical advice for contacts with regulatory agencies for pre-clinical R&D related issues, eg in animal ethics applications. Contribute statistical input for regulatory filings for product approvals, for on-market support, and for scientific publications. Coordinate with other data analysis/computational experts (Data managers, Bioinformatics, PK/PD/Pharmacometrics etc.) both in house and externally, to ensure that CSL R&D is current and compliant in statistical methods. Provide statistical oversight for Research and Product Development Departments, and lead our small team of statisticians and data managers. Deliver statistics training of staff in R&D, and keep raising and maintaining basic competence around the scientific data analysis thought process as well as in the use of standard platforms (eg Prism, R and our in-house Electronic Lab Notebook).

Job website: https://www.seek.com.au/job/36115838

PhD position in bioinformatics

Employer: University of Technology Sydney

Closing date: Open until filled

Brief position description: Project description:
We are looking for a talented PhD student to develop methods for real-time analysis of bacterial and viral outbreaks. The project will be part of a larger effort with international collaborators in the UK and USA that aims to develop methods that efficiently and accurately analyse data streams being generated by laboratories around the world. The project will provide the student experience in statistical modeling, programming, bioinformatics, and evolutionary biology.

Requirements:
Undergraduate or postgraduate degree in bioinformatics, computer science, statistics, engineering or a related quantitative field.

Knowledge and skills to be developed:
- Bayesian statistics
- Phylogenetics and evolutionary biology
- Software development in R, Python, Java, C or C++
- Production software engineering
- Linux command-line, HPC and cloud computing
- Excellent written and oral communication skills

Project supervisors:
Associate Professor Aaron Darling and Dr. Mathieu Fourment

Research environment:
This role is within the ithree institute in the Faculty of Science, one of the largest faculties at UTS, which is Australia's top ranked young university, with a particular focus on research translation. The ithree institute brings together a team of scientists with diverse skill sets who collectively address key challenges in the understanding and control of infectious diseases in humans and animals.

Commencement date:
Applicants would be expected to commence studies in the Spring 2018 or Autumn 2019 terms (August 2018 or March 2019).

Contact:
Informal enquiries can be sent to aaron.darling@uts.edu.au or mathieu.fourment@uts.edu.au

Job website: http://darlinglab.org

Contact name: Mathieu Fourment

Contact email: mathieu.fourment@uts.edu.au

Bioinformatician - Software Developer (Part Time)

Employer: James Cook University

Closing date: 6 May 2018

Brief position description: The department of molecular and cell biology at James Cook University is seeking to appoint a bioinformatician to work on a human cancer genetics project in collaboration with a clinical genetics group in Brisbane. The appointee will take responsibility for development and implementation of a best practice computational software infrastructure for the analysis of patient sequence information. The initial goal will be to mirror the infrastructure already in operation in Brisbane but it is expected that
the appointee will interact with research teams and clinicians to identify opportunities for expansion and improvement. The goal of the system developed will be to perform variant identification in human sequence data with the output utilized for personalized medicine within the Townsville hospital. The position is funded for 18 months at half time.

To view selection criteria for this position and submit an application please visit https://www.jcu.edu.au/careers-at-jcu/vacancies and look for vacancy number 16347 . Applications are due at Midnight 6 May 2018

Job website: http://www.jcu.edu.au/careers-at-jcu/vacancies

Contact name: Ira Cooke

Contact email: ira.cooke@jcu.edu.au

Bioinformatics and Computational Biology Lead

Employer: Pharmalytics

Closing date: 16th May 2018

Brief position description: Are you intrigued by the advances in big data in healthcare? Are you excited by the opportunity to develop a company’s technological backbone from the ground up? If so, we can’t wait to hear from you. Our start-up company needs a Computational /Bioinformatics specialist CTO who can provide technical leadership to develop a novel algorithm which will the first of its kind here in Australia!
If this sounds of interest to you, we would love to hear from you

Job website:

Contact name: Doron Nadler

Contact email: nadlerdoron@gmail.com

Employer: Pharmalytics

Closing date: 16th May 2018

Brief position description: Are you intrigued by the advances in big data in healthcare? Are you excited by the opportunity to develop a company’s technological backbone from the ground up? If so, we can’t wait to hear from you. Our start-up company needs a Computational /Bioinformatics specialist CTO who can provide technical leadership to develop a novel algorithm which will the first of its kind here in Australia!
If this sounds of interest to you, we would love to hear from you

Contact name: Doron Nadler

Contact email: nadlerdoron@gmail.com

 

Computational Biology Group Leader

Employer: Children's Cancer Institute

Closing date: 01/09/2018 

Brief position description: • Innovative, collaborative and positive team-orientated environment
• Modern, world-class facilities
• Convenient Randwick location, close to transport

Children’s Cancer Institute is the only medical research institute in Australia wholly dedicated to curing childhood cancer and one of the leading medical childhood cancer research institutes worldwide. Our vision is to save the lives of all children with cancer and improve their long-term health, we don’t just hope to do it, we will do it; and we’re looking for the brightest minds to help us get there. Children’s Cancer Institute provides the best possible environment for our staff thrive with state-of-the-art facilities at the Lowy Cancer Research Centre, UNSW Australia – one of the leading cancer research centres in the world. 


We are leading the national Zero Childhood Cancer personalised medicine program for children with the most aggressive cancers, in partnership with the Sydney Children’s Hospitals Network. Zero Childhood Cancer is the most exciting childhood cancer research initiative ever undertaken in Australia and is a world-leading initiative www.zerochildhoodcancer.org.au. 


Children’s Cancer Institute is seeking an ambitious, driven rising star to establish and lead a world class and innovative program in child cancer computational biology on a Full-time fixed-term contract for approximately 5 years with great prospects for extension. You will harness the power of our Zero Childhood Cancer national child cancer personalised medicine program to develop an expanding program involving computational biology approaches to understanding child cancer biology with the goal of translating this knowledge into improved treatment for children with cancer and other rare diseases. 


The data that will be generated by the Zero Childhood Cancer program will be a globally unique resource, providing opportunities to explore paediatric cancers in greater depth than ever before. The ability to analyse and mine these data is a core component of the Institute’s ultimate goal, which is to improve the clinical outcomes for children with cancer and their families. With an expected 400 patients to be enrolled on the program, the Institute must be in a position to engage with, explore, and link data, to invent solutions for the future, to generate new knowledge and new connections, driving further basic and translational research in the context of an expanding child cancer precision medicine program and associated research projects and programs across the institute. In addition, working with our clinical and research partners in child health research and clinical care across Sydney, there will be opportunities to access additional data sets in other rare diseases of childhood. 


You are a senior computational biologist who is motivated to build a strong research team undertaking world class research and will embed computational biology expertise throughout all research programs at the institute. In order to be able to analyse and interpret the vast amounts of data that will be yielded by this and other world class Programs housed at Children’s Cancer Institute, it will be essential that you have the skills and expertise to lead the computational analysis and methods development that will leverage and maximise the outputs of the high dimensional multi-‘omics, biological, and clinical data sets. These include Whole Genome Sequencing (WGS), whole transcriptome (RNASeq), single cell and spatial transcriptomics, ctDNA and CTC, proteomics, in vitro high content imaging high throughput drug screening, drug efficacy testing in patient derived xenografts, and drug response prediction. 

There will be strong emphasis on the translation of research in to potential clinical application which will facilitate:
• Prospective research
• Enabling point of care applications
• Focus on clinically / medically relevant problem solving
• Developing efficient, scalable, cloud-based algorithms for clinically robust data analysis, and archiving and housing of data knowledgebase
• Developing the building blocks for ‘omics literate workforce of the future, creating a nimble, diverse centre for education, training, and mentorship, to co-create knowledge, and improve knowledge transfer and mobilisation

Supported by a team including a Head of Research Computing, software engineer, postdoctoral researchers, and graduate students, you will be expected to take leadership of exciting research questions we are actively pursuing in the domains of exploring relationships between omics and biological profiles and individual responses or resistance to existing and novel therapeutics, better understanding the impact of inherited cancer risk, single cell analysis to study tumour heterogeneity and microenvironment, and the impact it has on treatment response, and liquid biopsy solid tumour minimal residual disease. You will be experienced in attracting ongoing independent research funding in to the future to ensure sustainability of your group long term, and demonstrate excellent open, transparent communication and relationship management skills to nurture existing collaborations and pursue new ones globally to leverage and contribute to child cancer data sets internationally.

Children’s Cancer Institute is strongly committed to the growth of their employees, so all team members can fulfil their aspirations. You'll be rewarded with a friendly and professional flexible work environment, comprehensive on-campus facilities, competitive salary, salary packaging options, on-site parking options, access to a leading EAP program and regular social activities. Join a group of dedicated people in a performance-driven environment to achieve success and discover what it's like to look forward to coming to work every day and make a real difference. We're looking for people who share our values of accountability, integrity and camaraderie, teamwork, sharing and excellence, success and satisfaction. 


This is an exciting opportunity for a highly motivated rising star to form the backbone of Australia’s first computational paediatric oncology group, which will give Australia an international leadership position in this exciting new field. A detailed job description and additional information about Children's Cancer Institute can be found on our website at: www.childrenscancerinstitute.org.au. We embrace diversity and encourage applications from people from diverse backgrounds and cultures. 

To apply, please apply though our website: https://ccia.org.au/home/join-us/job-vacancies/ and forward both your resume AND cover letter clearly addressing the qualifications, experience and skills required. Note: Applications will be reviewed prior to the closing date; which is dependent on the status of the recruitment process. For any advertisement related queries, please contact Vanessa Tyrrell, Personalised Medicine Program Leader at VTyrrell@ccia.org.au or on +61 (02) 9385 1302. Otherwise contact Recruitment at Recruitment@ccia.org.au or on +61 (02) 9385 1660. 

Job website: https://ccia.org.au/home/join-us/job-vacancies/

Contact name: Lindsay Kilgour

Contact email: Recruitment@ccia.org.au