A beginners course in High Parameter Flow Cytometry Data Analysis
30th-31st October 2023
Please contact btf-enquiries@york.ac.uk for further information
Introduction
This course is designed to train beginners how to undertake high dimensional flow cytometric analysis. This will be a practical based course with the theory and concepts behind dimensionality reduction and clustering in a manner that is relevant and practical to cytometerists.
No programming experience is required, and so this will be a greater way to remove the barriers to undertaking and supporting deeper flow analysis. It will teach how to use python and flow cytometry analysis software FCS Express (De Novo, Dotmatcs) and will go through the practice as well as the pre-processing tasks required for analysis pipelines.
At the end of the course you should have an understanding of the associated mathematical algorithms, which algorithms to choose, what they illustrate about the data set and how to integrate Python scripts into the FCS Express flow cytometry analysis software.
Prerequisites to attend:
1) Your own laptop with Python installed (instructions will be provided)
2) An understanding the basic principles of flow cytometry compensation, plotting fcs data and conventional gating data analysis.
Course Programme
There will be ample opportunity during the evening for further discussion with the course tutors in more informal surroundings.
A preliminary programme is shown below:
| Day 1 | Aims |
|---|---|
| 9:30 am to 10:00 am | Reception at Department of Biology, University of York, U.K Coffee / tea will be provided |
| 10:00 am to 10:15 am | Lecture Introduction: High Parameter, Definitions, Tools, Data, Pipelines and Outputs Alastair Droop Karen Hogg |
| 11:30 am to 11:45 am | Break - Coffee / tea will be provided |
| 11:45 am to 1:00 pm | Practical part The beginnings – Python and FCS data |
| 1:00 pm to 1:45 pm | Lunch – will be provided |
| 1:45 pm to 2:45 pm | Practical – Python – exploring FCS data |
| 2:45 pm to 3:30 pm | Practical – Python – cleaning FCS data |
| 3:00 pm to 3:15 pm | Break - Coffee / tea will be provided |
| 3:15 pm to 3:30 pm | Lecture FCS Express – Data input, plot and clean |
| 3:30 pm to 4:15 pm | Practical FCS Express – Data, key words, plot, clean and explore |
| 4:15 pm to 5:15 pm | Lecture FCS Express: – High parameter data analysis |
| Day 2 | Aims |
| 8:30 am | Transport from hotel |
| 9:00 am to 9:30 am | Lecture High parameter data analysis – Dimensionality Reduction and Clustering Alastair Droop |
| 10:00 am to 11:00 am | Practical – FCS Express Dimensionality Reduction and Clustering |
| 11:00 am to 11:30 am | Break - Coffee / tea will be provided |
| 11:30 am to 1:30 pm | Practical – High Dimensional data analysis pipeline in Python Practical – High Dimensional data analysis pipeline using FCS Express with Python |
| 1:30 pm to 2:15 pm | Lunch – will be provided |
| 2:15 pm to 3:30 pm | Practical - Data analysis in practice – data sets will be provided and you choose how to analyze |
| 3:30 pm to 3:45 pm | Break - Coffee / tea will be provided |
| 3:45 pm to 4:15 pm | Q&A Data analysis in practice – analysis outputs can be shared and discussed |
| 4:15 pm to 4:55 pm | Practical - Data analysis in practice – data sets will be provided and you choose how to analyze |
| 5:00 pm to 5:15 pm | Closing comments |
Note: schedule is provisional and subject to change
Course Tutors
Venue and Accommodation
The course will use the resources and instrumentation of the Technology Facility, which is part of the Department of Biology and is housed in a £25M building completed in 2002.
Accommodation for Monday evening is included in the course fees. Pre and post course accommodation is also available for an additional cost provided sufficient notice is given. All accommodation will be at the Hotel Indigo in York city centre.
This historic walled city with its medieval guild halls and hostelries offers many attractions for the visitor, including the Jorvik Viking Centre, the National Railway Museum, York Minster, York Castle Museum, Clifford's Tower and the Merchant Adventurers' Hall. York is set in the centre of the Vale of York with the Yorkshire Dales, Moors and Wolds, and stately homes and other attractions are all within easy reach.
Course Booking
30-31st October 2023
The registration fee covers accommodation on Monday night, all lunches and Monday evening meal, refreshments, tuition, links or digital content will be available after the course has finished. The special course dinner on the Monday evening will be in the historic city of York.
The course investment fee is: £650 Academic Rate | £850 Industrial Rate
As the number of places is limited, early registration is advised. To register for the Flow Cytometry Hands-on Course, please fill in the registration form 30-31_Oct_Reg_Form_Parameter (MS Word 
, 27kb) and email to btf-enquiries@york.ac.uk
Refund Policy
The full registration fees are payable in advance and there is a 10% administrative charge for cancellations received in writing up to 20 working days before the start of the course. No refunds will be made for cancellations received within 20 working days of the course start date or for the inability to attend the course for whatever reasons. The University is not liable for non-attendance due to travel disruptions, health problems or any other reason that might lead to a delegate not being able to attend the course. You are strongly advised to ensure you have appropriate insurance. Substitutions may, of course, be made at any time, providing you inform us in writing.
How to get here
The University of York enjoys a splendid campus location just two miles from the centre of York itself. Getting to York is easy from anywhere in the world. There are excellent rail links which have a short travel time to international airports and we have easy to access major road networks.
The Biology Department is within Campus West at the University and maps and travel information can be found by visiting: https://www.york.ac.uk/about/maps/
More Information
For any further questions concerning the course itself, please contact:
Dr Karen Hogg
Department of Biology (Area 15)
University of York
York YO10 5DD
UK
Tel: +44 (0)1904 328720
Fax: +44 (0)1904 328804
E-mail: karen.hogg@york.ac.uk
