Metadata record for the article: Spatial distribution of B cells and lymphocyte clusters as a predictor of triple negative breast cancer outcome

Summary

This
metadata record provides details of the data supporting the claims of the
related article: “Spatial distribution of B cells and
lymphocyte clusters as a predictor of triple negative breast cancer outcome”.

The
related study hypothesised that spatial distribution rather than density of B
cells within tumours may provide prognostic significance, then developed
statistical techniques (fractal dimension differences and a box counting method
‘occupancy’) to analyse the spatial distribution of tumour-infiltrating
lymphocytes (TILs) in human triple negative breast cancer (TNBC).

Type of data:
positions (x-y coordinates) of different types of cells that were stained
different colours in images

Subject of
data: Homo sapiens

Sample size:
36

Recruitment:
De-identified tissue samples were obtained from the CoH Biospecimen Repository.
Samples from patients diagnosed with triple negative breast cancer and treated
at COH from January 1, 1994 to March 4, 2015 were retrieved.

Data
access

All data are
contained in the R Data file ‘PatientPointPatterns.rds’, which is openly
available with this data record. The file contains a list of 36 marked point patterns in ppp
format, usable by the R package "spatstat". Each pattern corresponds
to a single patient. Relevant marks include "Tissue.Category" (marks
points as belonging to cancer islands or stroma) and "Phenotype"
(marks points as cancer, stromal, or immune cells). X and Y coordinates have
units of microns.

Corresponding author(s) for this study

Clare
C. Yu, Department of Physics and Astronomy, University of California, Irvine,
Irvine, CA 92697 [e-mail]

Peter
P. Lee, Department of Immuno-Oncology, City of
Hope Comprehensive Cancer Center and Beckman Research Institute, 1500 East
Duarte Road, Duarte, CA 91010. [e-mail]

Study approval

Specimens
were identified through an IRB-approved protocol via the City of Hope (COH)
Biospecimen Repository which is funded in part by the National Cancer
Institute.