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• Postdoc Position at University of Franche-Comté

  • When
    15 Aug 2024
  • Location
    University of Franche-Comté, Besançon

  A 18-months Postdoc position is available in the Laboratoire de Mathématiques de Besançon (LMB), at the University of Bourgogne Franche-Comté, France, to work on the project “Parameter estimation for nonlocal PDEs with applications in cell biology”.

  We are looking for candidates with a strong research background in either one of the 2 research directions of this project: (a) parameter identification and uncertainty quantification for time-evolving PDEs, and/or (b) numerical analysis (a posteriori error estimates and adaptive mesh refinement) for time-evolving PDEs.

  Applications will be accepted on a rolling basis, and their review will continue until the position is filled. The contract will start as soon as possible.

  For more information, please contact Raluca Eftimie (raluca.eftimie@univ-fcomte.fr). Applicants are requested to send their expression of interest electronically in a single PDF file. Applications should include (1) a cover letter, (2) a CV, (3) contact details of up to three referees. 

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• PhD student and postdoc openings: Theory of mechano-genetic interactions in stem cell aggregates

  • When
    31 Aug 2024
  • Location
    CNRS, Marseille, France

  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

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• Post-doctoral position in mathematical and/or computational biology: Multiscale modeling of single cell-based dynamics of ovarian development

  • When
    15 Sep 2024
  • Location
    Paris

  A call is open for an 18 month postdoc at Inria Saclay center, entitled "Post-doctoral position in mathematical and/or computational biology: Multiscale modeling of single cell-based dynamics of ovarian development" :
  https://recrutement.inria.fr/public/classic/fr/offres/2024-07738

  The postdoc position is open in the framework of the AI4scMED ("MultiScale AI for SingleCell-Based Precision Medicine") consortium (https://ai4scmed.github.io) of PEPR Santé Numérique (project no. 22-PESN-0002). The postdoc will be supervised by Frédérique Clément (Inria), Chloe Audebert (Sorbonne Université) and Fabien Crauste (CNRS & Université Paris Cité).

  The contract is expected to start between October, 1st and December, 1st 2024.

  For any additional information, you can contact Frédérique Clément (frederique.clement@inria.fr), Chloe Audebert (chloe.audebert@sorbonne-universite.fr) and Fabien Crauste (fabien.crauste@math.cnrs.fr).

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• Postdoc position in Machine learning for genomics annotations in plants

  • When
    1 Nov 2024
  • Location
    Instituto de Biologia Molecular y Celular de Plantas Primo Yufera (IBMCP), Valencia, Spain.

  We are looking for a two years postdoctoral to investigate the genome annotations in non-model plants by means of machine learning approaches.

  Genome annotations is one of the major bottlenecks to obtain high quality genomes, especially in non-model species. Efficient tools to evaluate the quality of a genome annotation are needed. The goal for this position is to develop a toolkit with several applications to evaluate genome annotations using K-mers and AI. This is a project developed in collaboration with Dr. Ian Morilla (UMA, Spain).

  Qualifications
  Applicants should have demonstrated experience in the field of bioinformatics and/or computational biology. They should be proficient in at least one programming language (preferably Python). The candidate should have proficiency on data science, with focus machine learning. Deep learning apsproaches will be a plus. Good English communication skills are essential. The applicants should have a PhD degree in the fields of Biology or Computational Science.

  The applicant should meet the requirements needed to apply to CSIC work system (https://sede.csic.gob.es/servicios/formacion-y-empleo/bolsa-de-trabajo).

  If you are interested in this position or have any questions, please contact Prof. Aureliano Bombarely or Prof. Ian Morilla
  (abombarely@ibmcp.upv.es, ian.morilla@ihsm.uma-csic.es)

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• Call for a director at the Computational and Quantitative Biology Unit at Sorbonne University

  • When
    1 Dec 2024
  • Location
    Paris, Sorbonne University

  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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• Open PhD position in Theoretical Ecology

  • When
    31 Dec 2024
  • Location
    Potsdam, Potsdam University, Germany

  4-years position (75%) | E13 TV-L | Potsdam close to Berlin

  Project Title: Modelling context-dependent shifts in the forms of symbioses

  Project Description: Symbiotic interactions - representing prolonged physical associations of several species - are common in natural systems and can determine population dynamics, species persistence and ecosystem functioning, as demonstrated for example in coral reefs and plantpollinator networks. Symbiotic interactions can take different forms including parasitism, mutualism and competition.
  Depending on the underlying costs and benefits of the symbiotic interaction, the form of symbiosis may shift between different types of species interactions, e.g. mutualism and predator-prey interaction (see figure). While recent work has shown that the costs and benefits of symbioses depend on the densities of the symbiosis partners, we currently lack an understanding of how the form of symbioses depends on species traits and the overall food web context. This is particularly important as individuals and populations may adapt their traits to altered environmental conditions and as the food web structure may strongly vary across time and space. Hence, we want to improve general theory in community ecology by accounting for context-dependent changes in the form of symbiosis including the species’ potential to adapt to altering conditions in a food web context.

  The project is embedded into a network of experimental and theoretical working groups across Germany, conducting regular workshops and meetings promoting international networking. The prospective PhD student will join the working group of Prof. Dr. Ursula Gaedke, jointly supervised by Dr. Toni Klauschies. The prospective PhD candidate has the opportunity to closely interact with an experimental PhD student addressing the same overarching topic in our working group and related research groups on Campus. They can join the Potsdam Graduate School (PoGS) allowing for a broad interdisciplinary training of soft skills and early career development. The unique location of our campus in Park Sanssouci is part of a historical place in Potsdam
  providing a fruitful scientific environment and good working atmosphere.

  Your qualification: MSc degree in Ecology or other relevant subjects such as Physics, Mathematics or Environmental Science. We are seeking enthusiastic and committed candidates who enjoy ecology and applied mathematics with a solid background in ecology and ecological modelling. The successful candidate is expected to implement and analyze numerically differential equation models with a modern programming language such as Python, MatLab or Mathematica. Very good English writing and communication skills are expected, German is an asset but not essential.

  Application: To apply, please send the following documents as a single PDF to gaedke@uni-potsdam.de (the position is open until it is filled)

  · Cover letter, including a statement of motivation and from when on you would be available
  · Detailed curriculum vitae including a description of your pre-knowledge in (theoretical) ecology,
  programming and former research activities
  · Certifications of education
  · If possible, provide letters of recommendation from previous supervisors

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• Open PhD position in Experimental Plankton Ecology

  • When
    31 Dec 2024
  • Location
    Potsdam, Potsdam University, Germany

   4-years position (75%) | E13 TV-L | Potsdam close to Berlin

  Project Title: Context dependent effects on protective symbiosis driven by predation, competition and parasitism

  Project Description:
  Symbiosis is a biological interaction which refers to the physical association of individuals from different species that can be positive, negative or neutral to either species. In planktonic systems several symbiotic interactions can occur simultaneously and can interact with each other. We want to study the symbiosis between Daphnia and the rotifer Brachionus rubens within a multi-species interaction web. B. rubens can attach to Daphnia which reduces the fitness of Daphnia. At the same time both species compete for resources (algae). The
  attachment becomes more relevant, when a predator of B. rubens, A. brighwelli (another rotifer) is present because attached B. rubens are protected from predation. The aim is to quantify the costs and benefits for Brachionus and Daphnia under varying conditions and to better understand symbioses in a community context. Thus, the present project will contribute to a new food web theory which includes density dependence of symbioses. In addition, video analyses will be performed to study the attachment process in more detail.

  In the case of final approval, the project is embedded into a network of several experimental and theoretical working groups across Germany conducting regular workshops and meetings.

  The prospective PhD student will join the working group of apl. Prof. Dr. Guntram Weithoff at the University of Potsdam. We provide an active research  environment covering a broad range in ecological research. Beyond that, the Potsdam Graduate School (PoGS) offers a broad program on interdisciplinary training in soft skills and early career development.

  Your qualification: MSc degree in Ecology preferably in Aquatic Ecology or a related field. We are looking for a motivated candidate with good experimental skills. Further relevant skills are: sound knowledge in conceptional ecology, statistics and very good English in writing and communication.
  

  Application: To apply, please send the following documents as a single PDF to weithoff@uni-potsdam.de (the position is open until it is filled):
  • Cover letter, including a statement of motivation and from when on you would be available
  • Curriculum vitae including information on relevant skills
  • Certificates of education
  • If possible, provide letters of recommendation from previous supervisors

  
  

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