Bioinformatician position in Sydney

Position title: Bioinformatician

Employer: The Sydney Head and Neck Cancer Institute (SHNCI) at the Chris O’Brien Lifehouse

Closing date: 19th October 2018

Brief position description: The Sydney Head and Neck Cancer Institute (SHNCI) at the Chris O’Brien Lifehouse aims to integrate both basic and clinical research to develop preventive strategies, improve cure rate, and enhance the quality of life of patients with head and neck cancer. A major aspect of our research programme is focused on understanding the role of genes and molecular and cellular processes in the development and progression of head and neck cancers.
The opportunity:
We are now seeking Bioinformatics Research Officer for a position based between the core SHNCI research team and our collaborators at the Charles Perkins Center, University of Sydney. This can be negotiated as a part time (minimum 0.6FTE) or a full time position. The position will be based at the Charles Perkins Center, University of Sydney. The successful candidate will have the opportunity to work with both DNA and RNA sequencing data. There are multiple opportunities to work with whole genome, transcriptome and targeted panel sequencing outputs of a variety of head and neck malignancies including skin, mucosal and salivary gland tumours. The candidate will be supervised jointly by Prof Jean Yang and Dr. Kitty Lo and will be reporting directly to Professor Jonathan Clark, Associate Professor Ruta Gupta and Dr Bruce Ashford.
Essential duties:
• Working/developing research grade head and neck cancer genomic analysis pipelines
• Work within a team environment to undertake translational research in head and neck cancer with an emphasis on developing biological insights that are relevant to patient outcome.
• Staying abreast on advances in genomics and/or next generation sequencing technology in general, maintaining knowledge on precision medicine
• Develop and maintain software packages of developed methods as well as maintenance of related webpages.
• Day-to-day support and training of PhD students as required.
• Input into manuscript design, development and editing of studies based on sequencing data analysis.
This position is a key role within our highly collaborative multidisciplinary research team. The successful candidate will be responsible for curating and analysing large volumes of genomic data from our ongoing research effort, and thereby contribute to advancing our translational research programme.
Selection Criteria:
1. A minimum of a Bachelor’s degree in bioinformatics or a related area of science
2. Highly developed skills in bioinformatics and genomics. In particular, experience with low level processing or performing initial data analysis on recent platforms of omics data such as next generation sequencing (essential).
3. Superior computer programming or software development skills, a preference in R but not essential.
4. Demonstrated understanding of the incorporation into University life of the principles of Equal Employment Opportunity and Affirmative Action; and ability to work positively with staff and students from a diverse range of backgrounds
5. Experience working with clinical research or medicine is desirable, but not essential
6. Good communication skills (both written and oral).
7. Ability and willingness to assist others within the team.
Apply by sending your cover letter and resume to careers@lh.org.au
To find out more, please contact Dr Aniko Huizer-Pajkos on 0285140365 or aniko.huizer-pajkos@lh.org.au
Applications close: 19th October 2018

Job website: http://www.seek.com.au/job/37413569?_ga=2.78607517.803453506.1538962444-1878375570.1517369122

Contact name: Aniko Huizer-Pajkos

Contact email: aniko.huizer-pajkos@lh.org.au

PhD scholarships (Bioinformatics) at the University of Hong Kong

Employer: The University of Hong Kong

Closing date: 15 November 2018

Brief position description: The Ho Laboratory at the School of Biomedical Sciences of the University of Hong Kong (https://holab-hku.github.io/) focuses on the use of bioinformatics and systems biology approaches to tackle longstanding problems in basic and transnational medicine. Most projects in this laboratory involve integrative analysis next-generation sequencing (NGS) data such as single-cell RNA-seq, ChIP-seq, and whole genome sequencing data. Some research areas include:

- Scalable algorithm for single cell RNA-seq analysis
- 3D virtual reality visualisation of biological data
- Wearable devices, physical activity and heart rate dynamics
- Causal disease mutation identification in whole genome sequencing data
- A cloud-based approach for incorporating scalability into genome informatics
- Integrative metagenomics analysis

We are seeking outstanding PhD students to join our laboratory. Very strong candidates are eligible to apply for a prestigious Hong Kong PhD Fellowship, which will provide a tax-free scholarship of HKD$301,200 (AUD$54,460) per year. The fellowship also provides a travel allowance of HKD$12,600 (AUD$2,280) per year for the duration of the candidature. 

Qualifications:
- Bachelor degree in a quantitative discipline (bioinformatics computer science, statistics, mathematics, physics, engineering, etc), with first class honours or equivalent. 
- Proficient in at least one programming / scripting language (R, python, perl, C, C++, Java, etc)
- Familiarity with the Unix operating system
- Prior experience in bioinformatics is desirable

Eligible candidates may also be considered for employment as a research assistant or postdoctoral fellow (for PhD holders).

Job website: http://www.sbms.hku.hk/staff/joshua-wing-kei-ho

Contact name: Joshua Ho

Contact email: jwkho@hku.hk

Senior Research Fellow / Associate Professor (Bioinformatics), UNSW

Employer: UNSW

Closing date: 11pm on Sunday 21st October 2018.

Brief position description: We are seeking an exceptional Senior Lecturer or Associate Professor to deliver outstanding research in bioinformatics and integrative genomics with a focus in cancer research. The successful candidate will be based within the Adult Cancer Program of the Prince of Wales Clinical School at the Lowy Cancer Research Centre, UNSW Sydney.

Job website: http://external-careers.jobs.unsw.edu.au/cw/en/job/494839/senior-research-fellow-associate-professor-bioinformatics

Contact name: Ian Jones

Contact email: i.jones@unsw.edu.au

2019 PhD Scholarship in Bioinformatics, James Cook University

Employer: James Cook University

Closing date: 30 September

Brief position description: Considering Bioinformatics/Computational Biology? Interested in Tropical diseases/health?

JCU Scholarships for Higher Degree by Research Candidates are awarded annually on a competitive basis to the top ranking applicants.

JCU Research Scholarship applications to start in 2019 are now open!

Applications close on 30 September 2018.

James Cook University (JCU) offers a range of competitive scholarships for domestic and international applicants. When you apply for a scholarship, you will be considered for all the scholarships for which you are eligible, starting from the scholarship with the highest value.

For more information on how your scholarship applications are ranked, or if you will be eligible.

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



Junior to Senior Research Officers - Computational Genomics, Garvan

Employer: Garvan Institute of Medical Research

Closing date: 7 October 2018

Brief position description: About Us
The Computational Genomics Laboratory focuses on demonstrating the genomic mechanisms by which loci contribute to complex human diseases, and working towards early stage diagnosis methods and targeted therapeutics. To do so, we apply existing computational approaches, and develop our own statistical genetics methods for analysis of large-scale next generation sequencing data. Following in silico experiments, we perform functional validation of statistical observations using molecular techniques such as high-throughput genome editing and cell phenotyping. We have a very significant focus on the use of single cell sequence data and technology, due to the phenomenal resolution it offers in being able to identify differences in the genomics processes between individual cells. The laboratory drives projects in a number of areas of medical genomics research, but we also believe strongly in the value of collaboration between groups with differing expertise. We are committed to reproducible research practices, and open data policies. 

Our three major research projects are: 

1. Population genetics meets single cell sequencing
We have generated single cell RNA-sequence data from blood samples, along with SNP genotypes for a large cohort of healthy and unrelated individuals. This project will develop single cell eQTL mapping methods to firstly produce an atlas of cell-type specific and ubiquitous genetic effects on gene expression. Subsequently, by integrating population level GWAS and bulk RNA-sequence data, with medical records and vaccination history available to this cohort, work to identify the genetic and cell type specific mechanisms contributing to disease risk and immune response to pathogens. 

2. Resolving the genetic mechanisms of complex human disease using stem cells
Using induced pluripotent stem cells, and differentiating them through intermediate to mature cell states allows us to study the genetic mechanisms that contribute to common diseases. This project will build on recent work from the Computational Genomics group to address two fundamental questions. Firstly, do the genetic (allelic) effects that contribute to disease vary as cells transit across their developmental lineage? Secondly, does genetic variation influence cell fate and cell developmental phenotypes? 

3. Clinical translation of single cell sequencing for diagnosis and precision medicine
This project will focus on the further development of statistical methods for the prediction of cell states or types from clinical samples and their use in clinical decision making for precision treatment. The research will predominately focus on the development of new statistical and analytical methods, but with initial applications using single cell sequence data generated from liquid biopsies from lung diseases, cancers, and immune profiling. 

The Opportunity
We are seeking Junior to Senior Research Officers to join Associate Professor Joseph Powell’s newly formed Computational Genomics Laboratory at Garvan.

The key responsibilities include:
• Performing experiments and analysis of data generated either by the Computational Genomics Laboratory, collaborators, or publicly available
• Recording and assisting with design and interpretation of experimental procedures and results
• Develop work priorities and review research progress with Research Divisions such as Cancer and Genomics & Epigenetics
• Conducting leading-edge informatic analysis of genetic and genomic datasets
• Publish research outcomes under joint authorship in leading scientific journals 
• Provide data for research proposal submissions to external funding bodies
• Discussing and reviewing current and future techniques within Garvan’s Bioinformatics (BUG) meetings
• Gain peer recognition by presentations at national scientific meetings in relevant field
• Provide general research guidance to more junior research staff 

The position will be full-time for 3 years in the first instance.

About You
A strong background in human genetics, cancer genetics and genomics, genetic epidemiology, and/or computational biology, bioinformatics preferred. Highly motivated individuals with a recent PhD and a strong track record of research as evidenced by publications; excellent written and verbal communication; expertise in bioinformatics DNA analysis software; strong attention to detail, good multi-tasking skills; and a willingness to learn new technologies are encouraged to apply. The applicant should have published in top tier journals and demonstrated an ability to successfully complete projects independently. The Research Officer is expected to establish independent research projects and to generate high impact publications, providing outstanding opportunity for further career development in academia.

How to Apply 

All applications must be submitted via Garvan’s Careers site via the link below. Applications from other sites/channels will unfortunately not be considered.
http://garvan.applynow.net.au/jobs/GC201897 

Please include the following in your application:
• A cover letter
• Your resume including at least 2 referees
• Copies of relevant qualifications / academic transcripts

Closing Date

This position will remain open until 7 October 2018. We are reviewing applications as they are received, as such candidates are encouraged to submit their application as soon as possible.

Job website: http://garvan.applynow.net.au/jobs/GC201897

Contact name: Human Resources

Contact email: hr@garvan.org.au

Data Scientist / Biostatistician / Bioinformatician

Employer: Children's Medical Research Institute

Closing date: 15th October 2018

Brief position description: We are seeking a suitably qualified Data Scientist/Bioinformatician to join the Bioinformatics and Data Science Research Facility. This role will involve collaborating with medical researchers from the CMRI and collaborating institutions to develop and tailor computation tools, statistical and mathematical solutions around specific research questions. It will involve engaging in experimental design, building novel algorithms or using ‘best practices’ tools to transform experimental and clinical data into relevant knowledge that may lead to actionable novel research findings or improvements to clinical decision-making. The successful applicant will have opportunities to explore and interrogate a diverse range of data, some of which include: genomics, epi-genomics, transcriptomics, proteomics, structural biology, cell imaging and clinically relevant data. Additionally, the successful applicant will reside closely with highly experienced medical research data scientists/bioinformaticians.

Job website: http://www.cmri.org.au/getattachment/About-Us/Job-Vacancies-and-Careers/PV1825-Job-ad_Medical-Research-Data-Scientist-Bioinformatician.pdf.aspx?lang=en-AU

Contact name: Paulina Baranowski

Contact email: recruitment@cmri.org.au



Field Application Scientist, Genomics Software CAD

Employer: Agilent Technologies

Closing date: 31 October 2018

Brief position description:
Agilent inspires and supports discoveries that advance the quality of life. We provide life science, diagnostic and applied market laboratories worldwide with instruments, services, consumables, applications and expertise. Agilent enables customers to gain the answers and insights they seek -- so they can do what they do best: improve the world around us. Information about Agilent is available at www.agilent.com.

Agilent Genomics provides a cloud-based software platform to help genetic labs and clinicians pinpoint and report on genetic defects that cause disease in patients. Our solution enables the automation of clinical annotation and streamlines reporting of structural and molecular variation.

We are looking for an enthusiastic, customer-oriented Field Application Scientist to join our Genomics Software Solutions team in Australia and help grow our business in the APAC/SAP region. The use of genetic data in routine clinical practice and clinical research is rapidly transforming healthcare - be part of the revolution! You will be part of a fast growing and exciting division of Agilent Technologies whose culture is entrepreneurial, professional, and rooted in teamwork and innovation.

Responsibilities

As a Field Application Scientist you will serve as the primary, customer-facing pre/post-sales support resource for Agilent's Alissa Clinical Informatics Platform and provide local informatics support across a network of leading healthcare and research organizations. You will:

Prepare for and manage all aspects of pre-sales demonstrations;

Participate in bid teams to develop project proposals together with sales and technical teams;
Represent the company at scientific conferences and trade-shows, including staffing of booth, demonstration of software and technical representation in customer meetings;
Support customers in evaluating the products to bring the evaluation to a successful conclusion;
Operate in a consultative fashion to match customer needs to solutions offered by the company;
Provide installation, training, and on-site software configuration support as needed;
Supporte account managers in attending to customer satisfaction & product relevance through regular site visits or contacts;
Handle technical queries from customers regarding use and functionality of software products (first-and second-line support);
Proactively identifying potential customer issues with Agilent products and coordinating corporate resources to find solutions;
Participating as an active member of the team to provide feedback on product direction and market/customer requirements.
Advanced degree in molecular biology, genetics, bioinformatics or computer science (or equivalent, relevant experience);
2+ years of industry experience in a clinical setting;
Familiarity with wide range of molecular genetics tools such as linkage analysis, karyotyping, array-CGH, Sanger and next-generation sequencing (NGS) within various clinical domains (rare diseases, pathology, reproductive genetics, ...);
Familiarity with working with next-generation sequencing data analysis tools and analysis / bio-informatics pipelines;
Affinity with software, software configuration and troubleshooting; experience a in technical / customer support role a plus;
Past experience with bioinformatics, scripting languages, linux / unix a plus.
You have good communication skills and have no objections to frequently interact with customers;
You have an enthusiastic can-do mentality, and you are a dedicated team-worker and a clear communicator. Entrepreneurial attitude and creativity are important.
Willing to travel periodically (domestic and international) -- around 35% travel time.

Job website: http://recruiting.adp.com/srccar/public/nghome.guid?c=2167807&d=External&prc=RMPOD4&r=5000374622406

Contact name: Jane Hermann

Contact email: jane_hermann@agilent.com



Research Fellow Bioinformatician, Monash University

Employer: Monash University

Closing date: 2nd October 2018

Brief position description: Research Fellow - Bioinformatician (Level B) - 3 years fixed term

The primary purpose of this position is to work within the scope of the precision medicine team. Emphasis will be on bioinformatic and analytically focussed contributions to the precision medicine research program. The position will work collaboratively with a small team of bioinformaticians and involve working with a variety of large datasets related to the molecular characteristics of several human diseases, including heritable disease susceptibility. It is expected that the occupant will develop an increasingly independent research programme that complements these activities and further utilises the resources of the precision medicine team.

Job website: http://careers.pageuppeople.com/513/cw/en/job/581417/research-fellow

Contact name: Tu Nguyen-Dumont

Contact email: tu.nguyen-dumont@monash.edu



Senior Research Fellow, Monash University

Employer: Monash University

Closing date: 17th September 2018

Brief position description: Senior Research Fellow Bioinformatician (Level C) - 3 years fixed term

The primary purpose of this position is to work within the scope of the precision medicine team. Emphasis will be on bioinformatic and analytically focused contributions to the precision medicine research program as well as initiating independent research compatible with the overall research program. The position will also work collaboratively with research teams conducting molecular genetic analyses in oncology including clinical trials. 
A Level C research-only academic is expected to make independent or original contributions to the research effort within their field of expertise and to the organisational unit or inter-disciplinary area of which they are a part. An academic at this level is expected to play a major role in research including the exercise of some leadership in research.

Job website: http://careers.pageuppeople.com/513/cw/en/job/579560/senior-research-fellow-bioinformatician

Contact name: Tu Nguyen-Dumont

Contact email: tu.nguyen-dumont@monash.edu



Postdoc position in Bioinformatic and transcriptomic analysis and detection of non-coding RNA in bacteria, Denmark

Employer: University of Copenhagen, Faculty of Health and Medical Sciences, Department of Veterinary and Animal Sciences, bioinformatics group (http://ivh.ku.dk/bioinformatics), Center for non-coding RNA in Technology and Health (RTH), (http://rth.dk)

Closing date: Sep 17, 2018

Brief position description: A two-year Postdoc position is available in the bioinformatics group (http://ivh.ku.dk/bioinformatics), Center for non-coding RNA in Technology and Health (RTH), (http://rth.dk) at Department of Veterinary and Animal Sciences, Faculty of Health and Medical Sciences at University of Copenhagen. The Postdoc position in Bioinformatic and transcriptomic analysis and detection of non-coding RNA in bacteria is available from 1 October 2018 or as soon as possible thereafter. 

Information about the department can be found at http://ivh.ku.dk/english/

As a team player working with great excitement you will be a key person in the project. The Postdoc position is part of the NextProd project (http://nextprod.dk), which aims to discover non-coding and structured RNA (ncRNA) that can affect the yield of cell factories. The NextProd project is supported by Innovation Fund Denmark. 

Background

Cell factories are based on organisms, which have been carefully optimised to produce protein-based products such as enzymes and pharmaceutical proteins with the highest possible yield. However, current technology is saturated with respect to yield improvement although the theoretical maximum has not yet been reached. Within the NextProd project, the goal is to improve the yield by manipulating ncRNAs. 

Job description

Transcriptomic data sets from relevant strains of the model cell-factory Bacillus subtilis will be used as outset for identification of ncRNAs, their expression, RNA structure and potential RNA-RNA interactions. An integrated workflow will be established including both known tools and tools developed on demand when relevant. The work involves interfacing and updating a genome browser framework with transcriptomics data, visualization results and gene associations. The work will be combined with further experimental analysis of candidates from the project collaborators.

Job website: https://candidate.hr-manager.net/ApplicationInit.aspx?cid=1307&ProjectId=147905&DepartmentId=19008&MediaId=5

Contact name: Jan Gorodkin

Contact email: gorodkin@sund.ku.dk