Located in Worcester, the University of Massachusetts Medical School (UMMS) is one of the fastest-growing academic health centers in the country and is home to the School of Medicine, the Graduate School of Biomedical Sciences and the Graduate School of Nursing. During the past four decades UMMS researchers have made advances in a broad range of disease families, from HIV and infectious diseases to cancer, genetic disorders, diabetes and immune disease. UMMS faculty discovered the link between the immune system and type-1 diabetes, found the genetic cause underlying the third-most-common form of the muscular dystrophies, established the fundamental difference between HIV and other retroviruses and co-discovered RNA interference (a gene-silencing process which has become a tool in research focused on such areas as diabetes, HIV/AIDS and cancer).
Bioinformatics Core Facility uses sequence data to study the evolution of non-coding elements of the mammalian genome. In the last years sequencing has become the readout of choice for many assays ranging from transcriptional annotation and quantification (RNA-Seq), protein-nucleic acid interactions (ChIP and CLIP sequencing), genotyping through exome or whole genome sequencing. While allowing for unbiased, genome-wide data generation, the analysis of this data requires significant computational expertise and is often not carried out by those who generate it.
The Bioinformatics Core mission is two-fold:
- To evaluate, select, and implement when needed the best of breed computational solutions for the analysis of biological data.
- To allow those who generate the data to be able to analyze it using state of the art methods by reducing the computational expertise required to apply these methods.
Further, the Bioinformatics Core complements our software solutions by sponsoring a monthly seminar and by training sessions describing the theoretical and practical aspects of the solutions we host and by actively participating in the bioinformatics list serve where specific analysis questions are discussed.
Due to our continued growth, we are seeking an experienced Bioinformatician II who will be responsible for the design, development, evaluation and iterative modification of a technical infrastructure to expedite the quantitative evaluation of data resulting from studies that are laboratory based. The position will entail the establishment and maintenance of applicable in-house bioinformatics resources and interaction with individual lab members on customized research projects, as well independent projects that are solely computational.
In this position, the candidate will participate in the design and implementation of a scalable, user-friendly online system that host complex and robust data analysis pipelines to be used by the university and by external partners. The successful candidate will participate in workshops designed to train PhD students, Postdoctoral candidates and staff members on the analysis tools we provide. The following essential responsibilities include:
- Establish general bioinformatics resources for day-to-day use by members of the laboratory
- In collaboration with a member of the faculty, generate customized programming solutions to improve user interaction with available bioinformatics resources
- Implement and adapt programs for microarray analysis, high-throughput sequencing data analysis, cis regulatory motif identification, and multi-genome 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
- Independently execute a scientific computational project (e.g. a project that can result in a first author publication)
- Supervise entry level bioinformaticians
- 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