Integrative Bioinformatics 2018

Wednesday, 13 June 2018 9:30 AM - Friday, 15 June 2018 4:30 PM GST

Rothamsted Research, Harpenden, England, AL5 2JQ, United Kingdom

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2. Review and Proceed

Wednesday, 13 June 2018 9:30 AM - Friday, 15 June 2018 4:30 PM GST

 

In the post-genomics era, we are drowning in data but are starved for knowledge. Integrative Bioinformatics provides the key science and technology platforms to integrate, align and model heterogenous data types to generate meaningful insights from big data and from complex biological systems. This meeting will bring together experts in the field of bioinformatics, computer science, statistics, computational and systems biology. This year, in addition to scientific presentations, it will include workshops, flash talks, software demos, poster presentations and networking opportunities. For more information check out: http://imbio.de/ib2018 

IB2018 Poster

Registration

Registration includes attendance at the symposium; refreshment breaks; lunches; a conference networking party at the historic Rothamsted Manor on the evening of Thursday 14 June; and a shuttle service between Rothamsted Conference Centre and the Aubrey Park Hotel. 

Submission

IB2018 is now accepting abstracts for short/flash talks and posters. We are using EasyChair  for abstract submissions. If you don't already have an account, you'll need to create one. The deadline for abstract submission is rapidly approaching (7 May) so plan to submit soon. 

  • Flash talks (10-15min) describing integrative bioinformatics research, tools and resources. Deadline 7 May 2018.
  • Posters describing integrative bioinformatics research, tools and resources. Extended Deadline 29 May 2018.

Venue & Accomodation

The 14th Integrative Bioinformatics Symposium takes place at Rothamsted Research - the longest running agricultural research institute in the world. The Rothamsted Conference Centre is uniquely situated to host international science events with close proximity to London Luton and Heathrow airports.

We have a negotiated conference rate of £81.00 bed and breakfast at the Aubrey Park Hotel. Please quote "IB2018 - Rothamsted" when making the booking. Bookings can only be made by phone (+44 (0)1582 792 105) or by e-mail (reservations@aubreypark.co.uk). Transport to and from Aubrey Park Hotel will be provided. Aubrey Park is now fully booked on 14th JuneThe Premier Inn in St. Albans has still rooms available and is in easy commute distance to Rothamsted. For more information about venue and hotels, go to the main IB2018 website.

 

IBOrganiser Admin

http://imbio.de/ib2018

The local organizers of #IBUK2018 are Keywan Hassani-Pak (Head of Bioinformatics) and Chris Rawlings (Head of Computational and Analytical Sciences Department) from Rothamsted Research. Their research interest lies in all aspects of integrative bioinformatics including data integration, linked data, knowledge management, text mining, graph theory, deep learning and visual analytics. The Hassani-Pak lab builds genome-scale knowledge networks across species and develops open-source software (e.g. KnetMiner, Ondex) for interactive knowledge discovery and gene network mining. The larger IB2018 organizing committee include Ralf Hofestaedt (University of Bielefeld), Falk Schreiber and Bjoern Sommer (University of Konstanz).

Contact the Organizer

Keywan Hassani-Pak
Head of Bioinformatics at Rothamsted Research

Keywan is head of bioinformatics at Rothamsted Research and founder of KnetMiner. His research focuses on all aspects of integrative bioinformatics including data integration, knowledge management, text mining, graph theory, deep learning and visual analytics. The Hassani-Pak lab builds genome-scale knowledge networks, develops open-source software and applies data analytics to accelerate candidate gene discovery across species.

https://www.rothamsted.ac.uk/our-people/keywan-hassani-pak

About Keywan Hassani-Pak

Head of Bioinformatics at Rothamsted Research
Evangelia Petsalaki
Group Leader Whole-cell Signalling (EMBL-EBI)

Evangelia Petsalaki's research group studies human cell signalling in healthy and disease conditions. The group uses interdisciplinary approaches, including data-driven network inference, modelling of cell processes and data integration, to understand how different environmental or genetic conditions affect cell signalling responses leading to diverse cell phenotypes.

https://www.ebi.ac.uk/about/people/evangelia-petsalaki

About Evangelia Petsalaki

Group Leader Whole-cell Signalling (EMBL-EBI)
Christine Orengo
Professor of Bioinformatics (UCL)

Christine Anne Orengo is a Professor of Bioinformatics at University College London (UCL), known for her work on protein structure, particularly the CATH database.

About Christine Orengo

Professor of Bioinformatics (UCL)
Gos Micklem
Group Leader and Head of the InterMine project

Gos leads an interdisciplinary research group, using computational and laboratory techniques to carry out basic and applied research in biology. A special focus is on the development and application of integrative genomics methods. His work ranges from developing open source community resources such as the data warehouse system InterMine, to collaborative research projects in a range of areas including genome sequencing and annotation, functional genomics, synthetic biology and cancer research.

About Gos Micklem

Group Leader and Head of the InterMine project
Jennifer Cham
Lead User Experience Analyst (EBI)

Dr. Jenny Cham is a proteomics scientist turned User Experience (UX) Designer, who founded the UX design capability at the European Bioinformatics Institute in 2009. She believes that well designed scientific software leads to more productive researchers and a more efficient R&D process. She blogs about UX design and science at jennycham.co.uk.

http://www.jennycham.co.uk/

About Jennifer Cham

Lead User Experience Analyst (EBI)
Mark Needham
Developer Relations Engineer at Neo4j

Mark Needham is a graph advocate and developer relations engineer at Neo4j. As a developer relations engineer, Mark helps users embrace graph data and Neo4j, building sophisticated solutions to challenging data problems.

https://neo4j.com/blog/contributor/mark-needham/

About Mark Needham

Developer Relations Engineer at Neo4j
Paul Groth
Director of Disruptive Technologies at Elsevier Labs

Paul's research focuses on intelligent systems for dealing with large amounts of diverse contextualized knowledge with a particular focus on web and science applications. This includes research in data provenance, data science, data integration and knowledge sharing.

About Paul Groth

Director of Disruptive Technologies at Elsevier Labs
Carole Goble
Professor of Computer Science and Head of ELIXIR UK

Carole's research interests include Grid computing, the Semantic Grid, the Semantic Web, Ontologies, e-Science, medical informatics, Bioinformatics, and Research Objects. She applies advances in knowledge technologies and workflow systems to solve information management problems for life scientists and other scientific disciplines.

About Carole Goble

Professor of Computer Science and Head of ELIXIR UK
Björn Grüning
Head of Freiburg Galaxy Project

Dr Björn Grüning heads the Freiburg Galaxy Project. He is a prominent contributor to, and is a driving force in, the Galaxy community. His contributions include several that feature reproducible and accessible research including the recent article “Enhancing pre-defined workflows with ad hoc analytics using Galaxy, Docker and Jupyter” (Grüning, et al, 2017). His research interests include data visualisation, computational chemistry, and epigenetics.

About Björn Grüning

Head of Freiburg Galaxy Project
Tamás Korcsmáros
Computational Biology Fellow (Earlham Institute)

His research is currently combining computational and experimental approaches to predict, analyse and validate host-microbe interactions in the gut, especially in relation to the regulation of autophagy by microbes and upon disease conditions such as inflammatory bowel disease and cancer. Tamás is the co-founder of two network analysis companies and coordinated 3 innovation grant programs.

About Tamás Korcsmáros

Computational Biology Fellow (Earlham Institute)
Matthias Lange
Research Software Engineer (IPK)

Matthias's research focuses on information retrieval, search engine technology, and research data management. He is responsible for IPK datacenter activities in the frame of the DataCite consortium. He supervises work packages in the German Plant Phenotyping Network (DPPN), the German Network for Bioinformatics Infrastructure (de.NBI) and contributes in the EU transPlant research project to build up a trans-national data infrastructure for plant genomics data.

About Matthias Lange

Research Software Engineer (IPK)
Marco Brandizi
Bioinformatics Software Engineer (Rothamsted)

Marco has more than 10 years experience of developing software for the life sciences. He has specialised in biomedical data management, in particular bio-ontologies, linked data and Semantic Web technologies.

About Marco Brandizi

Bioinformatics Software Engineer (Rothamsted)
Gancho Slavov
Group Leader Statistical Genetics (Rothamsted)

Gancho is interested in both fundamental and applied population/quantitative genetics. His basic research is aimed at gaining greater understanding of the processes that shape patterns of genetic variation within and among populations. His current work focuses on developing integrative methodology that can be used to dissect the genomic architectures of quantitative traits and predict population- and individual-level phenotypes across different environments and management schemes.

About Gancho Slavov

Group Leader Statistical Genetics (Rothamsted)
Ajit Singh
Bioinformatics Software Developer (Rothamsted)

Ajit works on the development of data integration tools for Ondex and building novel data visualization components for KnetMiner. Ajit has most recently been working on KnetMaps (https://ondex.rothamsted.ac.uk/KnetMaps/), a touch-friendly web-based tool to visualize heterogeneous knowledge networks.

https://www.rothamsted.ac.uk/our-people/ajit-singh

About Ajit Singh

Bioinformatics Software Developer (Rothamsted)
Simon Jupp
Ontology Project Lead (EBI)

Simon Jupp is a Bioinformatician in EMBL-EBI's Samples, Phenotypes and Ontologies team with a special interest in the development of ontologies and linked open data for the life sciences. The resources he works on include the EMBL-EBI's RDF platform, Experimental Factory Ontology, Cellular Microscopy Phenotype Ontology, Zooma, and the Ontology Lookup Service.

About Simon Jupp

Ontology Project Lead (EBI)
Michael Sternberg
Director Centre for Bioinformatics (Imperial College)

Professor Sternberg entered Bioinformatics via his D.Phil in Biophysics (Oxford). He obtained a first degree in Physics (Cambridge) and a Masters in Computing (Imperial College). The main research interests of his group are: Prediction of protein structure and function, prediction of macromolecular docking and interactions, prediction of the effect of genetic variants, network modelling for Systems Biology and logic-based drug design.

https://www.imperial.ac.uk/people/m.sternberg

About Michael Sternberg

Director Centre for Bioinformatics (Imperial College)
Martin Hemberg
CDF Group Leader (Sanger)

Martin Hemberg is a Career Development Fellow Group Leader and his research interests are centered around quantitative models of gene expression and gene regulation. He is particularly interested in stochastic models and analysis of single-cell data. Another line of research involves analyzing the role of non-coding transcripts and sequences.

https://www.sanger.ac.uk/people/directory/hemberg-martin

About Martin Hemberg

CDF Group Leader (Sanger)
Cyril Pommier
Information System and Data Integration Deputy Leader (INRA URGI)

Cyril Pommier currently works at the Department of Plant Breeding and Genetics, French National Institute for Agricultural Research. Cyril does research in Agricultural Plant Science, Information Science and Data Mining. Their current project is 'Distributed information system for phenotyping, genetic and genomic.'

About Cyril Pommier

Information System and Data Integration Deputy Leader (INRA URGI)
Chris Evelo
Professor of Bioinformatics for Integrative Systems Biology

Chris Evelo is head of the Department of Bioinformatics - BiGCaT at Maastricht University, which he started in 2001. His main research interest is to integrate different bioinformatics approaches to allow real understanding of the data generated in large scale genomics experiments.

About Chris Evelo

Professor of Bioinformatics for Integrative Systems Biology

About Bayer Crop Science

https://www.cropscience.bayer.com/ Sponsor Logo

About French Institute of Bioinformatics

http://www.france-bioinformatique.fr/ Sponsor Logo

About German Network for Bioinformatics Infrastructure

http://www.denbi.de/ Sponsor Logo

About Rothamsted Research

http://www.rothamsted.ac.uk Sponsor Logo

About F1000 Research

https://f1000research.com/ Sponsor Logo

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Sessions on Jun 13, 2018

10:00 AM
Workshops - Tech

FAIR Data Management for Plant Genomics & Phenomics

10:00 AM - 01:00 PM
  • Matthias Lange

    Research Software Engineer (IPK)

Workshops - Bio

Phyre protein structure prediction

10:00 AM - 01:00 PM
  • Michael Sternberg

    Director Centre for Bioinformatics (Imperial College)

01:00 PM

Lunch

01:00 PM - 02:00 PM
02:00 PM
Workshops - Tech

Data integration and biological knowledge discovery with RDF, Ondex, KnetMiner, Neo4j and Genestack

02:00 PM - 05:30 PM
  • Marco Brandizi

    Bioinformatics Software Engineer (Rothamsted)

Workshops - Bio

COPO - A portal for plant scientists to describe, store and retrieve data more easily

02:00 PM - 05:30 PM
06:30 PM

Pub Social in Harpenden Arms

06:30 PM - 10:00 PM

Sessions on Jun 14, 2018

09:30 AM

Session 1: Bioinformatics resources for gene discovery

09:30 AM - 01:00 PM
01:00 PM

Lunch break and poster presentation

01:00 PM - 02:30 PM
02:30 PM

Session 2: Multi-omics and systems biology

02:30 PM - 06:00 PM
06:00 PM

Walk to modern Field Scanalyzer and historic Rothamsted Manor

06:00 PM - 07:00 PM
07:00 PM

Reception and dinner at Rothamsted Manor

07:00 PM - 10:00 PM
10:00 PM

Coaches depart to Aubrey Park Hotel

10:00 PM - 10:30 PM

Sessions on Jun 15, 2018

09:30 AM

Session 3: From FAIR data to knowledge graphs to AI

09:30 AM - 01:00 PM
01:00 PM

Lunch break and poster presentation

01:00 PM - 02:00 PM
02:00 PM

Session 4: Better software, better research

02:00 PM - 04:00 PM
04:00 PM

Close and Depart

04:00 PM - 04:30 PM