A Practical Approach to CLEM

February 9th - February 14th, 2020, Oerias, Portugal

  • 1st COMULIS Training School on Correlated Multimodal Imaging

  • Sunday February 9th – Friday February 14th, 2020

  • Training school participants: 20

  • Target audience: European research scientists, students and facility staff


COMULIS (Correlated Multimodal Imaging in Life Sciences) is an EU-funded COST Action that aims at fueling urgently needed collaborations in the field of correlated multimodal imaging, promoting and disseminating its benefits through showcase pipelines, and paving the way for its technological advancement and implementation as a versatile tool in biological and preclinical research.

Within the time frame of the COMULIS COST Action, we will organize six training schools and workshops in the field of correlative multimodal imaging.  The Instituto Gulbenkian de Ciência (IGC) is delighted to be hosting the first training school which will be held in Oeiras, Portugal on Sunday February 9th to Friday February 14th 2020.

This first training school is called “A Practical Approach to CLEM”. The school is targeting users who are interested in establishing Correlative Light and Electron Microscopy (CLEM) in their home laboratories, but who may have limited technical resources and training in this area.  As such the School will be focused on getting new laboratories set up to do CLEM. By inviting an array of international CLEM experts to Portugal, we aim to show the participants CLEM procedures that can straightforward to duplicate.  Furthermore, we aim to give the training School participants the knowledge and skills to start doing CLEM at their home institution.

We cordially invite scientists from all across Europe who are interested in setting up CLEM experiments in their home laboratories to join us in Portugal.  We also invite companies interested in working with these new CLEM experts, to join us in our sponsorship program.

We are looking forward to welcoming you to Oeiras, Portugal in February 2020.


We are kindly supported by several industry partners to make this course happen. 

Gold Sponsor

Silver Sponsor

There are still a few remaining sponsorship opportunities.  If you would like to support the COMULIS CLEM Training School, please contact Dr. Erin Tranfield to discuss the available options.


This COMULIS Training School targets participants who are interested in establishing Correlative Light and Electron Microscopy (CLEM) in their home laboratories. Participants will gain hands-on-experience in light and electron microscopy and interact with experts in the field. 

This Training School targets users with some Electron Microscopy and some Light Microscopy experience who are interested in implementing combined Correlative Light and Electron Microscopy Workflows in their research. 


  • Introductory and applications lectures about Correlative Light and Electron Microscopy

  • Practical sessions with hands-on training about pre-embedding Correlative Light and Electron Microscopy

  • Advanced lectures detailing steps beyond these first initial workflows and the introduction to techniques to decide which of many Correlative Light and Electron Microscopy workflows is appropriate for a given project

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Day 1   Sunday February 9

13:00 – 14:00              Registration at the IGC
14:30 – 15:00              Welcome; overview of the program
15:00 – 16:00              An introductory lecture: what is CLEM
16:00 – 17:00              Welcome Lecture Highlighting the power of CLEM in Biomedical Research
17:00 – 19:00              Participant flash talks, introduction of Speakers
19:00 – 20:00 Welcome reception

 Day 2   Monday February 10

09:00 – 10:00              Introduction to Light Microscopy
10:00 – 10:30              Introduction to Electron Microscopy
10:30 – 11:00              What do you need to get started?
11:00 – 11:30              Coffee break
11:30 – 12:30              A detailed walk through the gridded dish based CLEM Approach
12:30 – 13:00              CLEM Application Lecture
13:00 – 14:30              Lunch
14:30 – 16:30              Practical sessions (Rotation 1)
16:30 – 17:00              Coffee break
17:00 – 19:00              Practical sessions (Rotation 2)
19:00 – 19:30              Daily wrap-up

 Day 3   Tuesday February 11

09:00 – 10:00             Introduction to Use of Targeted Labelling in Pre-embedding CLEM
10:00 – 11:15            Introduction to Ultramicrotomy and Diamond Knife Care
11:15 – 11:30             Coffee break
11:30 – 12:00             On-section CLEM
12:00 – 12:30             Company techbite 1
12:30 – 13:30             Lunch
13:30 – 14:30             Visit to the castle next door and a group picture
14:30 – 16:30             Practical sessions (Rotation 3)
16:30 – 17:00             Coffee break
17:00 – 19:00             Practical sessions (Rotation 4)
19:00 – 19:30 Daily wrap-up

Day 4   Wednesday February 12

09:00 – 10:00        Introduction to Image Collection and Image Analysis
10:00 – 10:45 Introduction to eC-CLEM in ICY
10:45 – 11:15              Coffee break
11:15 – 12:15              A detailed walk through of the eC-CLEM workflow in ICY
12:15 – 13:15              Lunch
13:15 – 15:00              Practical session using eC-CLEM
15:00 – 15:15             Coffee break
15:15 – 17:00              Practical session continued
17:30                           Bus leaves for social activity
17:30 – 22:00 Dinner / Social Activity

 Day 5   Thursday February 13

09:30 – 10:30              CLEM Application Lecture
10:30 – 11:00              Coffee break
11:00 – 11:30              Introduction to Histology to LM to EM Approach
11:30 – 11:45              Company techbite 2
11:45 – 12:15              CLEM Application Lecture
12:15 – 12:30              Planning Friday Sessions
12:30 – 13:30              Lunch
13:30 – 14:30              Company instrument demonstrations
14:30 – 16:30              Practical sessions part 1 (2 stations)
16:30 – 17:00              Coffee break
17:00 – 19:00              Practical sessions part 2 (a large group discussion on various topics)
19:00 – 19:30 Daily wrap-up

 Day 6   Friday February 14

09:00 – 12:00               Open Practical Sessions / Discussions with Experts / Company instrument demonstrations
11:00 – 11:30               Coffee break
12:30 – 13:30               Final Wrap up
14:00 Departure



Invited Speakers


Maria Joao Amorim; Instituto Gulbenkian de Ciência, Oeiras, Portugal


Helmut Gnaegi; Diatome, Biel, Switzerland


Roman Polishchuk, Telethon Institute of Genetics and Medicine, Pozzuoli, Italy


Ori Avinoam; Weizmann Institute of Science, Rehovot, Israel


Xavier Heiligenstein, CryoCapCell, Paris, France


Elena Polishchuk, Telethon Institute of Genetics and Medicine, Pozzuoli, Italy


Korbinian Buerger; University of Regensburg, Regensburg, Germany


Gabriel Martins; Instituto Gulbenkian de Ciência, Oeiras, Portugal


Paul Verkade; University of Bristol, Bristol, UK

Local Organizers and Speakers


Erin Tranfield; Instituto Gulbenkian de Ciência, Oeiras, Portugal


Ana Laura Sousa; Instituto Gulbenkian de Ciência, Oeiras, Portugal


Mafalda Silva; Universidade NOVA de Lisboa, Chronic Diseases Research Center, Lisbon, Portugal


Registration can be done HERE.

The course is supported by the COMULIS COST Action, however, a minimal registration fee will be charged to cover items not covered by COST or the training school sponsors.

  • Academia        150 Euros

  • Industry           250 Euros

The registration fee will cover lunches, coffee breaks, the conference dinner and course materials.

For selection purposes, please note that your application will not be considered without a brief motivation letter, which should include:

  • why you want to learn CLEM,

  • how you will apply CLEM in your research

  • why you are interested in this particular course.

The recommended length is 250 – 300 words. Please don’t send novels, it will not help your application.

The registration deadline is November 22nd, 2019.


Eight (8) selected eligible participants from the COMULIS COST Action member labs will receive financial support to attend the course. The stipend will cover registration, travel costs, accommodation and some meals.

For selection purposes for the financial support please succinctly tell us why you need the support.  The recommended length is 250 – 300 words.


The registration fee should only be paid after acceptance to the course. Applicants will receive an email approximately 2 weeks after the application deadline with notification of acceptance or wait-list status. Accepted participants will receive a link and further instructions for the payment. 

If payment is not received by the deadline specified in the acceptance e-mail, the participant will forfeit their spot and the opportunity will be offered to wait-listed participants. 

No visa support letters will be issued until payment of the registration fee is confirmed, however further details will be provided for participants needing visa applications. 


Single rooms and double rooms with breakfast included have been reserved for 5 nights (check-in Sunday February 9 and check-out February 14, 2020) at Inatel Oeiras.

  • Address: Alto da Barra - Est. Marginal, 2780-267 Oeiras

  • Tel: +351 210 029 800

  • E-mail:

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 The room rate for 2019 is:

  • Double room/per night: 46.80€

  • Single room/per night: 40.80€

This price includes breakfast and local taxes.

We expect the room rate to be very similar in 2020 but the hotel has not yet confirmed the final room cost for bookings during the CLEM Training School.  

Participants should contact the hotel directly before January 15, 2020 to book a room from these reserved rooms (Booking Code: COMULIS CLEM).

Located just around the corner from the hotel is the Oeiras Marina with several different restaurants for evening dinners.  Additionally, located close to the institute and in the center of Oeiras, there are many other nice locations for dinner. 


The event will be hosted at the Instituto Gulbenkian de Ciência (IGC), located at Rua da Quinta Grande, 6, in Oeiras, Portugal.

The Instituto Gulbenkian de Ciência (IGC) is an international research institute, based in Portugal, devoted to biological and biomedical research, innovative training and embedding "science in society".  The IGC was established by the Calouste Gulbenkian Foundation, a private charitable foundation promoting innovation in charity, arts, education and science. IGC´s mission is to pursue frontier research underlying both organism health and its interaction with the environment, to incubate future leaders and to place science at the heart of society.

The IGC hosts international and multidisciplinary research groups, providing them with state-of-the-art research facilities in a stimulating, cooperative and autonomous environment. At IGC research programs cover a wide range of domains promoting the interface of different disciplines. These include cell and developmental biology, evolutionary biology, immunology and host-microbe interactions, plant biology, sociobiology, computational biology and biophysics.

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Airport to Hotel:

Lisbon International Airport is located about 25 km from Oeiras.  The easiest way is to take a taxi directly to the hotel – however, please note that taxi travel is not refundable by COST. 

Taxi service

If you wish to organize a taxi pick-up, we recommend contacting a private taxi company who will meet you at the arrival gate at the Lisbon airport. The drivers speak English and have worked with us and our guests very often over the last 7 years. 

  • Contact Person: Luis Preto

  • Company Name: Luis Travel

  • e-mail:

  • phone contact: +351 963 720 561

Promotion price from Lisbon airport to Inatel Oeiras or directly to the course venue (IGC): 30 euros

To help the company with organization, please use the following subject line: “COMULIS CLEM Airport Transfer Feb 9th and 14th” and adjust the dates as necessary. 

We have advised the company that if multiple people arrive at the same time, it would be ok to propose sharing a taxi so you can share the costs.  If you do not wish to share a taxi, please just let the company know that in your email communications with them. 

Depending on your luck with traffic (which should be ok on a Sunday) it usually takes about 25 minutes to reach Oeiras from the Lisbon airport by taxi.

Public Transport

Metro to Lisbon, Cais-Sodré

A cheaper way to get to Oeiras is to take the subway (Metro) from the airport to Cais-Sodré (the ticket costs about 1,40 euros + 50 cents for the one-time card deposit and is valid for one journey, during 1 hr after validation). You will need to switch metro lines part way.  Once at Cais-Sodré, you can then take the train to Oeiras.

Bus to Lisbon, Cais-Sodré

The Aerobus also goes from the airport directly to Cais-Sodré (the ticket costs about 3,50 euros). Once at Cais-Sodré, you can then take the train to Oeiras. 

Train from Lisbon, Cais-Sodré to Oeiras

There are train connections every 20 minutes from Cais-Sodré Station to Oeiras. The trip should take about 25 minutes to Oeiras (the ticket costs about 1.85 euros). From Oeiras train station it is a 15 minute walk to the hotel, or a 5 minute walk to the Instituto Gulbenkian de Ciência.  There are also taxis located just outside the train station if you are tired of walking by this point. 

Depending on your luck with the train connections it can take 1.5 to 2 hours to reach Oeiras from the Airport by public transit.

If you plan to use the train / metro a few times you may wish to purchase a “zapping” ticket at the airport (or any metro station). This is a card that will also cost you 5o cents and that you can load with a set amount of money and use on almost all trains and metros in the Lisbon area.  The benefit is each trip is a bit less expensive and you only need to buy one ticket.  The downside is that you can only load set amounts (5, 10 or 15 euros) and it is hard (but not impossible) to get the money back if you don’t use it all.

Hotel to the Instituto Gulbenkian de Ciência:

The hotel is a 20 minute (1.5 km) walk to the institute along the roads, or a 30 minute (2.2 km) scenic walk along the ocean and through the parks. 

If you are a runner or walker, bring your running shoes because the hotel overlooks a 5 km sea wall that is a great location to enjoy the ocean.  

If the weather is unpleasant, then we advise the course participants to share a taxi to / from the Instituto Gulbenkian de Ciência.  It should only be 5-6 euros each way. 

Additional Information

For further inquires about the program, training school or sponsorship opportunities, please contact Dr Erin Tranfield with the subject header “COMULIS CLEM Training school”.