title: In situ sequencing for RNA analysis in preserved tissue and cells.
abstract: Tissue gene expression profiling is performed on homogenates or on populations of isolated single cells to resolve molecular states of different cell types. In both approaches, histological context is lost. We have developed an in situ sequencing method for parallel targeted analysis of short RNA fragments in morphologically preserved cells and tissue. We demonstrate in situ sequencing of point mutations and multiplexed gene expression profiling in human breast cancer tissue sections.
authors.affiliation: Science for Life Laboratory, Department of Biochemistry and Biophysics, Stockholm University, Stockholm, Sweden.
authors.forename: Rongqin
authors.initials: R
authors.lastname: Ke
authors.forename: Marco
authors.initials: M
authors.lastname: Mignardi
authors.forename: Alexandra
authors.initials: A
authors.lastname: Pacureanu
authors.forename: Jessica
authors.initials: J
authors.lastname: Svedlund
authors.forename: Johan
authors.initials: J
authors.lastname: Botling
authors.forename: Carolina
authors.initials: C
authors.lastname: Wählby
authors.forename: Mats
authors.initials: M
authors.lastname: Nilsson
mesh_terms: D000199:Actins / Q000235:genetics; D001943:Breast Neoplasms / Q000235:genetics / Q000473:pathology; D005260:Female; D020869:Gene Expression Profiling / Q000379:methods*; D006801:Humans; D017354:Point Mutation; D011518:Proto-Oncogene Proteins / Q000235:genetics; D016283:Proto-Oncogene Proteins p21(ras); D012333:RNA, Messenger / Q000032:analysis / Q000235:genetics; D018719:Erb-b2 Receptor Tyrosine Kinases / Q000235:genetics; D017423:Sequence Analysis, RNA / Q000379:methods*; D014021:Tissue Preservation / Q000379:methods*; D018631:ras Proteins / Q000235:genetics
chemical_list: D000199:Actins; D011518:Proto-Oncogene Proteins; D016283:Proto-Oncogene Proteins p21(ras); D012333:RNA, Messenger; D018719:Erb-b2 Receptor Tyrosine Kinases; D018631:ras Proteins; C117307:KRAS protein, human; C508053:ERBB2 protein, human