Bioinformatician at LUDC - Hiring in process/Finished, not possible to apply

Description of workplace
The Lund University Diabetes Centre (LUDC; www.ludc.lu.se) opens a position for a bioinformatician. LUDC is one of the largest diabetes research centres in the world with approximately 300 investigators and staff members working towards improved diagnosis, prevention and treatment of diabetes. The centre combines expertise in genetics, epidemiology, statistics, bioinformatics, molecular and cellular biology, physiology and clinical diabetes, and endocrinology to achieve these goals. LUDC has large unique biobanks and databases with genome-wide data linked to national registries providing information on disease etiology, progression as well as outcome and treatment. The centre has in-house platforms for most molecular genetic methods and metabolomics. Omics-information combined with extensive phenotyping allows a systems medicine approach to dissect the complexity of diabetes. A central theme at LUDC is to develop precision medicine to improve health and the quality of life of patients with diabetes. 

Duties and areas of responsibility
Applicants are invited to apply for a full time (100%) permanent position as bioinformatician at LUDC, with preliminary starting date 1 April 2023. 

The successful applicant will be part of the Bioinformatics Unit at LUDC, which includes several bioinformaticians, a biostatistician, a data manager, a computer engineer, and an IT-data manager (https://www.ludc.lu.se/resources/ludc-bioinformatics-unit). The Unit provides bioinformatics, biostatistics, and computational support to anyone affiliated with LUDC, as well as access to a high-performance computing environment. The support includes involvement in long-term research projects, analyses in short-term projects, consultation, and training.

A successful candidate will handle requests and deliver short and long-term bioinformatics solutions to non-bioinformatician scientists at LUDC. As such, they should be able to communicate effectively with non-specialists and manage their time across multiple projects. The successful applicant will contribute to manuscript preparation, with state-of-the-art analyses and publication quality figures.

A successful candidate will be involved in all aspects of bioinformatics/computational pipeline development, implementation and management for a diverse set of ‘omics data, including but not limited to genomics, epigenomics, transcriptomics, proteomics, metabolomics, as well as clinical data and metadata. The candidate is also expected to independently follow the development in the field of bioinformatics, to work on improving existing pipelines and present alternative solutions on how to best utilize available data and resources.

Another important part of the work that the successful candidate will perform includes quality control, processing, and analysis of data for the Human Tissue Laboratory (HTL), a key resource for LUDC researchers. The HTL collects human tissue samples for research purposes and performs central analyses on these materials, available to colleagues at the LUDC and Uppsala University.

The successful applicant is also expected to participate in the training and support of LUDC staff and scientists in the selection and use of bioinformatics tools.

Qualifications: 

• PhD in Bioinformatics, Molecular Biology, Statistics, Mathematics, Computer Science, or a related field.
• A proven track record in applying quantitative methods to data analysis tasks, as well as programming and computing cluster experience.
• Knowledge of next generation sequencing pipelines and experience manipulating, analysing, and annotating large biological data sets (e.g., RNA-seq, SNPs arrays, WGS, ChIP-seq, ATAC-seq), both in exploratory and pipelined fashions.
• Proficiency in R and knowledge and experience of BASH/UNIX.
• Experience in data analysis and data mining to identify trends and produce meaningful data visualizations. Experience in using common bioinformatics tools and statistical methods (e.g., DESeq, edgeR, GATK, PLINK, STAR, BWA, Salmon, Kallisto, FastQC). Experience with web-based bioinformatics tools and public domain biological databases.
• Highly capable of being involved collaboratively with an interdisciplinary team, including laboratory scientists, medical doctors, epidemiologists, bioinformaticians, statisticians, and data analysts.
• We will also pay attention to personal attributes, favouring individuals that are self-motivated, flexible and that have the ability to work independently in a well-documented way, to manage multiple projects in parallel and to prioritize and comply with deadlines.
• Documented oral and written proficiency in English.

Other preferred skills:

• Experience working with reproducible research tools (e.g., RMarkdown, Git, Conda, Snakemake).
• GitHub profile with code examples is advantageous.
• Experience in any other programming language (e.g., Python, Java, Perl)
• Experience with multi-omics data integration.
• Experience with metagenomic and single-cell data analyses. Knowledge of machine learning algorithms and frameworks, such as scikit-learn, Keras, Tensorflow, although not required, will be seen as an asset.
• Outstanding communication skills (verbal and written) including public speaking and poster presentation.
• Experience in training and/or teaching.
• Experience of working in an international environment.

How to apply 
The application must include a personal letter in which you describe how you meet the qualification requirements and why you are interested in the position. The application must also contain a CV, publication list and contact information for 3 references.

More about Lund University