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
Computational CRISPR Genomics - Bioinformatician @ Melbourne
Position title: Computational CRISPR Genomics - Bioinformatician
Employer: Walter and Eliza Hall Institute of Medical Research
Closing date: Feb 1, 2021
Brief position description: An exciting new opportunity exists for a talented bioinformatics research officer to work on computational CRISPR genomics and develop a key role for computational research in CRISPR activities.
The role will be joint between the laboratories of Prof Tony Papenfuss in the Bioinformatics division and A/Prof Marco Herold in the Blood Cells and Blood Cancers division. The successful candidate will work in close collaborations with bench scientists, contribute to the design of CRISPR experiments, analyse genomic and transcriptomic data, and develop new bioinformatics methods related to CRISPR.
The Papenfuss Laboratory applies mathematical, statistical, and computational approaches to drive new cancer discoveries using large and complex omics datasets. A major focus of their work is cancer evolution, which is critical in understanding how tumours metastasise and develop resistance to therapies. They have particular interests in developing methods for detecting and understanding genomic rearrangements and for applying mathematical modelling and machine learning to make sense of big data.
The Herold Laboratory aims to identify novel genes involved in the development of normal and malignant haematopoiesis. They are using in vivo CRISPR approaches to systematically identify new candidate genes, with the ultimate goal of using these targets as novel anti-cancer therapies. They are also developing new CRISPR models and methodologies (e.g. CRISPR activation or Base Editing) to resemble human disease more accurately and are implementing CRISPR as a diagnostic tool to ultimately use it for detection of infectious disease or malignant cells.
Job website: www.wehi.edu.au/research-officer-computational-crispr-genomics
Contact name: Tony Papenfuss
Contact email: papenfuss@wehi.edu.au
Post doc positions (2) @ Leipzig, Germany
Position title: Post doc positions (2) in Leipzig, Germany
Employer: Ulisses Nunes da Rocha, PhD, Helmholtz Young Investigator, Microbial Data Science and team leader, Department of Environmental Microbiology, Helmholtz Centre for Environmental Research
Closing date: open now from December 2020
Brief position description: Ulisses Nunes da Rocha, PhD, Helmholtz Young Investigator at the Microbial Data Science and team leader in the Department of Environmental Microbiology at the Helmholtz Centre for Environmental Research is seeking two bioinformatics post-docs to work with the them.
Sitz der Gesellschaft/Registered Office: Leipzig
Registergericht/Registration Office: Amtsgericht Leipzig
Handelsregister Nr./Trade Register Nr.: B 4703
Vorsitzender des Aufsichtsrats/Chairman of the Supervisory Board: MinDirig Wilfried Kraus
Wissenschaftlicher Geschäftsführer/Scientific Managing Director:
Prof. Dr. Georg Teutsch
Administrative Geschäftsführerin/Administrative Managing Director:
Prof. Dr. Heike Graßmann
Job website: http://www.ufz.de/index.php?en=43659
Contact name: Ulisses Nunes da Rocha
Contact email: ulisses.rocha@ufz.de
Research Officer- Computational Systems Biology @ Sydney
Position title: Research Officer- Computational Systems Biology @ Sydney
Employer:
Closing date: 21st December 2020
Brief position description: The Computational Systems Biology (CSB) lab at CMRI is welcoming applications for a Research Officer to conduct research in the broad area of systems stem cell biology and single-cell multi-omics. Our research focuses on the acquisition of stem cell identity and cell fate decisions during differentiation and together the two CMRI labs have established high-throughput experimental techniques such as single-cell omics and computational expertise in multi-omics data analysis.
The CSB lab collaborates closely with other groups and units at CMRI (e.g. Embryology) and also a team of bioinformaticians from the School of Mathematics and Statistics, and systems biologists from Charles Perkins Centre (CPC), at the University of Sydney. The appointee will have ample opportunity to collaborate with bioinformaticians within CMRI and from the School of Mathematics and Statistics, and systems biologists from Charles Perkins Centre (CPC) at the University of Sydney.
Duration: 3-year fixed term (full time).
Salary: $88,499 – $94,998 + Superannuation + Annual Leave Loading + Salary Packaging
About the role
This position will help you building a collaboration network across multiple institutes and a track record that enables you to apply for collaborative research funding and independent research fellowship. Specific roles include (but not limited to) the following:
Lead and carry out research projects in the broad area of systems biology, stem cells biology, and single-cell multi-omics.
Prepare and publish work on scientific journals and present scientific results in national/international conferences.
Develop and co-supervise research projects for undergraduate and graduate research students.
Assist in the recruitment of research students and continuously working towards attracting new funding.
Build collaboration with different labs in CMRI and across multiple institutes/universities at Sydney (e.g. CPC and School of Mathematics and Statistics) and beyond.
About you
We are look for someone with the follow characteristics and research experience.
• A PhD in an appropriate area such as (but not limited to) computational and systems biology, bioinformatics, computer science, statistics or another closely related scientific discipline.
• Proven research ability, and evidence of self-motivation and research potential
• Demonstrated experience with omics, bioinformatics, systems biology and molecular biology
• Demonstrated experience with machine learning, deep learning and data analytics
• Proven excellence in written and oral communications, interacting with a variety of researchers and stakeholders
• Proven commitment to producing high quality work and a demonstrated track record of high-quality publications
• Demonstrated excellence in research within bioinformatics or computational systems biology through published research in refereed journals
• Proven ability to write and contribute to bioinformatic, computational, statistical, or mathematical research papers
• Knowledge of stem cells and development
Computational Systems Biology group
CSB lab (https://pyanglab.github.io) combines computational ('dry') and experimental (‘wet’) expertise to understand stem cell systems. The lab resides in CMRI, Westmead, while also holding office space at both School of Mathematics and Statistics and Charles Perkins Centre, USyd, which enable ample collaboration with statisticians and bioinformaticians; computational and systems biologists; and molecular and developmental biologists.
Current focus of the lab is on transcriptional regulation in stem cells (Yang et al. Molecular Cell, 2017; Kim…Yang, Nucleic Acid Research, 2020); bulk and single-cell multi-omics analysis (Yang et al, Cell Systems, 2019; Kim…Yang, Bioinformatics, 2020); and machine learning application in systems biology (Cao…Yang, Nature Machine Intelligence, 2020). The overarching goal of the lab is to develop computational methods for characterising stem cell systems and harnessing them for tissue regeneration.
You will be provided with a competitive remuneration package in accordance with qualifications and experience. Additional benefits include the provision of a Public Benevolent Institution salary packaging scheme and participation in an employer-contributed superannuation fund.
Applications should include a cover letter (citing PV2038), curriculum vitae and contact details (phone/email) of three professional referees and be forwarded to recruitment@cmri.org.au
Closing date for applications is 21st December 2020.
Please direct enquiries regarding the position to Dr Pengyi Yang, NHMRC Investigator, pengyi.yang@sydney.edu.au.
Job website:
Contact name: Pengyi Yang
Contact email: pengyi.yang@sydney.edu.au
Bioinformatics Research Officer/Research Assistant @ Melbourne
Position title: Bioinformatics Research Officer/Research Assistant
Employer: WEHI
Closing date: 18 December 2020
Brief position description: An opportunity exists for a talented and motivated Research Officer and/or Research Assistant to work with A/Prof Matt Ritchie in the Epigenetics and Development Division at WEHI.
The Ritchie Laboratory uses statistical methodologies to provide new insights into the genetic basis of health and disease. They develop specialised analysis methods for large and complex genomics datasets (e.g. bulk and single cell RNA-seq, long-read RNA-seq and long-read methylation profiling) implemented in open-source software through the Bioconductor project. They collaborate with research groups throughout the Institute to uncover changes in gene regulation that occur during development and in the context of diseases such as cancer.
The successful candidate for a Research Officer role will have a PhD in Statistics, Mathematics, Computer Science, Bioinformatics or Computational Biology, strong computational skills, and experience applying these skills in the analysis of large and complex datasets.
The successful candidate for a Research Assistant role will have an Honour’s or Master’s degree in Mathematics, Statistics, Computer Science, Bioinformatics or Computational Biology.
Job website: http://www.wehi.edu.au/bioinformatics-research-officerresearch-assistant-parental-leave-cover
Contact name: Matt Ritchie
Contact email: mritchie@wehi.edu.au
Research Officer in Marine Genomics @ Perth, WA
Position title: Research Officer in Marine Genomics
Employer: Minderoo Foundation, Perth, WA
Closing date: 18 Dec 2020
Brief position description: The Minderoo OceanOmics program is seeking a dynamic, motivated Research Officer with experience in marine genomics to join their team. In this role, you will participate in the conception and execution of a variety of experimental procedures focused on using marine cell-free and cell-bound DNA in combination with next-generation sequencing to understand and advance marine ecology.
Job website: http://www.seek.com.au/job/50983232
Contact name: Minderoo Foundation
Contact email:
Australian BioCommons Senior Bioinformatics Officer @ NSW
Position title: Australian BioCommons Senior Bioinformatics Officer
Employer: University of Sydney
Closing date: 11:30pm, Thursday 3 December 2020
Brief position description: In this role as an Australian BioCommons Senior Bioinformatics Officer, you will contribute to the BioCommons Bring Your Own Data (BYOD) platform project, delivering a suite of software and workflow development and deployment activities that enables highly accessible, available, y scalable analysis and data sharing capabilities for the benefit of life science researchers nationally.
You will focus on developing and delivering a Command Line Interface (CLI)-focussed BYOD platform. The CLI-focussed platform will provide a scalable and flexible set of open programmatic resources to create, access and exchange workflows, tools and training across national, institutional, and commercial compute infrastructures.
About you
The University values courage and creativity; openness and engagement; inclusion and diversity; and respect and integrity. As such, we see the importance of recruiting talent aligned to these values and are looking for an Australian BioCommons Senior Bioinformatics Officer who demonstrates:
experience in working in a Linux/UNIX using scientific computing languages such as Python, Perl, R, shell scripting and/or other relevant languages
experience working with HPC clusters and job schedulers e.g. PBS, SLURM
postgraduate qualifications or an equivalent combination of experience and/or training in a relevant field
Knowledge and experience with analysing Next Generation Sequencing (including whole genome sequencing or long read sequencing) and other ‘omics’ data
experience developing and deploying pipelines using software containers and workflow languages
familiarity with code performance optimisation considerations and approaches
project management skills and can manage competing priorities to required timelines
experience in an academic environment
excellent written and verbal communication skills.
About us
The Sydney Informatics Hub (SIH) is a University Core Research Facility serving academics and researchers across all faculties through the provision of comprehensive research data services. As a Core Research Facility, Sydney Informatics Hub aims to provide comprehensive data services to the University’s research community. Initially established to provide software engineering and data analytics services to researchers, the Hub now also offers services, training and support for Research Computing (leveraging the University’s High Performance Computing cluster, Artemis, and other emerging digital infrastructure), Statistical Consulting, and Research Data Strategy and consulting.
The Australian BioCommons is a new research infrastructure sponsored by Bioplatforms Australia. The Australian BioCommons aims to enhance the productivity, capability and capacity of Australian research biologists and research bioinformaticians.
https://www.sydney.edu.au/research/facilities/sydney-informatics-hub.html
Since our inception 160 years ago, the University of Sydney has led to improve the world around us. We believe in education for all and that effective leadership makes lives better. These same values are reflected in our approach to diversity and inclusion and underpin our long-term strategy for growth. We’re Australias first university and have an outstanding global reputation for academic and research excellence. Across our campuses, we employ over 8,100 academic and non-academic staff who support over 73,000 students.
We are undergoing significant transformative change which brings opportunity for innovation, progressive thinking, breaking with convention, challenging the status quo, and improving the world around us.
How to apply
For more information on the position and University, please view the position description available from the job’s listing on the University of Sydney careers website.
All applications must be submitted via the University of Sydney careers website. Visit https://sydney.edu.au/about-us/careers-at-sydney.html and search by the reference number 1114/0920F-1 to apply.
Please note: Visa sponsorship is not available for this position
Closing date: 11:30pm, Thursday 3 December 2020
The University of Sydney is committed to diversity and social inclusion. Applications from people of culturally and linguistically diverse backgrounds; equity target groups including women, people with disabilities, people who identify as LGBTIQ; and people of Aboriginal and Torres Strait Islander descent, are encouraged.
© The University of Sydney
Job website: http://www.seek.com.au/job/50982932
Contact name: Tooba Fida
Contact email: tooba.fida@sydney.edu.au
Bioinformatician in Computational Functional Genomics @ NSW
Position title: Bioinformatician in Computational Functional Genomics
Employer: Children's Medical Research Institute
Closing date: 11th December 2020
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.
Job website: http://www.seek.com.au/job/50951796?_ga=2.42768813.929932421.1605470582-1921069189.1595562168
Contact name: Paulina Baranowski
Contact email: pbaranowski@cmri.org.au
Research Officer – Computational Biology & Bioinformatics @ Victoria
Position title: Research Officer – Computational Biology & Bioinformatics
Employer: oNKo-innate Pty Ltd
Closing date: Monday 2 November 2020, 11:55pm AEDT
Brief position description: The Computational Biology & Bioinformatics team at oNKo-innate work with large public data resources and proprietary in-house data obtained through our Screening, Biologics, and Cell Therapies platforms. The Research Officer performs a range of activities to support our Target Discovery teams to develop machine learning models and pipelines that guide target prioritisation and aid in the development of next-generation immunotherapies. These include analysis of sequencing data, bash scripting or developing pipelines for high-performance compute clusters, and/or with Amazon Web Services or other cloud-based platforms, and application of methods that may be relevant to machine learning pipelines.
The successful candidate will have experience with python and appropriate scientific libraries, an understanding of molecular biology, cancer biology, or tumour immunology, and thrive in a fast-paced environment and be able to adapt and respond to arising challenges. This is a dynamic role in a goal-oriented and collaborative environment with an opportunity for further growth.
Job website: http://careers.pageuppeople.com/513/cw/en/job/611351/research-officer-computational-biology-bioinformatics
Contact name: Joe Cursons
Contact email: joe@onko-innate.com
(Sent via Australian Bioinformatics And Computational Biology Society)