We are seeking motivated candidates for a doctoral thesis in mathematical biology at the University of Montpellier on the topics INFERENCE AND QUALITATIVE DYNAMICS OF HIGH DIMENSIONAL GENE NETWORKS. The ideal candidate will be motivated, perseverant, rigorous, and creative. He/she should hold a research master’s degree from a University, Engineering School or “Grande Ecole”, preferably in mathematics or any other field relevant to the project.
How to apply: Submit your online application through the website of the doctoral school I2S by the strict deadline of May 12 (https://edi2s.umontpellier.fr/)
For further information about this project, please refer to the details provided at https://systems-biology-lphi.cnrs.fr/elementor-1839/
This workshop is designed to delve into the intricate relationship between mathematics and living systems, with a focus on unraveling complexities through comprehensive understanding and practical proficiency. Participants will gain insites into dynamical systems and various forms of differential equations, including stochastic modeling techniques to address uncertainties inherent in life sciences.
For details please visit:
https://sites.google.com/view/m3ls2024
PhD position in Ecological Modelling: Population dynamics of the invasive Japanese beetle to optimize surveillance and control strategies in Europe
Workplace: Avignon (France), Deadline 5th May 2024
The Japanese beetle poses a significant threat to European agriculture and biodiversity. This 3yr funded PhD thesis seeks to advance scientific knowledge on the population dynamics (both temporal and spatial) of the beetle, with the applied goal of defining effective control and surveillance strategies. The research may employ various approaches, including reaction diffusion equations, spatio-temporal point process models and remote sensing. The thesis will also explore the ecological interactions between the pest, main European crops and the environment.
Requirements: master in Applied Mathematics, Data Science, Engineering, Physics or similar, with interest in life science
Thesis direction: Daniele Bevacqua (INRAE); Florent Bonneu (Avignon University) ; Davide Martinetti ( INRAE)
For more information and to apply: daniele.bevacqua@inrae.fr
Dear all, We are happy to announce that the 6th edition of the tri-annual conference on « Stochastic Processes in Evolutionary Biology » will take place May 20-24, 2024 in the south of France close to Marseille, at CIRM (Luminy), a unique location on the doorstep of the beautiful "calanques". The conference will be a lively place to interact for researchers working at the interface between probability theory and evolution.
We are launching a call to researchers wishing to present their latest research on top of a dozen invited speakers (see list below).
Successful applications may or may not present actual biological data, but must contain interesting mathematical results. A slight preference will be given to contributions from young researchers and/or with a focus on one of the following topics:
Please send your proposal via the form https://framaforms.org/6th-cirm-conference-on-stochastic-processes-in-evolutionary-biology-luminy-france-may-20-24-2024
Deadline: December 1st, 2023.
In case your proposal is accepted (talk or poster), your accomodation at CIRM will be covered (but not your travel expenses).
Don't hesitate to contact us should you have any question. Please disseminate this announcement to interested colleagues - apologies for multiple postings.
Best wishes, Amaury Lambert Peter Pfaffelhuber List of invited speakers: Jochen Blath Camille Coron Félix Foutel--Rodier Simon Myers Sarah Penington Cornelia Pokalyuk Emmanuel Schertzer Jason Schweinsberg Charline Smadi Maite Wilke Berenguer https://conferences.cirm-math.fr/3000.html
Dear Colleagues,
We are pleased to announce the 18th Mathematics in Life Sciences (MiLS) meeting which will focus on "Uncertainty and Dynamics in Biological and Healthcare Models". This meeting will take place on the 22nd and 23rd May 2024 in the Living Systems Institute at the University of Exeter.
The meeting aims to bring together mathematicians, statisticians, and data scientists to discuss methodology for and applications of uncertainty quantification in biology and healthcare. The workshop will place a particular focus on models involving prediction of future outcomes across a range of applications (e.g., predicting the effect of clinical decisions, or drug interventions).
Confirmed speakers include: Dr Daniele Avitabile (VU Amsterdam) Prof. Michael Goldstein (Durham University) Dr TJ McKinley (University of Exeter) Prof. Steve Niederer (Imperial College London) Dr Mihaela Paun (University of Glasgow) Dr Victoria Volodina (University of Exeter) Prof. Richard Wilkinson (University of Nottingham)
We solicit contributed talks and posters related to the theme, especially from early career researchers and postgraduate students. If you are interested in giving a talk or poster, please send a title and abstract using this registration form by 29th April 2024. Attendance to the meeting is free of charge, but we kindly ask you to register your intention to attend by completing the registration form here: https://forms.office.com/e/QBui3TS6ip
Best wishes, Kyle Wedgwood Living Systems Institute University of Exeter
In a rapidly changing world, understanding the intricate relationships between climate and ecosystems has become more critical than ever.
The “Climate-Inclusive Ecosystem Modeling: Understanding the Dynamics of Ecosystems in a Changing World (CIEM-24)” conference seeks to bring together researchers, scientists and stakeholders to explore and discuss cutting-edge approaches in modeling ecosystems, taking into account the profound influence of climate factors. The conference aims to address a wide range of topics, including theoretical ecology, ordinary and partial differential equations, autonomous and non-autonomous dynamical systems, multi-scale modelling, stochastic systems, among others, providing a comprehensive understanding of how climate change affects ecosystems and how ecosystem modeling can be enhanced to incorporate these effects.
BioInference 2024: save the date and call for abstracts
The BioInference 2024 conference (https://bioinference.github.io/2024/) is taking place at the University of Warwick on the 5th-7th June 2024, and it will combine a data-driven meeting on day 1 (registration fee: £30) with the main two-day conference on the 6th and 7th June 2024 (registration fee: £70).
Launched in 2022, BioInference aims to bring together researchers from across statistics and mathematical modelling who work with biological systems, and from all career stages, to foster discussions between the two communities and to prompt collaborations. The talks from the two previous BioInference conferences are available via our public YouTube channel (youtube.com/@bioinference5299).
The two-day conference will combine contributed talks and poster sessions. We now invite abstracts for oral/poster presentations on work either relating to statistical methods development (so long as those methods are applicable to biological systems) or on the application of statistical methods to solve biological problems. All presentations will be in-person. Abstracts can be submitted via a Google form (forms.gle/SBawnWD3k8iSS1Vt6) and the deadline is on the 31st January 2024.
It is our pleasure to confirm that this year's invited speakers are: · Alex Browning, University of Oxford · Sarah Filippi, Imperial College London · Hong Ge, University of Cambridge · Hamid Rahkooy, University of Oxford · Heba Sailem, King’s College London · Catalina Vallejos, University of Edinburgh The conference organising committee is committed to ensuring fair participation of individuals across all career stages, genders, races and ethnicities, ages, geographic locations, and universities. Data-driven meeting: problems and methodologies
This year, we are also running an optional event on the 5th June at Warwick before the main conference starts. This aims to bring together mathematicians, statisticians and those who possess or generate datasets and would like to analyse them/answer some open questions. These may include biologists, clinicians etc in academia and industry. The idea of this meeting is to think about potential solutions to these data-based problems, gathering interest for possible collaborations between individuals across disciplines, institutions and career stages. The day would consist of a range of presentations by the experimental/business partners in the morning, and focus/discussion groups in the afternoon, aiming to start formulating an action plan to tackle the open challenges. The cost of attending day one is £30 in addition to the registration fee for the main conference. Kind regards, The BioInference Organisers Enrico Bibbona (Politecnico di Torino); Ioana Bouros (Oxford); Julia Brettschneider (Warwick); Raiha Browning (Warwick); Fergus Cooper (Oxford); Marina Evangelou (Imperial College London); Aden Forrow (Maine); Constandina Koki (Warwick); Ben Lambert (Oxford); Chon Lok Lei (Macau); Massimiliano Tamborrino (Warwick); Tom Thorne (Surrey); Yongchao Huang (Aberdeen).
There will be a special workshop on chemical reaction networks and dynamical systems, taking place in Pula (Sardinia) from June 9-15, 2024. The workshop organizers are D. Cappelletti (Turin), S. Müller (Vienna), S. Walcher (Aachen) and C. Wiuf (Copenhagen).
The workshop is a part of the SPT (Symmetry and Perturbation Theory) series that has been in existence since 1996. The overarching goal of these conferences is to foster interaction and collaboration between various groups of the scientific community. The focus of this workshop will be on reaction networks (deterministic and stochastic) and dynamical systems, bringing together specialists from both disciplines.
For more information see the SPT web page http://www.sptspt.it/SPT2024/SPTCRN2024.html , and join the mailing list announced on this site for timely updates.
The International Conference on Mathematical Neuroscience (ICMNS) is an inter-disciplinary conference series, bringing together theoretical/computational neuroscientists and mathematicians. The conferences are aimed at scientists interested in using or developing mathematical techniques for neuroscience problems. The conference will take place at University College Dublin from the 12th to 14th of June 2024, and will include keynote, invited and contributed talks.
We welcome the submissions of contributed talks or posters, with deadline on the 16th of January 2024 at 23:59 (GMT). The submission involves uploading a 1-page abstract.
You can read more about the conference and submit your work on our website https://www.danieleavitabile.com/icmns24/
BIOREME have teamed up with Innovate UK Business Connect and SofTMech to host a study group in mathematical modelling for respiratory medicine. We are delighted to invite participants to register for our upcoming mathematical study group with confirmed challenges from industry and clinicians more details here -> https://www.bioreme.net/events-all/studygroup-2024
When: 17th - 21st June 2024 Where: University of Glasgow
Cost: There is no cost to participate. Lunch and refreshments are provided throughout the event. Accommodation in University of Glasgow Student Accommodation can be provided at no cost. Please indicate this on your registration form.
Deadline: 17th May 2024 (unless capacity is reached before this date).
Who is this for? We encourage researchers with a range of expertise to register for this event, including applied mathematics, computational modelling, statistics, data science, physics and engineering. We welcome researchers at all career stages from PhD students through to academic staff. This hands-on workshop offers a great opportunity to apply your skills to a new area, get some experience working with an industrial or clinical partner on a real-world problem, and potentially discover exciting new research collaborations
Challenge 1: Can audio recordings be used to detect leaks in mechanical insufflation exsufflation (MIE) treatments Presented by Dr Toby Stokes and Dr Michelle Chatwin, BREAS Medical
Challenge 2: Using data collected from Structured Light Plethysmography to differentiate Breathing Pattern Disorder from normal breathing Presented by Dr Emily Fraser and Mathew Bulpett, Oxford University Hospital
Challenge 3: Searching for exhaled breath volatile biomarkers: How can we correct for environmental contamination? Presented by Dr Ran Wang and Prof Stephen Fowler
To find out more, please get in touch at contact@bioreme.net https://www.bioreme.net/events-all/studygroup-2024
The field of population genomics is one of the fastest growing areas of interdisciplinary research. It is the culmination of the developing relationship between big data, mathematics and biological understanding.
The Research Students' Conference in Population Genomics 2024 intends to address every facet of this emerging field through interdisciplinary collaboration. There is much recognition that the field of population genomics is multidisciplinary, and that many research groups are sparsely distributed.
The organisers aim to bring research students working in a range of genomic and health related fields together for a three-day conference which will look at the themes: evolutionary networks, causal effect estimation and pathogen genetics.
The conference will be a formal and structured setting for postgraduate researchers, in which research can be discussed without the pressure of large number of late-stage career researchers being present.
For more information, abstract submission and sign-ups please see: https://www.maths.ed.ac.uk/school-of-mathematics/events/conferences/population-genomics-2024
This international workshop will bring together members of different communities (maths, biology, ecology, physics, and computing) who use different tools to address questions ranging from fundamental issues on the role of fluctuations in evolutionary processes to the modelling of antibiotic resistance, and the evolution of cooperative behaviour. The event is sponsored by the UK Engineering and Physical Sciences Research Council and the Leeds School of Mathematics
There is no registration fee, but registration is mandatory (deadline: 31/05/24), and the number of places is limited. There is limited funding to contribute to the travel expenses of PhD students and early career researchers.
Further details of the workshop, including confirmed keynote speakers, programme, registration, and how to submit contributed talks (deadline: 12/04/24) can be found on the L24EEDs website.
Thank you and best wishes, Mauro Mobilia, Lluís Hernández-Navarro & Matthew Asker (Organisers of the L24EEDs workshop)
Announcing the 19th Annual Multicell Virtual-Tissue Modeling Online Summer School and Hackathon -- Indiana University, Bloomington. July 28th – August 4th, 2024 (Workshop) and August 9th – August 11th, 2024 (Hackathon).
Please forward this announcement to anyone that you think might be interested. We are pleased to announce the 19th Annual Multicell Virtual-Tissue Modeling Online Summer School and Hackathon -- 2024, which will take place between Sunday, July 28th and Sunday August 4th, 2024. We would very much appreciate your help in letting your colleagues and students know about this opportunity.
This year’s workshop will take place over one seven-day week. The workshop will focus on the basics of building virtual tissue models modeling using CompuCell3D, as well as exploration of more advanced modeling topics using the many features and capabilities of the CompuCell3D software. A two-day model-building Hackathon in which attendees work in teams to build a functioning model of their problem of interest will be hosted on the weekend following the workshop (August 9–11). For first-time participants, attendance in the workshop is required for participation in the Hackathon. Previous workshop attendees or returning hackathon participants may contact us directly for admission into only the hackathon.
Summer school attendance guarantees admission to the Model-Building Hackathon. The Hackathon will group attendees by topic of interest. Experienced modelers will be embedded within each group. Workshop instructors will be available to assist Hackathon participants throughout the two-day session. Everyone will leave with a functioning core model that they can further customize, or even potentially develop into a publication!
For more information, please see our announcements at https://compucell3d.org/Workshop24
To register, please visit: https://tinyurl.com/CC3D2024.
More information on CompuCell3D is available at https://compucell3d.org/.
Try out some example models online at NanoHub: https://compucell3d.org/Models-nanoHub.
AUDIENCE: Mathematical Biologists, Computational Biologists, Experimental Biologists, Medical Scientists, Bioengineers, and Biophysicists, ranging from undergraduates to senior faculty, with a current or potential interest in mechanistic modeling of biological systems. The course covers multicellular modeling, which applies to developmental and tissue biology, tissue engineering, developmental diseases like cancer, in-host modeling of infection and immune response, and tissue-level toxicology. No specific programming or mathematical experience is required. AIM AND FOCUS: An Introductory Python and Principles of Modeling Tutorial will take place on July 28th, 2024. If you already know Python or have modeling experience, you may skip this tutorial (or take it as a review).
Multicell Virtual-Tissue Modeling Summer School: Basic Course (July 29th – August 4th, 2024) Mechanistic agent-based modeling is an integral part of contemporary bioscience, used for hypothesis generation and testing, experiment design and interpretation, and the design of therapeutic interventions. The CompuCell3D modeling environment allows researchers to rapidly build and execute complex Virtual Tissue simulations with minimal programming experience. CompuCell3D enables biological simulations from subcellular to tissue scales, supporting explicit cell shapes, cell migration, contact-mediated cell interactions, soluble signals, and complex cell state dynamics (gene regulatory, signaling, and metabolic networks). By the end of the course, participants will have had practice in using all the standard features of CompuCell3D needed to run a variety of multicellular simulations. Post-course support and collaboration will be available to continue simulation development of your biological problem(s) of interest.
Multicell Model-Building Hackathon (August 9th - August 11th, 2024): By the end of the workshop, participants will have implemented a variety of simulations using many advanced features of CompuCell3D, including biochemical network modeling with CC3D, cell compartments and links, tissue folding, collective migration, and cell shape manipulation. Participants in the Hackathon will spend two days implementing a simulation of their biological problem of interest with support from the instructional team. Post-course support and collaboration will be available to continue simulation development.
CORE TOPICS: Principles of modeling biological and biomedical problems Python and Antimony scripting Multicellular Virtual-Tissue simulations with CompuCell3D Combining network models with virtual-tissue models in multiscale models
INSTRUCTORS: Prof. James A. Glazier (Indiana University), Prof. T.J. Sego (University of Florida, CompuCell3D lead developer), Dr. James Sluka (Indiana University), Prof. Julio Belmonte (North Carolina State University), Prof. Gilberto Thomas (Federal University of Rio Grande do Sul, Brazil), Pedro Cenci Dal Castel (Federal University of Rio Grande do Sul, Brazil), Dr. Priyom Adhyapok (Duke), Dr. Maciek Swat (CompuCell3D lead developer), Dr. Lorenzo Veschini (King’s College London).
PARTICIPATION: Because the number of attendees is limited, admission is by application only. To apply for admission, please visit the school website at https://compucell3d.org/Workshop24 and to register, please visit: http://www.tinyurl.com/CC3D2024.
DEADLINE for APPLICATIONS: June 1st, 2023. Applications will be processed as received. The workshop is partially supported by grants from the US National Institutes of Health. and the National Science Foundation: NIH U24 EB028887, NSF 2120200, NSF 2000281, NSF 1720625
Enrollment is free.
We look forward to welcoming you online this August! James A. Glazier Department of Intelligent Systems Engineering Indiana University, Bloomington jaglazier@gmail.com
I am looking for motivated master interns, PhD students, and postdocs in theoretical physics or applied mathematics to work on the interactions between mechanics, biochemistry, and genetics in stem cell aggregates.
The positions are fully funded by the ERC Synergy Grant project BREAKDANCE. Our theory work will be carried out in close collaboration with the experimental labs of Pierre-François Lenne (Marseille), Vikas Trivedi (Barcelona), and Verena Rupprecht (Barcelona).
For more details on the positions, please see https://www.merkellab.net/open-positions
A recent preprint from our consortium can be found here: https://www.biorxiv.org/content/10.1101/2023.09.22.559003
The start date is flexible.
Please do not hesitate to contact me for any informal inquiries: matthias.merkel@posteo.de
I wanted to draw your attention to the workshop that Tamas Insperger and I organized for Udine, Italy for Oct 14-18, 2024.
It will have distinctly DDE and modeling perspective and likely will be near the last times that many of the speakers will give live teaching-style lectures (e.g.me, Stepan and Morasso). I suspect it may be expensive to travel to the meeting; however, it is possible to attend online. I think that the lectures given by Insperger and Stepan plus others would be of interest to mathematical biology students working on DDEs as well as those interested in falls in the elderly, etc.
The Department of Computational and Quantitative Biology (LCQB) at the prestigious Sorbonne University, located in the heart of Paris, France, is on the lookout for a new director set to start January 1, 2025. This position is for a five- year term, with the possibility of renewal.
Full details are available here: https://dropsu.sorbonne-universite.fr/s/iegn9ftgTb6EmbS
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