Bioinformatics Specialist
Apply NowCompany: Rutgers University
Location: New Brunswick, NJ 08901
Description:
Position Details
Position Information
Recruitment/Posting Title
Bioinformatics Specialist
Job Category
Staff & Executive - Research (Laboratory/Non-Laboratory)
Department
CINJ-Bioinformatics
Overview
RUTGERS CANCER INSTITUTE VISION, MISSION, AND CORE VALUES:
VISION:
Through our science, our evidence-based actions, our openness, and our respect for those we serve, we will advance cancer-focused research worldwide and reduce the burden of cancer in our catchment area. By engaging with and empowering our exceptionally diverse populations, and addressing their questions and fears, we will engender hope for cancer patients and their families and play a critical role in strengthening the fabric of our communities by gaining and protecting their trust and providing access to the outstanding oncology care each person deserves.
MISSION:
Our mission is to accelerate scientific discovery focused on understanding cancer, innovating cancer treatment, and improving cancer prevention; to provide outstanding, novel, and compassionate patient care; to provide evidence-based and culturally informed education to physicians, nurses, researchers, staff, and the community; and to achieve cancer health equity in our state through outreach to and engagement of our extraordinarily diverse communities.
CORE VALUES:
Curiosity and Discovery: encouraging an environment of continuous inquiry, creativity, and innovation to generate new knowledge
Integrity: earning the trust of those we serve and each other through honesty, transparency, accountability, and continuous reflection
Collaboration: approaching all opportunities with an understanding that together we are better and can achieve more; promoting and maintaining an environment of teamwork and shared knowledge
Cultivating Diversity: making conscientious efforts in all we do to ensure that our leadership, scientists, clinicians, supporting staff, and trainees reflect the rich diversity of the state of New Jersey and the patient populations and communities we serve
Respect and Caring: consistently demonstrating caring, compassion, and respect through our words and actions
Perseverance: maintaining an unwavering commitment to our mission; embracing change, overcoming obstacles, and creating and recreating the path to achieve our goals
Posting Summary
Rutgers, The State University of New Jersey is seeking a Bioinformatics Specialist within the Rutgers Cancer Institute-Bioinformatics Department.
The primary role of the Bioinformatic Specialist in the Biomedical Informatics Shared Resource (BISR) is to provide bioinformatics support for gene expression, spatial transcriptomics, molecular responsiveness testing for cell therapy, Ncounter Nanostring, shotgun metagenomic sequencing, and metabolism-related pathway analysis. The Bioinformatics Specialist is expected to manage requests for all Cancer Institute scientific projects that require bioinformatics support in the areas of genomics, transcriptomics, metagenomics, and metabolomics pathways and charge for these services through the BISR recharge mechanism.
Among the key duties for this position are the following:
Position Status
Full Time
Hours Per Week
Daily Work Shift
Work Arrangement
Consistent with the current application of Rutgers Policy 60.3.22 or the applicable provisions of relevant collective negotiations agreements, this position requires a fully on-site work arrangement and may be eligible for a compressed workweek or a flex workday schedule. Flexible work arrangements are not permanent, are subject to change or discontinuation, and contingent on the employee receiving approval in the FlexWork@RU Application System.
FLSA
Exempt
Grade
30S
Position Salary
Annual Minimum Salary
87284.00
Annual Mid Range Salary
105194.00
Annual Maximum Salary
125233.00
Standard Hours
37.50
Union Description
HPAE 5094
Payroll Designation
PeopleSoft
Benefits
Rutgers offers a comprehensive benefit program to eligible employees. For details, please go to http://uhr.rutgers.edu/benefits/benefits-overview.
Seniority Unit
Terms of Appointment
Staff - 12 month
Position Pension Eligibility
ABP
Qualifications
Minimum Education and Experience
Certifications/Licenses
Required Knowledge, Skills, and Abilities
Preferred Qualifications
Equipment Utilized
Physical Demands and Work Environment
PHYSICAL DEMANDS:
WORK ENVIRONMENT:
Special Conditions
Posting Details
Posting Number
25ST0860
Posting Open Date
04/21/2025
Special Instructions to Applicants
Regional Campus
Rutgers Biomedical and Health Sciences (RBHS)
Home Location Campus
Rutgers University - New Brunswick
City
New Brunswick
State
NJ
Location Details
Pre-employment Screenings
All offers of employment are contingent upon successful completion of all pre-employment screenings.
Immunization Requirements
Under Policy 100.3.1 Immunization Policy for Covered Individuals, if employment will commence during Flu Season, Rutgers University may require certain prospective employees to provide proof that they are vaccinated against Seasonal Influenza for the current Flu Season, unless the University has granted the individual a medical or religious exemption. Additional infection control and safety policies may apply. Prospective employees should speak with their hiring manager to determine which policies apply to the role or position for which they are applying. Failure to provide proof of vaccination for any required vaccines or obtain a medical or religious exemption from the University will result in rescission of a candidate's offer of employment or disciplinary action up to and including termination.
Affirmative Action/Equal Employment Opportunity Statement
It is university policy to provide equal employment opportunity to all its employees and applicants for employment regardless of their race, creed, color, national origin, age, ancestry, nationality, marital or domestic partnership or civil union status, sex, pregnancy, gender identity or expression, disability status, liability for military service, protected veteran status, affectional or sexual orientation, atypical cellular or blood trait, genetic information (including the refusal to submit to genetic testing), or any other category protected by law. As an institution, we value diversity of background and opinion, and prohibit discrimination or harassment on the basis of any legally protected class in the areas of hiring, recruitment, promotion, transfer, demotion, training, compensation, pay, fringe benefits, layoff, termination or any other terms and conditions of employment. For additional information please see the Non-Discrimination Statement at the following web address: http://uhr.rutgers.edu/non-discrimination-statement
Position Information
Recruitment/Posting Title
Bioinformatics Specialist
Job Category
Staff & Executive - Research (Laboratory/Non-Laboratory)
Department
CINJ-Bioinformatics
Overview
RUTGERS CANCER INSTITUTE VISION, MISSION, AND CORE VALUES:
VISION:
Through our science, our evidence-based actions, our openness, and our respect for those we serve, we will advance cancer-focused research worldwide and reduce the burden of cancer in our catchment area. By engaging with and empowering our exceptionally diverse populations, and addressing their questions and fears, we will engender hope for cancer patients and their families and play a critical role in strengthening the fabric of our communities by gaining and protecting their trust and providing access to the outstanding oncology care each person deserves.
MISSION:
Our mission is to accelerate scientific discovery focused on understanding cancer, innovating cancer treatment, and improving cancer prevention; to provide outstanding, novel, and compassionate patient care; to provide evidence-based and culturally informed education to physicians, nurses, researchers, staff, and the community; and to achieve cancer health equity in our state through outreach to and engagement of our extraordinarily diverse communities.
CORE VALUES:
Curiosity and Discovery: encouraging an environment of continuous inquiry, creativity, and innovation to generate new knowledge
Integrity: earning the trust of those we serve and each other through honesty, transparency, accountability, and continuous reflection
Collaboration: approaching all opportunities with an understanding that together we are better and can achieve more; promoting and maintaining an environment of teamwork and shared knowledge
Cultivating Diversity: making conscientious efforts in all we do to ensure that our leadership, scientists, clinicians, supporting staff, and trainees reflect the rich diversity of the state of New Jersey and the patient populations and communities we serve
Respect and Caring: consistently demonstrating caring, compassion, and respect through our words and actions
Perseverance: maintaining an unwavering commitment to our mission; embracing change, overcoming obstacles, and creating and recreating the path to achieve our goals
Posting Summary
Rutgers, The State University of New Jersey is seeking a Bioinformatics Specialist within the Rutgers Cancer Institute-Bioinformatics Department.
The primary role of the Bioinformatic Specialist in the Biomedical Informatics Shared Resource (BISR) is to provide bioinformatics support for gene expression, spatial transcriptomics, molecular responsiveness testing for cell therapy, Ncounter Nanostring, shotgun metagenomic sequencing, and metabolism-related pathway analysis. The Bioinformatics Specialist is expected to manage requests for all Cancer Institute scientific projects that require bioinformatics support in the areas of genomics, transcriptomics, metagenomics, and metabolomics pathways and charge for these services through the BISR recharge mechanism.
Among the key duties for this position are the following:
- 10X single-cell RNA sequencing : a. Perform quality checks (QC30 value), determine the cut-off value for rarely expressed genes, and perform FDR-analysis. b. Knowledge of script language (Python, R, Linux, etc.) that enables the development of pipelines for individual projects. c. Understand and interpret borderline QC data. d. Familiarity with scripts that allow for the visual representation of data, including but not limited to river plots, clonal analysis, Partek analysis, dendrograms, heat maps, circos, etc. e. TCR/BCR sequencing, including the determination of clonality.
- 10X Visium HD spatial Transcriptomics: a. Runs sequencing alignments with single-cell images using cloud-based or LINUX platforms. b. Generates and prepares data in an easy-to-understand format, such as functional and phenotypic characteristics of cells present in the tissue section.
- Molecular Responsiveness testing (MRT- Molecular responsiveness testing for Cell Therapy-clinical samples). Develops, tests, and runs new pipelines on existing NCBI or other databases to detect clonal expansion, single nucleotide polymorphisms, mutations, and HLA-type and analyze tumor cell antigen presentation, T cell function, apoptosis, and inflammatory pathway. The Bioinformatics Specialist should also be efficient in the graphical presentation of data and perform statistical analysis of data, mainly multivariate analysis.
- Ncounter Nanostring assays Understands the sufficiency of reads obtained, the false discovery rate, and how to avoid it in analysis and data presentation. Generates graphical data sets and perform data comparisons among groups.
- Metabolomics: a. Understands metabolic pathways, biochemistry fundamentals, and how metabolites are generated and processed in human body. b. Knowledge of databases that store metabolite information (e.g., HMDB, KEGG) and experience integrating metabolomics with other omics data. c. Maintains familiarity with software and tools like MetaboAnalyst and others for analyzing metabolomics datasets, including targeted and untargeted metabolomics. d. Works with pathway enrichment analysis tools like KEGG Mapper, or IPA for identifying pathways associated with metabolomic signatures. e. Maintains strong understanding of statistical methods for high-dimensional data, including multivariate analysis linear models, and familiarity with machine learning approaches (supervised and unsupervised) that are often used in metabolomics for biomarker discovery and classification f. Familiarity with techniques for adjusting for potential confounders in metabolomics studies (e.g., host factors, batch effects).
Position Status
Full Time
Hours Per Week
Daily Work Shift
Work Arrangement
Consistent with the current application of Rutgers Policy 60.3.22 or the applicable provisions of relevant collective negotiations agreements, this position requires a fully on-site work arrangement and may be eligible for a compressed workweek or a flex workday schedule. Flexible work arrangements are not permanent, are subject to change or discontinuation, and contingent on the employee receiving approval in the FlexWork@RU Application System.
FLSA
Exempt
Grade
30S
Position Salary
Annual Minimum Salary
87284.00
Annual Mid Range Salary
105194.00
Annual Maximum Salary
125233.00
Standard Hours
37.50
Union Description
HPAE 5094
Payroll Designation
PeopleSoft
Benefits
Rutgers offers a comprehensive benefit program to eligible employees. For details, please go to http://uhr.rutgers.edu/benefits/benefits-overview.
Seniority Unit
Terms of Appointment
Staff - 12 month
Position Pension Eligibility
ABP
Qualifications
Minimum Education and Experience
- Master's Degree in Biology, Computational Biology and/or Computer Science or other related field.
- A minimum of two (2) years' work/research experience in bioinformatics, computer science, biology, biochemistry or similar.
- Equivalent education, experience and/or training may be substituted for the degree requirement.
Certifications/Licenses
Required Knowledge, Skills, and Abilities
- Demonstrated ability to work both independently or as part of a team.
- Effective oral and communication skills.
- Must be computer literate with proficiency and working knowledge of database and reporting tools such as Microsoft Word, Excel, Access, and PowerPoint.
Preferred Qualifications
- Ph.D. Degree preferred.
- 1+ years demonstrated exposure to NGS data analysis; experience using standard NGS analysis software (including samtools, GATK, Picard, bedtools, etc), preferred.
- PhD and relevant postdoctoral training as evidenced by a significant publication record in the above fields, ideally in the area of cancer research, preferred.
- Experience in cancer genomics; experience with somatic variant calling preferred.
- Experience working in a Linux environment or similar preferred.
- Experience working in high performance computing environments preferred.
- Experience in scRNAseq or long reads data analysis is a plus.
- Programming skills in R, Python, Perl, BASH or similar a plus.
- Experience working with NCBI dbGaP, the European Genome-phenome Archive (EGA), TCGA, COSMIC, 1000 Genomes, ENCODE, or GTEx data. Training in statistics or machine learning is a plus. Ability to serve as a bridge between experimentalists, clinicians and technical staff a plus.
Equipment Utilized
Physical Demands and Work Environment
PHYSICAL DEMANDS:
- Standing, sitting, walking, talking and hearing.
- No special vision requirements.
- Lifting up to 25 lbs.
WORK ENVIRONMENT:
- Flexible Work Arrangement possible per Rutgers University policies.
- Office environment. Moderate noise.
Special Conditions
Posting Details
Posting Number
25ST0860
Posting Open Date
04/21/2025
Special Instructions to Applicants
Regional Campus
Rutgers Biomedical and Health Sciences (RBHS)
Home Location Campus
Rutgers University - New Brunswick
City
New Brunswick
State
NJ
Location Details
Pre-employment Screenings
All offers of employment are contingent upon successful completion of all pre-employment screenings.
Immunization Requirements
Under Policy 100.3.1 Immunization Policy for Covered Individuals, if employment will commence during Flu Season, Rutgers University may require certain prospective employees to provide proof that they are vaccinated against Seasonal Influenza for the current Flu Season, unless the University has granted the individual a medical or religious exemption. Additional infection control and safety policies may apply. Prospective employees should speak with their hiring manager to determine which policies apply to the role or position for which they are applying. Failure to provide proof of vaccination for any required vaccines or obtain a medical or religious exemption from the University will result in rescission of a candidate's offer of employment or disciplinary action up to and including termination.
Affirmative Action/Equal Employment Opportunity Statement
It is university policy to provide equal employment opportunity to all its employees and applicants for employment regardless of their race, creed, color, national origin, age, ancestry, nationality, marital or domestic partnership or civil union status, sex, pregnancy, gender identity or expression, disability status, liability for military service, protected veteran status, affectional or sexual orientation, atypical cellular or blood trait, genetic information (including the refusal to submit to genetic testing), or any other category protected by law. As an institution, we value diversity of background and opinion, and prohibit discrimination or harassment on the basis of any legally protected class in the areas of hiring, recruitment, promotion, transfer, demotion, training, compensation, pay, fringe benefits, layoff, termination or any other terms and conditions of employment. For additional information please see the Non-Discrimination Statement at the following web address: http://uhr.rutgers.edu/non-discrimination-statement