Single-cell barcode analysis provides a rapid readout of cellular signaling pathways in clinical specimens

Randy J. Giedt, Divya Pathania, Jonathan C. T. Carlson, Philip J. McFarland, Andres Fernandez Castillo, Dejan Juric and Ralph Weissleder ()
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Randy J. Giedt: Massachusetts General Hospital
Divya Pathania: Massachusetts General Hospital
Jonathan C. T. Carlson: Massachusetts General Hospital
Philip J. McFarland: Massachusetts General Hospital
Andres Fernandez Castillo: Massachusetts General Hospital
Dejan Juric: Massachusetts General Hospital
Ralph Weissleder: Massachusetts General Hospital

Nature Communications, 2018, vol. 9, issue 1, 1-10

Abstract: Abstract Serial tissue sampling has become essential in guiding modern targeted and personalized cancer treatments. An alternative to image guided core biopsies are fine needle aspirates (FNA) that yield cells rather than tissues but are much better tolerated and have lower complication rates. The efficient pathway analysis of such cells in the clinic has been difficult, time consuming and costly. Here we develop an antibody-DNA barcoding approach where harvested cells can be rapidly re-stained through the use of custom designed oligonucleotide-fluorophore conjugates. We show that this approach can be used to interrogate drug-relevant pathways in scant clinical samples. Using the PI3K/PTEN/CDK4/6 pathways in breast cancer as an example, we demonstrate how analysis can be performed in tandem with trial enrollment and can evaluate downstream signaling following therapeutic inhibition. This approach should allow more widespread use of scant single cell material in clinical samples.

Date: 2018
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DOI: 10.1038/s41467-018-07002-6

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