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bioRxiv · 10.1101/704114

Highly multiplexed immunofluorescence images and single-cell data of immune markers in tonsil and lung cancer

Rashid, R.·Gaglia, G.·Chen, Y.-A.·Lin, J.-R.·Du, Z.·Maliga, Z.·Schapiro, D.·Yapp, C.·Muhlich, J.·Sokolov, A.·Sorger, P.·Santagata, S.
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Abstract

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.\n\nMETADATA SUMMARY\n\nO_TBL View this table:\norg.highwire.dtl.DTLVardef@6edf3eorg.highwire.dtl.DTLVardef@1026e07org.highwire.dtl.DTLVardef@85a7baorg.highwire.dtl.DTLVardef@c6d7e5org.highwire.dtl.DTLVardef@87fccf_HPS_FORMAT_FIGEXP M_TBL C_TBL

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Rashid, R., Gaglia, G., Chen, Y.-A., Lin, J.-R., Du, Z., Maliga, Z., Schapiro, D., Yapp, C., Muhlich, J., Sokolov, A., Sorger, P., Santagata, S.. 2019-07-17. Highly multiplexed immunofluorescence images and single-cell data of immune markers in tonsil and lung cancer. https://doi.org/10.1101/704114

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