Providence Health & Services Junior Bioinformatician in Santa Monica, California
Providence is calling a Junior Bioinformatician (FTE, Shift) to John Wayne Cancer Institute in Santa Monica, CA.
We are seeking a Junior Bioinformatician who will be under the direction of the Department Administrative Manager and the Sequencing Center, the Junior Bioinformatician will provide analysis and computing support for cancer-related research including microarray and next-generation sequencing (NGS) data (genomic, transcriptomic, epigenomic, and proteomic) analysis.
In this position you will have the following responsibilities:
Analyze next-generation sequencing data using open-source tools
Must be able to interact with organization system hardware, software, infrastructure, and IT individuals routinely
Develops analysis pipelines for next generation sequencing data generated from the Illumina HiSeq 2500 and MiSeq platforms
Use open-source and/or develop tools for data processing and data visualization
Use open-source and/or develop tools to integrate analysis performed on multiple platforms to derive biological meaning
Work effectively with many people at various levels of the organization
Handle multiple tasks, appropriately prioritize, and complete on schedule
Maintain patient confidentiality and privacy in accordance to research and hospital policy (HIPAA)
Must be a team player and support MD, PhDs and research technicians in bioinformatics analysis
Must be able to provide data analysis reports in a timely manner
Must assist in manuscript and grant writing related to bioinformatics
Fax, photocopy, and other administrative duties
Required qualifications for this position include:
Bachelor's Degree in Biology, Bioinformatics, Computational Biology, or a related field
Experience in processing and managing raw data generated from:
Expression, SNP, and DNA methylation microarrays
Whole-genome and targeted (exome and/or gene panel) sequencing
Transcriptomic (mRNA-seq and smRNA-seq) sequencing
Epigenomic (Methyl-seq and ChIP-seq) sequencing
Other Next Generation Sequencing (NGS) techniques
Experience with NGS data generated on Illumina sequencing instruments, including the HiSeq and MiSeq platforms
Experience using open source genomic analysis tools including SAMtools, Picard, GATK, BWA, MuTect, BEDtools, VCFtools, among others.
Experience using open source tools for the annotation and interpretation of genomic variants, such as ANNOVAR, VEP, SnpEff, among others.
Experience in transcriptome analysis, including differential expression analysis using DESeq2, edgeR, limma, or similar.
Experience in and understanding of the organization and utilization of public databases such as The Cancer Genome Atlas (TCGA), Gene Expression Omnibus (GEO-NCBI), ENCODE project, ArrayExpress (EMBL-EBI) among others
Experience working with large-scale NGS data in high performance cluster computing environments
Experience in at least one of the following scripting languages: bash, Python, or Perl
Experience in statistical analyses using R/Bioconductor
Unix/Linux system administration experience
Experience in biostatistics and bioinformatics
Self-starter who can manage multiple tasks in a multi-task translational research environment
Must be able to work cohesively with research personnel from multiple disciplines in human translational research
A good understanding of the next generation sequencing workflow
Ability to select and perform the most appropriate experimental design, analytical workflow, and analytic technique for different NGS data types
Ability to perform the appropriate analyses that may include: identifying SNPs, somatic variants, differential expression, alternative splicing, fusion genes, indels, structural variants, and copy number variations
Efficient organizational skills to catalogue, regulate, and maintain integrity of data
Excellent demonstrated oral and written communication skills
Ability to read, interpret, and apply scientific literature
Knowledge of basic genetics
Knowledge of basic statistics
Preferred qualifications for this position include:
Experience using cloud computing platforms such as Amazon and/or Google
Experience using Cancer Genomics Cloud (CGC) resources
Knowledge of human genetics
Knowledge of cancer and molecular biology
Publications that demonstrate knowledge and application of genomic analyses
About the hospital you will serve:
The John Wayne Cancer Institute at Providence Saint John’s Health Center is a cancer research institute dedicated to the understanding and curing of cancer in order to eliminate patient suffering worldwide. The Institute's mission is accomplished by conducting innovative research focused on biological mechanisms to provide new understandings of the cause, diagnosis, control, and cure of cancer; training the next generation of surgical scientists who study and treat cancer; and researching unique experimental treatment services to rapidly develop and test new forms of diagnosis and therapy in order to improve the quality of life and expected survival of those afflicted with cancer.
We offer a full comprehensive range of benefits - see our website for details
As expressions of God’s healing love, witnessed through the ministry of Jesus, we are steadfast in serving all, especially those who are poor and vulnerable.
Providence Health & Services is a not-for-profit Catholic network of hospitals, care centers, health plans, physicians, clinics, home health care and services guided by a Mission of caring the Sisters of Providence began over 160 years ago. Providence is proud to be an Equal Opportunity Employer. Providence does not discriminate on the basis of race, color, gender, disability, veteran, military status, religion, age, creed, national origin, sexual identity or expression, sexual orientation, marital status, genetic information, or any other basis prohibited by local, state, or federal law.
Job Category: Analytics/Business Intelligence
Location: California-Santa Monica
Req ID: 242473
Providence Health & Services
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