Employer:Walter and Eliza Hall Institute of Medical Research
Closing date:17/09/2019
Brief position description:The appointee will join the WEHI Genomics and Single Cell Open Research Endeavour (SCORE) teams and be part of the WEHI Genomics Hub (WGH).
The appointee will be undertake bioinformatic analyses of genomic sequencing data, especially from single cell technologies, using the R programming environment and other tools.
They will also provide software pipeline support for sequencing data generation.
The WGH provides access to several next generation sequencing
platforms (illumina, PacBio, Oxford Nanopore) as well as single cell capture platforms (10X Chromium, CEL-Seq2, Fluidigm C1).
These teams generate next generation sequencing data for both internal and external collaborators.
The appointee will use advanced bioinformatics tools, developed at the WEHI and elsewhere, to compile and
analyse data utilising the in-house high-performance computing infrastructure.
Job website:http://www.seek.com.au/job/39811200?searchrequesttoken=2b42425e-6924-435b-a8b6-a8bde9c2f808&type=standard
Contact name:Stephen Wilcox
Contact email:swilcox@wehi.edu.au
Genomics Bioinformatician (Health Manager Level 2) @ Sydney
Employer:Sydney Local Health District
Closing date:22 September 2019
Brief position description:This is a new position established by the Sydney Local Health District (SLHD) for its Genomics Network located at the Royal Prince Alfred (RPA) Hospital. The purpose is to provide core support in bioinformatics to a number of health professionals working in genomics. The scope is broad including germline, somatic and microbial genetics. As required, the successful applicant might need to collaborate with other bioinformaticians within the SLHD (RPA and Concord Hospitals), the University of Sydney and NSW Health Pathology. The successful candidate will need to demonstrate strong programming proficiency ideally with proven expertise in next generation sequencing genomic analysis.
Job website:https://iworkfor.nsw.gov.au/job/genomics-bioinformatician-health-manager-level-2-172540
Contact name:Bing Yu
Contact email:Bing.Yu@sydney.edu.au
PhD candidate for New Methods in Molecular Phylogenetics @ ANU
Employer: Australian National University
Closing date: September 16th 2019
Brief position description: Phylogenies form the backbone of our understanding of much of life on earth. We are looking for a candidate with experience in bioinformatics, mathematics, computer science, or machine learning to help us build and apply the next generation of phylogenetic methods.
This PhD project will involve designing and testing the next generation of methods for estimating phylogenetic trees from genome-scale sequencing data. There are a large number of potential directions that the research could take, and the details will depend on your interests and experience. Potential directions include: developing rapid phylogenetic methods using machine learning; new approaches to phylogenetic model selection; co-estimating multiple trees; developing empirical benchmark datasets in phylogenomics.
Job website: http://www.findaphd.com/phds/project/new-methods-in-molecular-phylogenetics/?p111348
Contact name: Rob Lanfear
Contact email: rob.lanfear@anu.edu.au
PhD scholarship - Systems Biology/Bioinformatics @ Cairns, Australia
Employer: Australian Institute of Tropical Health and Medicine (AITHM)
Closing date: 30 September
Brief position description: Calling for Systems Biology PhD applications to join the new “Health and Disease” theme of the Centre for Tropical Bioinformatics and Molecular Biology (CTBMB) and Australian Institute of Tropical Health and Medicine (AITHM), at James Cook University (Cairns, Australia).
Bioinformatics and Systems Biology projects opportunities exist in a range of infectious and chronic diseases that affect the tropics, such as tuberculosis, malaria, dengue, and diabetes as well as ongoing national and international collaborations in neuroscience and malaria. Systems Biology aims to better understand human disease using a combination of high-throughput technology (such as DNA/RNA sequencing, proteomics etc.) and bioinformatics. Projects are available in pure bioinformatics/systems biology, utilising and developing bioinformatics/systems biology/statistics/machine learning methods as well as joint wet-lab/dry-lab projects through excellent cross-cutting co-supervision.
Specific project opportunities exist for:
1) Development of bioinformatics methods for untangling disruptive signalling in neurological disease (collaboration with Dr Mark Graham; Children's Medical Research Institute)
2) Establishment of host-pathogen interaction bioinformatics platforms and methods for simultaneous analysis of host and pathogen transcriptomics (collaboration with Dr Firth)
3) Multi-omics bioinformatics of BCG vaccinated and Mtb-infected children (collaboration with Dr Kuptz, TB Immunology Group)
4) Systems immunology and multi-omics approaches to understand protective immunity to human malaria (collaboration with Prof Doolan and Dr Wise). This is supported by an AITHM Scholarship and details about this project are available here (closes, 13th September): https://www.aithm.jcu.edu.au/phd-stipend-scholarship/
Supervisor contacts:
Dr Ashley Waardenberg – Research Fellow (Bioinformatics), Theme Leader, JCU Centre for Tropical Bioinformatics and Molecular Biology https://research.jcu.edu.au/portfolio/ashley.waardenberg/
Ashley.Waardenberg@jcu.edu.au; (61-7) 4232 2046
Professor Denise Doolan – Professorial Research Fellow (Molecular Immunology), AITHM Deputy Director; Director of JCU Centre for Molecular Therapeutics https://research.jcu.edu.au/portfolio/denise.doolan/
denise.doolan@jcu.edu.au; (61-7) 4232 1492
Dr Ingrid Wise – Research Fellow (Molecular Immunology) https://research.jcu.edu.au/portfolio/ingrid.wise/
ingrid.wise@jcu.edu.au
Dr Andreas Kupz – Senior Research Fellow, Group Leader - Tuberculosis Immunology, Centre for Molecular Therapeutics
https://research.jcu.edu.au/portfolio/andreas.kupz/
andreas.kupz@jcu.edu.au; (61-7) 4232 2048
Dr Cadhla Firth – Hot North Career Development Fellow (pathogen genomics)
cadhla.firth@jcu.edu.au
Job website: http://www.jcu.edu.au/graduate-research-school/candidates/postgraduate-research-scholarships
Contact name: Ashley Waardenberg
Contact email: ashley.waardenberg@jcu.edu.au
PhD Scholarship - Genomic Data Analytics @ Monash
Employer: Monash University
Closing date: Saturday 30 November 2019, 11:55 pm AEST
Brief position description: Job No: 589959
Location: The Alfred Centre, 99 Commercial Road, Melbourne
Employment Type: Full-time
Duration: 3 year fixed-term appointment
Remuneration: Monash University Research Training Program (RTP) stipend: $27,872 per annum
The Opportunity
This is a unique opportunity to undertake a PhD in the Public Health Genomics program at Monash University, with direct access to one of the highest quality cohorts in Australia, the ASPirin in Reducing Events in the Elderly (ASPREE) study.
ASPREE have generated genomic data on over 15,000 Australians, now amongst the most comprehensive genomic data ever produced for an Australian cohort (13,500 exomes, 3,000 whole genomes, 15,000 SNP genotyping). The genomic data is accompanied by an unprecedented level of longitudinal phenotype, clinical and lifestyle information collected over 5+ years, to the highest standards of a clinical trial.
We seek talented PhD students to undertake data-driven studies with ASPREE, to begin to build their research careers around this important cohort study. Various projects are available making use of genomic + phenotypic data.
We seek candidates with backgrounds in human genetics, computational biology, statistical genetics, genetic epidemiology and/or clinical DNA sequencing analysis, with a desire for innovative analysis of large datasets. Candidates need to have a baseline knowledge of human genetics and be proficient with command line and R.
Essential Criteria
- Australian Citizen or Australian permanent resident
- An undergraduate (Honours) or Masters degree in biology, genetics, computer science and/or a related discipline
- Good written and oral communication skills and an ability to work in a team environment
- Proficiency (or high aptitude) for R programming and command line
Enquires and How to Apply
Interested candidates, please contact the Head of Public Health Genomics; Paul Lacaze (Paul.Lacaze@monash.edu) for more detail of the application procedure.
Please specify the project name above when making enquiries.
Closing Date
Saturday 30 November 2019, 11:55 pm AEST
Job website: http://careers.pageuppeople.com/513/cw/en/job/589959/phd-scholarship-genomic-data-analytics
Contact name: Paul Lacaze
Contact email: Paul.Lacaze@monash.edu
Post-doctoral position in Structural Bioinformatics @ CEA
Employer:Commissariat à l’Energie Atomique et aux Energies Alternatives (CEA)
Closing date:30 November 2019
Brief position description:The successful candidate will be a key member of a research project, MODAMDH, funded by the French Research Agency (ANR) and carried out in the Research Unit of Genoscope (CEA, CNRS, Paris-Saclay Univ., UMR8030). From its inception, Genoscope has been at the forefront of large-scale sequence-based science. Today, our institute performs biological and bioengineering research with applications in environment, healthcare and alternative energy. The Genoscope encompasses multidisciplinary team of ~100 staff with postdocs and engineers having expertise in genomics, bioinformatics, microbiology, biochemistry and biocatalysis.
The MODAMDH project aims at finding new amine dehydrogenases among biodiversity. It will be carried out by innovative approaches based on distant homology and 3D modeling of enzymes to mine massive (meta)genomic data. This project involved the biocatalysis (LBMS) and bioinformatics (LABGeM) teams of the Genoscope in collaboration with the York Structural Biology Laboratory (York, UK).
The candidate will be in charge of conducting bioinformatics analysis using cutting-edge methods in structural bioinformatics and sequence analysis. Large amount of candidate enzymes will be experimentally screened and selected hits will be characterized for biocatalysis application by a PhD student involved in this project. In addition, structural determination of the enzymes will be performed with another PhD student of the York laboratory.
Job website:https://bit.ly/2Zs2QEG
Contact name:Carine Vergne Vaxelaire
Contact email:carine.vergne@genoscope.cns.fr
Postdoctoral Scientist - Bioinformatician @ VCCRI Sydney
Employer:Victor Chang Cardiac Research Institute
Closing date:30/09/2019
Brief position description:We are seeking an enthusiastic post-doctoral scientist to join the Computational Genomics Laboratory, led by Dr Eleni Giannoulatou. The successful candidate will be involved in the analysis of whole genome sequencing datasets of patients with dilated cardiomyopathy and congenital heart disease recruited and sequenced by the Cardiovascular Genetic Disorders Flagship of Australian Genomics. The candidate will work closely with the laboratories of Prof Diane Fatkin and Prof Sally Dunwoodie.
Duties and responsibilities include:
• Development and application of quantitative methods on large genomic datasets
• Visualisation and interpretation of genomic data
• Supervision of junior lab members
• Publications in bioinformatics or genetics journals and presentations at conferences
This is a full-time appointment for three years with an annual review, and the possibility of renewal subject to funding.
Job website:https://www.nature.com/naturecareers/job/postdoctoral-scientist-bioinformatician-victor-chang-cardiac-research-institute-vccri-702675
Contact name:Eleni Giannoulatou
Contact email:e.giannoulatou@victorchang.edu.au
Postdoctoral Research Fellow in Bacterial Genomics @ Sydney
Employer:Macquarie University
Closing date:15/09/19
Brief position description:An exciting role has become available in the Department of Molecular Sciences (MolSci) at Macquarie University, Sydney, under the supervision of Dr Amy Cain. We are currently seeking a full-time Postdoctoral Research Fellow in Bacterial Genomics to develop and contribute to multiple bacterial genomics projects across the laboratory. You will be embedded within a small, enthusiastic and focused research team and expected to run your own projects as well as contribute to the ongoing lab work within the team in order to answer large and important biological questions focusing on bacterial responses to antibiotic stress.
This will be a largely bioinformatics-based position, but will likely include laboratory components depending on the research interests and capabilities of the successful candidate. Projects span areas of research using functional genomics to study antimicrobial resistance, antibiotic mode of action, evolutionary biology, pathogen/host infection, antibiotic development, hospital outbreaks and more. Within this team, you will run your own research and work in a team across multiple projects (depending on interests and background) within the core theme of understanding how antibiotics act on various hospital ESKAPE pathogens.
You will distill biological insights from various datasets of functional genomics sequencing data from cutting-edge sequencing technologies, such as transposon-insertion sequencing, RNAseq, phenotypic arrays, microfluidics, metabolomics and FACS using network analysis, correlation analysis, and/or machine learning techniques will be confirmed and placed back into biological significance in the laboratory. You will have the opportunity to publish new methodologies in Github and work on our servers.
Job website:http://jobs.mq.edu.au/cw/en/job/506471/postdoctorate-research-fellow-in-bacterial-genomics
Contact name:Amy Cain
Contact email:amy.cain@mq.edu.au
AITHM PhD scholarship ($28k) - Systems immunology and multi-omics approaches to understand protective immunity to human malaria @ Cairns
Employer:Australian Institute of Tropical Health and Medicine (AITHM)
Closing date:13th September 2019
Brief position description:The Australian Institute of Tropical Health and Medicine (AITHM) at James Cook University (Cairns) is a cross-disciplinary research institute comprised of bioinformaticians, systems biologists, immunologists, molecular biologists, and chemists. The scope of research encompasses basic science through to clinical translation and impact.
We invite applications for a PhD position focused on identifying human host factors that predict immune control of malaria. The project will utilise systems-based immunology and multi-omics approaches to profile the host immune response in controlled infection models of malaria at molecular, cellular, transcriptome and proteome-wide scale. The overall aim will be to develop and apply computational/biostatistical approaches, including network theory and machine learning, which integrate genomics, proteomics, transcriptomics and molecular immunology to improve our understanding of the host-parasite relationship and predict immune responsiveness and parasite control. Molecular signatures of immunity to malaria will inform the development of vaccines, immunotherapies or diagnostic biomarkers.
This project will provide an opportunity to be involved in cutting-edge advances integrating diverse fields of high dimensional -omic datasets. It will complement ongoing systems-based and therapeutic development efforts at AITHM directed at malaria and other tropical pathogens. The successful candidate will learn from, and be supported by, a team of researchers in bioinformatics, immunology, molecular sciences and biostatistics.
Methodologies:
Bioinformatics, Machine Learning, Immunology, Systems Immunology, Systems Biology, Genomics/Proteomics/Transcriptomics, Molecular and Cell Biology, Statistics
Eligibility:
Entry: BSc Honours Class I (or equivalent via outstanding record of professional or research achievements)
Experience/Background: Experience with programming languages, mathematics, statistics and/or background in immunology and molecular sciences, with an interest in integrating the fields of immunology and bioinformatics.
Excellent computer, communication, and organisational skills are required. Forward thinking, innovation and creativity are encouraged.
Scholarship: $28,000 per annum for three years.
Closing date: 13th Sept 2019
Please send your Curriculum Vitae, a copy of your academic record, and 1-page outline of your goals for a PhD (as per contact details below).
Supervisors:
• Dr Ashley Waardenberg – Research Fellow (Bioinformatics), Theme Leader, JCU Centre for Tropical Bioinformatics and Molecular Biology https://research.jcu.edu.au/portfolio/ashley.waardenberg/
• Professor Denise Doolan – Professorial Research Fellow (Molecular Immunology), AITHM Deputy Director; Director of JCU Centre for Molecular Therapeutics https://research.jcu.edu.au/portfolio/denise.doolan/
• Dr Ingrid Wise – Research Fellow (Molecular Immunology) https://research.jcu.edu.au/portfolio/ingrid.wise/
Contact details:
Dr Ashley Waardenberg: Ashley.Waardenberg@jcu.edu.au; (61-7) 4232 2046
Professor Denise Doolan: Denise.Doolan@jcu.edu.au; (61-7) 4232 1492
Job website:
Contact name:Ashley Waardenberg
Contact email:ashley.waardenberg@jcu.edu.au
Postdoctoral Research Fellow @ Monash University
Employer: Institute of Vector Borne Disease - Monash University
Closing date: 10 Sept
Brief position description: The Vector and Pathogen Genomics group at the Institute of Vector-Borne disease at Monash University is looking for a skilled postdoctoral Research Fellow to investigate genomic rearrangement and mobile element insertion in Aedes aegypti and its effect on gene flow in wild populations. As well as being a fascinating aspect of genome evolution, this is also a subject of prime interest to the success of population replacement interventions and the specific work of the World Mosquito Program.
In our group we apply omics tools to vectors, viruses and parasites in order to better understand disease transmission and develop tools for disease surveillance and control. Specific interests of the group include population structure and speciation in mosquito vectors, pathogen diversity and relatedness, pathogen-vector interactions and genomic epidemiology. This is all performed within the context of the World Mosquito Program and their global network of Wolbachia-based interventions into dengue and Zika transmission.
The role would suit either a computational biologist looking to work in an important field of infectious disease research, or an experienced entomologist who would like to pursue a postdoc in a computational field. Researchers with previous experience in statistical / population genetics or genomic evolution in insect species are encouraged to apply.
Job website: http://jobs.sciencecareers.org/job/501505/research-fellow/
Contact name: Seth Redmond
Contact email: seth.redmond@monash.edu