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POSITION SUMMARY: We have an exciting opportunity to join our team as a Senior Bioinformatics Programmer.

In this role, we are seeking a highly motivated enthusiastic individual to join the Applied Bioinformatics Laboratories (ABL). The successful candidate will be responsible for designing, developing and executing bioinformatics pipelines. Will present results to the Director of the Molecular Pathology Lab and his team.

JOB RESPONSIBILITIES:

• Perform robust data quality control and validation.
• Develop expertise in various types of sequencing data analysis (e.g. RNA-seq, scRNS-seq, ChlP-seq, sequencing of long reads).
• Work closely with bench scientists to understand and help accomplish their research goals.
• Other duties as assigned.
• Professional development: attends seminars, lectures and training courses to learn new computational biology skills and to remain up to date with the cancer genomics field. Learns new programming languages or techniques as necessary, as well as new data analysis software.
• Systems support: provides support for the Molecular Pathology Lab. Performs first level troubleshooting of database and software related problems, including contacting the Help Desk, software vendors for more complex issues.
• Support/consulting: works with the team to explain the services offered. Reviews the data with the team and explains the background and the analysis process. Performs custom analysis tailored to the users specific needs.
• Information management: in collaboration with members of the ABL and MCIT, participates in the establishment, management and maintenance of the Laboratory Information Management System (LIMS) consisting of relational databases for projects, sequencing quality data, biological samples, primers, mutations and others. Operates, updates and maintains a web-based front end for easy access and retrieval of stored data by users.
• Data analysis: performs different types of data analysis relating to the genomics-based approaches utilized by the lab in an independent fashion. Works directly or indirectly with lab users to analyze biomedical data and address scientific problems with bioinformatics techniques and tools. Generates and retrieves primers based on specific project requirements. Performs quality analysis of the generated sequencing data and develops solutions for enhancing future performance. Runs and troubleshoots the pipeline for mutation detection and genomic consequence calculation. Presents and summarizes results of the analyses to the team members. Generates the mutation and coverage reports, by running our customized mutation detection pipeline. Manually reviews traces for validation. Performs gene expression data analyses and establishes and maintains gene expression data analysis pipeline.

MINIMUM QUALIFICATIONS: To qualify you must have a PhD or Masters in Bioinformatics, System Biology, Computer Science or related field. Experience: Knowledge of biology and understanding of key and complex biological concepts (genes, pathways, cancer and/or stem cells). Ability to work independently while collaborating and assisting the team in its common research goals. Attention to detail and ability to work on multiple projects is necessary. Experience in Unix/Linux systems including HPC environments. Scripting languages: Python (preferred) or Perl Statistical packages: R (preferred) or Matlab. 3+ years of experience with sequencing data (two of DNA-seq, RNA-seq and ChIP-seq). 3+ years of experience creating customized sequencing analysis pipelines. Excellent communication skills with proficiency in written and oral English.

Qualified candidates must be able to effectively communicate with all levels of the organization. NYU Grossman School of Medicine provides its staff with far more than just a place to work. Rather, we are an institution you can be proud of, an institution where you'll feel good about devoting your time and your talents. NYU Grossman School of Medicine is an equal opportunity and affirmative action employer committed to diversity and inclusion in all aspects of recruiting and employment. All qualified individuals are encouraged to apply and will receive consideration without regard to race, color, gender, gender identity or expression, sex, sexual orientation, transgender status, gender dysphoria, national origin, age, religion, disability, military and veteran status, marital or parental status, citizenship status, genetic information or any other factor which cannot lawfully be used as a basis for an employment decision. We require applications to be completed online. If you wish to view NYU Grossman School of Medicine's EEO policies, please click here. Please click here to view the Federal "EEO is the law" poster or visit https://www.dol.gov/ofccp/regs/compliance/posters/ofccpost.htm for more information. To view the Pay Transparency Notice, please click here.

Required Skills Required Experience