• Header of Systems Biology at Transmitting Science

Advanced Courses in Life Sciences

2nd Edition

Anatomical Network Analysis (AnNA)

September 23rd-27th, 2019, Barcelona (Spain)

Systems Biology

Systems Biology Logo
Anatomical Network Analysis (AnNA)Course overview

Anatomical Network Analysis (AnNA) is a framework for quantitatively characterizing the topological organization of anatomical systems using tools from Network Theory. AnNA is emerging as a new tool to identify developmental constraints, measuring morphological complexity and modularity, building morphospaces, and modelling the growth of anatomical structures.

This course is entitled to teach the main concepts of AnNA. Students will learn the basics of network analysis applied to morphological and anatomical systems: gathering information, building network models, analysing them, and interpret the outcomes of their analysis. This course combines theoretical introductions and practical exercises using the free and open-source software R and RStudio.

Participants are encouraged to bring their own data for practicing and for the supervised project session; anatomical networks will be provided by the instructors if needed.

This course is addressed to PhD students, postdocs and senior researchers.

LOCATION

Institut Català de Paleontologia Miquel Crusafont (ICP)

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

How to get there

DATE

September 23rd-27th, 2019

LANGUAGE

English

COURSE LENGTH & ECTS

35 hours on-site.

This course is equivalent to 2 ECTS (European Credit Transfer System) at the Life Science Zurich Graduate School.

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

PLACES

Places are limited to 16 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

Diego Rasskin-Gutman instructor for Transmitting Science

Dr. Diego Rasskin-Gutman
Cavanilles Institute of Biodiversity and Evolutionary Biology
Spain

Borja Esteve-Altava Instructor for Transmitting Science

Dr. Borja Esteve-Altava
Pompeu Fabra University
Spain

Coordinators

Ana Rosa Gómez-Cano coordinator at Transmitting Science

Dr. Ana Rosa Gómez-Cano
Transmitting Science
Spain

Soledad De Esteban-Trivigno instructor at Transmitting Science

Dr. Soledad De Esteban-Trivigno
Transmitting Science
Spain

Requirements

Graduate or postgraduate degree in Biological, Biomedical or Paleobiological Sciences. A basic knowledge/interest in anatomy and/or morphology is required.

All participants must bring their own personal laptop (Windows, Mac OS, or Linux). Previous knowledge in R is not required but recommended, participants should install R and RStudio before the course (https://www.youtube.com/watch?v=d-u_7vdag-0).

Program

Monday, September 23rd, 2019. Principles of Anatomical Network Analysis, by Dr. Diego Rasskin-Gutman and Dr. Borja Esteve-Altava.

  • Introductions and course overview.
  • Conceptual basis and history of anatomical networks analysis (AnNA).
  • Levels of organization: Differences between AnNA and morphometrics.
  • Introduction to network theory.
  • Types of nodes, links, and networks.
  • Basic network parameters.
  • Organization of the network’s topology (regular, random, small-world, scale-free, hierarchy).
  • Introduction to R.
  • Getting R and RStudio ready to work.


Tuesday, September 24th, 2019. Creating and Analysing Anatomical Networks in R, by Dr. Diego Rasskin-Gutman and Dr. Borja Esteve-Altava.

  • The igraph package and the igraph object.
  • Create the simplest networks.
  • Manipulate igraph objects and attributes.
  • Create anatomical networks from data (students are welcome to bring their own data).
  • Using AnNA to study morphological complexity, integration, and modularity.
  • The meaning of being small-world, scale-free, and hierarchical in morphology.
  • Calculate network parameters.
  • Small-world, scale-free, and hierarchical organization in networks.

Wednesday, September 25th, 2019. Null models and Modularity, by Dr. Diego Rasskin-Gutman and Dr. Borja Esteve-Altava.

  • Introduction to null models and morphospaces.
  • Create null network models in R (random, small-world, scale-free, proximity, Gabriel).
  • Generative connecto-spaces (AnNA + morphospaces).
  • Introduction to morphological modularity.
  • Identification, validation, and comparison of anatomical network modules using igraph.
  • Introducing OSLOM (Order Statistics Local Optimization Method).
  • A note on using network algorithms in morphometrics to find modules.



Thursday, September 26th, 2019. Students Projects, supervised by Dr. Borja Esteve-Altava.

  • Student will work in their own projects (in groups of 2-3 persons).



Friday, September 27th, 2019. Projects Presentations and Discussion, supervised by Dr. Borja Esteve-Altava.

  • Each team will present its work to the group for discussion and round table (15’ + 10’ Q&A).
  • AnNA discussion and brainstorming.
  • Course feedback.

References

  • Esteve-Altava B (2017) Challenges in identifying and interpreting organizational modules in morphology. Journal of Morphology, 278: 960-974.
  • Esteve-Altava B, Rasskin-Gutman D (2014) Beyond the functional matrix hypothesis: a network null model of human skull growth for the formation of bone articulations. Journal of Anatomy, 225 (3): 306-316.
  • Rasskin-Gutman D, Esteve-Altava B (2014) Connecting the dots: anatomical network analysis in morphological EvoDevo. Biological Theory, 9: 178-193.
  • Esteve-Altava B, Marugán-Lobón J, Bastir M, Botella H, Rasskin-Gutman D (2013) Grist for Riedl’s mill: A network model perspective on the integration and modularity of the human skull. Journal of Experimental Zoology Part B (Molecular and Developmental Evolution), 320: 489-500.
  • Esteve-Altava B, Marugán-Lobón J, Botella H, Rasskin-Gutman D (2013) Structural constraints in the evolution of the tetrapod skull complexity: Williston’s Law revisited using network models. Evolutionary Biology, 40: 209-219.
  • Rasskin-Gutman D, Buscalioni AD (2001) Theoretical morphology of the Archosaur (Reptilia: Diapsida) pelvic girdle. Paleobiology, 27: 59-78.

Books

  • Newman MJE (2010) Networks: An Introduction, Oxford University Press, 1st Edition.
  • Newman MJE, Barabási AL, Watts DJ (2006) The structure and dynamics of networks, Princeton University Press, Princeton.

Fees

  • Course Fee
  • {{content-1}}
  • Early bird (until June 30th, 2019):
  • 560 *
  • Regular (after June 30th, 2019):
  • 700 *
  • This includes course material, coffee breaks and lunches (VAT included).
    * Participants from companies/industry will have an extra charge of 100 €.
  • Course Fee + Accommodation Package
  • {{content-1}}
  • Early bird (until June 30th, 2019):
  • 560 * + 325 = 885
  • Regular (after June 30th, 2019):
  • 700 * + 325 = 1,025
  • This includes course material, coffee breaks, accommodation from Sunday to Friday, breakfasts and lunches (VAT included).
    * Participants from companies/industry will have an extra charge of 100 €.

We offer the possibility of paying in two instalments (contact the course coordinator). Discounts (see Funding below) are not cumulative and apply only on the fee, not to Accommodation Package or other options.

Accommodation

Accommodation Package

If you take the Accommodation Package you will be hosted in the Hotel Urpí, in single standard rooms.

Accommodation is included from Sunday (check-in) to Friday (check-out). Breakfast and lunch are also provided, starting from breakfast on Monday to lunch on Friday (included). Dinners are not included.

Check-in on Sunday is from 14:00 on.

Transport from Barcelona city is not provided, but you can find how to arrive to Sabadell here. The hotel is located at 10 minutes walking from the train station and the Venue.

Other accommodation options

If you do not want the Accommodation Package, accommodation is available in places other than Hotel Urpí: Where to stay near the Venue.

 

Hotel Urpí

Hotel Urpi room

Schedule

Course Schedule
  • Monday to Friday:
    • 9:30 to 13:30 Lessons.
    • 13:30 to 15:00 Lunch (included).
    • 15:00 to 18:00 Lessons.

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.

Funding

Discounts

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

Furthermore, 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 and apply only on the fee, not to Accommodation Package or other options.

Scholarships

Thanks to the donations of former participants, this year there are scholarships available for PhD students. The scholarships are in the form of tuition fee waivers only, they do not cover travelling and lodging.

If you want to apply please fill up this form. Deadline: May 31st, 2018. You should register for the course before applying.

Organizers

Transmitting Science 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

Registration