CytoData 2017

What’s it about? :   Following the success of last years CytoMining Hackathon, where data scientists from 20 of the worlds top high-content screening laboratories came together to set a path for the field, the hackathon is back and more. Running over 3 days, we’ll begin with a day of talks, networking, and discussion at the CytoAnalytics Symposium before getting down to coding with the CytoMining Hackathon . For the Hackathon we’ll prepare a previously unseen imaging dataset. Working in groups, your task will be to develop novel software and analysis techniques to extract information from the dataset. Following this, your group will pitch the project to a panel of judges where prizes will be awarded, and hopefully new collaborations and ideas formed.

Why Attend? :   The ability to automatically mine vast amounts of information from ever larger microscopy imaging datasets, is driving change in the way we discover and characterise the behaviour of new drugs, genes, and biological mechanisms. At the heart of automatic ‘morphological profiling’ platforms lies software and workflows which can identify, segment and extract features from individual cells subjected to experimental perturbation. As the community of programmers and data analysts at the front line of analysing high-throughput microscopy data, we are uniquely placed to push the field forward, and develop novel technologies that will revolutionise the future of high throughput screening, systems biology and drug discovery. The Cytomining Hackathon represents the first event where our community can come together conceive and concoct new ideas and directions, as well as laying down standard practices that will ensure reproducibility and forward momentum in years to come. With last years Hackathon attracting wide publicity, notably a mention in Science, as well as spawning what will be the most comprehensive review of practices in the field to date, you should definitely fear missing the 2017 CytoAnalytics Symposium and CytoMining Hackathon!



We'd like to thank our current sponsors for making this event possible, we are also still looking for world-leading companies in the field of high content imaging to sponsor our event so please get in contact if you are interested in sponsorship opportunities:



PerkinElmer are industry leaders in developing high-content and high-throughput imaging platforms and data analysis tools. Working closely with many of the labs and groups attending the symposium and hackathon, PerkinElmer have a wealth of experience in understanding and tackling major challenges in the high content field. We are very grateful for their sponsorship and are excited for the talks being given by their top researchers on the future of high-throughput microscopy and data analysis.



Rockley Photonics represents the commercialization of silicon photonics technology in its most exciting form yet. We are pleased to have them on board as sponsors, as this highly innovative start-up could soon be a game changing company in the world integrated optical devices.

Challenge Sponsors:


Challenge: The Recursion Pharmaceuticals Neuron Segmentation Challenge

Recursion Pharmaceuticals are an innovative start-up using machine and deep learning techniques to discover new therapeutic opportunities, targeting rare diseases.


Keep up to date with latest news on the hackathon


Less than two weeks to go!

There's now less than two weeks to go until the hackathon. We have a completed schedule now, check it out! Also we've just secured lunch at the famous Anglesea Arms pub on the Wednesday.


The speakers are set

With the symposium approaching we have nearly got a full set of speakers only one or two more to go!


Announcing CytoData 2017

Registration for the cytomining hackathon and cytoanalytics symposium is now live!

Key information

Accommodation: We are working on trying to organise a deal with the Hilton Doubletree Kensington Hotel. Otherwise Expedia gave better prices than any we tried to negotiate, so take your pick there!

Food and Drink:   Dinners and lunches will be provided as per the schedule. Snacks and hot drinks will be available throughout the day to keep you energised during Hacking.

Costs:   Whilst you will have to pay for transport and accommodation costs, we will endeavour to fund everything else. For people coming from for-profit companies there may be a small fee, however this won’t exceed £250.

What to bring: A laptop.


To help networking at the event, send in a profile and we will put it up on the website!

Olaf Ronneberger
Google DeepMind & Team Leader Freiburg University

Olaf is a world leader in developing deep convolutional neural networks for analysing biomedical images, running both a team in Germany and working with Google's Deepmind in London

Marc Bickle
Head:   MPG-MPI Screening Facility

Marc currently heads the High Throughput Technology Development Studio at the MPG-MPI in Dresden, Germany, where he develops RNAi and chemical high content screens.

Maria Montoya
Team leader:   CNIC Cellomics

Maria runs the Cellomics team at CNIC who focues on the design, development (miniaturization, automation, analysis) and performance of siRNA library and drug screening.

Kaupo Palo
Team Leader: PerkinElmer, Tallinn

Kaupo runs the team behind Acapella, PerkinElmer's industry leading image analysis toolkit and scripting language, integrating cutting edge R&D into user friendly products.

Davide Danovi
Head:   Kings Cell Phenotyping Unit

Davide develops and uses high content pipelines to explore how induced pluripotent stem cell models can be used for disease modeilling and drug profiling

Mike Ando
Research Scientist:   Google

Mike is a research scientist on the Google Accelerated Science team. His focus is applying deep learning to high-content image datasets.

YinYin Yuan
Team Leader:   ICR

By combining high-throughput pathological image analysis with machine learning Yinyin and her team study how cancers invade and spread amidst healthy tissue

Neil Carragher
Team Leader:   Edinburgh Uni.

Neil leads the Drug Discovery team at the University of Edinburgh, where he also co-directs the Edinburgh Cancer Discovery Unit and Phenotypic Assay Centre.

Jason Swedlow
Team Leader: Dundee University

Jason Swedlow is a Professor of Quantitative Cell Biology at Dundee University, he is also a key founding member of the open microscopy environment consortium (OME)

Oren Kraus
PhD:   Toronto

Oren is a PhD student in the Frey lab where he uses deep learning strategies to analyse single cell phentypes and subcellular protein localisation from high-throughput imaging data

Rafael Carazo Salas
Team Leader:   Bristol

My work seeks to elucidate how biological networks allow cells undertake fate decisions, using quantitative 3D high-throughput/high-content microscopy phenomics.

Chris Bakal
Team Leader:   ICR

My lab focuses on understanding how signalling networks regulate cell fate decisions using live-cell, high-throughput, and 3D imaging methods.

Sam Cooper
PhD:   ICL & ICR

My focus is developing software for high-content live single cell screens. I also analyse a wide variety of imaging data for the Bakal lab and collaborators.

Registration & Location

Please register for this event on EventBrite .

If you have any questions, please email me at

Otherwise, we look forward to seeing you in London!