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DESCRIPTION
Join Our Team at Dr. Gu's Lab, Versiti Blood Research Institute, Milwaukee, WI.
Are you a driven and passionate individual with expertise in machine learning, bioinformatics, biostatistics, genomics, genetics, computational biology, or cancer biology? If so, we invite you to become part of our dynamic team at Dr. Gu's lab at the Versiti Blood Research Institute in Milwaukee, WI. We are seeking a highly motivated Postdoctoral Fellow to contribute to groundbreaking research in the field of multi-omics data analysis, cancer biology, and biomarker discovery.
Position Overview:
As a Postdoctoral Fellow, you will have the unique opportunity to develop and implement cutting-edge machine learning algorithms and statistical models. These tools will be applied to unravel the complexities of multi-omics data, shedding light on the mechanisms underlying cancer biology (leukemia, lung, and kidney cancer) and facilitating the identification of early diagnostic and treatment biomarkers. Additionally, if you have an interest in experimental work, you will have the chance to gain valuable hands-on experience and training.
REQUIREMENTS
Education:
- Master's Degree required
- PhD required
- Equivalent degree required
Experience:
- 0-6 years of postdoctoral training required
- Proficiency in Python or R, ideally both
- Knowledge of biology, genomics, genetics, and Next Generation Sequencing data is a valuable asset.
WHY JOIN US
- Contribute to cutting-edge research in a collaborative and innovative environment.
- Access state-of-the-art resources and mentorship to support your career development.
- Work in a vibrant city with a rich cultural scene and a welcoming community.
HOW TO APPLY
If you are passionate about harnessing the power of data to advance our understanding of cancer biology and want to be part of a team dedicated to making a difference, we encourage you to apply.
To apply for this position, please submit your CV, a cover letter detailing your research interests and relevant experience and contact information for at least three references to tgu[at]versiti.org.
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BACKGROUND
GDIT is seeking an experienced Scientific Program Manager to lead our Scientific IT program, supporting a large biomedical research community for our customer with the National Institute of Allergy and Infectious Diseases (NIAID).
Our Scientific IT program is responsible for enabling High Performance Computing and its associated infrastructure across multiple locations, scientific applications and instrumentation, and ~40PB of data storage to include data archive and sharing services. This program serves as a customer-facing presence for the NIAID research community, providing a single point of support for new initiatives, ongoing projects, and scientific IT needs. In your role as a Scientific Program Manager, you will lead a multidisciplinary team responsible for delivering comprehensive scientific services to an end-user community of approximately 4500.
Under your leadership, you will be responsible for developing and implementing customer support policies and procedures with a focus on metrics driven execution to ensure that scientific and computational services are delivered to our client on time and efficiently. You will proactively identify areas for improvement, implement process enhancements, and drive efficiency for our scientific services portfolio. You will prioritize building relationships with researchers to understand their needs, solve challenges, and align our program to deliver value to support scientific research. You must be able to simultaneously manage various duties and obligations such as project and team management to ensure customer satisfaction while enhancing the caliber of services delivered.
RESPONSIBILITIES
- Provides day to day team management and oversight of project execution and service delivery for scientific infrastructure and scientific instrumentation teams. This includes delegating tasks, providing clear direction, and inspiring collaboration and teamwork.
- Accountable for the development and delivery of scientific IT services and capabilities, strategic planning, budgeting and forecasting, and customer outreach and engagement.
- Overseeing personnel management including staff recruitment, hiring, performance management, training, and mentoring.
- Ensures service delivery alignment with program and customer strategic goals by developing strategic roadmaps and tracking KPI's.
- Collaborates with internal and external resources to identify new service offerings to enable and advance scientific research. Develop plans and identifies resources required for implementation and execution.
- Facilitate regular discussions with researchers to understand needs and challenges.
- Provides transparent communications on project timelines, resource requirements, risk management, and status reporting across all organizational and technical boundaries.
- Provides oversight for critical incidents, coordinating with resolution parties and establishing effective communication between stakeholders for post incident reviews and after-action reporting.
REQUIREMENTS
- Masters and 5+ years experience or equivalent in a Science and IT related discipline
- 5+ years experience leading multiple computational science programs
- 5+ years experience in IT project management or development and delivery of scientific IT services
- Demonstrated experience leading multidisciplinary teams supporting operations and maintenance of computational science systems and applications
- Understanding of general workflows for scientific data generation, analysis, and reporting
- Understanding of challenges and approaches for large scale scientific data management
- Experience developing and aligning relationships with diverse stakeholders at all levels from scientists through senior leadership
- Experience providing accurate and regular reports to measure how deliverables align with the organization values and strategic objectives
PREFERENCES
- Education or experience in life or physical sciences
- Experience leading cross-functional teams including scientists and engineers
- Experience leading teams supporting engineering and administration of computational science infrastructure, including HPC and associated components
- Experience providing IT support for scientific instrumentation installation, configuration, operations, and troubleshooting
- Experience supporting large collections (hundreds) of shared applications, many of which are open source
- Familiarity with genomic analyses tools, workflows and data types
- Familiarity with Agile Scrum and/or Kanban methodologies
- Familiarity with principles and practices of ITIL to include incident management, problem management, service request management, change management, and service level management.
- Understanding of the National Institute of Standards and Technology (NIST) cybersecurity framework and Security Assessment and Authorization (SA&A) process
LOCATION
This position is primarily remote; however, you must reside within commuting distance to the client site in Rockville, MD and be able to be onsite at least 1x a week to meet contractual obligations and project needs. Possible travel to the Montana location.
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BACKGROUND
The Center for Biosustainability (CFB) at DTU (Denmark) and the FEMSA Biotechnology Center (CBF) at Tecnológico (TEC) de Monterrey (Mexico) have launched a joint research program to foster a bilateral strategic partnership to promote innovative projects in biosustainability (Joint CFB-CBF research program).
The Computational Protein Engineering (CPE) group at DTU Biosustain and the Molecular and Systems Bioengineering (MSB) group at TEC campus Guadalajara (Jalisco) are offering one postdoctoral position as part of this Joint CFB-CBF program in the area of in vivo enzyme evolution in yeast for C1 metabolism. The candidate will be hired at DTU but It is required that the candidate makes at least a six month stay in the Tecnológico de Monterrey Campus Jalisco, Mexico.
RESPONSIBILITIES & QUALIFICATIONS
We are looking for a colleague who is independent, will thrive within an interdisciplinary environment at two world-class research centres in Denmark and Mexico (short-term research visit at TEC for 6 months), and is highly motivated to develop novel biosustainable solutions using cutting-edge research approaches.
Responsibilities:
- Engineer yeast strains to assimilate C1 feedstocks.
- Perform genome mining to identify enzyme candidates using bioinformatic approaches.
- Characterize enzyme variants using biophysical and biochemical methods.
- Generate and analyze large enzyme mutant datasets using in vivo directed evolution tools and next-generation sequencing.
- Implement adaptive laboratory evolution (ALE) campaigns using automation.
- Report your research results in peer-review scientific publications and international conferences.
- Collaborate within the CPE and MSB research groups and across DTU and TEC network.
Qualifications:
- PhD in biotechnology, biochemistry, biology, chemistry, biophysics, or related area.
- Experience with yeast genetics, molecular biology, and bioinformatics.
- Basic programming skills in Python or similar languages.
- Excellent written and oral English proficiency.
- Excellent communication skills for working within an interdisciplinary research team.
- Strong analytical skills and ability to work independently.
Preferred qualifications (not mandatory):
- A strong publication record in peer-review scientific journals.
- Experience with grant and patent writing as well as teaching.
- Experience with protein and metabolic engineering.
- Experience with directed evolution and adaptive laboratory evolution (ALE).
- Interest in learning automation, robotics, and machine learning to improve protein function.
- Interest in entrepreneurship to make a positive impact on planetary and human health.
WE OFFER
DTU is a leading technical university globally recognized for the excellence of its research, education, innovation and scientific advice. We offer a rewarding and challenging job in an international environment. We strive for academic excellence in an environment characterized by collegial respect and academic freedom tempered by responsibility.
Salary & terms of employment:
The appointment will be based on the collective agreement with the Danish Confederation of Professional Associations. The allowance will be agreed upon with the relevant union.
The period of employment is 2 years. The preferred starting date is July 1st, 2024, or according to our mutual agreement. The position is full time.
You can read more about career paths at DTU here: https://www.dtu.dk/english/about/job-and-career/working-at-dtu/career-paths
HOW TO APPLY
Your complete online application must be submitted no later than 5 May 2024 (23:59 Danish time).
Apply at: Postdoc in Directed Enzyme Evolution of C1 metabolism: https://efzu.fa.em2.oraclecloud.com/hcmUI/CandidateExperience/en/sites/CX_1/job/3381/?utm_medium=jobshare
Applications must be submitted as one PDF file containing all materials to be given consideration. To apply, please open the link "Apply now", fill out the online application form, and attach all your materials in English in one PDF file. The file must include:
- Application (cover letter)
- CV
- Academic Diplomas (MSc/PhD – in English)
- List of publications
Applications received after the deadline will not be considered.
All interested candidates irrespective of age, gender, disability, race, religion, or ethnic background are encouraged to apply.
ABOUT US
DTU Biosustain is an interdisciplinary research center that develops new knowledge and technology to support the production of biochemicals, natural products and microbial foods using fermentation processes based on microbial hosts or enzymatic processes.
Technology for people:
DTU develops technology for people. With our international elite research and study programmes, we are helping to create a better world and to solve the global challenges formulated in the UN's 17 Sustainable Development Goals. Hans Christian Ørsted founded DTU in 1829 with a clear mission to develop and create value using science and engineering to benefit society. That mission lives on today. DTU has 13,500 students and 6,000 employees. We work in an international atmosphere and have an inclusive, evolving, and informal working environment. DTU has campuses in all parts of Denmark and in Greenland, and we collaborate with the best universities around the world.
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BACKGROUND
Fred Hutchinson Cancer Center is an independent, nonprofit organization providing adult cancer treatment and groundbreaking research focused on cancer and infectious diseases. Based in Seattle, Fred Hutch is the only National Cancer Institute-designated cancer center in Washington.
With a track record of global leadership in bone marrow transplantation, HIV/AIDS prevention, immunotherapy and COVID-19 vaccines, Fred Hutch has earned a reputation as one of the world's leading cancer, infectious disease and biomedical research centers. Fred Hutch operates eight clinical care sites that provide medical oncology, infusion, radiation, proton therapy and related services, and network affiliations with hospitals in five states. Together, our fully integrated research and clinical care teams seek to discover new cures to the world's deadliest diseases and make life beyond cancer a reality.
At Fred Hutch we value collaboration, compassion, determination, excellence, innovation, integrity and respect. These values are grounded in and expressed through the principles of diversity, equity and inclusion. Our mission is directly tied to the humanity, dignity and inherent value of each employee, patient, community member and supporter. Our commitment to learning across our differences and similarities make us stronger. We seek employees who bring different and innovative ways of seeing the world and solving problems. Fred Hutch is in pursuit of becoming an anti-racist organization. We are committed to ensuring that all candidates hired share our commitment to diversity, anti-racism and inclusion.
The Chief Data Officer of the Fred Hutchinson Cancer Center, Jeff Leek, established the Fred Hutch Data Science Lab (DaSL) to develop and support the overall data strategy for the organization. The mission of the Data Science Lab is to ensure an effective data ecosystem at Fred Hutch by developing a modern, well documented, well implemented, overall data strategy. This should serve the needs and capabilities of those leveraging data at Fred Hutch regardless of "where they live" from the clinic to the research groups. We believe focusing on people is critical in building a strong, dynamic community united around using data to improve human health and cancer care. To do this, we aim to build a diverse, hybrid team that is inclusive, open, collaborative, and supportive both within our team and with our collaborators (find more about our values and culture). We are strong advocates for open science and reproducible research, thus develop our work in the open as much as possible. We rely heavily on written communication and continuous collaboration in order to support our hybrid team, as well as make our work as accessible as scalably and sustainably as possible by Fred Hutch staff.
This position will work with colleagues within the Data Science Lab and across the institution to develop a training program to meet the data science needs of Fred Hutch researchers. This includes working with a diverse population of scientists and administrators to build a community of data science learners at all levels, as well as creating, adapting, and delivering training materials and resources to meet the diverse data-related training needs of the Fred Hutch community and the diverse ways in which people prefer to learn. As such, the Director of Training and Community has a background in health and biomedical data science and must be enthusiastic about collaborating with others, creating a system for developing and delivering open-source training, and furthering the success of the Fred Hutch community.
This role will have the opportunity to work partially at our campus and remotely.
This position is eligible for a sign on bonus and relocation.
RESPONSIBILITIES
- Work with the Chief Data Officer, Deputy Chief Data Officer, other DaSL leadership, and training staff to create a comprehensive data science training program for the Fred Hutchinson Cancer Center, based on needs assessment and input from on-going data science house calls.
- Collaborate with Fred Hutch researchers to identify further training needs and translate into expanding the training program, including performing surveys of needs of the Hutch community.
- Prioritize training development and delivery plans to meet the Fred Hutch community needs.
- Develop a strategy for delivering this training program in a modern, flexible format to meet the needs of providers, researchers, administrators, and the Fred Hutch community broadly.
- Strategize training delivery across different modalities (courses, workshops, videos, etc.) and platforms (website, coursera, etc.) to enhance audience reach.
- Develop a model structure for courses by leveraging open source technologies and adopting an approach to open, collaborative course development.
- Coordinate efforts with the Fred Hutch Office of Education and Training (OET) and other training groups at Fred Hutch.
- Host/lead online and in-person courses, presentations, and sessions about change management to support the evolving data culture at Fred Hutch.
- Supervise and mentor Fred Hutch funded training staff.
- Collaborate with the grant-funded staff to create a cohesive experience across all training efforts regardless of funding source.
- Supervise training curricula and implementation in Fred Hutch training-related efforts.
- Strategize in close collaboration with PIs of grant-funded projects to reuse/adaption of materials to maximize use of data science education materials.
- Contribute to building community by interacting with various groups at Fred Hutch.
- Recruit training team members and larger Fred Hutch community members to contribute to and review sections of the FH Biomedical Data Science Wiki. Manage review of these contributions.
- Work with other DaSL domain experts to lead DaSL Community Studios program (coworking groups on particular topics).
- Evaluate how well the training program is meeting Fred Hutch community needs through analytics and evaluations.
REQUIREMENTS
- MD, PhD (or equivalent), or Masters in Bioinformatics, Statistics, Biostatistics, Mathematics, Computer Science, Data Science, or related field required.
- Years of experience: 4 years of experience in combination of data science and/or training, at least one year in each.
PREFERENCES
- Strong experience with public speaking, including both online and in-person presence.
- Developed and taught courses in data science, biostatistics, data analysis, artificial intelligence, or related fields.
- Core competency in at least one of the following: genomics, natural language processing, image processing, clinical data analysis, machine learning/artificial intelligence, computational biology, biostatistics.
- Proficiency in R and or Python (or equivalent) and version control with Git/GitHub (or equivalent)
- Experience with managing a group of people and prioritizing tasks.
- Passion for democratizing data science and computational biology skills.
- Developed or assisted in developing and leading a data program that included training/education components in either an academic, professional development, or technical environment.
- Experience with DEI, classroom safety, working with diverse populations in an educational setting.
- Experience with community building techniques.
- Experience or interest in pedagogical research.
- Experience with HTML, CSS, high performance computing, Cloud platforms, containers, SQL, markup languages.
COMPENSATION
The annual base salary range for this position is from $120,869 to $191,027, and pay offered will be based on experience and qualifications.
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DESCRIPTION
Interested in bioinformatics, eDNA metabarcoding, and want to work in Hawaii?
Join the Cooperative Institute for Marine and Atmospheric Research (CIMAR) at NOAA's Pacific Islands Fisheries Science Center (PIFSC) and the National Marine Fisheries Service (NMFS) 'Omics Network as a Bioinformatics Assistant Researcher. Contribute to improving the analytical workflows needed to operationalize environmental DNA (eDNA) metabarcoding surveys to enhance biodiversity exploration and monitoring across marine ecosystems from coral reefs to the deep-sea. Together with other new hires at NOAA Science Centers across the nation, be a part of the newly established NMFS 'Omics Network designed to collaboratively develop powerful, reproducible, and streamlined end-to-end operational workflows that automate the analysis of eDNA metabarcoding data.
About Us: PIFSC provides science to support the conservation and management of fisheries and living marine resources across the Pacific Ocean. Our group in the Ecosystem Sciences Division has already generated two big 6-assay ecosystem-scale eDNA datasets from both pelagic and coral reef ecosystems in the Hawaiian Islands, each of which offer exciting opportunities to explore new ecological patterns and generate novel biodiversity products.
The Opportunity: We are seeking a Bioinformatics Assistant Researcher (Postdoc/early Career Researcher) to co-lead the improvement of analytical workflows for eDNA metabarcoding in our marine ecosystem surveys. This is a 3-year, full-time position supported by the Inflation Reduction Act, located at NOAA's Inouye Regional Center in Honolulu, Hawaii. Annual Salary range $67,200-$75,600, commensurate with experience. You'll work closely with a collaborative team of researchers to improve data analysis techniques, refine existing resources and/or develop novel tools to build reproducible, flexible, and automated workflows for multi-marker, multi-trophic level eDNA metabarcoding data streams using rich existing datasets.
Opportunities include: Working with two robust datasets, which couple eDNA with classical field survey techniques to deepen our understanding of ecosystem structure and generate novel products in both Pacific coral reef and pelagic ecosystems. Leading and contributing to impactful scientific papers advancing the integration of eDNA with existing surveys. Collaborating with a diverse and inclusive team of researchers at PIFSC, and the broader NMFS 'Omics Network.
Qualifications: We are looking for a highly motivated candidate with a strong background in Bioinformatics and a PhD in Bioinformatics, Molecular Ecology, Data Science, Biology or related field. You should ideally be knowledgeable of current metabarcoding pipelines, have strong programming skills in one or more languages, and be proficient in R. Ideally you will have a background in genomics, community ecology, biodiversity analyses, and data visualization. Knowledge of marine ecology is preferred, but not required. Skillsets and expertise in other systems could be easily applied.
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BACKGROUND
To strengthen our team in the division "Molecular and Applied Entomology" in Berlin-Steglitz, starting 01.05.2024, we are looking for a
PhD student (m/f/d) in the field of biology, bioinformatics, biochemistry or comparable
Salary group 13 TVöD
Temporary contract for 36 months
The working time is 65%
The Bundesanstalt für Materialforschung und -prüfung (BAM) is a materials research organization in Germany. Our mission is to ensure safety in technology and chemistry. We perform research and testing in materials science, materials engineering and chemistry to improve the safety of products and processes. At BAM we do research that matters. Our work covers a broad array of topics in the focus areas of energy, infrastructure, environment, materials, and analytical sciences.
We are looking for talented people to join us.
RESPONSIBILITIES
Your responsibilities include:
Working on the DFG-funded project "The evolution of symbiont, pathogen and immune system interactions in Blattodea", which has the overarching goal of exploring how symbiont transitions have shaped pathogen defenses and immune systems in Blattodea. The project will involve:
- Identification and testing of immune genes involved in the regulation of symbionts and exploration of how they have evolved
- Tissue-specific transcriptomics in conjunction with microbiota and symbiont manipulation experiments
- Insect field sampling
- Use of available high-quality genomes to characterize immune genes and to better understand evolutionary changes between hosts and their symbionts
- Collaboration with project partners to quantitatively analyze genome, microbiota and pathogen data
- Active contribution to the DFG research group "Insect Infect (FOR 5026)"
- Writing scientific articles for publication in peer-reviewed journals
- Writing a doctoral thesis
- Presentation of project results at international scientific conferences
REQUIREMENTS
Your qualifications:
- Successfully completed scientific university degree (master's degree or equivalent) in the field of biology, bioinformatics, biochemistry or comparable
- Practical experience with insects and microbes
- Very good knowledge and experience in molecular biology
- In-depth knowledge of evolutionary biology and genetics
- Experience in the quantitative and statistical analysis of data with Python, R, or similar
- Knowledge of computer-based analysis of large data sets, especially nucleotide sequences
- Willingness to collaborate across disciplines
- Excellent written and spoken English skills
- Good communication and information processing, goal-oriented and structured way of working, ability to work in a team and willingness to cooperate
COMPENSATION
We offer:
- Interdisciplinary research at the interface of politics, economics and society
- Work in national and international networks with universities, research institutes and industrial companies
- Outstanding facilities and infrastructure
- Flexible working hours and mobile working
HOW TO APPLY
Your application:
We welcome applications via the online application form (https://recruitingapp-5507.de.umantis.com/Vacancies/1837/Application/New/2) by 20.03.2024. Alternatively, you can also send your application by post, quoting the reference number 39/24-4.6 to:
Bundesanstalt für Materialforschung und -prüfung
Referat Z.3 - Personal
Unter den Eichen 87
12205 Berlin
GERMANY
http://www.bam.de
Dr. McMahon will be glad to answer any specific questions you may have. Please get in touch via the telephone number +49 30 8104‑3837 and/or by email to dino-peter.mcmahon[at]bam.de.
POLICY
BAM promotes professional equality between women and men. We therefore particularly welcome applications from women. At the same time, we strive to reflect social diversity. Every application is therefore welcome, regardless of gender, cultural or social background, religion, ideology or sexual identity.
In addition, BAM has set itself the goal of promoting the professional participation of people with severe disabilities. The fulfillment of the job requirements is considered on an individual basis. Severely disabled persons or persons of equal status will be given preferential consideration if they are equally qualified.
The advertised position requires a high level of physical aptitude.
BAM actively supports the compatibility of work and family and has been certified as a family- and life-phase-conscious employer by the "audit berufundfamilie" since 2015.
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BACKGROUND
The Bioinformatics Institute (BII), Agency for Science, Technology and Research (A*STAR) is seeking outstanding faculties in clinical data science research.
The Bioinformatics Institute (BII) is a computational biology research and postgraduate training institute as well as a national resource centre in bioinformatics within the Biomedical Research Council (BMRC) of A*STAR. Our scientists aim to understand the biomolecular mechanisms that underlie biomedical phenomena by developing sophisticated computational methods to support discovery from a secure and sustainable data hub to cross-disciplinary AI/ML analysis and data integration. We analyse a wide spectrum of biological and clinical data, including omics data (biomolecular sequences, expression profiles, epigenetics data), 3D structures of macromolecules, and biological tissue and macroscopic images from local and international academic, hospital and industry collaborators, public resources and also from in-house efforts. The institute has a vibrant and diverse research portfolio that includes infectious diseases, computational toxicology, precision medicine, oncology and drug discovery.
Watch the videos of BII Scientific Conference 2022 to know more about the research by different groups in BII:
https://www.youtube.com/playlist?list=PLcenRySmzqv76JVbdzg3z5kndDHN3FzBk
RESPONSIBILITIES
1. Heading a laboratory specializing in either one of the following:
a. Quantum Computing for biomedical applications
b. Clinical data hub and clinical data analysis
c. AI and generative models in healthcare applications (e.g. synthetic data)
d. AI in drug discovery
2. Collaborate closely with clinicians and with faculties within the Bioinformatics Institute and within the local ecosystem.
3. Collaborate with industrial partners to translate technologies into the clinics.
4. Lead or participate in research grant proposals (~SGD5million to SGD15million quantum).
REQUIREMENTS
- Outstanding research outcomes with strong publication records
- Excellent communication (oral and written) and public speaking skills
- Strong records of strategic thinking ability
COMPENSATION
The salary will commensurate with the experience and expertise.
HOW TO APPLY
Interested applicants please send your application package to Faculty Search committee:
- Maple Ye Maple_Ye[at]bii.a-star.edu.sg
- Sebastian Maurer-Stroh sebastianms[at]bii.a-star.edu.sg
- Lee Hwee Kuan leehk[at]bii.a-star.edu.sg
- Neerja Karnani Neerja_Karnani[at]bii.a-star.edu.sg
- Chandra Verma chandra[at]bii.a-star.edu.sg
Or apply here: https://careers.a-star.edu.sg/jobdetails.aspx?ID=Gtn0gsck%2fAUXA1g380NlGw%3d%3d
Application packages should consist of:
1. Curriculum Vitae which should include a list of publications
2. Research proposal
3. Names and emails of referees
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BACKGROUND
Dr. Zizhang Sheng's lab at Columbia University Irving Medical Center, Department of Medicine, Division of Infectious Diseases, the Aaron Diamond AIDS Research Center (ADARC), applies bioinformatics and biochemical approaches to elucidate the mechanisms of humoral immune response to infection (HIV, SARS-CoV-2, influenza, malaria, etc.) and to understand the role and origin of autoreactive B cells in autoimmunity (systemic lupus erythematosus, IgA nephropathy, etc.).
Sheng Lab details can be found here: https://www.infectiousdiseases.cuimc.columbia.edu/profile/zizhang-sheng-phd
The Sheng Lab pursues scientific research in cutting-edge fields and has published over 80 papers in Cell, Nature, Nature Communications, Cell Reports, etc.
Position Summary: We are seeking a highly motivated and talented individual to join our team as a Bioinformatics Associate Research Scientist. This position offers an exciting opportunity to contribute to cutting-edge research in the field. The position will involve analyzing next-generation sequencing data of single cell transcriptome and antibody repertoire to study affinity maturation mechanisms of pathogen or auto-antigen specific antibodies and disease pathogenesis. In addition to NGS analysis skills, the incumbent with experience on structural bioinformatics, deep-learning, or biochemical assays including protein expression and production, ELISA, SPR are preferred. The incumbent will work closely with a multidisciplinary team of both computational and experimental researchers and gain valuable experience in advanced data analysis techniques, algorithm development, and the interpretation of NGS data.
RESPONSIBILITIES
- Conduct bioinformatics analyses to interpret high-throughput sequencing data, including transcriptomics and antibody repertoire.
- Using structural bioinformatics approaches to study the mechanisms of antibody-antigen interaction, antibody design, and viral escape.
- Collaborate with experimental biologists to design and execute bioinformatics experiments that address key research questions.
- Participate in scientific discussions, present research findings at meetings and/or conferences, and contribute to scientific publications.
- Mentor and assist junior researchers in bioinformatics techniques and data analysis.
REQUIREMENTS
Minimum qualifications:
- Ph.D. in Bioinformatics, Computational Biology, Genomics, or a related field.
- Strong programming skills in languages such as Python, R, or Perl.
- Experience with next-generation sequencing data analysis (e.g., RNA-Seq, antibody repertoire).
- Proficiency in using bioinformatics software and tools (e.g., CellRanger, Seurat, SAMtools, PyMOL, alchemical free energy perturbation, molecular dynamics simulation, deep-learning etc.).
- Knowledge of statistical analysis methods.
- Excellent problem-solving skills and the ability to work both independently and collaboratively.
- Effective communication skills, including the ability to present research findings to diverse audiences.
- A strong publication record and a demonstrated passion for bioinformatics research.
COMPENSATION
$77,000 - $80,000 per year
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POSITION SUMMARY
SFARI Cohorts and Data Collections:
Since its beginning, SFARI (Simons Foundation Autism Research Initiative) has partnered with families and clinical centers across the country to build large and diverse cohorts of well-characterized individuals with autism or with specific genetic alterations associated with neurodevelopmental risk. These include the Simons Simplex Collection (SSC), Simons Searchlight, Autism Inpatient Collection, and SPARK. The principles of community-based participatory research have been key to all cohort activities. The Simons Foundation Informatics group manages the collection and distribution of large-scale aggregate and deidentified clinical and genomic data from these cohorts, which are made available to autism researchers through SFARI Base, a clearinghouse for autism and autism-related research data and biospecimens supported by SFARI.
Bioinformatics Data Manager
The Bioinformatics group at the Simons Foundation is seeking a dedicated full-time bioinformatics data manager. The ideal candidate has outstanding attention to detail, with experience in data science or bioinformatics, and will be at the forefront of the Foundation's open data initiatives.
This critical position is responsible for overseeing an extensive and ever-expanding collection of genomics (over 170K whole-exomes and genomes) and biomedical data across Simons Foundation autism cohorts and neuroscience collaborations. The data manager will be instrumental in enhancing data accessibility and utility for both internal staff and external investigators, aligning with the principles of open data and science. The data manager will be part of the bioinformatics team and will collaborate with informatics' engineering team, the SFARI science team, and external investigators.
Key responsibilities include meticulous handling and processing of incoming data, such as genomic sequencing or biosensor data, as well as performing detailed quality control checks and downstream bioinformatics analyses. Additionally, the candidate will be responsible for preparing regular data releases and facilitating coordination among different teams, contributing to the Foundation's dynamic and collaborative environment.
ESSENTIAL FUNCTIONS/RESPONSIBILITIES
Data releases:
- Maintain the Bioinformatics quality control pipeline, used to verify consistency with phenotypic data and ensure the integrity of released genomic data
- Execute existing variant calling pipelines, which will be included in data releases
- Package whole-exome and whole-genome data for regular curated and rapid releases
- Manage ad hoc genetic data releases for various SFARI cohorts and datasets
Data organization:
- Coordinate data receipt from external investigators, vendors, and research groups
- Perform incoming data cleaning, including deidentifying sample identifiers, organizing data files, and ensuring consistent metadata
- Manage the organization of raw, cleaned, and released data on our local cluster environment
- Harmonize our large collection of heterogeneous datasets hosted on SFARI Base
Data sharing and support:
- Support data sharing for SFARI investigators and collaborations, such as the Autism Rat Consortium (ARC), and Simons Sex Differences Collaboration (SSDC)
- Respond promptly to dataset questions from external investigators
- Support data access for cloud platforms
MINIMUM QUALIFICATIONS
Education:
- B.S. or M.S. in data science, bioinformatics, or a related discipline.
Required experience:
- At least 4+ years' relevant work experience
- Extensive experience with Linux/bash
- Experience working in an HPC environment
- Experience with Python
- Experience with version control using git / GitHub
- Basic skills in data analysis and statistics
- Strong organizational skills and outstanding attention to detail
- Effective oral and written communicator
- Ability to thrive in collaborative environments
Desired Experience:
- Enthusiasm for open science and collaboration
- Experience with genomics data processing and analysis
- Experience writing technical documentation
- Experience with cloud storage solutions (AWS, Google Cloud, Terra)
- Working knowledge of SQL
- Familiarity with data privacy and security regulations in the healthcare or research domain
COMPENSATION AND BENEFITS
The full-time annual compensation range for this position is $130,000 – $145,000, depending on experience.
In addition to competitive salaries, the Simons Foundation provides employees with an outstanding benefits package.
HOW TO APPLY
To apply, visit: https://apptrkr.com/5055069
Required application materials:
- Resume
- Cover letter stating your interest in the position.
- Links to code repositories or GitHub, if available
POLICY
The Simons Foundation's diversity commitment:
Many of the greatest ideas and discoveries come from a diverse mix of minds, backgrounds and experiences, and we are committed to cultivating an inclusive work environment. The Simons Foundation actively seeks a diverse applicant pool and encourages candidates of all backgrounds to apply. We provide equal opportunities to all employees and applicants for employment without regard to race, religion, color, age, sex, national origin, sexual orientation, gender identity, genetic disposition, neurodiversity, disability, veteran status, or any other protected category under federal, state and local law.
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DESCRIPTION
A three-year postdoctoral position in immunology and bioinformatics is available at the Neuroimmunology Research Group in the Laboratory of Immunobiology. The position is funded by the Norwegian Research Council and hosted by the Department for Molecular Medicine, University of Oslo (UiO). This represents a unique opportunity to contribute to cutting-edge research in a field of scientific and health-related significance.
More about the position:
We seek a motivated individual to join us as a Postdoctoral Research Fellow, embarking on an ambitious project aimed at enhancing our understanding of human immunoglobulin genes.The postdocs' primary focus will be on developing computational pipelines to assemble and annotate these genes , tasks that present unique and challenging opportunities due to the large structural variations within these loci. Despite their critical importance, the extensive variability of immunoglobulin genes has not been fully recognized within the immunological community, yet it has profound implications for antibody structure and function, with direct relevance for autoimmunity, infectious diseases, and vaccine development.
Additionally, the postdoc will engage in other projects, including the analysis workflows of high-dimensional single-cell sequencing and multi-omics data. We foster an environment that values creative freedom, encouraging our postdocs to pursue innovative ideas and approaches.
The ideal candidate possesses a solid foundation in bioinformatics, including proficiency in programming languages such as Python and R, and comfort working within a Linux environment. A background in genetics and experience with Oxford Nanopore sequencing technologies will be considered an advantage. We also welcome applicants with a strong biology background and foundational programming skills who are eager to enhance their computational skills.
The main purpose of the fellowship is to qualify researchers for work in higher academic positions within their disciplines.
Qualification requirements and personal skills:
- Candidates must hold a PhD equivalent to a Norwegian doctoral degree at the time of employment.
- Background in bioinformatics or immunology
- Preferably experience with genetics
- Demonstrated strong motivation
- Exceptional problem-solving abilities
- Proficient in both written and oral English
- Effective interpersonal and teamwork skills
We offer:
- Salary NOK 575 400 – 635 400 per annum depending on qualifications in position as Postdoctoral Research Fellow (position code 1352)
- A professionally stimulating working environment
- Attractive welfare benefits and a generous pension agreement, in addition to Oslo's family-friendly environment with its rich opportunities for culture and outdoor activities
HOW TO APPLY
The application must include:
- Application letter describing how she/he fits the description of the person we seek, including a summary of the applicant's scientific work and interests
- CV summarizing education, positions held, details of academic work, pedagogical and administrative experience and other qualifying activities
- List of publications, published abstracts, presentations that the applicant wishes to be considered by the evaluation committee
- Copies of educational certificates and transcripts of records
- Names and contact details of 2-3 referees stating relation to candidate, e-mail and telephone number
The application with attachments must be delivered in our electronic recruiting system. Foreign applicants are advised to attach an explanation of their University's grading system. Please note that all documents should be in English (or a Scandinavian language).
In the evaluation of applications, significant weight will be placed on the applicants' academic and personal abilities for completing the project. Qualified candidates may be invited for an interview.
POLICY
Formal regulations:
Please see the guidelines and regulations for appointments to Postdoctoral fellowships at the University of Oslo.
No one can be appointed for more than one Postdoctoral Fellow period at the University of Oslo.
According to the Norwegian Freedom of Information Act (Offentleglova) information about the applicant may be included in the public applicant list, also in cases where the applicant has requested non-disclosure.
Inclusion and diversity are a strength. The University of Oslo has a personnel policy objective of achieving a balanced gender composition. Furthermore, we want employees with diverse professional expertise, life experience and perspectives.
If there are qualified applicants with disabilities, employment gaps or immigrant background, we will invite at least one applicant from each of these categories to an interview.
Contact information:
Associate Professor Andreas Lossius email: andreas.lossius[at]medisin.uio.no
ABOUT US
About the University of Oslo:
The University of Oslo is Norway's oldest and highest ranked educational and research institution, with 28 000 students and 7000 employees. With its broad range of academic disciplines and internationally recognised research communities, UiO is an important contributor to society.
The Institute of Basic Medical Sciences overall objective is to promote basic medical knowledge in order to understand normal processes, provide insight into mechanisms that cause illness, and promote good health. The Institute is responsible for teaching in basic medical sciences for the programmes of professional study in medicine and the Master's programme in clinical nutrition. The Institute has more than 300 employees and is located in Domus Medica.
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DESCRIPTION
A full-time position at the Lee Kong Chian School of Medicine is open for an Assistant Professor of Digital Health. Reporting to the Dean and Vice Dean, Research, the appointee is expected to undertake high quality research in the area of Digital Health Sciences, in line with the research strategy of the School. The appointee is also expected to contribute to education commitments, on top of the overarching research strategy and any other duties assigned by the Vice Dean, Research and Dean of LKCMedicine.
Person Specification:
- MBBS/MD and/or PhD
- Relevant management experience
- Significant experience and outstanding, record of translational research and teaching with a high level of scientific achievement, productivity and impact in the field of Digital Health Sciences
- Ability to supervise and mentor junior faculty members, research staff
- Good communication skills, collaborative and able to build and sustain effective working relationships both internally and externally
- Recognises the importance of translating research findings into clinical practice and policy
- Fully conversant with patient-centred approach to modern medicine and the use of new technologies in both education and patient care
- Willing to participate in postgraduate and undergraduate education and training
- Experience and desire to participate in postgraduate and undergraduate education and training
- Track record of having supervised graduate students to successful completion of PhDs, as main supervisor
POLICY
To achieve our vision of redefining medicine and transforming healthcare, LKCMedicine is committed to building a diverse and inclusive community where every individual is highly valued.
Singapore is a thriving metropolis with excellent infrastructure, a vibrant business environment, a convenient island-wide transport network, and rich ethnic diversity. It offers an attractive lifestyle in terms of cultural and gastronomical attractions. We are the UNESCO home of hawker culture, with affordable 'famous dishes' like chicken rice. Also dubbed the Garden City, its lush greenery and clean environment create pleasant living spaces for all. There are plenty of amazing places for children to go on the weekends.
Video Guide of Singapore by Expedia: https://youtu.be/P_q3BdrFsLI
Nanyang Technological University, Singapore (Corporate Video): https://youtu.be/jw4qS7kvfXE
Lee Kong Chian School of Medicine (Corporate Video): https://youtube.com/watch?v=W6gtwMPeIqo
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DESCRIPTION
The Center for Systems Biology Dresden (CSBD) is seeking applications for
ELBE Postdoctoral Fellows
The ELBE Postdoctoral Fellows Program welcomes independent researchers on the postdoctoral level, who come with their own research proposal and freely choose which groups to affiliate with. The program provides an ideal springboard to an independent research career in systems biology, theoretical biophysics, computational biology, mathematics in the life sciences, computer science, and machine learning with application to biological systems and related areas.
What we provide:
The CSBD provides fully funded, 2-3-year positions in an international and cross-disciplinary research environment. ELBE postdoctoral fellows benefit from close collaborations with scientists at the Max Planck Institute of Molecular Cell Biology and Genetics (MPI-CBG), the Max Planck Institute for the Physics of Complex Systems (MPI-PKS), and the Technische Universität Dresden (TUD), and a stimulating and inspiring atmosphere. Further information can be accessed by visiting our webpage at http://www.csbdresden.de.
Fellows have full access to state-of-the-art research facilities and infrastructure on the campus. Dresden is a vivid and international scientific city, with a large number of research institutions that collaborate under the DRESDEN-concept umbrella. Its position as an outstanding location for research and science is recognized worldwide. Since 2012, the TU Dresden is one of eleven excellence universities in Germany.
What we seek:
The ELBE program seeks outstanding external candidates who are passionate about bringing new ideas, concepts, or systems to the Center. ELBE postdoctoral fellows pursue an interdisciplinary research project in collaboration with members of the CSBD. They are encouraged to develop and use theoretical or computational approaches to study biological systems in close collaboration with experimental groups at the MPI-CBG and the TUD. Ideal candidates should have backgrounds in physics, computer science, mathematics, or a related discipline, with a strong interest in working in a cross-disciplinary life science environment. In some exceptional cases, ELBE fellows can be analytically-minded experimentalists in the field of cell or developmental biology, who work between a lab and a CSBD research group.
HOW TO APPLY
For details about the application procedure, please visit our website http://www.csbdresden.de/join-us/as-a-postdoc/.
Selection of ELBE fellows is based on scientific merit with two application cycles per year. Short-listed candidates should be prepared to join a selection symposium held in Dresden on May 7, 2024. Travel costs will be covered by the CSBD.
DEADLINE
The deadline for applications is February 29, 2024.
POLICY
The Max Planck Society is an equal opportunity employer. Disabled individuals are strongly encouraged to apply. The Center for Systems Biology, the MPI-CBG, and the MPI-PKS aim to increase the number of women in scientific positions, therefore female applicants are particularly welcome. For more information on our efforts to balance family and career, please see http://www.csbdresden.de/about-us/equal-opportunities.
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BACKGROUND
The Max Planck Institute for Multidisciplinary Sciences is a leading international research institute of exceptional scientific breadth. With more than 40 research groups and some 1,000 employees from over 50 nations, it is the largest institute of the Max Planck Society.
The department of Tissue Dynamics and Regeneration (Prof. Dr. Jochen Rink) invites applications for a position as
Bioinformatics Staff Scientist/genome database manager (f/m/x)
About us:
We are a young, international department and our working language is English. We study the fascinating ability of planarians to regenerate complete animals from tissue pieces and conduct worldwide expeditions to study the evolution of regenerative abilities within the taxon. Our scientific approach includes genome sequencing, comparative genomics and various next generation sequencing techniques. Further, we established and maintain PlanMine, the Planarian research community's online resource (https://planmine.mpinat.mpg.de/planmine/begin.do).
About the position:
We are looking for an experienced model organism genome researcher to spearhead and curate the further evolution of the PlanMine web resource. You will be an integral part of the department's bioinformatics subgroup and involved in our ongoing genomics research. You will also interface with the local IT service provider (GWDG) and the university informatics department re technical aspects of PlanMine hosting and development. You will also bridge to the world-wide user community, e.g. by organizing curation efforts, parsing and implementing user suggestions or presenting new database features at international meetings. Thus, you will have the opportunity to remain at the cutting edge of big data management, expand your world-wide contact network or to additionally pursue your own research interests in genome evolution.
RESPONSIBILITIES
- Overseeing the maintenance and further development of the PlanMine web resource.
- Coordinating and publishing new database releases/features.
- Implementing and overseeing web-based curation efforts.
- Developing and implementing web applications for the exploration of large datasets.
- Databasing and analysis of large biological datasets, primarily, but not exclusively produced from NGS experiments.
REQUIREMENTS
Your profile:
- You hold a PhD in a Life Sciences or Bioinformatics subject.
- You have extensive hands-on experience with the use, upkeep and management of model organism genome browsers.
- You are familiar with Linux-based server environments and have demonstrated experience in one or more of the following: Java/Javascript, HTML/CSS, MySQL, PostgreSQL and server administration.
- As a person, you are a team player, you have excellent communication skills, you are fluent in English and a biologist at heart.
- You are self-motivated and able to multitask/prioritize different projects.
Additional experience in one or more of the following will be considered a plus:
- Community-based workshops/hackathlons.
- Biological dataset visualization on the web (e.g. intermine, bluegenes, wormbase, biomart, R Shiny).
- RNA-Seq data analysis of bulk or single cell data (e. g. clustering, differential gene expression, gene set enrichment, trajectory analysis).
- Genome/transcriptome assembly; novel gene or protein annotation, orthology assignment.
- Advanced statistics & machine learning techniques.
- Supervision of students or other team members.
WE OFFER
- Inspiring, world-class research environment.
- Opportunities to participate in the department's world-wide field expeditions.
- Moving assistance for the ones joining us from abroad and help with getting settled in Göttingen.
- Professional training, networking and career-development opportunities; free language courses.
- On-site health management: free fitness and yoga room, sports groups, beach volleyball league, and courses for a "moving lunch break".
- A wide range of opportunities to balance work and family life, including an on-campus kindergarten and vacation care.
- Initiatives for sustainability and a green environment with an on-site biotope.
- Close proximity to the historic town center of Göttingen with rich cultural opportunities and a vibrant student scene.
- Green and peaceful surroundings that are great for running, hiking, cycling and other outdoor activities.
COMPENSATION/RECRUITMENT
The position should be filled as soon as possible; the exact start date is flexible. The payment and benefits are based on the TVöD (wage agreement for public service personnel) guidelines. Positions are initially limited to two years with a possibility of extension.
HOW TO APPLY
Please submit your application including a cover letter, CV, transcripts and publication record (if applicable), and the contact addresses of three referees as a single document, preferably as a PDF file. Please make sure that the cover letter clearly states your motivation for why you want to join the department and your relevant experience that qualifies you for this position. Review of applications will begin immediately. Please submit your application to
ausschreibung58-23[at]mpinat.mpg.de
Max Planck Institute for Multidisciplinary Sciences
Department "Tissue Dynamics and Regeneration"
Herrn Prof. Dr. Jochen Rink
Am Fassberg 11
37077 Göttingen
Germany
POLICY
The Max Planck Society is committed to increasing the number of individuals with disabilities in its workforce and therefore encourages applications from such qualified individuals.
The Max Planck Society strives for gender and diversity equality. We welcome applications from all backgrounds.
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DESCRIPTION
A Postdoc in computational biology is available in the Diaz lab at UCSF (https://diazlab.ucsf.edu), funded by grants from the NIH and private foundations. As a member of the UCSF Brain Tumor Center (https://braintumorcenter.ucsf.edu) our mission is the development of therapeutics for brain cancer. Our core competencies include single-cell and spatial genomics, bioinformatics, and brain-tumor biology.
We have ongoing research efforts studying immune brain tumors via functional genomics approaches. We have been profiling clinical specimens using single-cell and spatial technologies and have generated several million single-cell mRNA, ATAC, scCUT&Tag, ST, and other libraries from hundreds of human adult and pediatric brain tumors. Additionally, we are pioneering digital spatial profiling and single-cell epigenetic assays, as well as machine-learning and bioinformatics approaches to analyze these data.
The duties of bioinformatics postdocs include bioinformatics analyses of single-cell, spatial, and bulk 'omics data. The minimum requirements for the position are: 1) a PhD in the biomedical sciences or a related discipline; 2) experience with 'omics data analysis and strong programming skills in a relevant language (e.g. R, Python); 3) a first-author paper in a respectable journal; 4) fluency in English, and the interpersonal skills to negotiate professional interactions in a diverse environment; and 5) the willingness to work hard in the pursuit of shared goals.
HOW TO APPLY
Interested candidates should send an email to aaron.diaz[at]ucsf.edu, with the following:
- CV
- Cover letter, please indicate your preferred start date.
- Names and contacts of three references.
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BACKGROUND
A Postdoctoral Research Associate position is currently open within the Division of Epidemiology, Department of Medicine at Vanderbilt University Medical Center (VUMC). Our research focus spans cancer etiology, prevention, precision medicine, and drug repurposing, employing advanced bioinformatics, statistical, machine learning, and deep learning methodologies. We also integrate multi-omics and Electronic Health Records (EHR) in our investigations. The lab has received funding from multiple NIH grants, including R37/R01 (i.e., NCI-funded transcriptome-wide association study and proteome-wide association studies in colorectal cancer). The Principal Investigator (PI) has authored >110 peer-reviewed publications, including recent high impact publications as lead author in Cancer Discovery, Gastroenterology, Journal of the National Cancer Institute, Nature communications, and American Journal of Human Genetics.
Our ongoing research is centered on population-based molecular, genetic, and genomic epidemiologic studies aimed at identifying susceptibility genes, biomarkers and therapeutic drug targets for various cancers and diseases. We utilize and develop bioinformatics/statistical tools and pipelines to analyze extensive multi-omics data, including whole genome sequencing (WGS), whole exome sequencing (WES), RNA-seq, array-based genotyping, epigenetics, proteomics data, metabolomics, and single-cell omics data. We also conduct integrative analyses of omics data and develop natural language processing algorithms using resources from approximately 5.5 million patients' EHRs at VUMC. These efforts aim to provide potential avenues for the prevention and therapeutic intervention of human cancers and other diseases. The selected candidate will lead independent research projects focusing on statistical genetics, epigenetics, and bioinformatics in genetic epidemiology related studies.
Please find more information about us @ http://www.guoxlab.org
RESPONSIBILITIES
Under guidance from Dr Xingyi Guo, the candidate is expected to work on a wide range of Bioinformatics, Genetic Epidemiology, and Multi-omics projects. He/she should have:
- A PhD in bioinformatics, genetic epidemiology, biostatistics, genomics/epigenetics, machine/deep learning or related fields.
- Strong experience with script languages such as Python, Perl or R. Experience with the Linux/Unix environment is required.
- Good knowledge in statistical computing or machine/deep learning.
- Good interpersonal skills.
- An excellent grasp of English, both in writing and speech.
COMPENSATION
Salary is commensurate with the NIH pay scale. The postdoc positions will be provided with benefits following the VUMC standards.
HOW TO APPLY
To apply, please send a cover letter, CV, summary of past work, and the names and email addresses of three references to Dr. Xingyi Guo at xingyi.guo[at]vumc.org.
ABOUT US
The Vanderbilt Epidemiology Center is committed to conducting research to enhance and expand our understanding of the distribution and determinants of disease, to promoting collaboration aimed at the translation of research into cost-effective strategies of disease prevention and health care delivery, and to training independent investigators in epidemiology research and disease prevention. The center has considerable strengths in international epidemiologic research and training and has close ties with multiple domestic and international institutions, furthering our mission to improve the health of human beings.
POLICY
VUMC wishes to reflect the diversity of society and welcomes applications from all qualified candidates, regardless of backgrounds and individual characteristics.
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