title: Transcriptional profiling of cells sorted by RNA abundance.
abstract: We have developed a quantitative technique for sorting cells on the basis of endogenous RNA abundance, with a molecular resolution of 10-20 transcripts. We demonstrate efficient and unbiased RNA extraction from transcriptionally sorted cells and report a high-fidelity transcriptome measurement of mouse induced pluripotent stem cells (iPSCs) isolated from a heterogeneous reprogramming culture. This method is broadly applicable to profiling transcriptionally distinct cellular states without requiring antibodies or transgenic fluorescent proteins.
authors.affiliation: Department of Electrical Engineering and Computer Science, Massachusetts Institute of Technology, Cambridge, Massachusetts, United States.
authors.forename: Sandy
authors.initials: S
authors.lastname: Klemm
authors.affiliation: Department of Physics, Massachusetts Institute of Technology, Cambridge, Massachusetts, United States.
authors.forename: Stefan
authors.initials: S
authors.lastname: Semrau
authors.affiliation: Hubrecht Institute - Royal Netherlands Academy of Arts and Sciences, Utrecht, The Netherlands.|University Medical Center Utrecht, Utrecht, The Netherlands.
authors.forename: Kay
authors.initials: K
authors.lastname: Wiebrands
authors.affiliation: Hubrecht Institute - Royal Netherlands Academy of Arts and Sciences, Utrecht, The Netherlands.|University Medical Center Utrecht, Utrecht, The Netherlands.
authors.forename: Dylan
authors.initials: D
authors.lastname: Mooijman
authors.affiliation: Department of Biology, Massachusetts Institute of Technology, Cambridge, Massachusetts, United States.|Whitehead Institute for Biomedical Research, Cambridge, Massachusetts, United States.
authors.forename: Dina A
authors.initials: DA
authors.lastname: Faddah
authors.affiliation: Department of Biology, Massachusetts Institute of Technology, Cambridge, Massachusetts, United States.|Whitehead Institute for Biomedical Research, Cambridge, Massachusetts, United States.
authors.forename: Rudolf
authors.initials: R
authors.lastname: Jaenisch
authors.affiliation: Department of Physics, Massachusetts Institute of Technology, Cambridge, Massachusetts, United States.|Hubrecht Institute - Royal Netherlands Academy of Arts and Sciences, Utrecht, The Netherlands.|University Medical Center Utrecht, Utrecht, The Netherlands.|Department of Biology, Massachusetts Institute of Technology, Cambridge, Massachusetts, United States.|Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology, Cambridge, Massachusetts, United States.
authors.forename: Alexander
authors.initials: A
authors.lastname: van Oudenaarden
mesh_terms: D000483:Alleles; D000818:Animals; D018929:Cell Culture Techniques; D065150:Cellular Reprogramming; D004318:Doxycycline / Q000737:chemistry; D053595:Embryonic Stem Cells / Q000166:cytology; D005347:Fibroblasts / Q000378:metabolism; D005434:Flow Cytometry; D020869:Gene Expression Profiling; D055106:Genome-Wide Association Study; D049452:Green Fluorescent Proteins / Q000378:metabolism; D017404:In Situ Hybridization, Fluorescence; D057026:Induced Pluripotent Stem Cells / Q000166:cytology*; D051379:Mice; D041681:NIH 3T3 Cells; D020411:Oligonucleotide Array Sequence Analysis; D016133:Polymerase Chain Reaction; D012313:RNA / Q000378:metabolism*; D012333:RNA, Messenger / Q000378:metabolism; D014158:Transcription, Genetic; D019076:Transgenes
chemical_list: D012333:RNA, Messenger; D049452:Green Fluorescent Proteins; D012313:RNA; D004318:Doxycycline