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Category: Information Technology
Location: Worcester, MA
Business Unit: SCHOOL
Department: School - Molecular Cell & Cancer Biology - W495000
Salary Grade: 73
Union Code: ..
Num. Openings: 1
Post Date: March 6, 2017
GENERAL SUMMARY OF POSITION:
In the Department of Molecular Cell & Cancer Biology of University of Massachusetts Medical School, we have developed a core team of accomplished computational biologists who work side-by-side with bench scientists to evaluate, select and develop algorithms and software pipelines to analyze, annotate, visualize and integrate various biological datasets, including those generated from high-throughput experiments such as ChIP-seq, ChIP-chip, RNA-seq, PAS-seq, iCLIP-seq, ATAC-Seq, miRNA-seq, exon sequencing, GUIDE-seq, single-cell sequencing, shRNA and gRNA screening, and CRISPR genome editing. We are active contributors to the open-source open-development Bioconductor project. We have developed more than a dozen packages with various utilities, ranging from machine learning, peak calling, annotation, visualization, to gRNA design and evaluation.
Under the direction of a member of the faculty, the Bioinformatician is 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.
- Develop novel algorithms and software tools for integrated data analysis and visualization of high-throughput dataset including next-generation sequencing data and proteomics data when existing software packages are not available or adequate
- Enhance/Maintain Bioconductor packages developed in house
- Collaborate closely with PIs and their lab members on research projects including evaluating, selecting, and implementing when needed the best of breed computational solutions for the analysis of biological data
- Develop rapid prototypes and custom scripts for one-off type of analysis requests
- Properly document the procedures used in computational analysis and provide summary report of results suitable for inclusion in manuscript and grant applications
- 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
- 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 equivalent experience
- 2 years of experience in relevant setting
- Co-authorships on peer-reviewed publications are strongly suggested but not required
- Strong background in statistical methodology, software languages and computer systems (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.
- Master's degree in Bioinformatics, Computer Science, Statistics or related computational disciplines
- Minimum 1 year bioinformatics-related research experience
- Proven research record such as co-authorship on peer-reviewed
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