Dense transcript profiling in single cells by image correlation decoding.
Sequential barcoded fluorescent in situ hybridization (seqFISH) allows large numbers of molecular species to be accurately detected in single cells, but multiplexing is limited by the density of barcoded objects. We present correlation FISH (corrFISH), a method to resolve dense temporal barcodes in sequential hybridization experiments. Using corrFISH, we quantified highly expressed ribosomal protein genes in single cultured cells and mouse thymus sections, revealing cell-type-specific gene expression.
Division of Chemistry and Chemical Engineering, California Institute of Technology, Pasadena, California, USA.|Program in Biochemistry and Molecular Biophysics, California Institute of Technology, Pasadena, California, USA.
Ahmet F
AF
Coskun
Division of Chemistry and Chemical Engineering, California Institute of Technology, Pasadena, California, USA.|Program in Biochemistry and Molecular Biophysics, California Institute of Technology, Pasadena, California, USA.
Long
L
Cai
D000818:Animals; D004044:Dietary Proteins / Q000378:metabolism*; D020869:Gene Expression Profiling; D017404:In Situ Hybridization, Fluorescence / Q000379:methods*; D051379:Mice; D041681:NIH 3T3 Cells; D009693:Nucleic Acid Hybridization; D012333:RNA, Messenger / Q000235:genetics*; D012269:Ribosomal Proteins / Q000235:genetics; D059010:Single-Cell Analysis / Q000379:methods*; D014158:Transcription, Genetic
D004044:Dietary Proteins; D012333:RNA, Messenger; D012269:Ribosomal Proteins; C012551:single cell proteins