Research Bioinformatician II - McGovern Lab - Inflammatory Bowel and Immunobiology Research Institute
Cedars-Sinai Medical Center
Location: Los Angeles, California
Internal Number: HRC0993052A
Everyone’s unique health journey is informed by data. Join us as we translate today's discoveries into tomorrow's medicine!
The McGovern Laboratory studies the effects of genetic variation in the inflammatory bowel diseases (IBD). Also called the Translational Genomics Group (TGG), the McGovern Lab is focused on identifying genetic variants associated with both Crohn's disease and ulcerative colitis and then investigating their functional effects and also their role in determining disease behavior and natural history, including response to therapy. The McGovern Lab also investigates the role of the microbiome in IBD and particularly the relationship between genetic variation in the host (human) and microbiome-related changes. Work in the McGovern Laboratory includes significant statistical and computational biology components, and the lab is developing novel methods for integrating multi-omic datasets together with clinical metadata. Biostatistics has become an increasing part of our group's research as we generate large data across many different platforms. Our group is interested in developing new analytic methods for integrating and analyzing these data.
Are you ready to be a part of breakthrough research?
The Research Bioinformatician II (RB II) performs general bioinformatics analysis and software support for projects involving omics, and interact with investigators to identify research problems, find appropriate software tools, and recognize national biological databases and online resources for omic data. The RB II will manage omic data including loading and querying data from the database system and public repositories, and transform and merge multilevel omic data into user-friendly formats, assist in development, test, and maintenance of modular software pipelines, provide bioinformatics data analysis, preliminary interpretation of the data, and reports of the results for possible publications. Our Research Bioinformatician II will also work with bioinformatics faculties to determine future bioinformatics needs, and helps to develop tools and pipelines as necessary to keep pace with rapid advances in sequencing technology. The RB II will demonstrate continuous self-improvement, make effective contributions to the section, adhere to the CSHS compliance plan, code of conduct, and hospital and departmental policies and procedures, and may serve as a preceptor for students.
Primary Job Duties and Responsibilities:
Provides general bioinformatics analysis support for omic projects and is mainly responsible for data analysis and software compilations including next-generation sequence alignment, polymorphism identification, expression analysis, and visualization tools and browsers.
Summarizes data analysis results in the form suitable as the basis for the first draft of written reports, and makes preliminary interpretations of the data.
Develop, test, and maintain modular software pipelines for genome sequencing, assembly, annotation, metagenomic analysis, and genotyping using high-throughput sequencing platforms including 454, Illumina, and Pacific Biosciences
Manages data including loading and querying data from database systems, downloading omic data from public repositories, and transforming data to the necessary formats
Familiar with medical and biological terminologies, bioinformatics resources, and national biological databases, Ready to provide solutions for investigator’s problems through data mining and extraction
Identify, evaluate, and incorporate relevant algorithms and software pipelines by reviewing pertinent literature in bioinformatics and computational biology
Assists or collaborate in the preparation of grant proposals, publications, and presentations involving omic data
Helps develop tools and pipelines as necessary to keep pace with rapid advances in sequencing technology.
Educate others about bioinformatics through mentoring and teaching colleagues, investigators, fellows, and graduate students.
Ongoing implementation and development of bioinformatics tools and pipelines oriented towards the manipulation and dissemination of NGS and -omics data. Development is generally geared towards high-end Linux servers.
Build, implement, develop, test, integrate, and document bioinformatics tools and pipelines.
Employ the software/pipeline development life cycle and best practices including version control, bug tracking, issue reporting, and code reviews.
Consult and provide feedback to management.
Master of Science/Engineering in Computer Science, Bioinformatics, Statistics, or relevant fields (e.g. Biology with strong quantitative training, biostatistics with a concentration in bioinformatics) required.
Experience and Skills:
Three (3) years in a research environment. Background and work knowledge in bioinformatic algorithms, scientific computing, and machine learning or statistics.
Familiar with C/C++, Java, Perl, Python, and the Unix (Linux) environment.
Experiences in manipulating, analyzing, and annotating very large genomic (e.g. NGS) data sets both in exploratory and pipelined fashions.
Prior experience with pipeline development tools such as snakemake or netflow.
Ability to apply knowledge of information software and/or hardware to provide solutions and/or support.
Ability to apply advanced knowledge of science/learning/specialized intellectual instruction to analyze, interpret or make deductions from varying facts or circumstances.
Working Title: Research Bioinformatician II - McGovern Lab - Inflammatory Bowel and Immunobiology Research Institute Department: Home Dept - Gastroenterology Business Entity: Academic / Research Job Category: Academic/Research Job Specialty: Bioinformatics Position Type: Full-time Shift Length: 8 hour shift Shift Type: Day
Providing healthcare for more than 100 years, Cedars-Sinai has evolved into one of the most dynamic and highly renowned medical centers in the world. Along with caring for patients, Cedars-Sinai is a hub for biomedical research and a training center for future physicians and other healthcare professionals. This attracts exceptional talent to Cedars-Sinai, including world-renowned physician-scientists who seek a place where they can both conduct research and see patients--the ideal formula for discovery and its translation into cures. Our patients benefit from access to doctors at the top of their fields, and our researchers have an ideal community in which to study the impact of healthcare challenges, and reflect that knowledge in their research. The greater Los Angeles area in which Cedars-Sinai resides possesses unparalleled cultural and ethnic diversity which offers outstanding opport...unities for translational and clinical research and a dynamic environment for medical education.Although community based, Cedars-Sinai is a major teaching hospital affiliated with the David Geffen School of Medicine at the University of California, Los Angeles (UCLA). Cedars-Sinai has highly competitive graduate medical education programs in more than 50 specialty and subspecialty areas, a graduate program in biomedical sciences and translational medicine, a clinical scholars program directed towards junior physicians with aspirations to become clinical scientists, and post graduate training opportunities.There are more than 250 full-time faculty members at Cedars-Sinai. The voluntary medical staff, comprised of more than 2,200 specialty board-certified or board-qualified physicians, represent all of the specialties and subspecialties and collaborate with full-time medical staff in the teaching responsibilities of the graduate medical education programs.