RADIANT workshop at Basel Computational Biology Conference

Computational methods for high-dimensional single-cell mass cytometry data
9th June 2015, Basel, Switzerland

Organising Committee

Bernd Bodenmiller
Magnus Rattray
Mark Robinson

Background: Breakthroughs in technology are facilitating the detailed study of single cells on a large scale. One new and promising technology, which is now commercialized by Fluidigm, is the CyTOF 2 Mass Cytometer. This instrument allows simultaneous detection of 30+ proteins with capacity to measure well over 100. The technology is driving new avenues of discovery and understanding in single-cell biology with the ability to characterize cell type, function and signaling across a mixed population of cells from a single assay. The technology combines antibodies that are conjugated to stable metal isotopes with time-of-fight mass spectrometry; essentially, a 30+ dimensional measurement is taken on every cell processed. There is already a large body of methods available for the processing and analysis of this data, such as SPADE and viSNE for clustering and visualization, infrastructure in Bioconductor for preprocessing such as OpenCyto, finding cell population signatures using 'citrus' and many new tools are becoming available through online resources, such as CytoBank. Given the excitement and potential of this relatively new technology and the rapid development of data analysis tools, it is timely to bring together researchers, methodologists and new developers with interest in single cell technologies.

Expected goals: The workshop will bring together leading researchers working on computational tools in the single-cell analysis space, with specific emphasis on methods for flow and mass cytometry data. Our aim is to help method developers and users better understand the relative merits of current tools, to present new ideas and facilitate possibilities for community-based benchmarking of the technology. The workshop will cover current statistical and computational challenges, such as:

Target audience: Computational biologists, statisticians, genome biologists with an interest in data analysis and statistical methods for high-dimensional (mass cytometry-based) single cell experiments.


Workshop Programme

13:50-13:55 Introductions
13:55-14:25 cyt - interactive open-source computational tool for analysis of high-dimensional mass cytometry data
Michelle Tadmor
14:25-14:55 Automated data processing and cellular discovery by ACCENSE
Yang Chen

Single-cell analysis of human and mouse immune system
Jinmiao Chen

15:25-15:45 Coffee
15:45-16:15 Automated data analysis for diagnosis and discovery
Mehrnoush Malek
16:15-16:45 Characterizing antigen-specific cells using high dimensional cytometry
Raphael Gottardo
16:45-17:15 Data-Driven Identification of Stratifying Cellular Signatures with Citrus
Rob Bruggner
17:15-17:45 Big Data in Single Cell Biology: Cytobank's analytic approaches and pipelines for the growing multi-parameter cytometry space
Tiffany Chen


For registration information see the [BC]2 2015 website