The Pasteur Education Center and the Pasteur Advanced Light Microscopy Initiative organize a 1/2 day symposium dedicated to recent advances in Life-Sciences and Light Microscopy.

The symposium is followed by a week-long demonstrations by innovative microscopy companies, showcasing their latest technology. 

The event and demos are open to all, free, but registration is mandatory.

All informations are on the event page: https://research.pasteur.fr/en/event/symposium-and-workshop-pushing-the-frontiers-of-dynamic-imaging-2025/

Some details below

Symposium

Monday, March the 24th

Location: Auditorium Francois Jacob, Institut Pasteur, 28 rue du Docteur Roux, 75013 PARIS

TimeSpeakerInstituteTitle
14:00 – 14:15Introduction
14:15 – 14:45Viktorija GlembockyteMax Planck Institute for Medical Research, HeidelbergDNA origami tools for sensing and imaging single molecules
14:45 – 15:00Company presentation – Bruker & Coherent
15:00 – 15:30Jens BosseCentre for Structural Systems Biology, HamburgFrom in silico to in cellulo: Illuminating viral morphogenesis
15:30 – 15:45Company presentation – Evident
15:45 – 16:15Magali SuzanneCentre de Biologie Intégrative, ToulouseNon-invasive approaches to decipher morphogenetic forces at different scales
16:15 – 16:45Coffee break
16:45 – 17:00Company presentation – Leica
17:00 – 17:30Oliver Kepp Centre de recherche des Cordeliers, ParisAutomated high-throughput high-content autophagy and cell stress fingerprinting
17:30 – 17:45Emna Ouni, on behalf of ImagXcell, TomocubeInstitut Gustave Roussy, Paris Engineering tumoroid nests at a scale for detailed profiling of mechanosensitive drug responses

Workshop

Tuesday the 25th of March to Friday the 28th of March.

Participants will be able to book one or several demonstration slots to test cutting edge microscopy equipments in the Pasteur Education center microscopy room. You can directly contact the company representatives to set up one or more demo slots for you to test the systems.

For reminder, the event and demos are open to all, free, but registration is mandatory.

We organize in Pasteur a training school on bioimage analysis at the Institut Pasteur, Paris, in May 2025.

The school will be in person only, from the 12th to the 16th of May 2025. All the details are on the course page, some details below.

The course lasts one week and is made of 2 tracks that run in parallel:

  • Early career investigators track (ECI): Learn to master the tools and techniques of bioimage analysis for your own research. From power usage to building analysis pipelines.
  • Analysts track: Learn to use and deploy advanced tools; learn to master high-performance computing for advanced bioimage analysis.

The number of available seats is 25 students max for the ECI track and 15 for the Analysts track. The selection is based on project description.

The keynotes are common to both tracks, and there is a bonus session on Friday afternoon: Work on your own data, with the help of colleagues and experts.

Program

The exact schedule is still being finalized. Here is a description of the course content.

Both tracks of the course have a specific focus on hands-on and interactive tutorials. They are meant to be convivial and foster a collaborative atmosphere between students and teachers. Each day begin with a common keynote, then the program for each track takes place.

Early-career investigator track

In this course you will learn how to use the most recent and common image analysis software tools. You will learn to master and use them for your own research project. The course will walk you from their installation, basic usage to building image analysis pipelines, from raw images to quantification results.

In the beginning we will explore the usage of software such as Fiji, Icy, QuPath, Ilastik, TrackMate, and Deep Learning tools… By the end of the course you will able to use and edit scripts and notebooks for batch processing and some advanced analysis.

The course will also offer fundamental introductions to the topics in modern image analysis, including machine learning / deep learning, ethics, …

You should apply to this course if you are a biologist and / or have no or little background in image analysis and do imaging in your research project. No knowledge of coding is required.

Analyst track

The strong focus of this track is the use of advanced algorithms, and mastering new tools and techniques. For every edition of this course, we pick a central topic in image analysis that we use to articulate the lectures and practical sessions of this track.

This year this topic is image analysis in the scope of spatially-resolved omics. Spatial-omics is a term used to describe a wide range of technologies focused on studying the molecular composition and interactions within tissues or cells while maintaining their spatial context. They all involve imaging and image analysis. We will use spatial omics as a theme to articulate several lectures and practical sessions on advanced image analysis topics that are central to these technologies. Importantly: we will restrict the topics to be on image analysis only, and won’t be dealing with the bioinformatics part. However, guest lectures by experts will help contextualize the course content within the broader scope of spatial omics.

In addition, the course will also focus on the use of artificial intelligence for bioimage analysis, using computational pathology and cell biology as topics to articulate the sessions and lectures.

Finally, a session will be dedicated to high performance computing in bioimage analysis, in the context of large images and large datasets.

The main tools of this track will be Python, Napari and Icy.

Basic experience with scripting and python is required.

Requirements

Bring your own laptop. We will spend time together installing everything needed and making sure they run for the course.

Also, absolutely bring a mouse with the laptop :) It’s painful to use the tools mentioned above with the trackpad.

Participants are encouraged to bring image data for the ‘Work on your own data’ sessions.

Registration

For registration visit the course webpage here : https://www.pasteur.fr/en/education/programs-and-courses/pasteur-courses?id_cours=32420

Deadline for registration: March the 31st 2025

Date for acceptance / rejection communication: April the 3rd 2025

BioImage Informatics 2021 is an annual meeting in the processing, analysis, and extraction of information and knowledge from biological images. This conference will be held in virtual from November 29 to December 1, 2021, and is organised by Jean-Christophe Olivo-Marin (Institut Pasteur), Charles Kervrann (Inria), Jean Salamero (Institut Curie) and Jean-Yves Tinevez (Institut Pasteur).

This year’s edition of the BioImage Informatics conference will happen fully online, and rely on a very nice website built specially for the conference. There will be a dedicated space for poster presentations where presenters will be able to interact with the audience, leave a video or materials when they are not here, etc…

There will be a space for job fair and general announcements as well.

BioImage Informatics 2021 meeting will include, but not be limited to, the following topics:

  • Advanced analytical solutions for bioimage processing and analysis
  • Statistical spatial analysis of cellular or molecular distributions
  • Applications of machine and deep learning to analysis of cellular structure and related functions
  • Quantification of dynamic images and transport phenomena Automation of data acquisition and analysis
  • Dynamic cell imaging and biological processes
  • Reconstruction and analysis of structure and function of biological networks
  • Registration, correlation and fusion of multimodality data

BioImage Informatics will feature a variety of types of presentations: invited talks (45’), selected talks from abstracts (20’) and posters.

Invited Speakers

  • Yonina Eldar, Weissmann Institute, Israel
  • Michael Liebling, EPFL/IDIAP, Switzerland
  • Emma Lundberg, KTH Royal Institute of Technology, Sweden
  • Jong Chul Ye, KAIST, Korea

Abstract submission and Registration for BioImage Informatics 2021 are now open!

  • All abstracts for selected talk and poster consideration must be submitted by October 15, 2021 and should not exceed 350 words (excluding authors and affiliations).
  • You may submit as many abstracts as you like.
  • At least one author of each paper or poster must register and attend the conference in order to be listed in the conference programme as a presenter. Authors will have the opportunity to edit an originally-submitted abstract before it is published in conference proceedings.
  • Only accepted abstracts and fully paid registration will be printed in the PDF programme book.

More details can be found at Home – BioImage Informatics 2021

Dear Bioimaging colleagues,

NEUBIAS, the Network of European BioImage Analysts (www.neubias.org), is delighted to announce two new Training Schools on BioImage Analysis:

  • for Early Career Investigators (life scientists)
  • for Facility staff (imaging & analysis staff from core-facilities)

The focus of training will be on construction and automation of BioImage Analysis workflows, using as examples more than one toolbox and different exercises. The schools will be held in Edinburgh, 16-19th of October 2018, hosted by the MRC Center for Regenerative Medicine/Imaging facility and co-organized by the University of Edinburgh and University of Dundee.

NEUBIAS schools are an excellent opportunity to learn from many experts in Bioimage Analysis (we are expecting >30 specialists at the event) and “….a great mix of intensive learning and community networking” (former trainee testimonial!). The schools will include practical sessions and seminars on ImageJ for analysis and publication, scripting/macros in ImageJ and Matlab, Omero, CellProfiler, QuPath, Ilastik, Ethics in Image Analysis and work on own data.

  • Applications are now open (each school has 20 available seats and ~7 trainers)
  • Applicants are highly encouraged to bring their own laptops and data.
  • Within the COST framework (funders of NEUBIAS), 7 travel grants per school are offered to applicants who qualify.
  • Registration requires a “letter of motivation” (filled in application form) and later a confirmation of status.
  • Application deadline:  May 11th 2018
  • Selection notification: 1st week of June 2018.

More information about schools (programme & trainers) and venue, travel & lodge available at our website:
www.neubias.org -> “Training Schools”

http://eubias.org/NEUBIAS/training-schools/eci/ts8-edinburgh-2018/

http://eubias.org/NEUBIAS/training-schools/staff/ts9-edinburgh-2018/

We kindly ask that you help us reach all potential interested applicants.

on behalf of all NEUBIAS members, of local organizers (Bertrand Vernay & Graeme Ball) and programme organizers (Anna Klemm, Laura Murphy, Graeme Ball and Sebastien Herbert)

_______________________________

NEUBIAS is an European network of >220 members and 41 countries, which aims to promote the communication between Life Scientists, Instrumentalists, Developers and BioImage Analysts and to establish and promote the role of Bioimage Analysts in Life Science. Our mission includes:
– A training programme for 3 different target audiences:”Early Career” researchers, (core) Facility Staff and Bioimage Analysts (running until 2020 – expected 400 trainees and 15 training schools).
– Promote different yearly events (NEUBIAS Conference, workshops [training schools], Taggathons)
– Online Resources: Repository of tools and workflows e.g. biii.eu, Benchmarking and Sample datasets, Training material and Open Textbook.
– A Short Term Scientific Mission mobility programme for Scientists to visit Host Labs and get in depth insights into cutting edge Image Analysis technology.
– A “ITC conference grants” programme to support travel for Early career Investigators from Inclusiveness Target Countries to present their work at conferences.
– Outreach material.
… more at www.neubias.org