Job ID: 17186
Job date: 2018-03-22
End Date:
Company : Children s Hospital of Philadelphia Country : Role : Research Scientist
Job date: 2018-03-22
End Date:
Company : Children s Hospital of Philadelphia Country : Role : Research Scientist
Job Description:
A bioinformatician position is open within the Center for Spatial and Functional Genomics at the Children’s Hospital of Philadelphia’s. The candidate will join a strong team involved in spanning both dry and wet lab approaches in order to elucidate the genetic basis of complex traits, principally, in pediatrics. These studies will build on the seminal work that has emerged from genome wide studies conducted at CHOP and at other peer institutions. The successful candidate will be a quick learner and possess excellent communication and organizational skills (including detailed recordkeeping), programming skills, ability to follow established standard operating procedures (SOP) scrupulously, ability to provide constructive feedback, and an analytical aptitude accompanied by curiosity and enthusiasm to learn the biological context of our projects. After initial training, this individual is expected to perform analyses with minimal guidance, extreme attention to detail, discretion and good judgment. It is expected that this individual will assist the Directors (Drs. Struan F.A. Grant and Andrew D. Wells), and work with our existing bioinformatics team, in analyzing high throughput datasets generated within the center affiliated laboratories or from the public domain, such as ATAC-seq, capture Hi-C, ChIP-seq, RNA-seq, microarray and GWAS. Proficiency with Unix/Linux and at least one of Perl or Python, as well as working knowledge of R are required. Experience with High Performance Computing (HPC) clusters (in particular SGE) and familiarity with version control are highly desirable. Ability to comprehend technical manuals and to write clear and precise code documentation is required, as well as ability to critically read relevant scientific articles. Job Responsibilities:
Additional Info:
Shift: Days Employment Status: AF - Active - Regular - Full Time All CHOP employees who work in a patient building or who provide patient care are required to receive an annual influenza vaccine unless they are granted a medical or religious exemption. Children's Hospital of Philadelphia is committed to providing a safe and healthy environment for its patients, family members, visitors and employees. In an effort to achieve this goal, employment at Children's Hospital of Philadelphia, other than for positions with regularly scheduled hours in New Jersey, is contingent upon an attestation that the job applicant does not use tobacco products or nicotine in any form and a negative nicotine screen (the latter occurs after a job offer). Children's Hospital of Philadelphia is an equal opportunity employer. We do not discriminate on the basis of race, color, gender, gender identity, sexual orientation, age, religion, national or ethnic origin, disability or protected veteran status. VEVRAA Federal Contractor/Seeking priority referrals for protected veterans. Please contact our hiring official with any referrals or questions. CHOP Careers Contact Talent Acquisition 2716 South Street, 6th Floor Philadelphia, PA 19146 Phone: 866-820-9288 Email: TalentAcquisition@email.chop.edu [Click Here to Access the Original Job Post]
A bioinformatician position is open within the Center for Spatial and Functional Genomics at the Children’s Hospital of Philadelphia’s. The candidate will join a strong team involved in spanning both dry and wet lab approaches in order to elucidate the genetic basis of complex traits, principally, in pediatrics. These studies will build on the seminal work that has emerged from genome wide studies conducted at CHOP and at other peer institutions. The successful candidate will be a quick learner and possess excellent communication and organizational skills (including detailed recordkeeping), programming skills, ability to follow established standard operating procedures (SOP) scrupulously, ability to provide constructive feedback, and an analytical aptitude accompanied by curiosity and enthusiasm to learn the biological context of our projects. After initial training, this individual is expected to perform analyses with minimal guidance, extreme attention to detail, discretion and good judgment. It is expected that this individual will assist the Directors (Drs. Struan F.A. Grant and Andrew D. Wells), and work with our existing bioinformatics team, in analyzing high throughput datasets generated within the center affiliated laboratories or from the public domain, such as ATAC-seq, capture Hi-C, ChIP-seq, RNA-seq, microarray and GWAS. Proficiency with Unix/Linux and at least one of Perl or Python, as well as working knowledge of R are required. Experience with High Performance Computing (HPC) clusters (in particular SGE) and familiarity with version control are highly desirable. Ability to comprehend technical manuals and to write clear and precise code documentation is required, as well as ability to critically read relevant scientific articles. Job Responsibilities:
- File and data management (5%)
- Organize files on the server according to the SOP established by our group
- Contribute to refining existing SOP and defining new ones
- Systematically compress or clean-up as appropriate to optimize storage usage
- Accurately record task progress and result file information in our flat file database Software and pipeline testing (20%)
- Test software and pipelines, whether developed in house or externally
- Help debug and troubleshoot software and pipelines as needed Coding (25%)
- Write scripts to properly prepare analyses input files as required
- Write scripts to reformat outputs according to specific requests
- Write scripts to extract summary results and statistics from analysis outputs
- Apply best practices to code development and documentation
- Contribute to our github code repository Data analysis (40%)
- Analyze high throughput sequencing or microarray functional genomics data according to protocols established in our group
- Perform GWAS QC, imputation, and association analyses according to protocols established in our group
- Write clear and detailed technical reports on the analyses done
- Prepare plots and figures to visualize and summarize results
- Prepare sessions for browsers such as UCSC Genome and Washington Epigenome
- Keep up to date with relevant algorithm and software developments
- Contribute to refine existing analysis protocols and develop new ones Collaboration (10%)
- Present results at center affiliated meetings
- Mine result sets and genetic data sets to extract information relevant to specific requests from our group or collaborators
- Contribute to manuscripts and grants as needed
Required Education and Experience
Required Education: Bachelor’s Degree in biological or computational discipline. Preferred Education, Experience & Cert/Lic: Bachelors or Masters in mathematics, physics or a computational discipline required. PhD in any of these disciplines is a plus but not required. Two-three years working experience with genomics/genetic data analyses desirable. Additional Technical Requirements:- Proficiency with UNIX/LINUX required
- Proficiency with at least one of Perl or Python, including data format conversions and debugging skills, required
- Working knowledge of R required
- Ability to quickly learn new programming skills
- Familiarity with HPC clusters, in particular SGE desirable
- Familiarity with version control desirable
- Familiarity with resources of genomic data sets and analysis tools, such as UCSC Genome Browser, Bioconductor, ENCODE, and NCBI databases desirable
- Familiarity with statistics desirable
- Accountability, and attention to detail and timelines required
- Ability to critically read scientific articles and technical manuals required
- Ability to write clear and comprehensive code documentation required
- Ability to interact with biologists and clinicians during a scientific discussion desirable
- Ability to communicate and clearly present results as well as write detailed technical reports required
- Ability to work in a team environment required
Requeriments :
Skills :
- genomic
- HPC
- Lunix/Unix
- Microarray
- Programing in Python
- Programing Skills
- Programming in PERL
- Programming in R
- RNA-seq
- Statistics
- Version Control
Areas :
Additional Info:
Shift: Days Employment Status: AF - Active - Regular - Full Time All CHOP employees who work in a patient building or who provide patient care are required to receive an annual influenza vaccine unless they are granted a medical or religious exemption. Children's Hospital of Philadelphia is committed to providing a safe and healthy environment for its patients, family members, visitors and employees. In an effort to achieve this goal, employment at Children's Hospital of Philadelphia, other than for positions with regularly scheduled hours in New Jersey, is contingent upon an attestation that the job applicant does not use tobacco products or nicotine in any form and a negative nicotine screen (the latter occurs after a job offer). Children's Hospital of Philadelphia is an equal opportunity employer. We do not discriminate on the basis of race, color, gender, gender identity, sexual orientation, age, religion, national or ethnic origin, disability or protected veteran status. VEVRAA Federal Contractor/Seeking priority referrals for protected veterans. Please contact our hiring official with any referrals or questions. CHOP Careers Contact Talent Acquisition 2716 South Street, 6th Floor Philadelphia, PA 19146 Phone: 866-820-9288 Email: TalentAcquisition@email.chop.edu [Click Here to Access the Original Job Post]