This is a great paper - thanks for sharing! Sitting with SC data and wonder if one could baseline PD1 expression to a effector gene to establish level of exhaustion? Not sure whether my cells are exhausted or just activated - effector cells have some levels of PD1 too?
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Hey Nils! You're right, PD-1 is not a super informative exhaustion marker in isolation because of it's presence on activated effector T cells. Expression (or lack thereof) of key transcription factors (ex. TOX) seems to be a more nuanced way of decoding exhaustion from activation
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Great work!
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