Position title: Genomic Analysis Lead
Employer: Garvan Institute of Medical Research
Closing date: 30/08/2020
Brief position description: The Garvan Institute of Medical Research brings together world-leading clinicians and basic and translational researchers 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. In addition, three major Centres: The Kinghorn Centre for Clinical Genomics, the Garvan-Weizmann Centre for Cellular Genomics, and the Centre for Population Genomics.
The Centre for Population Genomics, a new multi-institution initiative is planned for a formal launch in August 2020. The Centre will focus on the development of cutting-edge tools and resources to facilitate the conversion of genomic data into improved diagnosis and treatment for Australians, the field known as genomic medicine. Ultimately, the Centre will generate and manage the largest sets of genomic and clinical data ever assembled in Australia, and apply these to solve a wide variety of scientific and medical problems. The Centre’s staff will operate from two physical sites: Garvan in Sydney, and the Murdoch Children’s Research Institute (MCRI) in Melbourne.
The Opportunity
We are seeking a highly motivated genomic analysis expert to recruit and lead a team of computational scientists developing complex genomic analysis workflows on Australia’s largest human genomic data sets. The Genomic Analysis Lead will develop and implement a strategy for analysis of human data ultimately spanning more than ten thousand whole genome and single-cell transcriptome data sets from diverse Australian communities. This is a unique opportunity to play a leadership role in a new Centre that will shape the future of genomic medicine in Australia, and build resources with global impact.
Over the last ten years the human genomics community has collected an extraordinary volume of data on genetic variation in the human population, thanks to genome or exome sequencing performed on millions of people worldwide. However, much work remains to be done to ensure that these data can be translated into genomic medicine that benefits the entire population, in Australia and globally. This will require, for instance, platforms for storage and computing across millions of human genomes, new methods for analysis, and targeted strategies to ensure that all populations are represented in the next generation of reference databases.
The Centre for Population Genomics will build the tools and massive data sets required to integrate genomics into medicine in Australia. The Genomics Analysis Lead will be responsible for developing an analysis strategy for very large and diverse genomic data sets, for developing scalable pipelines for complex analysis, and for working closely with the Centre’s software development team to implement these at production scale. This individual will recruit and manage a team with diverse skills across computational biology, statistics, and human genetics to create these pipelines, perform analyses, and contribute extensively to the publication of high-impact science.
This position will report directly to the Centre Director, Daniel MacArthur, who previously led a team at the Broad Institute of MIT and Harvard in Boston that was responsible for the development and open release of the Genome Aggregation Database (gnomAD), a collection of genetic data from over 140,000 individuals that has become one of the most widely-used reference databases in human genetics.
The Genomic Analysis Lead can be located at either the Garvan in Sydney or the Murdoch Children’s Research Institute in Melbourne. To adapt to the impact of COVID-19, we will launch under a completely remote model – all staff will begin their employment working from home, and can begin their work without needing to relocate to Sydney or Melbourne.
This is a three-year full time role with high possibility to extend.
Key Responsibilities
The key responsibilities include:
● Working with the Centre Director, other senior Centre staff, and external stakeholders to develop and implement strategic plans for analysis of the Centre’s large-scale genomic data sets, and to develop a broader scientific strategy for the Centre as a whole
● Building technically competent teams by recruiting and managing a team of computational staff scientists with diverse skills across the fields of computational biology, statistical and population genetics, and machine learning
● Developing and nurturing a culture of rigor and openness in software development and analysis, including following software development best practices, ensuring code developed by the Centre is made available as open-source software, and that Centre members approach the analysis of large data sets with extreme rigor and scepticism
● Leading meetings dedicated to code review and analysis best practices
● Meeting regularly with the Centre Director and other scientific staff and trainees to identify key priority areas for algorithm development, and externally developed software to be tested and applied to Centre data sets
● Liaising with the Centre’s Software Team to ensure that pipelines developed by the Genomic Analysis Team are rapidly and effectively productionised and deployed at scale on cloud-based platforms as well as on-premises hardware
● Developing plans for solving daunting technical challenges, such as QCing and analysing sequence data sets of enormous scale, by making full use of their team members and wider Centre resources
● Presenting internally and externally – including at national and international meetings – about the analysis work done at the Centre
● Contributing to (and in some cases leading) the generation of scientific publications and funding applications
About You
The key skills and experience include:
● A PhD in computational biology, functional genomics, statistical genetics, population genetics, or a related field, and at least two years of postgraduate experience in the field; or an equivalent amount of direct work experience in these fields
● Highly autonomous and self-motivated: able to define and manage the execution of novel strategies for analysis across a wide range of technical areas, from basic sequence data set quality control through to population genetic analyses, without tight specifications in advance
● Good written communication skills: able to contribute to, and in some cases lead, papers, grants, and technical reports
● Highly collaborative: more concerned with solving important biological problems by working with others than with securing individual credit
● A problem-solving mentality: able to navigate a complex and dynamic series of technical obstacles, and to pivot rapidly when needed, to build a first-of-its-kind research project; someone who identifies problems even if they fall outside their immediate mandate, and works with other team members to solve them
How to Apply
Australian/NZ citizen, permanent resident, or other applicants with full working rights can apply. We are also open to visa sponsorship for overseas applicants. All applications must include a cover letter along with your resume with at least two referees. We are reviewing applications as they are received. If this position is of interest to you, please apply quickly.
Job website: http://garvan.wd3.myworkdayjobs.com/en-US/garvan_institute/job/Sydney/Analysis-Lead_PRF5514-1
Contact name: Michelle Earle
Contact email: m.earle@garvan.org.au
Senior Research Officer (Bioinformatician) @ Perth
Position title: Senior Research Officer (Bioinformatician)
Employer: Murdoch Childrens Research Institute
Closing date: 30 July 2020
Brief position description: We are looking for a Senior Research Officer (Bioinformatician) to join the Translational Bioinformatics group. A key part of your role will be working on the Rare Diseases Now (RDNow) Program. This program is aimed to expand the successful Undiagnosed Diseases Program Victoria (UDP-Vic) utilising a multi-faceted approach to reach a diagnosis in individuals who remain unsolved after clinical exome sequencing.
In this role you will drive the integrated analysis of genomic data to identify the genetic cause of disease in those patients. You will liaise with the clinical and laboratory diagnostic teams and the functional genomic research teams as well as the extended MCRI organisation, and therefore it is essential you have excellent communication and engagement skills.With these teams you will drive clinical and research genomic sequencing data and the identification of candidate novel disease-causing variants. To be successful in this role you will have demonstrated your ability to drive and implement key program objectives.
You will be an experienced Bioinformatician with a deep understanding of Mendelian disorders and the underlying genetic and biological concepts that cause them. You will have demonstrated experience in the analysis and interpretation of next-generation sequence data.
You will be ready to contribute to an innovative program to improve the future of children’s health.
Job website: https://career10.successfactors.com/sfcareer/jobreqcareer?jobId=21315&company=C0007531036P
Contact name: Cas Simons
Contact email: cas.simons@mcri.edu.au
Research Officer @ Sydney
Position title: Research Officer, Computational Systems Biology
Employer: Children’s Medical Research Institute (CMRI)
Closing date: 7th August 2020
Brief position description: The opportunity
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. The CSB lab collaborates closely with other groups and units at CMRI (e.g. Embryology) and also bioinformaticians from the School of Mathematics and Statistics, and systems biologists from Charles Perkins Centre (CPC), at the University of Sydney.
This is a three-year fixed term position with possibility for extension tenure subject to satisfactory performance, and the requirements of research projects in the Research Unit.
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.
Job website: http://www.seek.com.au/job/50204904
Contact name: Pengyi Yang
Contact email: pengyi.yang@sydney.edu.au
Bioinformatician @ Perth
Position title: Bioinformatician
Employer: Murdoch University - Australian National Phenome Centre
Closing date: 09/08/2020
Brief position description: This position is an opportunity for an experienced Bioinformatician or researcher to join this unique Centre under the scientific leadership of Professor Elaine Holmes (Director of CCSM and WA Premier’s Fellow in Phenomics and Systems Medicine) and Professor Jeremy Nicholson (Executive Director of the ANPC and the Pro Vice Chancellor Health Futures Institute). CCSM Bioinformaticians collate, manage and study metabolic phenotyping data using dedicated in-house databases and informatics pipelines; key duties include the application of data (pre-) processing workflows and to perform data modelling tasks for statistical evaluation, result visualisation and contextualisation within respective study frameworks.
Job website: http://webapps7.murdoch.edu.au/pls/apex/f?p=2903:VIEW_JOB:0:::5:P5_ID:8008
Contact name: sara lim
Contact email: sara.lim@murdoch.edu.au
Senior/Research Scientist - Translational Bioinformatics @ Melbourne
Position title: Senior/Research Scientist - Translational Bioinformatics
Employer: CSL Limited
Closing date: August 9, 2020
Brief position description: We have an opportunity available for a Senior/Research Scientist, Translational Bioinformatics to join our Research team located at Bio21 Institute. In this position, you will provide scientific and technical expertise to help answer biomedical questions at the pre-clinical and clinical stage of drug development using advanced bioinformatic methods. You will expand CSL’s research capability by supporting the Global Translational Science group in order to derive biological insights from in-house high-throughput sequencing data and large-scale genomic data available in public and commercial databases. Furthermore, you will devise an integrative approach to analyze multiple types of data obtained from in-house and external resources in order to answer key questions in the areas of biomarker discovery and understanding of mechanisms of action of targets, drug candidates and diseases of interest.
Working closely with the Data Science Group, the Translational Science Group and other Research, you will set project objectives and determine and implement data generation, analysis and software 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 strategies for bioinformatics methods.
Reporting into the Senior Manager Bioinformatics & AI in the Global Research Data Science Group, you will be responsible to:
Provide input into thedesign of next-generation sequencing experiments including RNA-seq, DNA-seq, Rep-seq, etc.
Carry outbioinformatic analyses on datasets generated in-house from different NGS and array experiments or collected from external databases.
Contribute to theinterpretation and reporting of the biological insights derived from data analytics based on GSP guidelines.
Work with the Translational Science group to establish an in-house capability toutilize genetic and genomic variants in order to improve biomarker discovery, understanding of MoA, patient stratification strategies and prioritisation of indications for drug targets.
Work with the Translational Science group tobenchmark and adapt new sequencing technologies (e.g. long read and single cell sequencing) in order to answer challenging research questions across multiple drug discovery projects.
Work with the Translational Science group tointegrate data from external databases (e.g., GTEx, ExAC, ENCODE, UK Biobank) into CSL Research computational platforms and improve upon current data mining practices.
Work with in-house software developers to develop fullyautomated workflows that help accelerate Translational Science data processing activities.
Work with Research and IT data managers in order todevise new processes for managing translational data and ensure compliance with CSL’s regulatory requirements (e.g., Good Scientific Practices, etc.).
Contribute toCSL’s growing collaboration network with academic laboratories and industry partners locally and globally.
To be successful in this role, you will have:
PhD in computational biology, bioinformatics, computer science, statistical genetics, or a related discipline with significant computational and biomedical components coupled with Bachelor’s or Master’s degree in biological sciences
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.
More information and application at https://www.linkedin.com/jobs/view/1951820997/
Job website: http://www.linkedin.com/jobs/view/1951820997/
Contact name: Sophie Saba
Contact email: Sophie.Saba@csl.com.au
Research officer @ Melbourne
Position title: Research officer
Employer: University of Melbourne
Closing date: 12th August 2020
Brief position description: We are seeking a Research Officer in bioinformatics to join the research group of Prof Lachlan Coin within the Department of Microbiology and Immunology at the Doherty Institute. The applicant should have a PhD in computer science, bioinformatics or another relevant discipline. Previous experience in genetics, genomics, computational biology or bioinformatics is essential and strong programming skills are required. This Research Officer will be expected to develop a research program in computational and statistical analysis of multi-omics datasets, including long-read RNA and DNA sequencing data, with application to the area of infectious disease. The candidate will develop a strong program of collaborative projects with other researchers in the Doherty Institute. A significant number of COVID related research projects are in progress and the candidate will develop and apply research tools in this area. The candidate will be responsible for initiating new areas of investigation and developing an independent program of research.
Job website: http://jobs.unimelb.edu.au/caw/en/job/900808/research-officer-bioinformatics
Contact name: Lachlan Coin
Contact email: lachlan.coin@unimelb.edu.au
Postdoctoral Bioinformatician @ Melbourne
Position title: Postdoctoral Bioinformatician
Employer: Baker Institute
Closing date: Thursday, 13 August 2020
Brief position description: We are looking for a Postdoctoral Bioinformatician. The successful candidate will be based at the Baker Institute in the Systems Genomics and Metabolomics Labs and supervised by A/Prof Michael Inouye (www.inouyelab.org) and Prof Peter Meikle (https://www.baker.edu.au/research/laboratories/metabolomics). The successful candidate's main roles will be (i) to provide expert biostatistical and bioinformatic analysis to perform risk prediction using a variety of data types, including polygenic risk scores and metabolomic data. (ii) develop new risk prediction methodologies that may transform how we screen for and prevent cardiovascular disease. (iii) oversee project management for sample processing and data management.
Job website: http://www.seek.com.au/job/50240119
Contact name: Mike Inouye
Contact email: michael.inouye@baker.edu.au
Research Associate/Fellow - Fungal and Plant Genome Bioinformatics @ Perth
Position title: Research Associate/Fellow - Fungal and Plant Genome Bioinformatics
Employer: Curtin University
Closing date: Friday 7 August, 10:00 PM AWST
Brief position description: Centre for Crop and Disease Management (CCDM)
The Centre for Crop and Disease Management (CCDM) at Curtin University launched in April 2014 as a co-investment between the Grains Research and Development Corporation (GRDC) and Curtin University. The CCDM is a major investment in research training, crop disease-focussed research activity and infrastructure. The Centre includes a new high quality research facility at Curtin, used for research and development to sustainably reduce the impact of important grain pathogens and ultimately, to provide solutions to reduce the impact of diseases on farm business resilience. The Centre’s activities integrate molecular sciences with field- based agronomy to generate new avenues to breed disease resistant germplasm and to assist farmers to sustainably utilise a full range of disease control options. The CCDM has three themes of activity with several projects in each theme. There is strong interdisciplinary collaboration within the Centre and active collaboration with leading national and international scientists.
Research Theme B – Cereal Diseases
This position is embedded in Theme B of the CCDM which focusses on cereal disease research and targets a range of costly and complex diseases of wheat and barley. Yield and economic losses of both of these crops remain a significant issue for the Australian grains industry. CCDM conducts pre-breeding research using a biochemical, genetic and ‘omic’ approaches to help breeders develop disease-resistant varieties as an effective, long-term solution to crop disease control. Our researchers also explore the interaction of pathogens during co-infection and the resulting host responses.
This role is a unique opportunity for the successful candidate to be part of the dynamic team in Theme B to substantially improve yield stability for Australian grain growers.
Responsibilities of the role include
Carry out fungal and wheat genome assemblies, gene annotation, RNAseq and pan-genomics analysis.
Adopt/modify/develop computational pipelines for various bioinformatics tasks.
Identify potential effector and plant receptor candidates.
Participate in group activities.
Supervise staff and students.
You will bring to the role
A Ph.D. in a relevant subject area (e.g. life science or bioinformatics). Candidates with theses under examination may also be considered.
Experience in programming languages (e.g. Perl, Python, R, Bash, etc.) and their scientific application.
Experience of using methodologies associated with bioinformatics and scientific computing.
Ability to write scripts or programs to support common bioinformatics/analysis tasks.
Prior experience with genome assembly, gene annotation, transcriptome analysis and comparative genomics.
Demonstrated commitment to publish the results of research in scientific journals.
Sound interpersonal skills, with the ability to work independently and as a team.
Strong oral and written communication skills.
Demonstrated experience in statistics and experimental design as applied to molecular biology.
Prior experience using high-performance supercomputing (desirable).
Experience with life sciences, molecular biology and/or host-microbe interactions (desirable).
Why choose Curtin?
Easily accessible location with great parking, bus station and end of trip facilities!
Vibrant campus with gym, childcare and medical services, and an array of food trucks, coffee shops and restaurants!
We are ranked in the top 1% of universities worldwide (ARWU 2018 and QS World University Rankings 2019)
A major global player, with well-integrated campuses in Singapore, Malaysia, Mauritius and Dubai.
The University has recently been named as one of Australia’s Inclusive Employers for 2019-2020 by the Diversity Council of Australia (DCA).
For further information on Curtin and all of our employee benefits visit https://about.curtin.edu.au/jobs/
Next steps
Please apply on-line with a cover letter, resume and documentation addressing the selection criteria to enable us to assess your suitability for the role. If you require reasonable accommodation to participate in the recruitment process please advise in your cover letter.
To view a copy of the role’s Position Description, please copy and paste the following link into you’re your browser
https://cloudstor.aarnet.edu.au/sender/?s=download&token=7b6c0840-7eae-4150-a0c6-293689327e1d
Applications close: Friday 7 August, 10:00 PM AWST
Contact details
If you have a query in relation to the application process please contact our careers team on curtincareers@curtin.edu.au or call Natalie Munro on 08 9266 2280.
If you wish to speak to a technical specialist please contact Huyen Phan (Project lead) on 08 9266 2099 or huyenphan.phan@curtin.edu.au.
Disclaimer
Curtin reserves the right at its sole discretion to withdraw from the recruitment process, not to make an appointment, or to appoint by invitation, at any time. We reserve the right to remove the advert earlier than the date on the advert.
Job website: http://www.seek.com.au/job/50221947?type=standout#searchRequestToken=e03a130f-1633-442e-a56c-0f5694f30bed
Contact name: Huyen Phan
Contact email: huyenphan.phan@curtin.edu.au
Research Computing Engineer or Senior Research Computing Engineer @ Melbourne
Position title: Research Computing Engineer or Senior Research Computing Engineer
Employer: The Walter and Eliza Hall Institute of Medical Research
Closing date: 23 July 2020
Brief position description: This is a science enablement role, the purpose of which is to develop solutions for computational science in complex environments spanning traditional on-premise facilities to cloud and complex hybrid execution models. This will involve areas such as pipeline and pipeline tool development, data management and data movement tools, web site development, database development, machine learning pipelines, collaborative planning of hardware and software infrastructure, etc. In addition, the incumbent will work with IT and researchers to develop policy and guide regular upgrades to our compute infrastructure.
Job website: https://www.wehi.edu.au/research-computing-engineer-or-senior-research-computing-engineer
Contact name: Evan Thomas
Contact email: thomas.e@wehi.edu.au
Bioinformatics Research Fellow @ SA
Position title: Bioinformatics Research Fellow
Employer: SA Health
Closing date: 17/7/2020
Brief position description: Bioinformatics Research Fellow (Research Level GFSc2)
• Based in the Centre for Cancer Biology (CCB)
• Full-time, bioinformatics/genome analysis vacancy of 1-year fixed term contract
• Total Indicative Renumeration: GFSc2, $92,017-$105,461 per annum
About the Job
For this position, we are seeking a bioinformatician to work jointly on the analysis of diverse NGS data with research groups throughout the CCB. You will implement and conduct high quality scientific research and report on research outcomes in line with research goals and milestones of the individual laboratories. Data types that will be encountered originate from DNA-Seq, coding and non-coding RNA-Seq, ChIP-Seq, HITS-CLIP, ATAC-Seq, single cell sequencing among others. You will be working both with short read Illumina and long read data.
About us
The Centre for Cancer Biology is an alliance between the University of South Australia and SA Pathology and boasts the largest concentration of fundamental cancer research in the state. Research groups within the CCB use Next Generation Sequencing and other high throughput technologies to study the fundamental causes of cancer and to find new ways to prevent and treat disease. Members of a large team of bioinformaticians work together with CCB researchers to analyse and interpret the resultant data.
The bioinformatics group of the CCB is located within the ACRF SA Cancer Genomics Facility as well as the CCB’s new laboratories in the Adelaide’s BioMed City. It is the largest biomedical bioinformatics group in South Australia, consisting of approx. 15 staff members and students. Group members are physically co-located but are employed through, and work with, individual CCB research groups, the Genomics Facility or SA Pathology’s diagnostic arm.
Skills and Experience
• To be eligible, you will have a post-graduate qualification in bioinformatics and/or statistics and/or computational science or related disciplines.
• You will also have competency in recording, analysing, presenting and disseminating research to stakeholders including the preparation of papers for high quality publications or posters for conference presentations - amongst other criteria as listed in the position description.
• To be successful, you will have high level of interpersonal, communications and organisational skills along with knowledge of scientific terminology relevant to the research projects.
Application
Applications for this position must be lodged through https://www.sahealth.sa.gov.au/careers (Job ID: 729725) and the application deadline is 17/07/2020.
Job website: http://www.sahealth.sa.gov.au/careers
Contact name: Andreas Schreiber
Contact email: andreas.schreiber@sa.gov.au