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Automated Gating of Flow Cytometry Data using Rho Path Distance
http://www.genengnews.com/insight-and-intelligenceand153/flow-cytometry-goes-atomic/77899583/
Keyi WuProject Leader: Matthew Hirn
Flow Cytometry
Laser based
Used in:
cell counting
cell sorting
biomarker detection
indicates normal biological & pathogenic processes
protein engineering
Physical & chemical properties of cells
Diagnosis of health disorders http://www.scq.ubc.ca/flow-cytometry-a-technology-to-count-and-sort-cells/
Gating
Sequentially separate regions based on fluorescence intensity
Specific protocol exists for diagnostic and clinical purposes
Path Distance
rho -> 0 : shortest path measured purely based on adding local distance
rho -> Inf : distance defined by “worst” segment in path
Compute in Parallel
Divide data (size N) into sections each with less than a desired amount of points (n)
Define boundary points for all boxes
Calculate local and global distance within each box & for boundary points
Find path between points not in same box through boundary paths
Principal Component Analysis (PCA)
Linear dimensionality reduction technique
Finds dimension in which variance is maximal
Partitioning Data
Boxes PCA
Ratio of distance computed from parallel vs. regular
Future work
Increase efficiency of code
FlowCAP - Flow Cytometry: Critical Assessment of Population Identification Methods