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PhD in Multiscale simulations for translational explorations of emphysema open


-Research Project / Research Group Description:

The proposed PhD will involve the Biomechanics and Mechanobiology, the Image analysis and the machine learning laboratories of the BCN MedTech research unit at the University Pompeu Fabra (UPF). BCN MedTech focuses on biomedical integrative research, including mathematical and computational models, algorithms and systems for computer-aided diagnosis and treatment of health problems. It has 60 full time researchers and belongs to the Department of Information and Communication Technologies, awarded with the prestigious label of Unit of Excellence through the Spanish Maria de Maeztu Strategic Research Program.
The project focusses on multiscale modelling and simulations to identify early biomarker candidates in emphysema. Emphysema is the most harming form of chronic obstructive pulmonary diseases (COPD) and its current diagnostic is usually confirmed at a relatively advanced stage of disease progression, through computed tomography image analyses. In order to cope with this limitation and support the early prevention of emphysema progression, we propose a multiscale modelling approach that combines image analysis, tissue finite element modelling and cell-cytokines agent-based modelling. Such approach has already allowed successful simulation of emphysema progression, as a response to cigarette smoking [1]. The proposed PhD will push forward this research towards the use of disease mechanism models for the identification of early emphysema biomarkers.

-Job position description:

Specifically, the work will include
• The development and implementation of advanced constitutive equations for the lung parenchyma
• The systematic evaluation of computational networks to simulate the dynamics of the biological processes that control the turnover of parenchyma macromolecules
• The meta-analysis of patient data and multiscale simulation results
The grant is supported by a European Marie Sklodowska-Curie co-fund and provides a competitive gross annual salary of 34.800 € during a period of three years to attract young talents. This salary is supplemented by a research allowance of 3.564 € per year, and a PhD award of 7.500 € will be granted if the PhD thesis is submitted within 6 months after the end of the fellowship.

The successful candidate will work in the Poble Nou Campus of UPF, in the beautiful town of Barcelona, in collaboration with the Barcelona Super Computing center for the multiscale simulations, and with ISGlobal for epidemiological data.

Applicants are expected to have a bachelor's and master's degrees in biomedical engineering, physics, applied mathematics or any related fields. They should be motivated to work in an international environment and have good communication skills. Experience in Python programming is welcome and proficient English is mandatory.

- Deadline for application: February 6th 2019


Apply here: https://www.lacaixafellowships.org/index.aspx

For any inquiry, please contact Dr Jerome Noailly: Jerome.noailly @ upf.edu

posted 2018.12.23

Tenure-Track Assistant Professor/Tier 2 Canada Research Chair Position open

The University of British Columbia (UBC) is one of the top public universities in North America. The UBC Faculty of Pharmaceutical Sciences is undergoing major expansion and investment to meet our ambitious goal of being one of the leading academic centres internationally in the pharmaceutical sciences within the next decade. As part of this on-going strategic development program, research activity in the Faculty is focusing on themes that reflect areas of existing strength, opportunities for new partnerships, and the potential for delivering long-term impact. These are: health outcomes, molecular and systems pharmacology, nanomedicine, and pharmacy education, with an emphasis on the application of state-of-the-art concepts and methodologies to address clinically important issues in pharmacotherapy.


We now invite applications for a full-time tenure-track Assistant Professor position in any of the Faculty's areas of research focus. The incumbent will be nominated for a prestigious Tier 2 Canada Research Chair (CRC), subject to review and final approval by the CRC Secretariat. To meet the criteria of the CRC program, nominees must: be excellent emerging world-class researchers who have demonstrated particular research creativity; have demonstrated the potential to achieve international recognition in their fields in the next five to ten years; as chairholders, have the potential to attract, develop and retain excellent trainees, students and future researchers; and be proposing an original, innovative research program of high quality. Candidates must have been an active researcher in their field for fewer than 10 years at the time of nomination. However, applicants who are more than 10 years from having earned their highest degree may have their eligibility for a Tier 2 Chair assessed through the program's Tier 2 justification process. Please consult the Canada Research Chairs website (www.chairs-chaires.gc.ca) for full program information, including further details on eligibility and selection criteria.


Applicants for this position should possess a PhD, or PharmD/PhD, or MD/PhD, with equivalent research expertise in one of the following priority areas: genomics/proteomics and human health (particularly as it relates to pharmacogenomics, toxicogenomics, or chronic diseases); health outcomes, population health, or informatics; molecular and systems pharmacology; drug delivery and nanomedicine; or pharmacy education. Relevant postdoctoral research experience, demonstrated research skills, an outstanding publication record, excellent teaching, mentoring and communication skills, and a strong commitment to professional, graduate, and post-doctoral education are essential. The successful candidate will have a track record, or demonstrated potential, for success in attracting national and/or international research funding (e.g., CIHR, NSERC, NIH). The major focus of this position will be the development of a cutting-edge, externally-funded, world-class research program. Other responsibilities will include educating students in the PharmD, MSc/PhD, and postdoctoral programs as well as new programs under development.


The Faculty of Pharmaceutical Sciences is located in a state-of-the-art $150-million, 23,000-square-metre facility on UBC's Vancouver campus underpinned by world-class infrastructure and equipment. The building also houses one of the Faculty's key partners, the Centre for Drug Research and Development (www.cdrd.ca). The incumbent will have ample opportunities for collaboration with basic and clinical researchers in the Faculty, other major basic science and health science faculties, core research facilities, and clinical centres. Salary is competitive, negotiable, and commensurate with experience and is subject to final budgetary approval. UBC is committed to attracting outstanding faculty members and offers competitive compensation and benefits packages, including support for housing and relocation (http://www.hr.ubc.ca/housing-relocation/fhop/).


Review of applications will begin on January 15, 2019 and will continue until the position is filled. Preferred start date is July 1, 2019 or earlier. In assessing applications, UBC recognizes the legitimate impact that leaves (e.g. maternity leave, leave due to illness) can have on a candidate's record of research achievement. These leaves will be taken into careful consideration during the assessment process. Interested individuals are requested to submit a letter of application; curriculum vitae; statement of research goals for the next five years; statement of teaching and mentoring philosophy; copies of up to five publications (summarizing briefly for each publication: the significance and impact; your contribution); and the names and contact information of five referees. Applications must be submitted online through the UBC Careers website at: www.facultycareers.ubc.ca/31948.


The University is committed to creating and maintaining an inclusive and equitable work environment for all members of its workforce, and particular for its employees with disabilities. An inclusive work environment for employees with disabilities presumes an environment where differences are accepted, recognized and integrated into current structures, planning and decision-making modes. For information regarding UBC's accommodation and access policies and resources, please visit the Centre for Accessibility website at: https://facultystaff.students.ubc.ca/student-development-services/centre-accessibility/faculty-and-staff-disabilities.


Equity and diversity are essential to academic excellence. An open and diverse community fosters the inclusion of voices that have been underrepresented or discouraged. We encourage applications from members of groups that have been marginalized on any grounds enumerated under the B.C. Human Rights Code, including sex, sexual orientation, gender identity or expression, racialization, disability, political belief, religion, marital or family status, age, and/or status as a First Nation, Metis, Inuit, or Indigenous person.


All qualified candidates are encouraged to apply; however Canadians and permanent residents will be given priority.

posted 2018.11.22

Assistant Professor in Statistics, University of Missouri open

Assistant Professor 

Department of Statistics, College of Arts and Sciences (primary) and Center for Biomedical Informatics, School of Medicine (secondary)

University of Missouri


Position Description   

The Department of Statistics at the University of Missouri invites applications for an Assistant Professor position. We seek creative statisticians with a strong theoretical foundation who have a demonstrated commitment to creating new approaches, theoretically sound methods, computational means and tools that can tackle challenging biomedical and translational precision medicine questions arising in this era of 'big data' integrated from heterogeneous domains of genetics, biological, (patho)physiological and clinical. The Department of Statistics and School of Medicine offer a unique opportunity with the Program of Statistical Translational Precision Medicine housed in the School of Medicine's Center for Biomedical Informatics (CBMI). The program includes a wide collection of multidisciplinary teams that seek to address a diverse set of problems. CBMI has created a supportive and interactive environment for researchers with quantitative and theoretical skills to work collaboratively - and lead - strong collaborative opportunities at the SOM affiliate hospitals and clinics. The successful candidate will have primary appointment in the Department of Statistics and will participate in the Department of Statistics educational programs and the SOM graduate programs with their established record of attracting extraordinary graduate students.


Applicants from all areas of statistics are encouraged to apply.  A doctorate in statistics or biostatistics or related field by August 15, 2019, excellence in teaching, outstanding research potential, and excellent communication skills are required. The tenure and administrative home for this faculty position resides solely in the Department of Statistics. 


The review of applicants will begin on November 16, 2018 and will continue until the position is filled.Apply online through Mathjobs.org at https://www.mathjobs.org/jobs(#12990), submitting all application materials including a cover letter, CV, research statement, teaching statement, and contact information for three reference letters. Questions concerning the position can be sent to: 


Prof. Scott Holan

Chair of Search Committee

Department of Statistics

University of Missouri

holans @ missouri.edu


The University of Missouri is fully committed to achieving the goal of a diverse and inclusive academic community of faculty, staff and students.  We seek individuals who are committed to this goal and our core campus values of respect, responsibility, discovery and excellence.


The University of Missouri is an Equal Opportunity/Access/Affirmative Action/Pro Disabled & Veteran Employer.



posted 2018.11.15

PhD in circRNA biology at Aarhus University open

Thomas Hansen, partner of the Marie Curie Innovative Training Network circRTrain is recruiting a highly motivated PhD candidate interested in understanding the origin, function and application of circular RNAs (circRNAs) and developing/employing cutting-edge experimental and computational tools necessary to make important contributions to circRNA biology.

CircRNAs, a new large class of non-coding RNAs, which has very recently attracted high general interest, are unique because of their circular structure and, as a consequence, their unusual high stability. Only recent breakthroughs in sequencing technologies and computational analyses revealed the widespread existence of circRNAs in animal cells. Understanding circRNAs and exploring their clinical relevance requires to integrate various technologies (sequencing, single-molecule/whole-organism imaging, RNA knockdown/delivery, CRISPR/CAS9), disciplines (biochemistry, computational biology, genetics), model systems (worm, fly, mouse, human) and medical applications (biomarkers, new therapeutic targets/strategies).

Aarhus University s now offering a PhD position to understand the biology and function of circRNAs with high abundance across different tissues. Find more information here.

To apply, please send your CV and transcripts to tbh@mbg.au.dk by November 15th.

posted 2018.11.05

Assistant Professor in Systems Biology, Iowa State University open


Assistant Professor in Systems Biology



Department of Genetics, Development & Cell Biology

Assistant Professor in Systems Biology


The Department of Genetics, Development and Cell Biology(GDCB) at Iowa State University(ISU) (https://www.gdcb.iastate.edu) invites applications for atenure-track assistant professorposition in Systems Biology.


GDCB seeks to hire a systems biologist who addresses fundamental questions at a cellular or molecular level, using a combination of experimental (e.g., genomics, transcriptomics, proteomics, metabolomics, high-content microscopy) and computational (network analysis, modeling) approaches to address fundamental aspects of complex cellular or organismal functions. Scientists working in any model organism or across diverse species are encouraged to apply. Areas of interest include but are not limited to: cellular and developmental processes integral to plant or animal health or disease, phenomics, genetic and metabolic regulatory networks, and responses to environmental signals and stresses. Interdisciplinary or collaborative research that complements existing strengths of the department and ISU is encouraged.


Responsibilities include building a nationally recognized research program that competes successfully for extramural funding, advancing the discipline through high-quality publications, mentoring students, and effective teaching of undergraduate and graduate courses. The successful candidate will demonstrate excellent communication and leadership skills and will share the university's commitment to an inclusive environment that supports diversity.


GDCB and ISU provide an interactive and collegial environment of world-class scientists studying biological questions of fundamental importance, using both experimental and computational approaches in an array of organisms. GDCB faculty actively participate in interdisciplinary graduate training programs (Bioinformatics and Computational Biology, Genetics and Genomics, Molecular Cellular and Developmental Biology, Microbiology, Neuroscience, Plant Biology, Toxicology) and have the access to outstanding computational infrastructure and biotechnology service facilities (http://www.biotech.iastate.edu/biotechnology-service-facilities/).


Required Qualifications:

·       Ph.D. in life sciences or relevant discipline

·       Published record of high-quality research 


Preferred Qualifications:

·       Demonstrated ability or clear potential to secure extramural funding 

·      Evidence of ability to develop a research program with potential for national distinction

·      Research plan that enhances existing strengths at ISU

·      Engagement in interdisciplinary or collaborative research

·      Postdoctoral research experience

·      Demonstrated ability or potential to excel in scholarly teaching & mentoring

·       Evidence of commitment to an inclusive climate that supports diversity and honest and respectful exchange of ideas


Please visit https://www.iastatejobs.com/postings/36729to view the entire vacancy and apply electronically. For full consideration, submit the application by Dec. 7, 2018.


Iowa State University (ISU) is ranked as one of the top public universities in the nation. ISU is located in Ames, Iowa, a progressive community of 66,000 that was recently voted one of the best college towns in the nation.


Iowa State University is an EO/AA Employer. All qualified applicants will receive consideration for employment without regard to race, color, religion, sex, national origin, disability, or protected Vets status. 


posted 2018.11.01

PhD position in computational morphogenesis, CABD, Spain open

Title: PhD position in computational morphogenesis, CABD, Spain
subtitle: PhD position at the Andalusian Centre for Developmental Biology, Seville, Spain
Deadline: 28th October 2018

We invite students to apply for a PhD position in computational morphogenesis at the Gene Expression and Morphogenesis Unit (http://cellcollectives.com/) at the Andalusian Centre for Developmental Biology (http://www.cabd.es), in the charming city of Seville, southern Spain. The candidate will be co-supervised by Dr. Luciano Marcon and Dr. Juan R. Martinez-Moraes and will work in the field of developmental biology and organoid biology.

We are looking for a talented and motivated student with a computational background (computer science, physics, engineering or math) to investigate the morphogenetic movements that shape multicellular organism. The successful candidate will develop software to simulate the gene regulatory networks and cellular movements that underlie morphogenesis of the early embryo. He/she will use the software to fit experimental data and identify the cellular mechanisms that underlie gastrulation and axial elongation in fish and in embrioids derived from mouse embryonic stem cells.

Good programming skills with standard languages (e.g. Java, C++, Python) and fluency in English are required. Experience in finite element simulation (or similar techniques) of gene regulatory networks and tissue mechanical forces is desirable. Knowledge on parallel programming with GPUs (i.e. CUDA and OpenCL) will also be valued positively. The successful candidate will be employed with 4 year contract starting in 2019.
The application deadline is on the 29th October! Interested write as soon as possible to lmarcon@upo.es.

posted 2018.10.12

Postdoctoral Research Fellow - Alan Turing Institute, London and Warwick University Statistics Department (2.5 years) open

Postdoctoral Research Fellow - Alan Turing Institute, London and Warwick University Statistics Department (2.5 years) 

Deadline: Nov. 4, 2018

Project: The researcher will develop new statistical methods to help biology researchers schedule their molecular biology experiments to learn as much as possible about gene regulatory relationships, while minimising time and cost. As an extension, this could be applied to laboratory automation. The project would involve the development of interesting techniques in online learning and reinforcement learning. 

To learn more about data science for experimental design at the Alan Turing Institute, see the project page: https://www.turing.ac.uk/research/research-projects/data-driven-experiment-design 

posted 2018.10.04

Postdoctoral Scientist - Ocean Biogeochemical Modeling (MBL/MIT) open

A postdoctoral scientist position in Ocean Biogeochemical Modeling is available at the Marine Biological Laboratory, Woods Hole. This position is part of a large Simons Foundation collaborative project on Computational Biogeochemical Modeling of Marine Ecosystems (CBIOMES) that involves multiple investigators from seven universities: Mick Follows at MIT leads the CBIOMES project. The MBL component of the project focuses on developing metabolic representations of marine microbial food webs and their associated biogeochemistry. The goal of the MBL team is to leverage information gleaned from genome-scale models to improve understanding and modeling of marine ecosystems. Consequently, we are seeking applicants with expertise or familiarity in either systems biology modeling or marine biogeochemistry modeling, or individuals with interest in exploring this new area of research. The successful candidate will have the opportunity to work collaboratively with members of the CBIOMES team and have significant flexibility in research direction. Applications will be reviewed as received until the position is filled. Funding support is available for up to four years, and salary is negotiable.


To Apply:

Applications consisting of 1) Cover letter, 2) Research interests, 3) Curriculum vitae and 4) Contact information of 3 references must be submitted on-line at https://mbl.simplehire.com/postings/3843 to be considered for the position.


Additional Information:

Information regarding the SC-CBIOMES project can be found here: https://www.simonsfoundation.org/life-sciences/microbial-oceanography/simons-collaboration-on-computational-biogeochemical-modeling-of-marine-ecosystems/

Contact Joe Vallino (jvallino@mbl.edu) for additional information or to discuss possible research directions.


Basic qualifications:

A Ph.D. in Ocean Sciences, Engineering, Systems Biology or related field is required.


Preferred qualifications:

Applicants with experience in computer modeling of marine food webs, biogeochemistry or systems biology are desired, but individuals with computational modeling expertise in other fields are encouraged to apply.



The Marine Biological Laboratory (MBL) is dedicated to scientific discovery - exploring fundamental biology, understanding biodiversity and the environment, and informing the human condition through research and education. Founded in Woods Hole, Massachusetts in 1888, the MBL is a private, nonprofit institution and an affiliate of the University of Chicago.


Equal Employment Opportunity:

MBL supports individuals in reaching their full potential by offering equal employment opportunities and an environment that actively values diversity. MBL complies with all applicable laws concerning hiring and employment practices and is firmly committed to maintaining a workplace free from discrimination by age, ancestry, color, disability, gender, genetic predisposition, national origin, military status, race, religion, or sexual orientation. MBL requires all newly-hired staff to undergo a background check. Background checks are conducted after a conditional offer of employment has been accepted by the applicant.

posted 2018.09.08

Tenure-track Faculty Position : ENVIRONMENTAL INFORMATICS open

Tenure-track Faculty Position

The School of Public and Environmental Affairs (SPEA) at Indiana University, Bloomington seeks a visionary, dynamic data scientist for a tenure-track, Assistant Professor position in the field of
environmental informatics. We are particularly interested in applicants with a strong
mathematical/statistical and computing background who have experience in developing, modifying, and implementing novel methodologies to extract and integrate information from large biological, chemical, ecological, and/or geospatial datasets. Preference will be given to candidates whose research leverages these datasets to improve our mechanistic and/or biological understanding of populations, communities, and/or ecosystems, and who seek to develop interdisciplinary collaborations with colleagues in environmental science, chemistry, biology, geography, and/or public health. Persons with experience and knowledge in applying Bayesian methods, machine and deep learning, and explainable artificial intelligence to complex environmental datasets are encouraged to apply.

Faculty at Indiana University have access to state-of-the-art facilities for genomics and bioinformatics through the Center for Genomics and Bioinformatics (https://cgb.indiana.edu/index.html), supercomputing and data science through the Pervasive Technology Institute (https://pti.iu.edu/index.html), and unique field opportunities through the facilities and extensive properties of the IU Research and Teaching Preserve (https://preserve.indiana.edu/). Founded in 1972, SPEA was the first school to combine public policy, management, and administration with environmental science. The School is committed to excellence in research, teaching, and service addressing critical issues in environmental science, policy and management (www.indiana.edu/~spea/research/index.shtml). Presently, SPEA ranks first in the nation in environmental policy and management in U.S. News & World Report.

Applicants should have a PhD in statistics, mathematics, environmental science, computational biology, or a related data science discipline, post-doctoral experience, and a record of publication commensurate with appointment at the Assistant Professor level. The successful applicant will be expected to establish and maintain an externally funded research program and contribute to undergraduate and graduate teaching, including developing a graduate-level course in their area of specialty.

We are especially interested in applicants with a record of successful teaching and/or supervision of students and employees from all backgrounds (including first-generation college students, low-income students, racial and ethnic minorities, women, LGBTQ, etc.) and an interest in contributing to SPEA's programs, curricular offerings, and research portfolio in ways that enhance diversity, equity, and inclusion; applicants are encouraged to address these topics in the letter of application.

To ensure consideration, application materials must be received by November 15, 2018, however, the search will continue until the position is filled. Please submit a letter of application, current vita, statement on research and teaching, representative manuscripts (up to three), and arrange to have three letters of reference sent using instructions provided online via
https://indiana.peopleadmin.com/. Preferred start date is August 2019.

Inquiries regarding the position should be sent to Joseph Shaw (joeshaw@indiana.edu)

For more information see: http://www.indiana.edu/~spea 

Indiana University is an equal employment and affirmative action employer and a provider of ADA services. All qualified applicants will receive consideration for employment without regard to age, ethnicity, color, race, religion, sex, sexual orientation, gender identity or expression, genetic information, marital status, national origin, disability status or protected veteran status.


posted 2018.09.04

Postdoctoral Research Fellow in Human Systems Immunology open

Job description 
3-year postdoctoral position to study tumor-associated macrophages in colorectal cancer is available in prof. Frode Jahnsen's laboratory, University of Oslo. The project will be performed in close collaboration with the laboratory of prof. Henk Stunnenberg, Radboud University, Nijmegen. We are looking for a talented and highly motivated postdoctoral researcher, preferably with strong background computational biology. Prior experience in molecular biology and immunology is also desirable. 

The Jahnsen group studies complex interactions between immune cells in the human gut in various disease settings and their relationship with the gut microbiota. The Stunnenberg group focuses on the molecular basis of development and differentiation emanating from the genome and epigenome in the context of health and disease with emphasis on cancer. 

The main purpose of the fellowship is to qualify researchers for work in higher academic positions within their disciplines.

More about the position 
The Jahnsen and Stunnenberg groups have recently performed a detailed characterization of the macrophage population in the intestine (Bujko, Atlasy et al, J Exp Med, 2017). By directly building on this information, this project aims to apply state-of-the-art molecular technologies to identify molecules and molecular pathways expressed by tumor-associated macrophages that can be targeted to strengthen anti-tumoral immunity in colorectal cancer. The study will include molecular profiling of immune cells isolated within and outside colorectal cancers using RNA-seq, single cell RNA-seq and epigenetic studies. The study also includes flow cytometry/CyTOF. The clinical material will be processed in the Jahnsen lab, but the candidate will spend extended periods in the Stunnenberg lab analyzing the data. 

 For more information about the research groups: http://www.med.uio.no/klinmed/english/research/groups/mucosal-immunity-in-gut/index.html 

Qualification requirements 
  • Interested candidates must be completing or should have obtained a Ph.D. with background in computational biology, molecular biology, immunology, cell biology, or a related discipline. Experience in cancer biology and inflammatory diseases are highly desirable but not required. In general, quality of past research is more important than experience in a specific field. 
  •  Fluent oral and written communication skills in English.

Personal skills 
  • The candidate should be highly motivated and dedicated, proficient in written and spoken English Good team working skills are required. We offer Salary NOK 490 900 - NOK 569 000 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 

  • cover letter (statement of motivation, summarizing scientific work and research interest) 
  • CV (summarizing education, positions, pedagogical experience, administrative experience and other qualifying activity) 
  • copies of educational certificates (academic transcripts only) 
  • a complete list of publications 
  • list of reference persons: 2-3 references (name, relation to candidate, e-mail and phone 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 assessing the applications, special emphasis will be placed on the documented, academic qualifications, the project description (whenever this is required in the call for applicants), and the quality of the project as well as the candidates motivation and personal suitability. Interviews with the best qualified candidates will be arranged. It is expected that the successful candidate will be able to complete the project in the course of the period of employment. 

Formal regulations 
Please see the guidelines and regulations for appointments to Postdoctoral fellowships at the University of Oslo. No one can be appointed as Postdoctoral Fellow for more than one specified period at the same institution. According to the Norwegian Freedom and 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. The University of Oslo has an agreement for all employees, aiming to secure rights to research results etc. The University of Oslo aims to achieve a balanced gender composition in the workforce and to recruit people with ethnic minority backgrounds. 

Contact information 
Professor F.Jahnsen, e-mail: f.l.jahnsen@medisin.uio.no

posted 2018.06.05

Postdoctoral researcher for Cardiovascular Quantitative Systems Pharmacology open


The Faculty of Science and the Leiden Academic Centre for Drug Research is looking for a Postdoctoral researcher, Cardiovascular Quantitative Systems Pharmacology (1.0 FTE)

Key responsibilities

We are looking for a postdoctoral researcher to work on development of cardiovascular systems pharmacology models for prediction of adverse drug reactions. This project is part of the IMI TransQST consortium. Responsibilities include the development of PKPD, PBPK and QSP models related to cardiovascular drug effects, writing of scientific publications, and contributing to teaching & training.

Selection criteria

·  You are highly motivated with an ability to work independently and as part of a team;

·  You hold a PhD degree in the area of quantitative pharmacology, bio-engineering or computational biology;

·  Experienced with quantitative modeling approaches, e.g. differential equations, network analysis, statistical modeling;

·  You have experience with relevant software packages such as R, Matlab, NONMEM and similar;

·  Desirable: knowledge of cardiovascular biology and associated quantitative models.

Research at our Faculty/Institute

The Faculty of Science is a world-class faculty where staff and students work together in a dynamic international environment. It is a faculty where personal and academic development are top priorities. Our people are committed to expand fundamental knowledge by curiosity and to look beyond the borders of their own discipline; their aim is to benefit science, and to make a contribution to addressing the major societal challenges of the future.
The research carried out at the Faculty of Science is very diverse, ranging from mathematics, information science, astronomy, physics, chemistry and bio-pharmaceutical sciences to biology and environmental sciences. The research activities are organised in eight institutes. These institutes offer eight bachelors' and twelve master's programmes. The faculty has grown strongly in recent years and now has more than 1,300 staff and almost 4,000 students. We are located at the heart of Leiden's Bio Science Park, one of Europe's biggest science parks, where university and business life come together.

The Leiden Academic Centre for Drug Research (LACDR) is a leading institute dedicated to world-class research and education in drug discovery and development. LACDR comprises a diverse and international team of approximately 150 researchers.
Within the LACDR there is a growing focus on using (translational) metabolomics and patient derived organ-on-a-chip systems in the areas of drug research, translational disease research, systems pharmacology, computational modeling and biostatistics, and integration with epidemiological studies, genetics and clinical studies. 
The Division of Systems Biomedicine and Pharmacology at the LACDR has a world-leading reputation in the field of metabolomics, and a growing strength in systems approaches, including genome-scale computational modelling of biochemical networks.

Terms and conditions

The Faculty of Science is a world-class faculty where staff and students work together in a dynamic international environment. It is a faculty where personal and academic development are top priorities. Our people are committed to expand fundamental knowledge by curiosity and to look beyond the borders of their own discipline; their aim is to benefit science, and to make a contribution to addressing the major societal challenges of the future.
The research carried out at the Faculty of Science is very diverse, ranging from mathematics, information science, astronomy, physics, chemistry and bio-pharmaceutical sciences to biology and environmental sciences. The research activities are organised in eight institutes. These institutes offer eight bachelors' and twelve master's programmes. The faculty has grown strongly in recent years and now has more than 1,300 staff and almost 4,000 students. We are located at the heart of Leiden's Bio Science Park, one of Europe's biggest science parks, where university and business life come together.

The Leiden Academic Centre for Drug Research (LACDR) is a leading institute dedicated to world-class research and education in drug discovery and development. LACDR comprises a diverse and international team of approximately 150 researchers.
Within the LACDR there is a growing focus on using (translational) metabolomics and patient derived organ-on-a-chip systems in the areas of drug research, translational disease research, systems pharmacology, computational modeling and biostatistics, and integration with epidemiological studies, genetics and clinical studies. 
The Division of Systems Biomedicine and Pharmacology at the LACDR has a world-leading reputation in the field of metabolomics, and a growing strength in systems approaches, including genome-scale computational modelling of biochemical networks.


Leiden University is strongly committed to diversity within its community and especially welcomes applications from members of underrepresented groups.


Enquiries can be made to Coen van Hasselt (coen.vanhasselt@lacdr.leidenuniv.nl), or Piet van der Graaf (piet.vandergraaf@certara.com).


To apply for this vacancy, please send, an email with the vacancy number in the subject line to Monique Tjiong (m.tjiong@lacdr.leidenuniv.nl). Please include the following PDF attachments:
· A motivational letter
· CV including publication list and contact details of 3 references.

posted 2018.06.05

Postdoctoral Scholar in Stochastic Modeling of Genetic Circuits open

Postdoctoral Scholar in Stochastic Modeling of Genetic Circuits at the University of Delaware, DE, USA

Prof. Abhyudai Singh's laboratory at the University of Delaware is seeking a postdoctoral scholar (2-3 years) for modeling, analysis, and inference of gene regulatory circuits at the single cell level. In close collaboration with experimental researchers, the Singh lab is studying stochastic dynamics of genetic circuits in the context of diverse biological and medical problems. These problems include but are not limited to cell size homeostasis, cancer drug-resistance, HIV latency, lysis timing of bacteriophages, developmental systems and synthetic biology. The postdoc will have flexibility in choosing the research project, which can be further tailored to the interests of the individual. The ideal candidate will have a PhD in Engineering, Math, Physics or Biology, a strong mathematical foundation in stochastic processes, dynamical systems, control theory, excellent communication skills, and a proven record of independent research.  Past experience in biomodeling, and a basic knowledge of cellular biology is preferred, but not required for this position.

The postdoctoral position provides a competitive annual salary plus benefits and health insurance.  The start date is negotiable and applications will be reviewed on a rolling basis. Highly motivated applicants are encouraged to email a statement of research interests, CV, and contact details for three references to absingh(at)udel.edu. Please see our website for further info: http://udel.edu/~absingh

posted 2018.03.14

Postdoctoral Position in Computational Immuno-Oncology open

Departments of Biomedical Engineering and Oncology

Johns Hopkins University


•Seeking an independent and motivated Postdoctoral Researcher in Dr. Popel's laboratory in the Departments of Biomedical Engineering and Oncology, The Johns Hopkins School of Medicine.

•The successful candidate will join a team that combines computational and experimental researchers using computational systems biology and systems pharmacology to discover mechanisms of immuno-oncology and immunotherapy.

•Specific skills include strong computational modeling of signaling pathways and multiscale modeling from signaling pathways to tumor scales; knowledge of immunology is a plus.

•Applicant must have a doctoral degree with a demonstrated record of innovative scientific accomplishments as evidenced by first-author papers published or accepted in premier journals.

•Qualified candidates must be able to work independently, demonstrate outstanding communication skills, have a strong commitment to science, and work well within a group.

• US citizens, permanent residents or holders of an F1/OPT visa with at least six months of work authorization left.


Johns Hopkins University is an Equal Opportunity Employer with a commitment to diversity. All individuals are encouraged to apply.


How to apply: Email curriculum vitae and names of three references to: Dr. A.S. Popel, Dept. of Biomedical Engineering, School of Medicine, Johns Hopkins University, Baltimore, MD 21205. E-mail apopel @ jhu.edu

posted 2018.02.04

Big Data Science in Berlin - fully-funded PhD positions open

HEIBRiDS - a new Research School in Data Science invites applications of PhD candidates. The Einstein Center for Digital Future involving four Berlin universities in cooperation with six Helmholtz Centers in the capital region offers projects in a collaborative research environment across disciplinary borders involving data science topics in the following main research areas:

·       Machine Learning and Data Mining

·       Modeling

·       Novel Hardware Concepts

·       Imaging

·       Visualization


with applications including but not limited to genomics, structural biology, medicine, remote sensing, seismology, earth - and space sciences. Specific project descriptions can be found at https://heibrids.mdc-berlin.de


Research will be conducted in cooperation between one of the Helmholtz research centers:

·       Max-Delbrück Center for Molecular Medicine (MDC)

·       Alfred-Wegener-Institute Helmholtz-Zentrum für Polar- und Meeresforschung (AWI)

·       Deutsches Elektronen-Synchrotron (DESY)

·       German Aerospace Center (DLR)

·       German Research Centre for Geosciences (GFZ)

·       Helmholtz-Zentrum Berlin (HZB)


and one of the participating universities:

·       Technische Universität Berlin (TU)

·       Charité-Universitätsmedizin Berlin

·       Freie Universität Berlin (FU)

·       Humboldt-Universität zu Berlin (HU)


Come and join our international community in Berlin, Germany. We are looking for graduates holding master degrees with experience in computational research, knowledge in mathematics, statistics, and computer science and the ability for independent work.


We offer
- Cutting-edge research in big data science under close supervision of a team of scientific mentor and co-mentor and a PhD committee

- Integrated training curriculum of scientific and professional skills taught in English
- Financial support for conferences and collaborations

- Institutions that value diversity and promote an inclusive work environment

- Fully-funded positions for 3 years with the option of 1 year extension
- Competitive salaries according to German E13 (TVöD or TV-L dependent on the affiliation of your primary supervisor)



To apply, a master's degree in quantitative sciences (computer science, physics, statistics or mathematics) or related applied subjects (bio- or geoinformatics etc), awarded by July 2018, is required.

Apply by March 3, 2018 via 
Please submit your CV, academic record, contacts of 2 referees, and research interest.

For project and program details visit the webpage at https://heibrids.mdc-berlin.de


Successful candidates will start their PhD between July and September 2018.

posted 2018.02.02

PhD Positions: Computational & Systems Biology, Hong Kong Baptist University open

Supervisor: Dr. Pan-Jun Kim (Assistant Professor), Department of Biology

The new research group led by Dr. Pan-Jun Kim at Hong Kong Baptist University invites applications for PhD positions (research postgraduate students) in the area of computational & systems biology. Hong Kong Baptist University is a public institution funded by the Hong Kong SAR Government, promoting academic excellence and innovation.

Pan-Jun Kim's group is undertaking cutting-edge research with predictive computational modeling and large-scale data analysis, which will lead to breakthroughs in our understanding of collective dynamics of biological systems. Indeed, we live in an exciting era for life sciences. Recent experimental technologies have generated enormous amount of biological data at various scales. Computational methodologies developed in mathematics, physics, computer science, and engineering enable modeling and analyses of complex biological processes. In our research group, the specific areas of interest include global microbial ecosystems inside human body and their medical implications, and various metabolic, regulatory, and signaling networks inside/between cells and their emergent functional outcomes. More information can be found from http://panjunkim.com.

We welcome applicants from every discipline. The candidates should be highly motivated, mathematically talented, cooperative, and responsible. The candidates are expected to have some computer programing experience (e.g., Python, C, or C++), and good communication skills in English. Prior research experience would be a plus.

If interested, please send your cover letter, curriculum vitae (including academic qualifications, awards, research experience, and/or publications), and copies of transcripts to Dr. Pan-Jun Kim at extutor (at) gmail (dot) com.

posted 2018.01.30

Postdoctoral Positions in Quantitative Biological Modeling/Systems Biology open

The new research group led by Dr. Pan-Jun Kim at Hong Kong Baptist University (Department of Biology) invites applications for postdoctoral positions in the area of Quantitative Biological Modeling/Systems Biologyhttp://panjunkim.com.

The research will focus on the computational modeling and analysis of complex microbial communities inside human body ("human microbiome"). Our body is home to a variety of microbial cells, and they significantly affect our health and disease. An integrative investigation of collective dynamics of this microbial ecosystem is very important toward biomedical applications.

The ideal candidates are expected to have experience/interest in the areas of computational biology and mathematical modeling, strong backgrounds in computer simulations with programing languages such as Python and C++, and some familiarity with the Linux environment. Previous experience with nonlinear dynamics and/or machine learning would be a plus.

Screening of applications begins immediately and will continue until the position is filled. The appointment is available from March 2018. To apply, please e-mail curriculum vitae along with a brief statement of your research interests to Dr. Pan-Jun Kim at extutor (at) gmail (dot) com, and arrange to have three letters of recommendation e-mailed to the same address.

posted 2018.01.30

Research Scientist in Computational & Systems Biology open

Research Scientist in Computational & Systems Biology

  • Apply your expertise in Computational biology & Biological systems modelling
  • Provide data modelling support across several research projects
  • Join CSIRO's Synthetic Biology Future Science Platform (SynBio FSP)


The Position

The Synthetic Biology FSP (SynBioFSP) is developing a research portfolio which will be spread across CSIRO and a wide variety of partner organisations (universities, industry, NGOs, other research organisations, etc.), both national and international. The research portfolio is dynamic and will evolve over time on the basis of strategy and performance. Research projects will sit within one or more priority Application Domains (Environment & Biocontrol, Chemicals & Fibres, Organelles & Endosymbionts) and one or more Science Domains (Integrative Biological Modelling, Engineering Novel Biological Components, Assembling Novel Biosystems, Maximising Impact). The SynBio FSP will embed a social and behavioural science agenda to address issues around social licence to operate.

In this position, you will provide systems biology and data modelling support across two research projects, one on the in-vitro resynthesis of the lichen symbiosis and the other on the design of biorthogonal redox metabolic pathways in yeast and E. coli.


Specifically you will:

  • Incorporate novel approaches to scientific investigations by adapting and/or developing original concepts and ideas for new, existing and further research.
  • Analyse and integrate large omics datasets, including genomics, transcriptomics, proteomics and metabolomics.
  • Use omics data for metabolic and regulatory network modelling.
  • Provide bioinformatics support.


Location:      Black Mountain, ACT, Australia

Salary:          AU $95k - AU $103k plus up to 15.4% superannuation

Tenure:         Specified term of 3 years

Reference:    53111


More information:


posted 2018.01.12