Research Bioinformatician II - Knott Lab

Cedars-Sinai Medical Center•West Hollywood, CA

9d•Onsite

About The Position

The Knott Laboratory at Cedars-Sinai Medical Center is seeking a highly motivated computational scientist to fill the position of Research Bioinformatician II. The Knott laboratory utilizes human samples and mouse models to generate multi-omic datasets using single-cell RNA- and ATAC-seq, ChIPseq, Proteomics, Spatial Transcriptomics and Functional Genomics. The ultimate goal is to integrate these data to provide deeper knowledge of the interplay between the tumor and its immune microenvironment and how these interactions provide support of tumor evolution via plasticity, metastatic progression, and therapy resistance. The Research Bioinformatician will be a critical team member that provides data that will inform follow-up functional validation experiments that provide an important rationale for the initiation of the first in human clinical trials. The Research Bioinformatician II performs general bioinformatics analysis and software support for projects involving in omics, and interacts with investigators to identify research problems, find appropriate software tools, and recognize national biological databases and online resources for omic data. The RBII manages omic data including loading and querying data from database system(s) and public repositories, and transforms and merges multilevel omic data into user-friendly formats. The RBII assists in development, testing, and maintenance of modular software pipelines, provides bioinformatics data analysis, preliminary interpretation of the data, and reports of the results for possible publications. The Research Bioinformatician II also works 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 Bioinformatician II demonstrates continuous self-improvement, makes effective contributions to the section, and adheres to the Cedars-Sinai compliance plan, code of conduct, and hospital and departmental policies and procedures.

Requirements

Bachelor's of Science Degree in Computer Science, Electric Engineering, Computational Biology, or Bioinformatics, or a Master of Science/ Engineering in relevant fields (e.g. Biology with strong quantitative training, biostatistics with a concentration in bioinformatics) is required.
Three (3) years of experience in research environment including developing working knowledge in algorithms, scientific computing, and machine learning or statistics.
Three (3) years of experience in manipulating, analyzing, and annotating very large genomic (e.g. NGS) data sets both in exploratory and pipelined fashions.
Familiar with C/C++, Java, Perl, python, and the Unix (Linux) environment.
Familiar with medical and biological terminologies, bioinformatics resources, and national biological databases.

Nice To Haves

Master's or Doctorate Degree in Computer Science or a related computational field is preferred.

Responsibilities

Provides general bioinformatics analysis support for omic projects.
Responsible for data analysis and software compilations including next generation sequence alignment, polymorphism identification, expression analysis, and visualization tools and browsers.
Summarizes data analyses results in the form suitable as the basis for the first draft of written reports, and makes preliminary interpretations of the data.
Develops, tests, and maintains 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.
Provides solutions for investigator’s problems through data mining and extraction.
Identifies, evaluates, and incorporates relevant algorithms and software pipelines by reviewing pertinent literatures in bioinformatics and computational biology.
Assists and/or collaborates in 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.
Educates others about bioinformatics through mentoring of and teaching colleagues, investigators, fellows, and graduate students.