Genomics of Gene Expression





Where: Heraklion, Crete, Greece

When: November 10-12, 2014

Host and Venue: Foundation for Research and Technology, Hellas

Smodia workshop brings together researchers in the fields of biology, bioinformatics, computational biology and statistics facing problems in the field of NGS and omics data integration (e.g., transcriptomics, metabolomics, genomics). The workshop aims at being a live discussion and exchange marketplace for researchers developing new strategies for the integration, visualization and analysis of multiple or heterogeneous high-throughput genomics datasets.

The Workshop includes invited Keynote Speakers, STATegra selected seminars and an Open call for short communications. You are welcome to submit your abstracts or just sign up to attend the workshop.

Link to the workshop main page for further information:


This workshop aims to bring together researchers in the fields of biology, bioinformatics, computational biology, statistics, biostatistics, machine learning, data mining, and pattern recognition that work on the analysis of omics data (e.g., transcriptomics, metabolomics, genomics) and particularly researchers that focus on developing new methods of integrating data, integrating their visualization, and integrating analysis of multiple and heterogeneous datasets. More details of the objectives of the workshop are here .


The Workshop Programme consists of invited talks by prominent researchers in the field, presentations of extended abstracts, poster presentations, and social events.

See Smodia2014 Program

Keynote Speakers:

A panel of prominent keynote speakers will present in the workshop:

– Michael Stumpf, Imperial College

– Andrew Teschendorff, UCL, London

– Sven Nelander, Uppsala University


In addition, the workshop will be attended by most STATegra partners.

Scheduled STATegra seminars:

  • STATegra project: A review, Ana Conesa.
  • Integration of multi-omics data using pathways as a scaffold, Ana Conesa
  • Integrated variable selection from multi-omics experiments using machine learning, Sonia Tarazona
  • The STATegraEMS, an Experiment Management System for multi-omics experiments, Rafael Hernandez
  • Integrative analysis of RNA-seq and DNase-seq to uncover gene regulatory networks, Gilad Sidelberg
  • Integrative Multi-omic Reverse engineering, Venkateshan Kannan
  • Empowering Integrative Analysis by Synthetic Pairing of Non-Paired samples of mRNA and CpG DNA Methylation data-sets, David Gomez-Cabrero
  • Low level data fusion methods searching for common and distinctive biological information in hetero omics data sets, Frans van der Kloet
  • Low level data fusion methods: Extensions to >2 data blocks and using prior information, Johan Westerhuis

Organized by: the STATegra consortium

STATegra ( is an FP7 European project. The STATegra project aims to develop new statistical methods and tools for the integrative analysis of diverse omics data for a more efficient use of the genomics technologies. Furthermore we aim to make them readily available to the research community through rapid and efficient implementation as user-friendly software packages. Among the data-types we consider: mRNA-seq, miRNA-seq, Methyl-seq, Chip-seq, DNase-seq, Proteomics and Metabolomics. In addition we will develop methods for data gathering, management and integration in Knowledge Databases and Ontologies. We will deliver statistical methodologies to generalize meta-analysis of heterogeneous datasets (e.g., different experimental conditions) to address the issues of values missing-by-design, limited availability, poor quality (“dirty”) data and individually insufficiently powered studies.


STATegra partners supporting the Workshop are:

-CLC bio (Denmark)

-Biomax Informatics AG (Germany)

-Karolinska Institutet (Sweden)

-Imperial College of Science, Technology and Medicine (UK)

-Foundation for Research and Technology – Hellas (Greece)

-Institut d’Investigació Biomèdica de Bellvitge (Spain)

-University of Amsterdam (Holland)

-University of Leiden (Holland)

-Τhe Ludwig-Maximilians University of Munich (Germany)

-University of California (USA)

-Genomic of the Gene Expression Lab, Principe Felipe Research Centre (CIPF) (Spain)


Organizing  & Scientific Program Committee:

-Ana Conesa, CIPF

-David Gómez-Cabrero, Karolinska Institutet

-Dieter Maier, Biomax

-Veronica von Saint Paul, Biomax

-Amanda Fisher, Imperial College London

-Jesper Tegnér , Karolinska Institute

-Ioannis Tsamardinos , FORTH

-Johan Westerhuis, University of Amsterdam

-Matthias Merkenschlager, Imperial College London

-Roald Forsberg, CLC bio

-Michael Lappe, CLC bio

-Vincenzo Lagani,  FORTH



We solicit papers with particular focus to the following areas:

-Methods for retrieving related omics data, integrate them, and integratively visualize them

-Methods for integrative knowledge discovery from multiple omics sources and biological knowledge

-Methods for integratively analyzing multiple omics datasets and biological knowledge. The datasets may be obtained on the same or matched biological samples but employing different omics technologies and datasets obtained on different biological samples

-Causal discovery methods for multiple omics datasets

-Methods for integration and integrative analysis of time-course omics data

-Methods for integrative network analysis stemming from multiple omics data and biological knowledge-bases

-Innovative applications of statistical, machine learning, and data mining methods to multiple omics datasets and knowledge bases

-Methods for interpretation and explanation of results obtained from various omics datasets and knowledge bases

Important Dates:

20/08/2014                                         Abstract Submission Deadline

10/09/2014                                        Abstract Notifications

15/09/2014                                        Early Registration Deadline

10/11/2014 – 12/11/2014                Workshop Dates

The submissions should be 2-page abstracts. The Program Committee of the workshop will select a set of abstract to invite for expansion and inclusion in an Edited Volume in a high-impact journal (under negotiation). For abstract formats and submission instructions see the workshop site


All aspects of the submission process will be handled online via the EasyChair Conference System at: