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September Sessions Oral Defense MT

WhenThu, 7th September, 09:30am – 13:30pm

Where: Room Grade (C1/070-1), Faculty Biosciences, UAB


09.30 Laurence Dyer

Machine Learning in Genome Annotation

Antonio Barbadilla, Sònia Casillas, Bàrbara Negre


09.55 Jesús Murga

Effect of Transcription Factor binding in the evolution of Transcription Binding Sites in Drosophila melanogaster

Antonio Barbadilla, Sònia Casillas, Bàrbara Negre


10.20 Kelsey Montgomery

Translational Profiling of Kiss1 Neurons by RNA-Seq Analysis

Antonio Barbadilla, Alfredo Ruiz, Albert Quintana


10.45 Nikita Pohrebniak

Studying structural variations using 3C-Based interaction matrices

Antonio Barbadilla, Sònia Casillas, Raquel Egea


11.10 Coffee Break


11.30 Vasyl Vychikov

Integrative McDonald-Kreitman Test

Antonio Barbadilla, Sònia Casillas, Raquel Egea


11.55 Sean Xie

The Landscape of Mutational Signatures in the PCAWG Study

Antonio Barbadilla,  Sònia Casillas, Raquel Egea


12.20 Virginia Díez

Prediction of splicing quantitative trait loci (sQTL) in normal colon tissue and development of a sQTL browser

Antonio Barbadilla, Sònia Casillas, Miguel Pérez Enciso


12.45 Mark Dedden

Using SNP array data to benchmark the phenotypic prediction accuracy of various machine learning methods

Antonio Barbadilla, Sònia Casillas, Miguel Pérez-Enciso


When: Fri, 8th September, 09:30am – 13:00pm

Where: Room Grade II (C5/1068) - "Sala Josep Egozcue", Faculty Biosciences, UAB


09.30 Sandra Redó

Detecting copy number variations in whole exome sequencing data

Antonio Barbadilla, Mario Cáceres, Raquel Egea


09.55 Juan Ochoteco

Re-annotation of Drosophila buzzatii genome

Antonio Barbadilla, Alfredo Ruiz, Mario Cáceres


10.20 Edgar Garriga

DPA a new multiple sequence alignment method

Antonio Barbadilla, Miquel Àngel Senar, Raquel Egea


10.45 Kevin Sayers

Nextflow and Singularity enabling heterogeneous CPU/GPU bioinformatics containers in workflows

Antonio Barbadilla, Miquel Àngel Senar, Antoni Espinosa


11.10 Coffee Break


11.30 Oscar Díaz

An in silico investigation of cannabinoid CB1 receptor activation and CB1/CB2 ligand selectivity

Jean-Didier Maréchal, David Reverter, Arnau Cordomí


11.55 José Emilio Sánchez

Bringing chemical space exploration to GaudiMM

Jean-Didier Maréchal, David Reverter, Arnau Cordomí


12.20 Elia Ripoll

Searching small-molecule ligands for the honeybee Allatostin receptor A

Laura Masgau, David Reverter, Arnau Cordomí


July Session Oral Defense MT

WhenThu, 13 July, 10:30am – 12:30pm
WhereSeminar room Lynn Margulis, Dpt Genetics and Microbiology, Faculty Biosciences, UAB (map)
10:30 Zhuobin Zhang Hybrid reconstruction in cucumber using a segregating population and next generation sequencing
Antonio Barbadilla, Daniel Yero,Sònia Casillas
10:55 Raquel Luna Analysis of the effect of somatic mutations in DNA repair genes on Pancancer
Antonio Barbadilla, Daniel Yero, Raquel Egea
11:20 Núria Díaz Gene expression analysis for periodontal regenerative medicine application
Antonio Barbadilla, Sònia Casillas, Raquel Egea
11:45 Laura Tomás Analyzing multiregion whole-genome next generation sequencing data from colorectal cáncer patients
Antonio Barbadilla, Mario Cáceres, Sònia Casillas
12:10 Charikleia Karageorgiou A Bioinformatics Approach for the Detection of Polymorphic Inversion Breakpoints in D. subosbcura
Antonio Barbadilla, Mario Cáceres, Francisco Rodriguez-Trelles
WhenFri, 14 July, 10:30am – 12:30pm
WhereSeminar room Lynn Margulis, Dpt Genetics and Microbiology, Faculty Biosciences, UAB (map)
10:00 Pep Amengual Ligand diffussion in Aryl-alcohol oxidase
Angel González, Jean-Didier Maréchal, Laura Masgrau
10:25 Andrea Diéguez Protein structure changes due to somatic mutations in the most highly mutated cáncer genes from the 2550 cancer genomes of the ICGC PanCancer study
Angel González, Jean-Didier Maréchal, Leonardo Pardo
10:50 Pablo Orenes Finding protein-ligand potential binding paths through a chain docking protocol
Angel González, Laura Masgrau, Leonardo Pardo
11.15 Coffee break (20’) 11:35 Anna Maria Rudzinska Evaluation of Chemical Diversity in Drug Candidates Found with PharmScreen
Angel González , Jean-Didier Maréchal, Leonardo Pardo
12:00 Lorea Velasco Structural insights into the Hsp70-system from modeling and molecular dynamics simulations.
Jean-Didier Maréchal, Laura Masgrau, Leonardo Pardo


Workshop on the Master’s Thesis Dissertation

When: Tue, 14th March, 10:00 – 12:30
Where: Sala seminari Lynn Margulis (C3/023), Dpt de Genètica i Microbiologia, Facultat de Ciències i Biociències 
10:00 -11:15
Antonio Barbadilla: Guidance on the Master’s Thesis Dissertation and Tools
11:30 -12:30
Margarita Navia: Bioinformatics Opportunities in Europe and H2020


Closing conference Module 4: "Enhancing the Therapeutical Properties of Novel Drugs with Computational Chemistry"

Who: Dr. José Pedro Cerón Carrasco, Bioinformatics and High Performance Computing Research Group at Universidad Católica de Múrcia

When: Thu, 16th February, 10:00
Where: Room A1 of the Centre de Recerca Matemàtica, Facultat de Ciències i Biociències, UAB.




Student´s seminar session module 3

Mon, 13th February, 09:30 – 16:00

The last session of the module 3, on Monday 13th February, student's seminar session.
Where: Sala Lynn Margulis (C3/023). Facultat Ciències i Biociències, UAB   


Workshop on Entrepreneurship and Bioinformatics by Dr. Jordi Vinaixa (Academic Director at ESADE Entrepreneurship Institute)

When: Wed, 22nd Feb, 09:30 – 13:30

Where: Sala Lynn Margulis. Facultat Ciències i Biociències, Universitat Autònoma Barcelona

    • Entrepreneurship and Bioinformatics. Entrepreneurship in Biotech projects Dr. Jordi Vinaixa Academic Director at ESADE Entrepreneurship Institute. Webpage 

Visit to Centre Nacional de Análisis Genómico (CNAG)

When: Thu, 23th Feb, 10:00 – 12:00

WhereParc Científic de Barcelona, Baldiri i Reixac núm.4, at 9:45h. (map)

Description Programme:

  • 10:00 Sergi Beltran "Bioinformatics essentials for Next Generation Sequencing" (25 min)
  • 10:30 Simon Heath "Applications of next generation sequencing to the study of DNA methylation" (25 min)
  • 11.00 Marc Martí Renom "Integrative modeling of genomes and genomic domains" (25 min)
  • 11:20 Mònica Bayés Visit to the Lab and the CPD (25 min)


Closing conference Module 3: "Needs and applications of genomics in HIV "

Who: Dr. Javier Martínez-Picado, ICREA Research Professor at IrsiCaixa (Institut de Recerca de la Sida)        
When: Fri, 10th February, 9:30 – 11:00 UPDATED!
Where: Sala Lynn Margulis (C3/023), Departamente de Genètica i Microbiologia, Facultat de Ciències i Biociències, UAB.


Poster of the conference




  • Special Conference on System Genetics
    Title: "Natural selection within D. melanogaster anatomy. An integrative multilevel approach" 

Speaker: Marta Coronado (PhD student Bioinformatics of Genome Diversity lab, IBB; 2015 Winner Antoni Prevosti Prize of Evolutionary Biology to young researchers)

When: Thursday, 9th February, 11:45 – 12:45

Where: Class Room C5/058, Facultat de Ciències i Biociències, UAB.



PhD Student Marta Coronado
2015 Winner Antoni Prevosti Prize of Evolutionary Biology to young researchers




Conference: "Modular evolution of protein coding genes"

Who: Dr. Erich Bornberg-Bauer, Molecular Evolution and Bioinformatics. Bornberg Lab. University of Münster       
When: Friday, 20th January, 12:00 – 13:30
Where: Room A1 of the Centre de Recerca Matemàtica, Facultat de Ciències i Biociències, UAB.

Poster of the conference



Closing conference Module 2: "Tumour genomes shed light into mutational processes and cancer vulnerabilities"

Who: Dr. Núria López-Bigas      
When: Wed, 14th December, 12:00 – 13:30
Where: Auditorium of the Centre de Recerca Matemàtica, Facultat de Ciències i Biociències, UAB.

Poster of the conference



Practicum offers presentations

Thu, 1st December, 15:00

Where: Sala Lynn Margulis (C3-023). Facultat Ciències i Biociències, UAB  


Researcher Group Time

Mario Cáceres


Comparative and Functional Genomics Group




Aurora Ruiz-Herrera


Genome Integrity and Instability Group




Isaac Salazar


Salazar-Ciudad Lab




Sònia Casillas and Antonio Barbadilla


Bioinformatics of Genomic Diversity




See Poster


Closing conference Module 1: "Conda, Galaxy and Docker for reproducible and accessible research!"

Who: Dr. Björn Grüning       
When: Wed, 30th November, 12:00 – 13:30
Where: Sala Lynn Margulis (C3/023), Facultat de Ciències i Biociències, UAB.

Poster of the conference



The new course starts next Monday, October 3rd!

We welcome all you to the new course of the MSc in Bioinformatics at the Universitat Autònoma de Barcelona. As you know, the course starts next Monday, October 3rd, at 9:30h in the C5/058 classroom of the Facultat de Biociències. Let me remind you that in the students master web page you will find the complete schedule of the course, as well as a map of the faculty with the exact location of your classroom. You can incorporate it in your personal Google calendar to be aware of the latest changes by clicking in this icon  + Google calendar of this  link.

You will have complete access to the student Web page in the following days, once all you have got your NIU (Student Identification Number).

In order to bring you to the classroom the first day, I invite you to meet Antonio Barbadilla and Sònia Casillas at 09:00h at the main entrance of the Facultat de Biociències (central axis), right next to the concierge (main entrance). They will guide you to the classroom and will present several important aspects about the master before the class begins.

I cannot meet you the first day, but if you have any problems/suggestions/questions, do not hesitate to contact me (the first days and also during the rest of the course).

Regarding the classroom, it is a bioinformatics lab with one computer per student and it is devoted exclusively for students of this master during the first semester. You will have open access to it during the first semester, even if there are no programmed classes. In the following links you have the UAB normative of these spaces (in Spanish and English) and you should sign the last sheet for accepting the regulations and deliver it to us the first day.


We wish that this master fills completely your expectations and it becomes the decisive boost for your professional success.

Kind regards,

Raquel Egea

Master Manager
Master in Bioinformatics UAB

Parc de Recerca - Mòdul B, Espai MRB/018
Universitat Autònoma de Barcelona
08193 Bellaterra (Barcelona)
Tel.: +34 935868942




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