Job Description:
The Ensembl Regulation team seeks an enthusiastic and talented bioinformatician to join the team and contribute to the annotation of regulatory elements across the genome in different cell types and species. Your main responsibilities include: -Maintaining and running our production pipelines on a high performance computing cluster to download, process and integrate new data sets for the functional annotation of new cell types or species. -Developing new bioinformatic pipelines to process data sets from different epigenetic assays, such as DNA methylation and Hi-C. -Documenting the data and processes used for the annotation of regulatory elements. -Extending and maintaining the current MySQL database schemas and the Perl and REST API to handle new data types and results. -Collaborating with international and regional consortia (e.g. IHEC, FAANG) to process epigenomic data, provide support and expertise and develop new features or tools to make their research more efficient. -Teaching API courses, providing user support for the Ensembl website and APIs and presenting at conferences. -Liaising with members of the broader Ensembl team and other groups at EMBL-EBI. Qualifications and Experience: Ideally you will have two years’ experience developing bioinformatics analysis software, ideally analysing the results of large-scale genomic datasets. Experience in team software development and/or working in large scientific consortia, especially in the field of genomics, will be strongly preferred. Experience in epigenomics or biostatistics will be an advantage. Competency in working in a UNIX/Linux environment is essential along with experience in programming, preferably using object-oriented Perl, and relational databases. Knowledge of Git or C or high performance cluster computing will be an advantage. Familiarity with the Ensembl code base and/or the eHive pipeline system will also be a plus.
Additional Info:
Ensembl is one of the most successful large-scale bioinformatics projects and one of the leading providers of genome annotation. As large-scale sequencing projects are producing genomic data on an unprecedented scale, the Ensembl team aggregates, re-processes and annotates large quantities of data from public archives and develops tools for data access. Ensembl Regulation specialises in epigenomic and cis-regulatory datasets, which are used to define the Ensembl Regulatory Build. The Ensembl Regulation project is a component of the Genome Analysis team. Future projects for the team include: scaling up gene regulation annotation pipelines and our data set import pipeline and developing methods of analysing new data including ATAC-seq and DNA methylation. For further information about Ensembl, please visit: www.ensembl.org and https://github.com/Ensembl. For further information about the Ensembl Regulatory Build please visit: https://genomebiology.biomedcentral.com/articles/10.1186/s13059-015-0621-5 At EMBL-EBI, we help scientists realise the potential of ‘big data’ in biology by enabling them to exploit complex information to make discoveries that benefit mankind. Working for EMBL-EBI gives you an opportunity to apply your skills and energy for the greater good. As part of the European Molecular Biology Laboratory (EMBL), we are a non-profit, intergovernmental organisation funded by 22 member states and two associate member states and proud to be an equal-opportunity employer. The initial contract is for a period of three years with the possibility of a fixed-term extension. Applications will close at 23:00 GMT on 12th March 2017. [Click Here to Access the Original Job Post]
The Ensembl Regulation team seeks an enthusiastic and talented bioinformatician to join the team and contribute to the annotation of regulatory elements across the genome in different cell types and species. Your main responsibilities include: -Maintaining and running our production pipelines on a high performance computing cluster to download, process and integrate new data sets for the functional annotation of new cell types or species. -Developing new bioinformatic pipelines to process data sets from different epigenetic assays, such as DNA methylation and Hi-C. -Documenting the data and processes used for the annotation of regulatory elements. -Extending and maintaining the current MySQL database schemas and the Perl and REST API to handle new data types and results. -Collaborating with international and regional consortia (e.g. IHEC, FAANG) to process epigenomic data, provide support and expertise and develop new features or tools to make their research more efficient. -Teaching API courses, providing user support for the Ensembl website and APIs and presenting at conferences. -Liaising with members of the broader Ensembl team and other groups at EMBL-EBI. Qualifications and Experience: Ideally you will have two years’ experience developing bioinformatics analysis software, ideally analysing the results of large-scale genomic datasets. Experience in team software development and/or working in large scientific consortia, especially in the field of genomics, will be strongly preferred. Experience in epigenomics or biostatistics will be an advantage. Competency in working in a UNIX/Linux environment is essential along with experience in programming, preferably using object-oriented Perl, and relational databases. Knowledge of Git or C or high performance cluster computing will be an advantage. Familiarity with the Ensembl code base and/or the eHive pipeline system will also be a plus.
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Additional Info:
Ensembl is one of the most successful large-scale bioinformatics projects and one of the leading providers of genome annotation. As large-scale sequencing projects are producing genomic data on an unprecedented scale, the Ensembl team aggregates, re-processes and annotates large quantities of data from public archives and develops tools for data access. Ensembl Regulation specialises in epigenomic and cis-regulatory datasets, which are used to define the Ensembl Regulatory Build. The Ensembl Regulation project is a component of the Genome Analysis team. Future projects for the team include: scaling up gene regulation annotation pipelines and our data set import pipeline and developing methods of analysing new data including ATAC-seq and DNA methylation. For further information about Ensembl, please visit: www.ensembl.org and https://github.com/Ensembl. For further information about the Ensembl Regulatory Build please visit: https://genomebiology.biomedcentral.com/articles/10.1186/s13059-015-0621-5 At EMBL-EBI, we help scientists realise the potential of ‘big data’ in biology by enabling them to exploit complex information to make discoveries that benefit mankind. Working for EMBL-EBI gives you an opportunity to apply your skills and energy for the greater good. As part of the European Molecular Biology Laboratory (EMBL), we are a non-profit, intergovernmental organisation funded by 22 member states and two associate member states and proud to be an equal-opportunity employer. The initial contract is for a period of three years with the possibility of a fixed-term extension. Applications will close at 23:00 GMT on 12th March 2017. [Click Here to Access the Original Job Post]