Combined quantification of intracellular (phospho-)proteins and transcriptomics from fixed single cells.
Jan P GerlachJessie A G van BuggenumSabine E J TanisMark HogewegBranco M H HeutsMauro J MuraroLisa ElzeFrancesca RivelloAgata RakszewskaAlexander van OudenaardenWilhelm T S HuckHendrik G StunnenbergKlaas W MulderPublished in: Scientific reports (2019)
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.
Keyphrases
- stem cells
- single cell
- induced apoptosis
- rna seq
- cell cycle arrest
- endothelial cells
- binding protein
- endoplasmic reticulum stress
- transcription factor
- reactive oxygen species
- machine learning
- deep learning
- signaling pathway
- oxidative stress
- bone marrow
- big data
- heat shock
- climate change
- wound healing
- risk assessment
- pi k akt
- artificial intelligence
- neural network