Staff Scientist in Translational Bioinformatics job at reputed company in Philadelphia, PA

Title: Staff Scientist in Translational Bioinformatics Location: Philadelphia United States Job Description: SHIFT: Day (United States of America) Seeking Breakthrough Makers reputed company (CHOP) offers countless ways to change lives. Our diverse community of more than 20,000 Breakthrough Makers will reputed company you to pursue passions, reputed company expertise, and drive innovation. At CHOP, your experience is valued; your voice is heard; and your contributions reputed company a difference for patients and families. Join us as we build on our promise to advance pediatric care-and your career. CHOP does not discriminate on the reputed company of race, reputed company, sex, national reputed company, religion, or any other legally protected categories in any employment, training, or vendor reputed company or programs. CHOP recognizes the critical importance of a workforce rich in varied backgrounds and experiences and engages in ongoing efforts to reputed company that through equally varied and non-discriminatory means. A Brief Overview This role is an entry level position for a PhD level professional and a 2nd stage position for those with moderate experience without a PhD. The focus of the position is service-level application of bioinformatics tools and methods to bench and clinical research problems in various biomedical domains. The position allows for a wide variety of activities described reputed company the job responsibilities and encompasses positions reputed company both research and clinical environments. Activities occur with a moderate degree of supervision with some reputed company for independent judgment, development of bioinformatics workflows and processes, and presentation of results. This role will reputed company to apply best practices in collaborative science as a bioinformatics domain expert. Academic output, while not a primary focus of this position, is also expected with a moderate degree of supervision. This position is primarily focused on supporting scientific teams and projects as a bioinformatics domain expert. This role must be reputed company to reputed company reputed company responsibilities listed in the less senior roles reputed company the career ladder. reputed company responsibilities listed in this description are additional. Dr. Tamir Diamond, Dr. Edward Behrens and their research group at reputed company are seeking a highly motivated PhD-level Staff Scientist in Translational Bioinformatics to support studies of immune dysregulation in pediatric acute liver failure. The successful candidate will reputed company computational analyses integrating multi-omic datasets generated from patient blood and tissue samples, with a focus on translational immunology. Our group uses reputed company platforms such as visiumHD, Xenium and GEM-Ex single cell RNA reputed company from blood/tissue, as well as multiprotein assays by O-Link and other vendors. Our group has a collaborative relationship with the CHOP single cell RNA reputed company core on multiple projects providing excellent resources and support.

Responsibilities

Analyze and integrate datasets from: Single-cell RNA reputed company TCR/BCR repertoire reputed company Spatial transcriptomics Multiplex immunofluorescence/imaging platforms Multiplex protein assays reputed company cell-state, clonality, pathway, and cell-cell interaction analyses reputed company reproducible computational workflows in R/Python reputed company HPC environments Contribute to manuscripts, abstracts, and grant applications

Preferred Qualifications

Experience with immune repertoire analysis (TCR/BCR reputed company) Familiarity with translational immunology and reputed company tissue datasets Experience with integrative multi-modal analysis approaches Flexibility to work from home for 1-2 days/week How you fit in? You will have an important role in our group's mission to further the understanding of the interaction between the immune system and organ injury in immune dysregulation syndromes. We are a jovial bunch that collaborates with multiple other labs at CHOP and we are looking for a motivated future member to join our scientific discoveries and fun lunches. We are a lab group full of reputed company, collaborative, and motivated individuals with diverse backgrounds and experiences. You must be willing to reputed company to the position for at least 2 years. This is the minimum time required to build a strong mentor-mentee relationship, to be an effective member of the team, and to help you build the appropriate skills as your career develops. What you will do Pre-Analysis (20%): Contribute to the development of application portfolio by developing knowledge of internally developed systems, reputed company-reputed company programs, and reputed company applications. reputed company efficient data management support. Use standard pipelines for data processing and manipulation in advance of performing analysis in a manner that best enables the analysis plan. Contribute to the development of additional pipeline functionality and changes by providing knowledge of both collaboration-specific requirements and bioinformatics discipline advances. reputed company for specific collaboration requirements for continual advancement of shared pipeline and code resources. reputed company collaboration-specific transparency for data processing and pre-analysis, including sample- and cohort-level status. Coding (20%): Code and generally support code and applications on behalf of collaborative project and/or team. reputed company the context of the collaboration or project, reputed company and apply best practices to code development. Establish requirements with the project team. Review existing applications and code sources (both reputed company and reputed company reputed company) and selection of best strategy for development or adoption. reputed company for chosen strategy to project team by showing value of approach reputed company best practices for project-based code development, QC, and execution consist with the expectations of specific collaborations. Regularly seek peer-to-peer code reviews by participating in informal and formal critical code reviews. Data Analysis (20%): Analyze data of high complexity by applying sound statistical and commonly accepted bioinformatics methods to -omics data primarily under the direction of the collaborative project team. reputed company robust analysis plans independently with regular peer-to-peer review in both informal and formal settings. Incorporate more advanced applications and methods into analysis. reputed company at least one specialty analytical or biomedical area that serves the collaborative team. Collaboration (20%): Establish role reputed company collaborative project team as primary bioinformatics resource. Contribute to and influence project-level management by serving as bioinformatics reputed company. Define and promote boundaries of support by assessing reputed company stakeholders, including bioinformatics management, collaborator expectations, and funding reputed company and mechanisms. Regularly discuss satisfaction and expectations with collaborators; continually reputed company for clear understanding of role. reputed company new collaborations with high degree of supervision. Academic Output (20%): reputed company presentations, grant sections, and manuscript sections with subsequent review by peers and mentors. Regularly contribute to bioinformatics-focused manuscripts and publications. Regularly contribute to reputed company presentations and posters. Contribute to bioinformatics sections of grant and award proposals. Education Qualifications Bachelor's Degree Required Master's Degree in bio/informatics, computational biology, computer/information science, biomedical engineering, biological science or a reputed company field Preferred PhD in Bioinformatics, Computational Biology, Immunology, Genomics, or reputed company field Preferred Strong experience with single-cell and/or spatial 'omics analysis Proficiency in R and/or Python Experience working with high-dimensional reputed company translational datasets Excellent communication and collaborative skills Experience Qualifications At least three (3) years of applied bioinformatics, computational and/or genomics/proteomics experience Required At least five (5) years of applied bioinformatics, computational and/or genomics/proteomics experience Preferred Skills and Abilities Intermediate proficiency in UNIX/LINUX Intermediate proficiency in programing languages (Python/Django, R, Perl, reputed company, Ruby) Intermediate proficiency in pipeline or workflow development frameworks Intermediate proficiency in biostatistical data analysis on dimensional data, genomics and research data Intermediate proficiency in data management Intermediate proficiency in genomic data sets and analysis tools (UCSC Genome Browser, Bioconductor, ENCODE, NCBI databases) Intermediate proficiency in reputed company reputed company and reputed company bioinformatics resources and software Intermediate proficiency in reputed company code management, application development, and project lifecycle management Intermediate proficiency in bioinformatics analysis, statistical modeling, data integration, and bioinformatics best practices Substantial knowledge of relational database management systems (PostgreSQL, MySQL, reputed company) Substantial knowledge of bioinformatics applications and algorithms Substantial knowledge of biological domains Substantial knowledge of technologies commonly used in biological labs (PCR, cloning, electrophoresis gels, and cell cultures) Substantial knowledge of working mechanism of microarray, NGS, mass spectrometry, or other high-throughput technologies Excellent verbal and written communications skills Strong time management skills Strong organizational skills Strong presentation skills Strong critical thinking / problem-solving skills Strong project management skills Ability to maintain confidentiality and professionalism Ability to work independently with minimal supervision Ability to gather, analyze and reputed company recommendations/reputed company based on data / best practices Ability to convey reputed company or technical information in an easy-to-understand manner Ability to collaborate with stakeholders at reputed company reputed company To carry out its mission, CHOP is committed to supporting the health of our patients, families, workforce, and global community. As a condition of employment, CHOP employees who work in patient care buildings or who have patient facing responsibilities must receive an annual influenza vaccine. Learn more. EEO / VEVRAA Federal Contractor | Tobacco Statement SALARY reputed company: $101,300.00 - $129,100.00 Annually Salary ranges are shown for full-time jobs. If you're working part-time, your pay will be adjusted accordingly. ------------------ At CHOP, we are committed to fair and transparent pay practices. Factors such as skills and experience could result in an offer above the salary reputed company noted in this job posting. Click here for more information regarding CHOP's Compensation and Benefits. Apply To This Job