PT  - JOURNAL ARTICLE
AU  - Rumana Rashid
AU  - Giorgio Gaglia
AU  - Yu-An Chen
AU  - Jia-Ren Lin
AU  - Ziming Du
AU  - Zoltan Maliga
AU  - Denis Schapiro
AU  - Clarence Yapp
AU  - Jeremy Muhlich
AU  - Artem Sokolov
AU  - Peter Sorger
AU  - Sandro Santagata
TI  - Highly multiplexed immunofluorescence images and single-cell data of immune markers in tonsil and lung cancer
AID  - 10.1101/704114
DP  - 2019 Jan 01
TA  - bioRxiv
PG  - 704114
4099  - http://biorxiv.org/content/early/2019/07/17/704114.short
4100  - http://biorxiv.org/content/early/2019/07/17/704114.full
AB  - In this data descriptor, we document a dataset of multiplexed immunofluorescence images and derived single-cell measurements of immune lineage and other markers in formaldehyde-fixed and paraffin-embedded (FFPE) human tonsil and lung cancer tissue. We used tissue cyclic immunofluorescence (t-CyCIF) to generate fluorescence images which we artifact corrected using the BaSiC tool, stitched and registered using the ASHLAR algorithm, and segmented using ilastik software and MATLAB. We extracted single-cell features from these images using HistoCAT software. The resulting dataset can be visualized using image browsers and analyzed using high-dimensional, single-cell methods. This dataset is a valuable resource for biological discovery of the immune system in normal and diseased states as well as for the development of multiplexed image analysis and viewing tools.View this table: