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Advanced Courses in Life Sciences

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2nd Edition

Introduction to 3D Imaging Technologies: Photogrammetry, Laser, CT-scan and micro CT-scan for Life Sciences

June 26th-July 2nd, 2017, Barcelona (Spain)

Introduction to 3D Imaging Technologies: Photogrammetry, Laser, CT-scan and (µ)CT-scan for Life SciencesThis course is addressed to life sciences researchers and technicians who routinely work with complex biological structures (specimens) and need to digitise their samples for different reasons, such as digital preservation, quantitative or biomechanics analyses, etc.

The goal of this course is to explain how you can work with a range of technologies with the aim of obtaining a 3D virtual models from different sources, such as laser imaging, photogrammetry and (micro) computed tomography (CT). By the end of the course participants should be able to obtain high quality digitalizations of samples with the most commonly used techniques and also be able to edit and manipulate the digital models that are produced.

Attendees will also learn to stain with Lugol’s iodine, a specific technique for specimen preparation for micro CT scanning which maximizes soft-tissue differentiation in CT imaging datasets. DiceCT Online.

LOCATION

Institut Català de Paleontologia Miquel Crusafont (ICP)

C/ de l’Escola Industrial, 23
08201 Sabadell, Barcelona (Spain)

How to get there

LANGUAGE

English

COURSE LENGTH & ECTS

46 hours on-site.

This course is equivalent to 3 ECTS (European Credit Transfer System) at the Life Science Zurich Graduate School and ForBio.

The recognition of ECTS by other institutions depends on each university or school.

PLACES

Places are limited to 18 participants and will be occupied by strict registration order.

Participants who have completed the course will receive a certificate at the end of it.

Instructors

Josep Fortuny instructor for Transmitting Science

Dr. Josep Fortuny
Institut Català de Paleontologia M. C. / Muséum National d’Histoire Naturelle
Spain / France

Sergio LLácer instructor for Transmitting Science

Sergio Llácer
Institut Català de Paleontologia Miquel Crusafont
Spain

Heinrich Mallison instructor for Transmitting Science

Dr. Heinrich Mallison
Leibniz Institute for Research on Evolution and Biodiversity
Germany

Paul Gignac instructor for Transmitting Science

Dr. Paul Gignac
Oklahoma State University Center for Health Sciences
United States of America

Coordinators

Soledad De Esteban-Trivigno instructor at Transmitting Science

Dr. Soledad De Esteban-Trivigno
Transmitting Science
Spain

Judit Marigó coordinator at Transmitting Science

Dr. Judit Marigó
Muséum national d’Histoire naturelle / Institut Català de Paleontologia Miquel Crusafont
France / Spain

Requirements

Participants will be required to bring their own personal laptop with the following minimum requirements: Windows, CoreI5 or equivalent, 4 GB RAM, 1 GB memory dedicated to the graphic card, 20 GB of hard disk space available. If you wish to attend but do not have access to a laptop which meets these specifications, please contact the course coordinators.

During the course participants will use the following software:

Program

Monday, June 26th, 2017. Dr. Josep Fortuny and Sergio Llácer.

  • Course presentation. Start up the software. What is digital modelling? What is this technology used for? The pros, cons and limitations of modelling.
  • Introduction to CAD. The common file formats in the world of 3D visualisation (.ply, .stl, .wrp, …). Laser technology theory. Laser technology practice (Next Engine).


Tuesday, June 27th, 2017. Dr. Heinrich Mallison.

  • Photogrammetry – high quality surface 3D capture at any scale. How to capture data and produce high-grade models, pros and cons, software and equipment, project planning and cost estimation.


Wednesday, June 28th, 2017. Dr. Josep Fortuny and Sergio Llácer.

  • (Micro-)Computed Tomography (CT): Theory and practice I. Image improvement. Radiographic images. Segmentation. Thresholding. Surface generation.


Thursday, June 29th, 2017. Dr. Josep Fortuny and Sergio Llácer.

  • (Micro-)Computed Tomography (CT): Practice II. Advanced segmentation. Measurements. 3D model edition: Geomagics and general applications of 3D modelling. Visit to the 3D Virtual Lab at the ICP.


Friday, June 30th, 2017. Dr. Josep Fortuny and Sergio Llácer.

  • Generation and editing of videos.
  • 3D printing.
  • Demonstration of practical examples from the students’ data and group discussion.

Saturday, July 1st, 2017. Dr. Paul Gignac.

  • Specimen Preparation and Staining.
    • Introduction.
    • Applications.
    • Attendee interests.
    • Staining theory.
    • Materials & lab set up.
  • Laboratory activities.
    • Staining in practice.
    • Preparing solutions and staining specimens.
    • Preparing destaining solutions and destaining specimens.


Sunday, July 2nd, 2017. Dr. Paul Gignac.

  • Specimen Destaining.
    • Destaining theory.
    • Destaining demonstration.
  • Future Directions.
    • Current Hurdles for diceCT.
    • DiceCT Community initiatives and the future.
    • Review and Wrap-up.

Testimonials

You will find below some testimonials from former participants to previous editions of this course:

Dr. Stefano Schiaparelli

“It was a great course which has fulfilled all my expectations. There was a high level of organization and a pleasant atmosphere during the whole course.” (1st Edition)

Dr. Stefano SchiaparelliUniversity of Genova, Italy

Previous editions of this course

2nd Edition, June 26th-July 2nd, 2017

Course Introduction to 3D Imaging Technologies: Photogrammetry, Laser, CT-scan and (µ)CT-scan for Life Sciences - 2nd Edition, June 26th-July 2nd, 2017Eleven people belonging to the following countries and institutions participated in this edition:

  • Spain: Centre de Recerca Ecològica i Aplicacions Forestals, BioCoRe Biological Cooperative Research, Museo Nacional de Ciencias Naturales – CSIC, Centre for Genomic Regulation, Institut Català de Paleontogia Miquel Crusafont, Universitat de València.
  • Chile: Instituto de Fomento Pesquero.
  • United States of America: University of Nevada – Reno.
  • Portugal: Universidade de Coimbra, Instituto do Mar da Universidade dos Açores.
  • Brazil: Museu de Zoologia da Universidade de São Paulo.
  • Sweden: University of Gothenburg.

1st Edition, November 3rd-6th, 2015

Course Introduction to 3D Imaging Technologies- Photogrammetry, Laser, CT-scan and (µ)CT-scan for Life Sciences - 1st Edition, November 3rd-6th, 2015Fourteen people belonging to the following countries and institutions participated in this edition:

  • Belgium: Ghent University.
  • Brazil: Universidade Federal do Pampa, Universidade Federal do Rio Grande do Sul.
  • Italy: University of Padova, University of Genova.
  • Israel: The Hebrew University of Jerusalem.
  • Spain: Universitat de Barcelona, Universidad de Zaragoza, Institut Català de Paleontologia Miquel Crusafont, Universitat Autònoma de Barcelona.
  • Switzerland: Zurich University of the Arts.

Fees

  • Course Fee
  • Early bird (until March 31st, 2017):
  • 675
  • Regular (after March 31st, 2017):
  • 945
  • This includes course material, coffee breaks and lunches.
    (VAT included)

We offer the possibility of paying in two instalments (contact the course coordinators).

Accommodation

The course will take place in the city of Sabadell, Barcelona (Spain). Take a look at the venue.

You may stay in Barcelona city or Sabadell. You will find information about Hotels and Hostel in Sabadell here. It takes about 45 minutes by public transport to arrive to Sabadell from the centre of Barcelona city. The place of the course is about 15 minutes walking from the train stop.

Funding

Former participants will have a 5 % discount on the Course Fee.

Unfortunately there are no scholarships available for this course. However a 20 % discount on the Course Fee is offered for members of some organizations (Organizations with discount). If you want to apply to this discount please indicate it in the Registration form (proof will be asked later).

Spanish unemployed scientists, as well as Spanish PhD students without any grant or scholarship to develop their PhD, could benefit from a 40 % discount on the Course Fee. If you want to ask for this discount, please contact the course coordinators. That would apply for a maximum of 2 places and they will be covered by strict inscription order.

Discounts are not cumulative.

Schedule

Course Schedule
Monday, June 26th through Saturday, July 1st, 20179:30 to 13:30 Lessons.
13:30 to 15:00 Lunch.
15:00 to 18:00 Lessons.

There will be two coffee breaks each day, halfway through each lesson session.

Sunday, July 2nd, 20179:30 to 13:30 Lessons.
13:30 to 15:00 Lunch.

There will be a coffee break during the morning lesson session.

The schedule is approximate; it is possible that the content of one day may run into the next and a working day may be longer than advertised.

Organizers

Transmitting Science Logo
Research School in Biosystematics (ForBio) Logo
Institut Català de Paleontologia Miquel Crusafont (ICP) Logo

Collaborators

Colegio Oficial de Biólogos de Castilla y León Logo
Colegio Oficial de Biólogos de Euskadi Logo
Colexio Oficial de Biólogos de Galicia Logo
Col·legi Oficial de Biòlegs de la Comunitat Valenciana Logo
Distributed European School of Taxonomy (DEST) Logo
European Association of Vertebrate Palaeontologists (EAVP) Logo
Sociedade Brasileira de Paleontologia (SBP) Logo

Sponsors

FEI Logo
Stratovan Logo
Registration closed

PLEASE NOTE:
Registration for this course is not yet available.
If you want to receive information once the registration is open, please subscribe without any obligation by selecting the topic Imaging.