Software Engineer - Vaccine Design

Employer: CSIRO

Closing date: 29 October 2023, 11:00 pm AEDT

Brief position description: 

Acknowledgement of Country
CSIRO acknowledges the Traditional Owners of the land, sea and waters, of the area that we live and work on across Australia. We acknowledge their continuing connection to their culture and pay our respects to their Elders past and present. View our vision towards reconciliation

Child Safety
CSIRO is committed to the safety and wellbeing of all children and young people involved in our activities and programs. View our Child Safe Policy.

The Opportunity
Certified Amazon Web Services, Microsoft Azure and/or Google Cloud Platform user
Evidence of data analytics and programming – Python, Java, C++, Scala, BASH, R, Julia
Join CSIRO's AEHRC! A truly collaborative, flexible and inclusive workplace

The Australian e-health research centre (AEHRC) is CSIRO’s digital health research unit delivering innovation to the health system. It is the largest eHealth research group in Australia with more than 100 research scientists working with clinicians and industry to identify the clinical and/or health challenges. AEHRC is worldwide unique in covering the full value chain from basic science through to clinical application and assessing their impacts on Australian and international health systems.

As the Software Engineer Vaccine Design, you’ll join the Transformational Bioinformatics Group within AEHRC to develop novel bioinformatics solutions for research and industry using the latest technologies in cloud infrastructure and will be working closely with the external collaborators and stakeholders to design & architect modular bioinformatics design pipelines and standardised workflows, deployed on cloud computational and storage infrastructure.

You’ll be instrumental in bridging the gap between various bioinformatic pipelines and building a digital platform for designing RNA therapeutics, including vaccines, using cloud infrastructure, leading to the curated workflows which will enable rational modular designing and successive functional improvement of single or multi-component mRNA vaccine or therapeutic candidates. If you are fascinated in this area of research and contribute to novel bioinformatic solution, then do not hesitate to apply.

Your duties will include:
In collaboration with scientists, designing and implementing innovative cloud architecture to carry out impactful research and cater for the challenges in the health and life science domain (fast turn-around-time and large volumes of data).
Implementing ML solutions to biological research questions; Exploring novel ML methodological approaches to research questions.
Be knowledgeable about cloud services across multiple vendors (specifically AWS, Azure, GCP). 
Preparing appropriate documentation through repositories (e.g. bitbucket), project boards (e.g. trello), online communities (e.g. gist) and contributing to reports, scientific papers and blog posts.
Communicating openly, effectively and respectfully with all staff, clients and suppliers in the interests of good business practice, collaboration and enhancement of CSIRO’s reputation and a few other duties appropriate to the role.

Location: Open to any of these locations - Adelaide, SA; Canberra, ACT; Melbourne, VIC; Brisbane, QLD; Sydney, NSW

Salary: AU$105k – AU$114k plus up to 15.4% superannuation

Tenure: Specified term of up to 2 years

Reference: 93397

To be considered you will need:
A bachelor or master degree or equivalent relevant work experience in a relevant discipline area, such as Information Technology, Bioinformatics, Electrical Engineering, or Data Science.
Proven impact from developing solutions on public cloud infrastructure (AWS, Azure, GCP, Alibaba cloud) or advanced high-performance computing (HPC) with demonstrated software engineering practices (use of repositories, deployment standards, efficiency analysis).
Evidence of advanced data analytics and programming capabilities in more than one language relevant to bioinformatics (e.g. Python, Java, C++, Scala, BASH, R, Julia).
High-level written and oral communication skills with the ability to represent the research team effectively internally and externally, including the presentation of research outcomes at national and international conferences.
A sound history of publication in peer-reviewed journals and/or authorship of scientific papers, reports, grant applications or patents.
A record of scientific innovation and creativity, including the ability & willingness to incorporate novel ideas and approaches into scientific investigations.


For full details about this role please review the Position Description

Eligibility
Applications for this position are open to Australian/ New Zealand citizens and Australian permanent residents currently residing in Australia.
Appointment to this role is subject to the provision of a national police check and may be subject to other security/medical/character requirements.

Flexible Working Arrangements
We work flexibly at CSIRO, offering a range of options for how, when and where you work. 

Diversity and Inclusion
We are working hard to recruit people representing the diversity across our society, and ensure that all our people feel supported to do their best work and feel empowered to let their ideas flourish. 

About CSIRO
At CSIRO Australia's national science agency, we solve the greatest challenges through innovative science and technology. We put the safety and wellbeing of our people above all else and earn trust everywhere because we only deal in facts. We collaborate widely and generously and deliver solutions with real impact. 

CSIRO is committed to values-based leadership to inspire performance and unlock the potential of our people.

CSIRO is committed to the safety and wellbeing of all children and young people involved in our activities and programs, whether we are undertaking research, engaging with the public or nurturing future scientists in person or online. Source – CSIRO Child Safe policy 2023

Join us and start creating tomorrow today!

How to Apply
Please apply on-line and provide a cover letter and CV that best demonstrate your motivation and ability to meet the requirements of this role.

Job website: http://jobs.csiro.au/job-invite/93397/

Contact name: Shree Chattopadhyay

Contact email: careers.online@csiro.au

Ataxia Postdoc (bioinformatics) @ VIC

Employer: WEHI

Closing date: 25th October

Brief position description: The Bahlo lab is a computational biology and statistical genetics group that seeks to identify and understand genetic risk factors of human diseases, with a strong focus on neurological and retinal disorders. We leverage cutting-edge computational tools to analyse massive genomic datasets from local and international human disease cohorts to identify genetic variants associated with diseases, integrating these data with multi -omics data to gain biological understanding. Our multi-disciplinary research team collectively have expertise in many aspects of human genetics research, from rare variant analysis to GWAS studies. We have well established collaborations with molecular biologists and clinicians nationally and internationally with access to outstanding genomic cohorts.

We are seeking a highly motivated and self-directed Research Officer to join our research team focused on investigating the genetic basis of ataxia disorders in an Australian adult ataxia cohort. The position is funded by a successful Genomics Mission Medical Research Future Fund grant and continues our previously highly successful work which has led to several gene discoveries and improved diagnostics for ataxia patients.

The successful candidate will be supervised by Dr Haloom Rafehi and Prof. Melanie Bahlo and will collaborate closely with a multidisciplinary team of researchers, including bioinformaticians, molecular biologists and clinicians analysing genomic and other 'omic data from ataxia patient cohorts.

Job website: http://www.seek.com.au/job/70361914

Contact name: Haloom Rafehi

Contact email: rafehi.h@wehi.edu.au

Bioinformatics Research Officer @ VIC

Employer: The University of Melbourne - Doherty Institute

Closing date: 4 October 2023

Brief position description: The Computational Sciences Initiative (CSI) at the Peter Doherty Institute for Infection and Immunity is seeking a skilled Research Fellow to contribute to groundbreaking research under the guidance of Dr. Jan Schroeder. The institute's renowned work on infectious diseases and immunity, notably during the COVID-19 pandemic, underscores its dedication to impactful research. 

As a member of the CSI, the successful candidate will collaborate with diverse research teams, leading bioinformatics projects focused on infectious diseases and immunology. The role's emphasis on multi-omic data analysis, integration, and cutting-edge machine learning techniques offers a unique chance to drive scientific discoveries while contributing to innovative approaches in bioinformatics.

The responsibilities of the role include:

* Assisting the development of a strong program of collaborative research with other groups in the Doherty Institute in bioinformatics.
* Use best-practice pipelines for analysis of bulk, single cell and spatial multi-omic data generated by collaborators.
* Develop new methods and software packages for analysis of genomic, epigenomic, transcriptomic, proteomic and metabolomic sequence data where appropriate.
* Develop and apply machine learning approaches to analyse multi-omics datasets.

Please see the below link for more details, a position description and to apply.

Job website: http://jobs.unimelb.edu.au/en/job/913982/research-officer-bioinformatics

Contact name: Jan Schroeder

Contact email: jan.schroeder@unimelb.edu.au

Research Scientist (Bioinformatics / Computational biology) @ VIC

Employer: Agriculture Victoria

Closing date: 02/10/2023 (Midnight)

Brief position description: Agriculture Victoria Research is seeking to recruit an experienced Research Scientist for a Bioinformatics / Computational biology research position. This fulltime role will require a high level of analytical skills and knowledge, with extensive experience in bioinformatics or computational biology, especially in the analysis of high-throughput DNA sequencing data for metabarcoding and/or metagenomic identification of species. The position will support the research activities defined in the National Grains Diagnostics and Surveillance Initiative (NGDSI) - Grains Biosecurity Mission (GBM) which is co-funded by Grains Research and Development Corporation (GRDC). 

The position will be based at the AgriBio Centre, in Bundoora (Melbourne), in the Invertebrate and Weed Sciences group, which delivers research in integrated pest management, invertebrate diagnostics and surveillance, weed management and biological control of invertebrate pests and weeds. Many of the duties will require initiative and independent work. The applicant will have a good aptitude for working as part of a large multidisciplinary team, conducting a wide variety of work across the Microbial Sciences, Pests and Diseases unit.

Specialist/Technical Expertise/Qualifications:
• A PhD or equivalent in a relevant discipline including bioinformatics, computational biology, genomics

This is a fixed term position available for a period of 3 years. The work location for this position is Bundoora with hybrid work arrangements available.

To be considered for this position, applicants should respond to the key selection criteria and submit a resume. For further information please refer to position description on the job website.

Job website: http://careers.vic.gov.au/job/research-scientist-753645

Contact name: Alexander Piper

Contact email: alexander.piper@agriculture.vic.gov.au

Senior Scientist, Translational Bioinformatics @ VIC

Employer: CSL Limited

Closing date: 29th of September 2023

Brief position description: 
We have an opportunity available for a Senior Scientist, Translational Bioinformatics to join our Research Data Science team. In this newly created position, you will provide scientific and technical expertise to help answer biomedical research questions at the pre-clinical and clinical stage of drug development using advanced bioinformatics.

You will expand CSL’s R&D capability in Translational Bioinformatics in order to derive biological insights from large-scale multi-omic data available in public and commercial databases, as well as generated from in-house high-throughput sequencing and other omic experiments. These analyses will help answer questions in areas of key importance to CSL’s drug development pipeline, including asset positioning, biomarker discovery, understanding drug mechanisms of action, identifying new drug candidates, and patient stratification.

Reporting to the Senior Manager, Translational Bioinformatics, you will work closely with scientists within the Data Science Group, the Translational Science Group and other Research and Clinical Development groups to set project objectives and to determine and implement data generation, data analytics, and bioinformatics platform development strategies.

You will also work alongside CSL’s external collaborators including spending time in their research laboratories as required to enable alignment of objectives and bioinformatic strategies.

Your Skills & Experience:

PhD in bioinformatics, computational biology, computer science, or a related discipline, with significant computational and biomedical components.
3+ years of post-doctoral experience in biomedical data analytics in a highly collaborative, interdisciplinary environment in academia and/or industry with a focus on translational research.
Experience in analysing RNASeq datasets and working with life scientists to draw statistically solid biological insights from data.
Experience in genomic variant analysis on patient cohorts and/or utilizing genomic variant data from public databases to understand mechanism of action of targets, drug candidates or diseases and support translational biomarkers.
Experience in applying network biology and pathway analysis algorithms (using open source and/or commercial tools, e.g. IPA).
Experience in using public databases to answer key research questions related to experimental design, biomarker discovery and patient stratification (e.g., gene expression databases, clinical variants, etc.).
Experience in working in a Unix-like and high-performance computing (HPC) environment using Python, R and other scientific computing languages.
Apply now to join Australia’s leading biopharmaceutical company, committed to protecting public health!

Applications Close on 29th of September

Please include an up-to-date CV and Cover Letter addressing selection criteria.

About Us

Our Benefits

We encourage you to make your well-being a priority. It’s important and so are you. Learn more about how we care at CSL.

About CSL

CSL is a leading global biotechnology company with a dynamic portfolio of life-saving medicines, including those that treat haemophilia and immune deficiencies, as well as vaccines to prevent influenza. Since our start in 1916, we have been driven by our promise to save lives through innovation. Learn more about CSL.

We want CSL to reflect the world around us

As a global organisation with employees in 35+ countries, CSL embraces diversity, equity and inclusion. Learn more about Diversity, Equity & Inclusion at CSL.

Do work that matters at CSL!

Job website: http://csl.recsolu.com/jobs/mOcsxYVaimqryuNNf3-JTw/job_boards/rAD_La6OkYhQxVTHz3rLgA

Contact name: Arthur Hsu

Contact email: Arthur.Hsu@csl.com.au

Postdoctoral Fellow (Virology) @ NSW

Position title: Postdoctoral Fellow (Virology)

Employer: UNSW

Closing date: 20th September 2023 before 11.30pm

Brief position description: The Post-Doctoral Fellow will contribute to research projects within the UNSW-affiliated Virology Research Laboratory, based at the Prince of Wales Hospital. They will contribute to the NHMRC-funded investigation of the pregnancy and early life virome (population of all viruses infecting humans) dynamics and its potential contribution to chronic diseases (e.g., type 1 diabetes, coeliac disease, asthma and allergy).

The position will involve completing research tasks related to these projects, critically appraising genomic data through in-depth bioinformatics analyses, supervising research assistants and students, contributing to competitive research grants and preparing data for peer-review publication.

Employment Type: Full - time (35 hours a week) 
Duration: 1-Year Fixed Term contract (with possible 2-year extension)
Remuneration: Up to $106,337 p.a. (+17% super and leave loading)
Location: Prince of Wales Hospital, Randwick, NSW

Job website: https://external-careers.jobs.unsw.edu.au/cw/en/job/519215/postdoctoral-fellow-virology

Contact name: Merita O Connell

Contact email: merita.oconnell@unsw.edu.au

Postdoctoral Research Associate @ NSW

Position title: Postdoctoral Research Associate

Employer: The Westmead Insitute for Medical Research

Closing date: 28/09/2023

Brief position description: Precision health analytics is a substantial emerging opportunity for the health system especially when including data from omics technologies (genomics, transcriptomics, proteomics). A joint initiative between The Westmead Institute for Medical Research (WIMR), the Commonwealth Scientific and Industrial Research Organisation (CSIRO) and the Sydney Precision Data Science Centre at the University of Sydney (SPDS), seeks to evaluate statistical machine learning and artificial intelligence methodologies for use in precision omics analysis. We are currently seeking to appoint a Postdoctoral Research Associate to work on this project. The primary aims of the position are to assess the readiness of these analytical methodologies for clinical application and identify concrete commercialisation options.

The Postdoctoral Research Associate reports to Dr Ellis Patrick and is responsible for implementing, developing, and evaluating various analytical bioinformatics techniques for precision omics analysis. This role sits at the intersection of three highly collaborative working environments at WIMR, CSIRO and SPDS which contain internationally recognised researchers in statistics, machine learning and bioinformatics. Further, this role will work collaboratively with researchers with varied disease focused research interests within WIMR from the Centre for Cancer Research, Centre for Transplant and Renal Research and Division of Infection and Immunity. 

Major Responsibilities 

Key areas of responsibility include:

* Work with clinicians and research scientists to curate datasets from WIMR for constructing a robust an evaluation framework.
* Implement, augment, or develop CSIRO’s and other analytical technologies for precision omics applications.
* Evaluate the translational potential of these technologies for clinical application.


Essential Skills and Experience 

To be successful in this role you will need to have the following education, experience, and technical knowledge:

* Excellent written and oral communication skills and presentation skills.
* a PhD in statistics, computer science, data science, bioinformatics or relevant discipline.
* superior computer programming or software development skills.
* demonstrated ability to conduct research / scholarly activities under limited supervision and as part of a multidisciplinary research team.

Job website: http://wimr.elmotalent.com.au/careers/wimr/job/view/195

Contact name: Ellis Patrick

Contact email: ellis.patrick@sydney.edu.au

Laboratory Head Artificial Intelligence and Machine Learning @ VIC

Position title: Laboratory Head Artificial Intelligence and Machine Learning

Employer: The Walter and Eliza Hall Institute of Medical Research

Closing date: Friday 27 October 2023

Brief position description: An excellent opportunity is available for a Laboratory Head with expertise in AI or machine learning to join the Bioinformatics Division at Australia's pre-eminent biomedical research institute.

About the position
The position of Laboratory Head in Artificial Intelligence and Machine Learning is for an outstanding researcher to develop an internationally competitive team to create and apply artificial intelligence, machine learning, or statistical learning methods together with other computational approaches to omics, imaging, clinical, drug discovery or other data in order to address fundamental biomedical or translational challenges.

An attractive package will be provided with the position either in the form of a WEHI Fellowship or underwriting package.

The position will be based in the Bioinformatics Division of the Computational Biology Theme at WEHI, which has an outstanding record of high-impact research in statistical bioinformatics, cancer omics and systems biology including the creation of bioinformatics methodology. We are looking for a new laboratory head who will build on and complement existing strengths. The new laboratory is part of a broader program developing AI and machine learning at WEHI, which includes postdoctoral fellowships, flagship projects in multiomics, image-omics and drug discovery, and external partnerships.

There will be excellent opportunities for collaboration within the Institute to leverage the broad expertise in cell biology, immunology, infectious diseases, cancer, computational biology, structural biology, and drug discovery, as well as genomics, proteomics and imaging technologies. The collaborative nature of researchers at WEHI and their expertise over a range of diseases make this an ideal place for such studies.

Selection Criteria
The successful candidate will hold a PhD or equivalent qualification and will have completed post-doctoral work with a strong basis in artificial intelligence, machine learning, or computational science, applied to biology, resulting in an outstanding record of scientific achievements. Their research focus will be aligned with the Division and the Institute. A history of a highly innovative and collaborative approach to research would be highly valued. Women and early-career researchers are especially encouraged to apply.

Terms of appointment
This position is available for 7 years Maximum Term in a full-time capacity, renewable thereafter based on participating in the annual faculty review process, with underwriting for research and salary support during this period. Salary and appointment level is dependent on experience.

WEHI is committed to providing an inclusive, safe and positive workplace for all staff and students. We aim to develop a vibrant organizational culture underpinned by our core values.

Job website: http://www.seek.com.au/job/69598709?type=standout#sol=046560d0d1e5bc3f7f9afbfa38a5f0407a102421

Contact name: Gordon Smyth

Contact email: smyth@wehi.edu.au

Bioinformatics Postdoctoral Associates @ Texas

Position title: Bioinformatics Postdoctoral Associates

Employer: Texas Tech University Health Sciences Center

Closing date: Until filled

Brief position description: Texas Tech University Health Sciences Center is a top 100 Best Medical School (Ranked 19 in Primary Care by US News). Texas Tech University is an R1 University. It is the second largest contiguous campus (1,900 acres) in the US, and the only university in Texas to house an undergraduate and graduate university, law school, and medical school on the same campus.

Lab Description: The Li Bioinformatics and Computational Genomics Lab (dllab.org) is seeking outstanding Postdoctoral Associates in genomic sequencing data analyses and pipeline development to join our new lab and planned new Center for Genomic Medicine. About our lab: Largest ME/CFS genomics program; State-of-the-art HPC; Strong mentoring and support team. Example of our recent papers: Genome Res PMID: 30872350; Bioinformatics PMID: 30895294. The University and lab are fully committed to supporting trainee’s career development. Salary is highly competitive and is commensurate with experience and productivity.

Responsibilities: 
• Conduct genomic data-analyses (genome, transcriptome, methylome, etc.) from FASTQ/BAM files, integrative multi-omics analyses, transposable element analyses, and/or other genomic/bioinformatics analyses or software development.
• Method and software comparisons and benchmarking of available tools. Design, develop, and implement new bioinformatics pipelines.
• Optimize pipelines and parameters specific to project(s). Perform quality assurance of all workflows and analyses. Ensure all essential positive and negative controls included.
• Read literature related to current projects and incorporate into the projects.
• Maintain accurate records of methods, software, and parameters used. Ensure reproducibility.
• Draft reports and original manuscripts for publications. Present in meetings and conferences.
• Work carefully, pay attention to details, and troubleshoot bugs. Adhere to deadlines.
• Perform other job-related duties as assigned. Demonstrate self-motivation.
Required Minimum Qualifications:
• PhD or equivalent doctorate (e.g., D.Sc., M.D.) in area of project specialization.
• Knowledge of modern research practices, the methods, resources, and standards thereof. Ability to organize work effectively, conceptualize and prioritize objectives and exercise independent judgment based on an understanding of organizational policies and activities. Ability to integrate resources, policies, and information for the determination of procedures, solutions and other outcomes. Ability to establish and maintain effective work relationships with other employees and the public. Ability to plan and allocate the workload of employees, providing direct training and supervision as needed.
Preferred Minimum Qualifications:
• Experience in Linux command lines, HPC, genomic, transcriptomic and/or epigenomic data analyses, and/or related software comparisons and new pipeline development, etc.

City of Lubbock: With a population of 326,546, Lubbock metro ranks as the No. 1 place for new grads. Roughly 1 in 5 residents is in their 20s, making it a good place to find friends and build a social circle. Low living costs; no State Income Taxes; ~262 days of sunshine/year, etc. See Photos on our website. 

To apply, all applicants should submit to: https://sjobs.brassring.com/TGnewUI/Search/Home/Home?partnerid=25898&siteid=5283#jobDetails=810460_5283, Job ID: 34283BR. 

For any questions, please email the PI with CV at: dllab.bioinformatics@gmail.com or dawei.li@ttuhsc.edu

The positions are open until filled. The position updates can be seen (https://dllab.org/positions/postdoc.pdf).

EEO Statement
As an EEO/AA employer, the Texas Tech University System and its components will not discriminate in our employment practices based on an applicant’s race, color, religion, sex, national origin, age, disability, genetic information or status as a protected veteran.

Jeanne Clery Act
The Jeanne Clery Disclosure of Campus Security Policy and Campus Crime Statistics Act is a federal statute requiring colleges and universities participating in federal financial aid programs to maintain and disclose campus crime statistics and security information. By October 1 of each

Job website: https://sjobs.brassring.com/TGnewUI/Search/Home/Home?partnerid=25898&siteid=5283#jobDetails=810460_5283

Contact name: Dawei Li

Contact email: dllab.bioinformatics@gmail.com

Bioinformatician (Software Engineer) @ SA

Position title: Bioinformatician (Software Engineer)

Employer: SAGC/SAHMRI

Closing date: 30th September 2023

Brief position description: About SAGC

The South Australian Genomics Centre (SAGC) is a multi-institutional, national genomics and bioinformatics facility that is supported by Bioplatforms Australia (BPA) through the Australian Government’s National Collaborative Research Infrastructure Strategy (NCRIS). The SAGC has consolidated genomics and bioinformatics expertise in the state, with a group of ~12 genomics and bioinformatics staff working side-by-side to deliver innovative genomics and bioinformatics solutions across all areas of genomics research, including agriculture, healthcare and ecology.

About the Position
Full-time, 2 year contract
Salary range: 80,000 - 95,000 AUD

About the Role
Key responsibilities include:
* Develop reproducible analytical workflows with a view to improve internal efficiencies as well as client experiences
* Provide end-to-end bioinformatics analysis support to SAGC 
* Contribute to/or lead the drafting of reports and publications

Job website: https://sahmri.org.au/careers-and-study/working-at-sahmri/vacancies/bioinformatician-software-engineer

Contact name: Sen Wang

Contact email: Sen.Wang@sahmri.com