Duties/Responsibilities: The University of Minnesota Informatics Institute (UMII) and University of Minnesota Genomics Center (UMGC) seek a skilled, Ph.D.-level analyst to serve as both internal NGS analyst and client-facing NGS consultant. The UMGC is the central core facility for genomics data generation, used by hundreds of investigators at the UMN and at external institutions. Increasingly, next-generation sequencing (NGS) is our primary mode of data generation, for a diverse range of applications (whole-genome and targeted de novo sequencing and re-sequencing, RNA-Seq, ChIP-Seq, metagenomics and microbiome analysis, epigenomics, clinical genomics, transposon mapping, mutation detection, single-cell genomics, etc.). In addition, UMN researchers obtain NGS data from other high-throughput facilities.Currently, the UMGC provides experimental design consultation that is informed by our knowledge of laboratory constraints and options, and yet users also have questions ? and should take into account ? analytical considerations, in designing their experiments. However, UMGC staff members do not have deep expertise with NGS data analysis, and are therefore unable to offer “one-stop” experimental consultation. Hence, one responsibility of this new position will be to provide expert, up-front consultation about NGS data analysis to users, from within the UMGC (i.e., in coordination with UMGC staff).Currently, the data delivered by the UMGC for NGS projects is minimally processed, with little more than basic quality metrics provided along with raw reads. UMII will add an analysis service function that could include the following: re-sequencing projects could be returned with variants called (VCF file); RNA-Seq experiments could be provided with a standard mapping to the reference genome and differential expression analysis for assigned groups (e.g., using CuffDiff); 16S marker gene survey data could be processed for the elimination of chimeric sequences and mapping to taxonomic units (via QIIME); single-cell RNA-Seq data could be provided as principle component analysis (PCA) clusters and categorized as a function of process metrics (cell staining on our preparatory instruments). Hence, the second responsibility of this new position will be to a) develop standard workflows for NGS data for UMN researchers, regardless of where the data were generated, b) ascertain the appropriate “standard” analysis for NGS projects (if any), c) run standard analyses and generate reports for UMN researchers in need of this service, including internal (UMGC) and external users, and d) coordinate with analysts in the Research Informatics Support Services (RISS) group at MSI in cases where a “standard” analysis is not appropriate, or where users desire additional analysis beyond the standardized approach.The director of the University of Minnesota Informatics Institute will serve as the supervisor; however, the day-to-day supervision will be managed by the director of the UMGC. On a daily basis, the analyst will work closely with staff from UMGC, and also the RISS group of MSI. In order to ensure that the analyst is fully aware of all NGS projects, s/he will be provided desk space at the UMGC, will take part in general and NGS-focused UMGC meetings, and will have access to UMGC LIMS and project tracking tools.
Required/Preferred Qualifications: Required: A Ph.D. in biology, bioinformatics, computational biology or related field with knowledge and hands-on experience in analyzing NGS data Preferred:A Ph.D. in biology, bioinformatics, computational biology or related field, with a minimum of three years of NGS data analysis and experience of working closely with and communicating analysis results to users. A proven track record of scientific publication and ability to work within a collaborative team is essential. Exceptional written and verbal communication skills are expected.
Internal Number: 238_121679