Inspiring and developing the next generation of scientists is core to our mission. We do this locally and internationally through invested mentorship, a focus on scientists at all levels, and by creating a dynamic interdisciplinary environment where we all learn from each other. Applicants representing historically underrepresented backgrounds are encouraged to apply.
**SEEKING Postdoc** Two phylodynamics postdoc positions
The EPPIcenter and the Müller lab at UC San Francisco (UCSF) are seeking two postdoctoral research fellows in phylodynamics to study the transmission dynamics of bacterial or viral infectious diseases. The candidate will work closely with Dr. Nicola Müller and become part of the multidisciplinary research environment of the Experimental and Population-based Pathogen Investigation Center (EPPIcenter), with plenty of options for additional mentorship from other faculty. Both positions will investigate the transmission dynamics of infectious diseases from pathogen genome data using phylodynamic methods.
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Potential projects include:
- Developing methods for local-scale transmission dynamics from infectious diseases.
- Investigating recombination patterns in viruses using phylogenetic network approaches.
- Studying bacterial transmission dynamics using phylodynamics.
The exact projects will be tailored to the strengths and goals of the candidates when starting the positions. The lab will support and encourage your independent research and career interests that broadly align with the lab's interests and tailor the project accordingly. You will be expected to participate in the center's meetings and seminar series, perform novel research, publish in peer-reviewed journals, and participate in national and international conferences. The expected pay range for the position is based on experience and is anticipated to be between 66,737 and 80,034 USD per year plus benefits. The initial application deadline is December 17th 2023, but the positions will remain open until filled.
The Müller lab is a new group in the Division of HIV, Infectious Diseases, and Global Medicine in the Department of Medicine at the Center at UCSF. We use phylodynamics to quantify the transmission dynamics of bacterial and viral infectious diseases, ultimately to inform public health interventions. We seek to undertake cutting-edge research while valuing a strong work-life balance. As a new group, the Müller lab provides opportunities for close mentorship if desired. As a member of the EPPIcenter, you will also be part of a larger group of infectious disease researchers. You will become part of and be co-located with other members of the EPPIcenter. The center consistsof multiple PIs, trainees, and both dry and wet lab spaces. We believe that diversity in backgrounds and perspectives enriches our research and encourage applications from a diverse pool of candidates. We particularly encourage members of groups that have historically been underrepresented in science to apply.
UC San Francisco seeks candidates whose experience, teaching, research, or community service has prepared them to contribute to our commitment to diversity and excellence. The University of California 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, disability, age or protected veteran status.
•PhD or equivalent in a relevant field when starting the position. Relevant fields include, but are not limited to, computational biology, statistics, epidemiology, genomics, and infectious diseases.
•Coding/scripting experience with high-level programming languages, such as Python, R, or Matlab.
•Familiarity with viral or bacterial infectious diseases.
•Ability to communicate your science and engage with the research of others.
•Background in basic biology, population genetics, or ecology.
•Experience in the analysis/modeling of infectious diseases.
•Strong statistical skills.
•Programming experience in Java.
•Experience handling viral or bacterial genome data.
•Prior experience in phylogenetics and/or phylodynamics.
Please send a CV including publications, a brief statement of research/career interests (1 page), and the names, context, and contact information for three references to [email protected] with the subject line 'Phylodynamics postdoc'
**SEEKING Postdoc** Malaria genomic epidemiology -lab focus
The EPPIcenter at UC San Francisco is seeking a talented scientist with a laboratory background to study the transmission and immunity of malaria using genomic and epidemiologic data. The successful candidate will be immersed in the multidisciplinary research environment of the Experimental and Population-based Pathogen Investigation center (EPPIcenter.ucsf.edu) and work closely with Drs. Bryan Greenhouse and Isabel Rodriguez-Barraquer along with a diverse team of scientists at UCSF and international collaborators.
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The fellow will be expected to develop, optimize, and apply genomics assays for deriving epidemiologically relevant information on malaria transmission from genetic, spatial, and epidemiologic data, and will be encouraged to develop an independent line of work in this area. Our team is directly involved in all aspects of data generation and analysis including field work, generating laboratory data, modeling, communicating directly with malaria control programs and policy makers, and building research capacity. Competitive salary including full benefits will be provided commensurate with experience and qualifications, and the post offers ample opportunities for career development.
• PhD or equivalent in a relevant field
• Background in laboratory genomics, ideally with some experience in pathogen genomics
• Ability to analyze and interpret next generation sequencing data
• Demonstrated ability to produce independent, creative work
• Ability to work well as member of a team
• Excellent written and oral communication skills
• Background in basic biology, population genetics, or ecology
• Experience in analysis/modeling of infectious diseases
• Strong statistical and computational skills
• Programming experience in T or Python
• Experience with Nextflow and container systems (e.g. Singularity and Docker)
Send a CV including publications, brief statement of research/career interests, and contact information for 3 references to [email protected] withe the subject line 'Malaria genomic epidemiology -lab focus'
**SEEKING Postdocs** Malaria Genomic Epidemiology -analytic focus
A consortium of academic partners is inviting applications from highly motivated candidates for postdoctoral positions at the Experimental and Population-based Pathogen Investigation center (EPPIcenter) at UC San Francisco, Johns Hopkins Bloomberg School of Public Health, or a possible secondment at Imperial College.
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Ideal candidates with have experience with modeling and/or genomic analysis and will study the transmission of malaria and apply genomic use cases using data from a large malaria genomic epidemiology project in southern Africa. Successful candidates will have the option to be based at one of the three institutions in alignment with research interests and benefit from a rich and interdisciplinary research environment, working closely with Drs. Bryan Greenhouse (UCSF), Amy Wesolowski (JHBSPH) and Robert Verity (Imperial) as well as a diverse and international team of collaborators.
The fellow(s) will be expected to develop, optimize, and apply statistical and/or mathematical models using genetic, spatial, and epidemiologic data in order to further methods and implementation of malaria genomic use cases in southern Africa. These use cases include connectivity and importation as well as more established cases around drug and diagnostic resistance. Fellows will also work directly with regional and in-country partners and have a role to develop capacity and support a wide array of publications using these data. Our team is directly involved in all aspects of data generation and analysis including study design, supporting generation of laboratory data, methods development, modeling, communicating directly with malaria control programs and policy makers. The project is strongly focused on building research and technical capacity with local partners.
Competitive salary including full benefits will be provided commensurate with experience and qualifications, and the post offers ample opportunities for career development and independent work streams.
- PhD or equivalent in a relevant field
- Experience in analysis/modeling of infectious diseases and epidemiology
- Strong statistical and computational skills
- Demonstrated ability to produce independent, creative work
- Ability to work well as member of a team
- Excellent written and oral communication skills
- Ability to analyze and interpret next generation sequencing data
- Background in laboratory genomics, ideally with some experience in pathogen genomics
- Programming experience in R or Python
- Experience in technical and computational capacity building
- Experience in primary epidemiological data collection
Send a CV including publications, brief statement of research/career interests, and contact information for up to 3 references to [email protected] withe the subject line Malaria Genomic Epidemiology -analytic focus
**SEEKING Postdocs** Infectious diseases epidemiology and modeling
Recruiting post-docs who will work on highly interdisciplinary projects on infectious disease epidemiology and dynamics. We are seeking to hire highly motivated and independent post-doctoral scholars to join the EPPIcenter (Experimental & Population-based Pathogen Investigation Center) at the University of California, San Francisco, with Drs. Bryan Greenhouse and Isabel Rodríguez-Barraquer. The goal of our research center is to understand complex infectious disease dynamics by integrating state-of-the-art data collection, molecular technologies, and computational analysis. Our interdisciplinary approach provides novel insight into the targeting of interventions to reduce and ultimately
eliminate infectious disease burden.
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Our portfolio includes many projects in infectious diseases that have translated into policy change and practice, including in the fields of malaria, dengue, neglected tropical diseases, and COVID-19. We work closely with policy organizations like the World Health Organization, California Department of Public Health, and Ministries of Health to ensure our research translates to improvements in human health. Our group provides a diverse and vibrant collaborative team environment with an emphasis on mentorship and career development.
Projects involve development of mathematical and statistical models to analyze complex datasets (epidemiological and molecular) to answer questions in infectious disease epidemiology, development of immunity, control strategies and public health decision making.
Example projects/research areas include:
- Developing and extending computational methods to reconstruct transmission networks and otherwise derive epidemiologically relevant information on malaria transmission from genetic, spatial, and epidemiologic data
- Developing analytical pipelines for serosurveillance using novel multiplexed serological assays (with a focus on malaria and arboviruses)
- Reconstructing emergence and transmission dynamics of arboviruses
- Characterizing the development of strain specific immunity to malaria in the context of detailed longitudinal studies using genomics and high-throughput serological assays
- Developing strategies for multi-pathogen disease intelligence, including emerging infectious diseases, in LMICs
Candidates interested in working on computational infectious disease research with a strong quantitative background are highly encouraged to apply.
-PhD in epidemiology, statistics, math, physics, engineering, computational biology, computer science, ecology, public health, or related quantitative field. Exceptional predoctoral candidates with proven quantitative skills will also be considered.
- Strong programming skills in at least one relevant languages, e.g., R, MATLAB, Python.
- Strong quantitative skills, including statistical modeling, dynamic modeling, decision science, simulation, biostatistics, and basic mathematics.
- Ability to work independently and execute research projects with minimal supervision.
- Excellent communication skills, e.g., data visualization, writing.
Prior background in epidemiology, ecology, population health measurement, and/ or infectious diseases
Send a CV including publications, brief statement of research/career interests, and contact information for 3 references to [email protected] withe the subject line Infectious diseases epidemiology and modeling
Please send a CV including publications, brief statement of research/career interests, and contact information for 3 references to [email protected] with a subject line indicating your preferred project. We are always looking for excellent candidates! Positions are open until filled, apply promptly.
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