Post Doctoral Researcher @ VIC

Position title: Post Doctoral Researcher - Molecular Biomarkers and Translational Genomics Laboratory

Employer: Peter MacCallum Cancer Centre

Closing date: 24th April 2023

Brief position description: Applications are invited to join an exciting research program within the Molecular Biomarkers and Translational Genomics Laboratory led by Sarah-Jane Dawson at the Peter MacCallum Cancer Centre (https://www.thedawsonlab.com/). The research will explore the use of circulating tumour DNA to study genomic and transcriptional evolution and provide insights into treatment response and resistance in cancer.

The position will involve the analysis of large-scale genomic data, with a focus on whole genome sequencing, through the application of best-practice bioinformatics workflows and the development of innovative new methods as required. Applicants should have demonstrated experience developing and maintaining bioinformatics analysis workflows. Experience working with cloud computing, containers and version-controlled pipelines is desirable but not required.

The position will require a highly motivated and skilled bioinformatician or computational biologist with expertise in the analysis of next generation sequencing data, integration of genome-wide datasets, competency in programming languages R and/or Python/Perl and experience with working on a high-performance computing cluster. The individual will be responsible for driving their own specified projects, but will also collaborate very closely with cancer molecular biologists to work on joint initiatives.

The position will be in a research environment that includes a large and interactive group of bioinformaticians and computational biologists in the Computational Cancer Biology Program and the Bioinformatics Core Facility. The position will be initially for a fixed term of 12 months with the opportunity to extend. Remuneration will be commensurate with qualifications and experience.

Essential Requirements
PhD in Computational Biology, Bioinformatics or similar
Experience in analysing a wide range of next generation sequencing data including whole genome, targeted sequencing and/or RNA sequencing.
Demonstrated capacity for independent research and supervision
Demonstrated experience developing and maintaining bioinformatics analysis workflows
Willingness to learn new techniques
Ability to work both independently and as part of a team
High level organisational, interpersonal and time management skills
First author publications in a relevant area
Excellent Python or R programming skills
Experience with high performance computing clusters environments

Desirable Requirements
Expertise in cancer research
Experience working with cloud computing, containers and version-controlled pipelines

Applicants to this role should provide a covering letter outlining relative key skills and experience to assist us with our assessment.

Job website: http://careers.petermac.org/job/MELBOURNE-Post-Doctoral-Researcher-Molecular-Biomarkers-and-Translational-Genomics-Laboratory-VIC-3000/932665510/

Contact name: Dineika Chandrananda

Contact email: Dineika.Chandrananda@petermac.org

Field Application Scientist @ Australia

Position title: Field Application Scientist

Employer: Oxford Nanopore Technologies

Closing date: 26/04/2023

Brief position description: We are looking for highly motivated and driven individual to join the Technical Services team, as a Field Applications Scientist covering Australia, New Zealand, and South East Asia. Ideally this role is to be based on the Eastern Seaboard of Australia. In this role you will assist customers in experimental design, product installation, use of wet and dry lab products, pipeline development, data analysis, and workflow implementation and validation, in collaboration with other internal and customer-facing teams! Specifically this role will be to support and train our growing customer base to implement new and novel bioinformatic tools designed for long read sequencing in areas such as methylation, structural variant analysis, gene fusion, long read metagenomics assembly, de novo assembly, RNA Isoform detection etc...

Job website: https://ejnh.fa.em2.oraclecloud.com/hcmUI/CandidateExperience/en/sites/CX_1/requisitions/preview/1836

Contact name: Michael Yarski

Contact email: michael.yarski@nanoporetech.com

Research Fellow in Computational Sciences for Infectious Diseases @ VIC

Position title: Research Fellow in Computational Sciences for Infectious Diseases

Employer: University of Melbourne

Closing date: 21 April 2023

Brief position description: We are seeking a highly motivated Research Fellow to join Prof. Matthew McKay and Dr. Syed Faraz Ahmed to assist with research projects related to following grants:

- NHMRC Ideas Grant, Using Big Data to Engineer Highly Immunogenic Hepatitis C Virus Envelopes for the Induction of Broad Neutralising Antibodies
- ARC Discovery Grant, Engineering Methods for Resolving Complex Mutational Networks in Proteins

The first project looks at using data science methods to rationally design vaccines for HCV and the second project looks at developing computational platforms to understand the complex mutational patterns that underpin virus protein evolution. 

The appointee will be a member of a team focused on employing computational approaches/machine learning/data science to understand viral infectious diseases, their evolution, and to design next-generation vaccines and therapies. The team is computationally focused and works with experimental virologists and immunologists in the Peter Doherty Institute for Infection and Immunity (where Prof McKay is jointly appointed in the Department of Microbiology and Immunology), as well as with other national and international collaborators. Recent scientific contributions of the group include guiding the development of commercial COVID-19 vaccines and commercial products for measuring human immune responses.

The appointee will contribute to a program involving the development of computational models and bioinformatics platforms to identify immune targets for viral pathogens including Hepatitis C virus, SARS-CoV-2, and future pandemic threats. The platforms will be used to design vaccine strategies for eliciting targeted T cell responses and/or inducing broadly neutralizing antibodies. The successful candidate will work under the direction of Prof McKay and Dr Syed Faraz Ahmed and will work closely with computational and experimental collaborators.

Responsibilities include:

Independently planning and carrying out research on the nominated research project and working towards completion of the aims of the project

Be responsible for qualitative and statistical analysis of research data

Identifying sources of funding to support individual or collaborative projects, relating to teaching, research and engagement practice in the discipline

Contributing to teaching, training, scientific mentoring and supervision of students

- A PhD, or near completion of PhD, in electrical engineering or computer science, or in other relevant technical fields including computational biology, bioinformatics, biophysics, statistics, mathematics, genetics 

- A record of quality research in relevant fields, as evidenced by publications in leading journals and at conferences commensurate with opportunity

- Demonstrated experience with one or more high-level programming languages, e.g., Python, R, Matlab

- Demonstrated capacity to communicate research concepts to technical and non-technical audiences

Job website: https://jobs.unimelb.edu.au/caw/en/job/912133/research-fellow-in-computational-sciences-for-infectious-diseases

Contact name: Matthew McKay

Bioinformatician - Cancer Research @ VIC

Position title: Bioinformatician - Cancer Research

Employer: Peter MacCallum Cancer Centre

Closing date: 5 April 2023

Brief position description

This position will primarily support the analysis of single-cell RNA sequencing data at Peter Mac Research. Prior experience in single-cell data analysis is essential. This position will work and communicate closely with a team of cell biologists and bioinformaticians to address the analytical challenges posed by evolving genomic technologies.

Responsibilities
* Analyse single-cell RNA seq and other next generation sequencing data using best-practice methods and pipelines
Be exposed to cutting-edge research techniques in cancer therapeutics and contribute to solving related bioinformatics problems
* Develop pipelines and support data processing
* Apply computational and statistical methods to answer research questions
* Communicate work progress and results to researchers frequently

Qualifications
* A Master or higher degree in Mathematics/Statistics/Bioinformatics or equivalent, with outstanding academic results in final year subjects
* At least two years of experience in the analysis of next-generation sequencing data for human disease research
* At least one year of experience in single-cell RNA-seq data analysis
* Highly developed R and Python programming skills
* Experience working in a Unix environment and shell scripting
* Excellent verbal and written communication skills
* Strong interests in cancer research
* Proven ability to manage time effectively and be reliable and approachable

Job website: http://www.seek.com.au/job/66338853

Contact name: Jason Li

Contact email: jason.li@petermac.org

Bioinformatics Officer @ SA

Position title: Bioinformatics Officer

Employer: SA Genomics Centre (SAGC) / South Australian Health & Medical Research Institute (SAHMRI)

Closing date: Until filled

Brief position description: 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 ~10 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

This is an exciting opportunity for a post-doctoral researcher or experienced MSc-level bioinformatician to join the SAGC bioinformatics team. To flourish in this role, you will need to be able to work across multiple different projects and to possess excellent organisational and time-management skills.

This role is primarily responsible for supporting SAGC users to appropriately design genomics-related projects and to analyse and interpret their data. Working collaboratively with researchers across different disciplines, you will have a varied and interesting workload across projects in different areas of genomics, leading bioinformatics analyses with varying levels of complexity. 

There are significant opportunities for professional growth and development through exposure to data sets from different genomics technologies including single cell and spatial transcriptomics. Staff are expected to enable research by leading the development of reproducible, standardised pipelines for genomics data analysis and, where necessary, develop new methods and pipelines. Your career development will be supported and you will be encouraged to publish your research and to collaborate on major funding applications to national and international funding bodies. 

You will also be supported to develop your bioinformatics capabilities; ensuring that the SAGC can remain at the forefront of genomics. It is expected that you will have interest in and develop your capabilities in at least one specialist area of bioinformatics.

About the Role
Key responsibilities include:
• Support researchers to design innovative but rigorous genomics projects and collaboratively support the bioinformatics aspects of these projects. 
• Develop and maintain reproducible bioinformatics pipelines and analyses approaches for routine analyses. 
• Where needed develop and implement new bioinformatics approaches, methods or data visualisation approaches. 
• Contribute to/or lead the drafting of reports and publications. 
• Contribute to/or lead the drafting of applications to major funding bodies.

About You
The successful candidate will possess the following key attributes:
• MSc, PhD, or equivalent experience, in either bioinformatics, computer science, physics, statistics or other relevant discipline
• Have a broad understanding of at least two of the following areas and a significant interest in developing a deep understanding in at least one:
o Transcriptomics: bulk RNAseq, scRNAseq, spatial transcriptomics, 
o Genomics: variant, haplotype and diversity analysis, genome assembly, metagenomics, epigenetics
o DevOps: version control: test driven development and continuous integration, containerisation using Docker/Singularity
o Systems biology: multi-omics data integration, network analysis
o Statistics: linear models, ANOVA, hypothesis testing
o Visualisation: data visualisation and User Interface/Experience design
o Workflow systems: Snakemake and/or Nextflow
o Other Omic's technology: metabolomics, proteomics
• Prior experience with at least one of the following scripting languages: bash, R, Python and Perl
• Minimum 2 years relevant work experience

Please see the website below for more information, position description and application process.

Job website: https://sahmri.org.au/careers-and-study/working-at-sahmri/vacancies/bioinformatics-officer-2

Contact name: Sen Wang

Contact email: Sen.Wang@sahmri.com

Postdoctoral position/Research Assistant @ NSW

Position title: Postdoctoral position/Research Assistant

Employer: Wong Lab, Victor Chang Cardiac Research Institute

Closing date: Until filled

Brief position description: Your next career opportunity
The Wong Lab is seeking a driven and motivated computational Postdoctoral Fellow to join the Regulatory Systems Laboratory at the Victor Chang Cardiac Research Institute. Our main goal is to understand gene regulatory control, in the context of evolution, development, in health and aging, using comparative methods, novel technologies and animal models. Our lab has capability in computational and experimental methods.

In this role you will have the opportunity to study the genetic and molecular mechanisms underpinning regulatory element function using high-throughput data and other impactful projects. You will receive support from a collaborative inter-disciplinary team of scientists in molecular biology, computer science, and genomics.

Does this sound like you?
​PhD in computational biology, genomics, computer science or a related discipline
Passion for biology in particular gene regulation / genome biology / epigenetics
Extensive experience with R/Python/HPC usage
Excellent biostatistics skills
Excellent written communication skills and the ability to communicate and critically interpret results

Job website: http://www.victorchang.edu.au/careers/jobs-available

Contact name: Emily Wong

Contact email: e.wong@victorchang.edu.au

Group Leader - Computational Biology @ VIC

Position title: GROUP LEADER – COMPUTATIONAL BIOLOGY

Employer: Peter MacCallum Cancer Centre

Closing date: 1 June 2023

Brief position description: We are recruiting up to two Group Leaders to increase the capacity and efficiency of our “discovery to translation” cancer research pipeline. We have a specific focus on building and expanding our Computational Biology Program that uses mathematics, statistics and computing to generate new discoveries in cancer. There are strong synergies between researchers in this program and the other research programs at Peter Mac that provide a breadth of collaborative opportunities for the new appointee. The Group Leader will develop and lead a team conducting internationally significant and innovative research to enhance our understanding of cancer development from fundamental biological principles of cancer to progression, evolution and translation into clinical practice.

The Group Leader is responsible for ensuring that their group’s financial and operational processes are sustainable and in accordance with regulatory, commercial and ethical obligations. They will be driven to achieve excellence in research outputs, mentorship and make a significant contribution to the local, national and international scientific communities.

Appointments will be considered at the level of new group leader (Level C) through to experienced Associate Professor (Level D).

Job website: http://careers.petermac.org/job/MELBOURNE-Group-Leader-VIC-3000/937192610/

Contact name: Alicia Oshlack

Contact email: Alicia.Oshlack@petermac.org

Research Fellow (Bioinformatician) @ VIC

Position title: Research Fellow (Bioinformatician) - Blood Cancer Biomarkers

Employer: Monash University

Closing date: Tuesday 21 March 2023, 11:55pm AEDT

Brief position description: We are seeking an outstanding candidate to join the Blood Cancer Biomarkers Laboratory as a post-doctoral Research Fellow (Bioinformatician). The successful candidate will lead projects in the field of circulating tumour DNA where they will be analysing whole genome and transcriptome sequencing data from patients with haematologic malignancy. Working closely with the Head of the Blood Cancer Biomarkers Laboratory, Dr Paul Yeh, the role will also involve close collaboration with senior bioinformaticians at Peter MacCallum Cancer Centre. The Research Fellow will develop their own research project to expand their own research program and profile, however, will also have an integral role in supporting members of the laboratory.

The appointee will have a doctoral qualification in the relevant discipline area or equivalent qualifications or research experience. Experience in bioinformatic analysis of next generation sequencing, specifically analysis of whole genome sequencing, whole transcriptome sequencing and whole exome sequencing, working with clinical samples including blood, tissue and fluid samples and translational research in cancer or haematology will see you successful in this role.

Diversity is one of our greatest strengths at Monash. We encourage applications from First Nations people, culturally and linguistically diverse people, people with disabilities, neurodiverse people, and people of all genders, sexualities, and age groups.

Job website: http://careers.pageuppeople.com/513/cw/en/job/648346/research-fellow-bioinformatician-blood-cancer-biomarkers

Contact name: Paul Yeh

Contact email: paul.yeh@monash.edu

Postdoc in In-silico glycomics @ Copenhagen

Position title: Postdoc in In-silico glycomics (Machine Learning/bioinformatics) at Department of Cellular and Molecular Medicine (ICMM)

Employer: University of Copenhagen

Closing date: 2/04/2023

Brief position description: We are looking for a highly motivated and dynamic scientist for a 2-year postdoctoral position to commence on 1 June 2023 or after agreement.

The position will be based in the Joshi Group at the Copenhagen Center for Glycomics (CCG) at the Department for Cellular and Molecular Medicine (ICMM) within the University of Copenhagen.

Information on the group can be found at: The Joshi Group web page (https://icmm.ku.dk/english/research-groups/joshi-group/) and https://smex-ctp.trendmicro.com:443/wis/clicktime/v1/query?url=https%3a%2f%2fglyco.me&umid=bfae75bb-278d-4071-9397-9c9e759538c0&auth=2af5473c4b03509246eb08bd803a6cf835f69953-20b8a5ea06b7a3745ff5c145c743f728cc4565d8

Our research:

The Joshi/In-silico glycomics Group uses data science to uncover the contributions from regulation of hundreds of glycosylation related genes to the overall glycosylation process that takes place in the endoplasmic reticulum and Golgi. We take advantage of both a massive amount of publicly available data, and unique genetically engineered cell lines and world leading wet-lab facilities for validation. We value our creative, open, and collaborative work environment, placing special emphasis on training and mentorship to help our colleagues reach their career goals. 

Your job:

Your tasks will include designing experimental strategies, identification and analysis of complex datasets using data science techniques, generation of validation data, and presentation of your research (including writing scientific manuscripts). Additional tasks could include contributing to grant applications, research-based supervision of MSc and PhD students, teaching undergraduate courses, and outreach communication activities. The successful candidate will play an integral role in establishing the lab and research environment.

Job website: http://employment.ku.dk/all-vacancies/?show=158678

Contact name: Hiren Joshi

Contact email: joshi@sund.ku.dk

Head of Bioinformatics @ VIC

Position title: Head of Bioinformatics

Employer: Burnet Institute

Closing date: 28/3/2023

Brief position description: Are you an established Bioinformatics expert seeking your next senior leadership opportunity? Would you like to play an integral role in driving meaningful and impactful health initiatives? Then this could be the role for you! 

We are now on the lookout for a Head of Bioinformatics to join our team at Burnet! You will play a key role in building bioinformatics capacity and capability to catalyse transformational research to achieve the Burnet 2030 purpose: to create and translate knowledge into better health, so no-one is left behind.

You will provide leadership across the organisation and will be responsible for building bioinformatics as a key research platform with the potential to establish a specific working group in the future. You will collaborate with existing working groups to provide high quality bioinformatics support and build technical capacity and best practice in the conduct of OMICS experiments and analysis of OMICs data. 

In this role, you will also:
•Identify and engage researchers with bioinformatics skills to lead a community of best practice 
•Provide high quality bioinformatics support, advice, and training to staff/students
•Conduct bioinformatics analysis for Burnet staff/students, and externally
•Support development of software packages for genomic, transcriptomic, proteomic and metabolomic, multi-omics data relevant to Burnet research
•Support development of best practice in bioinformatics coding, pipelines, workflows, and version control
•Collaborate with working groups to attract independent grant funding to build the bioinformatics platform 
•Make intellectual contributions in generating, analysing and interpreting research data
•Design and conduct bioinformatics workshops, drop in sessions, and/or tailored training of staff and students 
•Co-supervise and contribute to scientific mentoring of Honours/PhD/Masters students and staff

This is a full-time position, initially for a 7-year period with possibility of extension upon review.
This is truly a unique opportunity to shake up an industry, make a meaningful impact, and put your name on it. Don’t miss out! 

Role location 
Although we would prefer the incumbent be based in Melbourne, we are also accepting applicants based Australia wide to conduct the role remotely with once a month travel to our Melbourne office. Travel expenses will be provided by the institute as well as relocation expenses for candidates willing to relocate to Melbourne. 

Let’s talk about you

The following criteria are essential requirements:
•Experience in biological or medical research 
•Experience in general bioinformatics skills i.e. NGS data/genomics/transcriptomics
•Experience in single cell transcriptomics or metaproteomics or metabolomics or multi-OMICs bioinformatic analyses 
•Experience in writing code, proficiency in R, Python and/or other programming language for data analysis 
•Knowledge of biostatistics relevant to OMICs analyses
•Proven interpersonal and collaborative skills in achieving research outcomes
•Proven skills in communicating and teaching bioinformatics 
•Proven ability in maintaining accurate and detailed records of bioinformatic analyses, and data management

The following experience is also desirable: 
•Research experience that has resulted in publications, conference presentations or reports or other tangible outputs
•Proven ability to effectively prioritise tasks and develop timelines for completion of milestones to achieve project goals
•Experience in building bioinformatics capacity in a research setting
•Experience in high performance computing (HPC) systems administration 
•Demonstrated ability and potential for excellence and productivity in research
•Ability to prepare applications for funding National/International opportunities
•Track record in gaining independent funding
•Experience in pipeline development 

Salary: $131,399 - $163,576 (depending on experience) + super + salary packaging

Please click on the website link for full details.

Job website: https://aurecruitment.actionhrm.com/myrecruit/newApplicationWizard.htm?pc=_GtNMcIyemZrYZBTvKtG2Qxx

Contact name: Sean Perera

Contact email: sean.perera@burnet.edu.au