Surgery

Full Time

78229BR

Job Summary

The overall purpose of the is position is to establish and maintain a unique pipeline for RNA sequencing analysis of clinical and experimental platelet samples specific to a 5 year NIH grant.

Under close supervision, the incumbent will perform isolation of RNA, cDNA preparation, bar coding and adaptor addition, as well as further management of pooled cDNA libraries for deep sequence, and recovery of FASTQ files for analysis.

Subsequent analysis requires the foundation for development of a unique understanding in issues of sample quality, and special RNA features mapping. These skills must be paired with the development of platelet specific alignment methods, and high feature content data analysis.

In addition this position will require the ability to facilitate purchase and administration of Linux servers. Specifically, the applicant must have prior knowledge that supports them in learning to update and fine tune mapping software with the ultimate goal of designing and streamlining the sequencing pipeline.

Currently our mapping strategies require understanding STAR2 alignment and mapping parameters, rMATS for differential alternative splicing analysis, and DCC and UlarCirc for circular RNA analysis with distinct settings tuned to platelet RNA features.

Ultimately these methods will be expected to mesh with bash, Python, and R pipeline to do nucleotide-based counting analysis for the discovery of novel recombination features in splicing, back-splicing, and circular RNA synthesis.

Higher order bioinformatic analysis by the applicant will be learned and performed under close technical supervision by the PI and other bioinformaticians as needed.

The final salary and offer components are subject to additional approvals based on UC policy.

To see the salary range for this position (we recommend that you make a note of the job code and use that to look up): TCS Non-Academic Titles Search (https://tcs.ucop.edu/non-academic-titles)

Please note: An offer will take into consideration the experience of the final candidate AND the current salary level of individuals working at UCSF in a similar role.

For roles covered by a bargaining unit agreement, there will be specific rules about where a new hire would be placed on the range.

To learn more about the benefits of working at UCSF, including total compensation, please visit: https://ucnet.universityofcalifornia.edu/compensation-and-benefits/index.html

Department Description

The mission of the UCSF Department of Surgery is threefold: to develop the next generation of leaders in surgery; to provide outstanding quality clinical care that is cost effective, yet compassionate; and to make significant advances in scientific knowledge and clinical practice through basic and clinical research. The Department is comprised of multiple divisions and sections and our surgeons provide care at locations throughout the greater San Francisco Bay Area and beyond. Our Residents and Fellows also play a critical role in Department's success. The Department of Surgery Chair's Office is an extremely high profile, fast paced environment with a very diverse range of contacts and needs which require an immediate and accurate response, handled with confidentiality, and while staying compliant. The Chair's Office is responsible for management, direction and oversight of over 400 faculty (clinical and research), trainees and staff personnel.

Required Qualifications

• BA/BS degree in Computer Science and Biology, Chemistry, Neuroscience or in a related science and knowledge of, or experience with the basic techniques or methods required by the position; and/or an equivalent combination of education and experience.
• Specific demonstrated undergraduate coursework experience in Biostatistics, Data Science, Statistical Linear Models, Differential Equations, Linear Algebra and Cell and Molecular Biology techniques.
• Working knowledge of the mechanics of GitHub, Python, R, FASTQ files and Illumina sequencing methods.
• Excellent organizational skills.
• Strong interpersonal skills; especially when collaborating with other researchers and research staff.

Preferred Qualifications

• Relevant research experience in spatial transcriptomics.
• One or more years of recent, directly related work experience with basic techniques or methods required by the position
• Previous experience in lab research
• Previous experience in lab research with human tissues and blood samples
• Experience with cell and molecular biology techniques
• Ability to work independently

About UCSF

The University of California, San Francisco (UCSF) is a leading university dedicated to promoting health worldwide through advanced biomedical research, graduate-level education in the life sciences and health professions, and excellence in patient care. It is the only campus in the 10-campus UC system dedicated exclusively to the health sciences. We bring together the world's leading experts in nearly every area of health. We are home to five Nobel laureates who have advanced the understanding of cancer, neurodegenerative diseases, aging and stem cells.

Pride Values

UCSF is a diverse community made of people with many skills and talents. We seek candidates whose work experience or community service has prepared them to contribute to our commitment to professionalism, respect, integrity, diversity and excellence - also known as our PRIDE values.

In addition to our PRIDE values, UCSF is committed to equity - both in how we deliver care as well as our workforce. We are committed to building a broadly diverse community, nurturing a culture that is welcoming and supportive, and engaging diverse ideas for the provision of culturally competent education, discovery, and patient care. Additional information about UCSF is available at diversity.ucsf.edu

Join us to find a rewarding career contributing to improving healthcare worldwide.

Equal Employment Opportunity

The University of California San Francisco is an Equal Opportunity/Affirmative Action Employer. All qualified applicants will receive consideration for employment without regard to race, color, religion, sex, sexual orientation, gender identity, national origin, age, protected veteran or disabled status, or genetic information.

Organization

Campus

Job Code and Payroll Title

009613 SRA 1

Job Category

Research and Scientific

Bargaining Unit

University Professional Technical Employees - Research Support Professionals Unit (UPTE-RX)

Employee Class

Career

Percentage

100%

Location

Zuckerberg San Francisco General (ZSFG)

Shift

Days

Shift Length

8 Hours

Additional Shift Details

Monday - Friday, 8:00am - 5:00pm