DPB – Plant Biology

Bioinformatics postdoc position to develop computational pipelines to identify enzymes and transporters in plant genomes

Department: DPB – Plant Biology

Salary:

Location: Stanford, CA

Carnegie Institution for Science, Department of Plant Biology, to create and analyze metabolic networks of plants. Plant metabolism is the biological engine that feeds the world, not only humans but also microbes and animals. The successful candidate will lead the development of computational tools and methods for predicting plant metabolic enzymes and transporters as a part of a team called the Plant Metabolic Network (PMN, www.plantcyc.org). The successful candidate will have opportunities to investigate novel questions regarding evolution, function, or regulation of enzymes and transporters as well as metabolic networks in plants by leveraging the tools and data generated at the PMN and the Rhee lab, including standard molecular genetic tools and resources.

Qualified candidates must have a Ph.D. or equivalent in Bioinformatics, Computational Biology, Biology, Biochemistry or a related field, and a strong background in computational pipeline development, statistics and programming, as well as a strong interest in applying machine learning and other computational approaches to address interesting biological problems. Candidates with experience in developing machine learning algorithms are especially encouraged to apply. Working experience in large-scale sequence analysis, phylogenomics, and proficiency in programming languages of Python and/or Perl are pluses. The successful candidate should also have a demonstrated ability for independent and critical thinking, excellent communication and teamwork skills, and enthusiasm for learning new things.
The Carnegie Institution, a private, nonprofit organization engaged in basic research and advanced education in biology, astronomy, and the earth sciences, was founded and endowed by

Andrew Carnegie in 1902 and incorporated by an act of Congress in 1904. Andrew Carnegie conceived the Institution’s purpose “to encourage, in the broadest and most liberal manner, investigation, research, and discovery, and the application of knowledge to the improvement of mankind.” The Department of Plant Biology engages in basic research on the mechanisms involved in the growth and development of plants and algae. The Department of Plant Biology is co-located with the Carnegie Department of Global Ecology on a seven-acre site on the campus of Stanford University.

Computational biology postdoc position to develop algorithms for creating and analyzing plant metabolic networks

Department: DPB – Plant Biology

Salary:

Location: Stanford, CA

A postdoctoral position is available immediately in the laboratory of Dr. Sue Rhee at the Carnegie Institution for Science, Department of Plant Biology, to create and analyze metabolic networks of plants. Plant metabolism is the biological engine that feeds the world, not only humans but also microbes and animals. The successful candidate will lead the development of novel computational algorithms for annotating subcellular localization of plant metabolic reactions as a part of a team called the Plant Metabolic Network (PMN, www.plantcyc.org). The successful candidate will have opportunities to develop other algorithms addressing a broad array of questions regarding evolution, function, or regulation of metabolic networks in plants by leveraging the tools and data generated at the PMN and the Rhee lab, including standard molecular genetic tools and resources.

Qualified candidates must have a Ph.D. or equivalent in Computer Science, Bioinformatics, Computational Biology, Biology, Mathematics, Engineering or a related field, and a strong background in algorithm development, statistics, machine learning as well as a strong interest in applying computational approaches to address biological problems. The successful candidate should also have a demonstrated ability for independent and critical thinking, excellent communication and teamwork skills, and enthusiasm for learning new things. Proficiency in Matlab, R and Python is a plus.

The Carnegie Institution, a private, nonprofit organization engaged in basic research and advanced education in biology, astronomy, and the earth sciences, was founded and endowed by Andrew Carnegie in 1902 and incorporated by an act of Congress in 1904. Andrew Carnegie conceived the Institution’s purpose “to encourage, in the broadest and most liberal manner, investigation, research, and discovery, and the application of knowledge to the improvement of mankind.” The Department of Plant Biology engages in basic research on the mechanisms involved in the growth and development of plants and algae. The Department of Plant Biology is co-located with the Carnegie Department of Global Ecology on a seven-acre site on the campus of Stanford University.

Grants Manager

Department: DPB – Plant Biology

Salary: TBD

Location: Stanford, CA

The Carnegie Institution for Science is a non-profit, world-class research institution. Carnegie’s Plant Biology and Global Ecology departments are located on Stanford University campus, California. Website: www.dpb.carnegiescience.edu and www.dge.carnegiescience.edu. The two departments, which share facilities and administrative support team, are seeking to fill the full-time position of Human Resources and Departmental Administrator.

The Grants Manager will report to the Department Directors and Departmental Administrator to manage the proposal preparation and post award activities of federal and private grants, contracts and program projects for the departments. This position is responsible for ensuring that sponsored projects are in compliance with all Carnegie policy, sponsor and government regulations, and guides the department staff scientists (Principal Investigators-PIs) through these policies and procedures as needed.

CORE RESPONSIBILITIES*:

  • Participate with PIs in the preparation of the administrative components of proposals within parameters of Institutional, research, and proposal specific guidelines.
  • Oversee and communicate submission process, both paper and electronic; review documents for completeness and compliance.
  • Develop, prepare, and finalize project budgets, and provide budget justifications.
  • Serve as liaison and active partner between PIs, Head Quarters (HQ) Office of Sponsored Programs (HQ OSP), and research groups; respond to HQ-OSP and sponsor inquiries.
  • Collaborate and work closely with HQ-OSP and Department business office and Financial Analyst to ensure awards are set up properly and cost-sharing requirements are fulfilled.
  • Monitor financial status of the grant to ensure expenditures are allocable and allowable, prior approval has been obtained where needed, and spending flexibility requirements are being met.
  • Review and approve correct charging of expenditures by working with business office and Financial Analyst, and oversee compliance related to fund and revenue.
  • Participate in contract closeout process; submit annual and final reports and work with HQ OSP on financial closeout. Compile information and documents needed for audit inquiries.
  • Manage subrecipient process which includes conducting risk assessments, monitoring, and close-out procedures.
  • Serve as resource and overall technical resource for compliance and sponsored programs to PIs and other staff.
  • Participate in and contribute to process improvements. Lead other staff group projects.  May participate as a mentor and provide cross-training as needed.
  • *-Other duties may also be assigned.

MINIMUM QUALIFICATIONS:

  • Bachelor’s degree and/or three years of job related experience, or combination of education and relevant experience.

Knowledge, Skills and Abilities:
• Knowledge of governmental regulations (see below)
• Ability to understand, interpret, and communicate policies and procedures.
• Ability to collaborate with others on projects
• Excellent oral, written and communication skills.
• Knowledge of procurement needs, including sole-sourcing, cost analyses, vendor requirements, and business reporting.
• Extreme attention to detail.
• Ability to work well independently, but also to seek or offer assistance when needed.
• Ability to review a proposal or manage a project with understanding of the overall scope and goal of each sponsored project.
• Excellent time management and organizational skills.
• Certification in Grants Management desired.

ADDITIONAL QUALIFICATIONS:
The successful candidate should have knowledge of pre-and-post award research administration processes and fluency of governmental regulations (e.g. Uniform Guidance, FAR, CAS). The Grants Manager must be able to work in a dynamic environment as part of a team and serve as liaison and active partner between sponsors, PIs, HQ-OSP, research groups and others.

Application Process: On-line applications only

Carnegie offers a competitive salary and comprehensive benefits package.

Application Deadline: Until Filled
No phone calls please. Only candidates who meet our requirements will be contacted.

Carnegie is an Equal Opportunity Employer. The Carnegie Institution for Science has a strong commitment to the principle of diversity. In that spirit, we particularly encourage applications from women, members of ethnic minorities, and individuals with disabilities.

Computational quantitative genetics postdoc position

Department: DPB – Plant Biology

Salary:

Location: Palo Alto, CA

A bioinformatics/computational biology postdoctoral research position is available immediately in the laboratory of Dr. Sue Rhee at Carnegie Institution’s Plant Biology Dept (Palo Alto, CA). The main goal of the project is to develop an algorithm to predict causal genes from QTL regions in plants, particularly in the model C4 grass Setaria. This project has opportunities to use genomics and functional genomics data in plants, both publicly available and newly generated in our consortium, to build an algorithm that can accelerate the discovery of genes that are responsible for phenotypic variation in metabolic and developmental traits in response to drought and high-density planting in Setaria. This is a collaborative project among several pioneering labs in plant physiology, genetics, engineering, and computational biology (www.foxmillet.org).

Qualifications: Qualified candidates must have: 1) a Ph.D. or equivalent in Computer Science, Biology, Bioinformatics, Mathematics, Engineering or related field; 2) expertise or fluency in large-scale data analysis, statistics, genomics, machine learning, and/or related field; and 3) proficient in programming. Candidates with experience in developing machine learning algorithms and/or trained in quantitative genetics, evolutionary biology, or population genetics are especially encouraged to apply. The successful candidate should have a demonstrated ability for independent and critical thinking, ability and initiative to learn new things, excellent communication and teamwork skills and passion for biological research.

Responsibilities: The successful candidate will develop a computational method/algorithm to rationally prioritize causal genes underlying QTLs from GWAS and QTL mapping studies using functional genomics data such as RNAseq, sequence
polymorphisms, evolutionary signatures, and functional annotations. The candidate will also work with scientists in the consortium who are generating the mapping and functional genomics data as well who will test the predicted causal genes using state of the art molecular biology, genetics, plant physiology, and genome editing tools.

Carnegie Institution for Science (http://carnegiescience.edu/) is a private, nonprofit organization for scientific discovery founded by Andrew Carnegie in 1902. He intended the institution to be home to exceptional individuals with imagination, intelligence and enjoyment capable of creating and expanding the cutting edge of their fields. Today, Carnegie scientists work in six scientific departments on the West and East Coasts. The Department of Plant Biology engages in basic research on the mechanisms involved in the growth and development of plants and algae. The Department of Plant Biology is located on the campus of Stanford University. Carnegie is an equal opportunity employer.

Postdoctoral Research Associate

Department: DPB – Plant Biology

Salary: DOE

Location: Stanford, CA

Postdoctoral Research Associate

A postdoctoral position is available immediately to work on a project with the long term objective to re-engineeralgal and (crop) plant plastids for N2fixation. A combination of bioinformatics, molecular and synthetic biology tools will be used to design and re-engineer the N2 fixation gene cluster into a non-N2 fixing cyanobacterium along with other significant modifications.

A highly motivated and creative person, with strong training in molecular biology/bioinformatics and preferably experience working with cyanobacteria/microbes or synthetic biology will be ideal. Postdoctoral fellows will have the unique opportunity to work closely with other members of the multi-disciplinary international team.

The Carnegie Institution for Science is on the Stanford campus, in the San Francisco Bay area, with opportunities for extensive social and scientific interactions. The project is funded by NSF and the contract will be for one year at time and renewable based on performance.

The Carnegie Institution of Science is an equal opportunity employer.

Lab Assistant – Part Time

Department: DPB – Plant Biology

Salary:

Location: Stanford, CA

The Grossman lab is seeking a highly motivated, detail-oriented undergraduate student to assist in various aspects of algal biological research.  Projects in the lab are focused on improving our understanding of photosynthesis and metabolism in Chlamydomonas reinhardtii (model alga).

 The undergraduate student research assistant will be expected to help with the following:

-Media preparation

-General lab upkeep and maintenance

-Strain propagation and cryopreservation

-Strain genotyping and phenotyping

-Data analysis

A strong candidate will have previous laboratory research experience and be familiar with a molecular biology lab setting.  Student candidate will be trained to grow Chlamydomonas and to conduct experiments in molecular biology, genetics, and biochemistry.  Student will initially work together with a group, but will also be given the opportunity to work independently.

This is a 10-20 hour per week position, no benefits.

The position could be filled as soon as March 15, 2014.  Please provide cover letter and at least one letter of reference.   Preference will be given to candidates expressing interest in continuing to work during the summer of 2014 and into the fall.

Part-Time Laboratory Technician

Department: DPB – Plant Biology

Salary: DOE

Location: Stanford, CA

Part-Time Laboratory Technician

 

Immediate opening for a 1-year half-time technician in the laboratory of Dr. Devaki Bhaya at the Carnegie Institution for Science, Department of Plant Biology at Stanford.

 

Qualifications:

– Strong academic record and Bachelor’s degree in molecular biology/ or equivalent.

– 1-2 years of lab experience (outside of coursework) and familiarity with common molecular biology techniques such as PCR and cloning. Familiarity with computers/programming/ bioinformaticsstrongly preferred.

– Specific opportunities to develop independent research projects. Lab duties will involve keeping track of lab orders, lab organization, maintaining cultures and other stocks. Assisting and interacting with lab members on specific projects.

– Good judgment and common sense as well as critical thinking and attention to detail are required. Must possess excellent analytical, presentation, and written/verbal communication skills.

CV should include GPA if applicant is a recent graduate and 2-3 references will be required.  Cover Letter should indicate earliest joining date possible. 

The Carnegie Institution of Science is an equal opportunity employer.