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EMBO Practical Course

Population genomics: background and tools

10 – 16 June 2024 | Naples, Italy

  • Registration Deadline
  • 16 February 2024
  • Abstract Submission Deadline
  • 16 February 2024
  • Chosen Participants Will Be Notified By
  • 1 March 2024
  • Payment Deadline
  • 16 March 2024

Apply now!

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About the Practical Course

Study methods in population genomics have been profoundly reshaped in the last few years, fostered by the rapid growth of DNA sequence production and sharing. This unprecedented opportunity has led to major steps forward in the field and calls for new approaches and computational skills to have become routine in evolutionary genomics laboratories.

Participants will learn fundamental concepts and advanced approaches to reconstruct the demographic history of populations and infer natural selection, using both classic and machine learning-based techniques. Participants will also learn the essential and advanced programming skills required to run the analyses related to the concept presented, with a special focus on machine learning.

Keynote lectures focused on major achievements and future perspectives of population genomics will complement the training. Lectures and practicals are delivered by experienced outstanding and inspiring speakers. We expect participants to become fully confident in running analyses on their own after attending the course.

This EMBO Practical Course aims at evolutionary biologists who already have basic bioinformatics skills. Good knowledge of R is a pre-requisite and knowledge of Python is a plus. Ph.D. students and Postdoc researchers will benefit the most out of this course, but applications from all candidates will be evaluated in their context.


About EMBO Courses and Workshops

EMBO Courses and Workshops are selected for their excellent scientific quality and timelines, provision of good networking activities for all participants and speaker gender diversity (at least 40% of speakers must be from the underrepresented gender).

Organisers are encouraged to implement measures to make the meeting environmentally more sustainable.

 

Speakers

 

Programme

 

Registration

  • Registration Deadline
  • 16 February 2024
  • Abstract Submission Deadline
  • 16 February 2024
  • Chosen Participants Will Be Notified By
  • 1 March 2024
  • Payment Deadline
  • 16 March 2024

 

  • STUDENT/POSTDOCS EUR 500
  • ACADEMIC EUR 500
  • INDUSTRY EUR 1000

Registration includes:

  • Accommodation in shared room for 7 nights (IN: 10/06/2024; OUT: 17/06/2024)
  • Catering (lunches, coffee breaks, dinners)
  • Course materials

Payment

Successful participants will receive payment details by email.

Selection criteria

This course is aimed at evolutionary biologists with basic bioinformatics skills.

Candidates will be selected based on:

  • A solid background in evolutionary genetics, since the course is advanced;
  • Good knowledge of Linux operating system, R and basic shell commands, Python knowledge is a plus;
  • Lack of previous knowledge of the population genomics tools taught (we want you to learn new skills);
  • Opportunity to apply the learning outcomes to their work soon after the course;
  • Impact of the course on the participant and his/her research group (we discourage multiple applications from the same group);
  • Submission of an abstract (mandatory).

Fulfilment of the above conditions by participants will be assessed through the registration form.

Abstract guidelines

Abstract guidelines: max 200 words.

To submit the abstract, access your course account after registration. Abstracts should describe participants’ research projects to be presented with a poster during the course.

Poster specifications

Poster specifications and dimensions will be sent by email to successful participants.

Additional Information for registration

It is mandatory that students attend the whole length of the course. Participants are expected to bring their own laptop; if not possible, this should be declared during registration.

Students will share rooms.

We encourage speakers and participants to take trains within Europe for distances, for e.g. under 800 km or under 6–8 hours of travel time to promote the reduction in CO2 emissions in order to lessen environmental impact.

Travel grants and registration fee waivers

Travel grants and registration fee waivers are available for participants.

Selection of awardees is handled directly by the organizers. EMBO travel grants and registration fee waivers are allocated on the basis of the quality of the submitted abstract.

Applicants do not need to apply separately for these but should indicate on the registration form if they wish to be considered.

Additional travel grants are available for EMBC Associate Member States Chile, India, Singapore and Taiwan.

Special travel grants and registration fee waivers

A limited number of travel grants and registration fee waivers are availablefor scientists working in Croatia, Czech Republic, Estonia, Greece, Hungary, Italy, Lithuania, Luxembourg, Poland, Slovenia and Turkey. Grants are allocated on the basis of the quality of the submitted abstract.

A maximum of 700 Euros per participant are available to cover registration fees, travel, and accommodation (no additional subsistence costs can be covered). To apply, please indicate the itemized amount requested in the travel grants section of the registration form.

Child care grants

EMBO Courses and Workshops offers grants to offset additional childcare costs incurred by participants or speakers when participating at any EMBO Courses and Workshop funded meeting. Eligible costs include fees for a caregiver or child-care facility, travel costs for a caregiver, or travel costs for taking the child to the meeting etc. Please indicate on the registration form whether you would like to be considered for the grant. Please also describe how you intend to use the childcare grant and specify the sum that you will need.

Grant Funded by Associazione Genetica Italiana (AGI)

Two grants of 500 EUR each covering the registration fee of one student/post-doc who is an AGI member or works in a lab in which the PI is an AGI member, will be awarded by the AGI.

Grant Funded by Società Italiana Di Genetica Agraria (SIGA)

One grant of 500 EUR covering the registration fee of one student/post-doc who is SIGA member or works in a lab in which the PI is a SIGA member will be awarded by SIGA.

Grant Funded By Società Italiana Di Biologia Evoluzionistica (SIBE)

One grant of 500 EUR covering the registration fee of one student/post-doc who is SIBE member or works in a lab in which the PI is a SIBE member will be awarded by SIBE.

It Support By ReCaS-Bari

Giacinto Donvito (ELIXIR-IT, INFN - Istituto Nazionale di Fisica Nucleare, Bari)

Stefano Nicotri (INFN - Istituto Nazionale di Fisica Nucleare, Bari)

Sustainability

  • Invited speakers from other continents are giving their talks remotely and we encourage speakers and participants to take trains within Europe for distances to promote the reduction in CO2 emissions in order to lessen environmental impact.
  • Abstract books and programs will be shared in electronic form only, and paper badges will be used.
  • Catering will include at least one vegetarian meal and locally sourced ingredients.
  • Single-use plastics and plastic water bottles and disposable cutlery will be avoided.
  • The hotel is equipped with a system to turn off lights and electronics when not in use.
  • We will turn off lights, machines, electronics, and air conditioning when not in use.

Code of conduct

Anti-harassment and non-discrimination policy

At EMBO, we believe that harassment and discriminatory behaviour are unacceptable in any setting. EMBO's code of conduct is applicable for all participants of this EMBO meeting and can be found here.

Media and communications policy

Unpublished data may be presented at this meeting and presenters may not want their results to be communicated beyond the audience in attendance at the event. Participants must seek approval from the presenter before quoting or passing on any of the data presented. Furthermore, the recording or communication of the scientific content presented (e.g. talks, discussion sessions or posters) by audio, video, photographs or any other means, or communication via social media needs to be agreed upon by all concerned. Attendees violating this Code of Conduct may be asked to leave the practical course without a refund at the sole discretion of the organisers. Attendees are expected to respect the media and communications policy during this EMBO Practical Course.

 

Contact

Vincenza Colonna

Email: embo.popgen@gmail.com

 

 

Venue

Vesuvian Inn

Via Solaro Nuova 13,

80053, Castellammare di Stabia, Naples, Italy

Photo credit: Vesuvian Inn

Accommodation

Participants and speakers will be accommodated at the Vesuvian Inn hotel. Participants will be accommodated in shared rooms. Breakfast is included.

Transport

Castellammare di Stabia is situated in the Bay of Naples about 30 km southeast of Naples. Naples can be easily reached by fast train from Rome, as well as by direct international flights. We encourage speakers and participants to take trains within Europe for distances, for e.g. under 800 km or under 6–8 hours of travel time to promote the reduction in CO2 emissions in order to lessen the environmental impact.

HOW TO REACH CASTELLAMMARE DI STABIA FROM NAPLES AIRPORT AND NAPLES STATION

FROM NAPLES AIRPORT – TO CASTELLAMMARE DI STABIA:
The bus company called “Curreri (curreriviaggi.it) ” goes directly from the Airport to the Vesuvian Inn in Castellammare di Stabia. Take the bus line “Naples airport – Sorrento (last stop)” at the bus stop located outside the airport at the “Tourist bus terminal”. Ask to be dropped off at the stop “Santuario del Sacro Cuore / Sanctuary of the Sacred Heart” in Castellammare di Stabia which is a 5-min walk from the course venue.

FROM NAPLES TRAIN STATION – TO CASTELLAMMARE DI STABIA:

There are two railway lines that connect Naples train station to Castellammare di Stabia: “Circumvesuviana” and “Trenitalia”.

Circumvesuviana: from Naples train station take the Circumvesuviana line “Napoli-Sorrento” and alight at “Castellammare di Stabia (central station)”. Circumvesuviana tickets can be bought at the train station and the ride takes about 50-min. The venue can then be reached by taxi or by 20-min (uphill) walk.

Trenitalia: from Naples train station take the line “Napoli-Salerno” which stops in “Castellammare di Stabia”. You can then reach the city centre “Piazza Matteotti”, 25-min (uphill) walk.

FROM NAPLES AIRPORT – TO NAPLES TRAIN STATION:

The bus company “Alibus” runs from the Airport to the central train stations "Napoli Centrale" or "Napoli Piazza Garibaldi" (which are the same). Alibus is located outside the arrivals area, runs every approx 15-min and tickets can be purchased on board (€5). The journey to the station takes about 30-min.

Taxis from the airport or from the train station are also available.

HOW TO REACH NAPLES BY TRAIN

The main train station is "Napoli Centrale" or "Napoli Piazza Garibaldi" (which are the same). Fast and frequent trains connect Naples to Rome, and all the other cities in Italy (e.g. Milan). To book a train there are two train companies: Trenitalia and Italo.

About the Area

Castellammare di Stabia, a town in the Naples province, is located in the Gulf of Naples, at the northern base of the Sorrento Peninsula.
The history of Castellammare di Stabia dates back to the Roman era when it was known as Stabiae, which was a popular destination for wealthy Romans who built magnificent Villas along the coast, such as Villa Arianna and Villa San Marco. Unfortunately, the eruption of Mount Vesuvius in 79 AD buried Stabiae under volcanic ash, preserving it for centuries. The eruption also buried nearby Pompeii and Herculaneum. After the devastation caused by the eruption, the area remained largely uninhabited for centuries. It wasn't until the Renaissance period that Castellammare di Stabia began to rise to prominence again. In the 18th century, the Bourbon kings of Naples recognized the town's strategic importance and fortified it by constructing the Castellammare di Stabia’s Castle, from which the town takes its name and nowadays overlooks the town from the hill. During the 19th and early 20th centuries, Castellammare di Stabia became a hub for maritime activities and industrial development, making the city famous for constructing and repairing numerous naval vessels, including battleships and ocean liners. Today, Castellammare di Stabia has successfully blended its ancient roots with a modern outlook. The town is one of the many charming villages of the Bay of Naples with either modern buildings and archaeological patrimony. The Pavilion in the communal park was realised in 1898, the Cathedral in the heart of the town was built in 1587 (rebuilt several times, and restored in 1875), the Sanctuary of S. Maria di Pozzano was founded by S. Francesco di Paola. Castellammare di Stabia is also known for its shipyards, its different mineral water springs/therapy and its thermal baths, known as the Antiche Terme di Stabia.

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