GENERAL SUMMARY OF POSITION:
We are seeking a highly motivated individual with expertise in computational and statistical methods to analyze large datasets. Datasets include Next Generation Sequencing outputs of ChiPseq, ATACseq, bulk cell and single cell RNAseq, and whole genome sequencing approaches.
The individual will spearhead the computational biology efforts in the lab and closely interact with other lab members to design and evaluate their studies. Depending on level of expertise of the individual, the position allows for applying and developing computational and statistical methods in the context of ongoing projects. Current projects are aimed to understand the (epi-)genetic principles of stem cell differentiation and human immune syndromes (e.g. Type 1 diabetes). The position responsibilites include
- Perform and support computational analyses for a wide range of research projects.
- Implement and adapt pipelines for high-throughput sequencing data analysis, cis regulatory motif identification, and DNA-binding protein motif searches.
- Independently develop, implement and maintain custom designed computational solutions relevant for ongoing lab-based projects.
- Independently develop, implement and maintain computational methods for meta-analysis of data generated in the lab as well as publicly available data.
- Implement and adapt machine learning methodologies for analysis and prediction of epigenome function.
- Establish general bioinformatics resources for day-to-day use by members of the laboratory
- In collaboration with a faculty member, generate customized programming solutions to improve user interaction with available bioinformatics resources
- Assist in the implementation of programs for microarray analysis, high-throughput sequencing data analysis, cis regulatory motif identification, and multi-genome protein motif searches
- Local establishment and customization of model organism genomic databases and tools for batch sequence analysis utilizing these resources
- Interpret and present study results in support of laboratory members
- Provide tabular and written summaries of approaches and analyses in a form suitable for inclusion in manuscripts or grant applications, as well as media for presentation at scientific meetings
- Develop and implement custom bioinformatics programming solutions in collaboration with lab as necessary
- Coordinate and collaborate with other research computing expertise at the Medical School as necessary
- Participate in conference calls and data management meetings as needed
- Perform other duties as required.
- BS in computer science or a related discipline. Previous work experience desired, but not required; candidates with advanced degrees will be considered.
- Strong background in statistical methodology, software languages and computer systems (R, Bioconductor, Perl, C++, R, MySQL, etc.)
- Experience in writing basic search algorithms and the ability to generate new algorithms and programs for custom data manipulation and analysis
- Excellent communication skills, both oral and written, and interpersonal skills necessary to interact with a wide range of individuals
- Experience with Next Generation Sequencing data (e.g. RNAseq, ChIPseq, or DHS)
- Experience in writing basic search algorithms and the ability to generate new algorithms and programs for custom data manipulation and analysis is a plus
- Experience using a compute cluster (LSF, SGE)
- Background in machine learning such as neural networks or support vector machines are a plus, but not required