Combined quantification of intracellular (phospho-)proteins and transcriptomics from fixed single cells

Jan P. Gerlach, Jessie A.G. van Buggenum, Sabine E.J. Tanis, Mark Hogeweg, Branco M.H. Heuts, Mauro J. Muraro, Lisa Elze, Francesca Rivello, Agata Rakszewska, Alexander van Oudenaarden, Wilhelm T.S. Huck, Hendrik G. Stunnenberg, Klaas W. Mulder

Research output: Contribution to journalArticlepeer-review

57 Citations (Scopus)


Environmental stimuli often lead to heterogeneous cellular responses and transcriptional output. We developed single-cell RNA and Immunodetection (RAID) to allow combined analysis of the transcriptome and intracellular (phospho-)proteins from fixed single cells. RAID successfully recapitulated differentiation-state changes at the protein and mRNA level in human keratinocytes. Furthermore, we show that differentiated keratinocytes that retain high phosphorylated FAK levels, a feature associated with stem cells, also express a selection of stem cell associated transcripts. Our data demonstrates that RAID allows investigation of heterogeneous cellular responses to environmental signals at the mRNA and phospho-proteome level.

Original languageEnglish
Article number1469
JournalScientific Reports
Issue number1
Publication statusPublished - 1 Dec 2019
Externally publishedYes


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