PMID- 27365449 OWN - NLM STAT- MEDLINE VI - 353 IP - 6294 TI - Visualization and analysis of gene expression in tissue sections by spatial transcriptomics. PG - 78-82 CI - Copyright © 2016, American Association for the Advancement of Science. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't PL - United States TA - Science JT - Science (New York, N.Y.) JID - 0404511 IS - 1095-9203 (Electronic) LID - 10.1126/science.aaf2403 [doi] FAU - Ståhl, Patrik L AU - Ståhl PL AD - Department of Cell and Molecular Biology, Karolinska Institute, SE-171 77 Stockholm, Sweden. Science for Life Laboratory, Division of Gene Technology, KTH Royal Institute of Technology, SE-106 91 Stockholm, Sweden. FAU - Salmén, Fredrik AU - Salmén F AD - Science for Life Laboratory, Division of Gene Technology, KTH Royal Institute of Technology, SE-106 91 Stockholm, Sweden. FAU - Vickovic, Sanja AU - Vickovic S AD - Science for Life Laboratory, Division of Gene Technology, KTH Royal Institute of Technology, SE-106 91 Stockholm, Sweden. FAU - Lundmark, Anna AU - Lundmark A AD - Science for Life Laboratory, Division of Gene Technology, KTH Royal Institute of Technology, SE-106 91 Stockholm, Sweden. Department of Dental Medicine, Division of Periodontology, Karolinska Institute, SE-141 04 Huddinge, Sweden. FAU - Navarro, José Fernández AU - Navarro JF AD - Department of Cell and Molecular Biology, Karolinska Institute, SE-171 77 Stockholm, Sweden. Science for Life Laboratory, Division of Gene Technology, KTH Royal Institute of Technology, SE-106 91 Stockholm, Sweden. FAU - Magnusson, Jens AU - Magnusson J AD - Department of Cell and Molecular Biology, Karolinska Institute, SE-171 77 Stockholm, Sweden. FAU - Giacomello, Stefania AU - Giacomello S AD - Science for Life Laboratory, Division of Gene Technology, KTH Royal Institute of Technology, SE-106 91 Stockholm, Sweden. FAU - Asp, Michaela AU - Asp M AD - Science for Life Laboratory, Division of Gene Technology, KTH Royal Institute of Technology, SE-106 91 Stockholm, Sweden. FAU - Westholm, Jakub O AU - Westholm JO AD - Science for Life Laboratory, Department of Biochemistry and Biophysics, Stockholm University, Box 1031, SE-171 21 Solna, Sweden. FAU - Huss, Mikael AU - Huss M AD - Science for Life Laboratory, Department of Biochemistry and Biophysics, Stockholm University, Box 1031, SE-171 21 Solna, Sweden. FAU - Mollbrink, Annelie AU - Mollbrink A AD - Science for Life Laboratory, Division of Gene Technology, KTH Royal Institute of Technology, SE-106 91 Stockholm, Sweden. FAU - Linnarsson, Sten AU - Linnarsson S AD - Division of Molecular Neuroscience, Department of Medical Biochemistry and Biophysics, Karolinska Institute, SE-17177 Stockholm, Sweden. FAU - Codeluppi, Simone AU - Codeluppi S AD - Division of Molecular Neuroscience, Department of Medical Biochemistry and Biophysics, Karolinska Institute, SE-17177 Stockholm, Sweden. Department of Physiology and Pharmacology, Karolinska Institute, SE-17177 Stockholm, Sweden. FAU - Borg, Åke AU - Borg Å AD - Division of Oncology and Pathology, Department of Clinical Sciences Lund, Lund University, SE-223 81 Lund, Sweden. FAU - Pontén, Fredrik AU - Pontén F AD - Department of Immunology, Genetics and Pathology, Uppsala University, SE-751 85 Uppsala, Sweden. FAU - Costea, Paul Igor AU - Costea PI AD - Science for Life Laboratory, Division of Gene Technology, KTH Royal Institute of Technology, SE-106 91 Stockholm, Sweden. FAU - Sahlén, Pelin AU - Sahlén P AD - Science for Life Laboratory, Division of Gene Technology, KTH Royal Institute of Technology, SE-106 91 Stockholm, Sweden. FAU - Mulder, Jan AU - Mulder J AD - Science for Life Laboratory, Department of Neuroscience, Karolinska Institute, SE-171 77 Stockholm, Sweden. FAU - Bergmann, Olaf AU - Bergmann O AD - Department of Cell and Molecular Biology, Karolinska Institute, SE-171 77 Stockholm, Sweden. FAU - Lundeberg, Joakim AU - Lundeberg J AD - Science for Life Laboratory, Division of Gene Technology, KTH Royal Institute of Technology, SE-106 91 Stockholm, Sweden. joakim.lundeberg@scilifelab.se. FAU - Frisén, Jonas AU - Frisén J AD - Department of Cell and Molecular Biology, Karolinska Institute, SE-171 77 Stockholm, Sweden. IS - 0036-8075 (Linking) RN - 0 (DNA, Complementary) RN - 0 (RNA, Messenger) SB - IM MH - Animals MH - Brain/metabolism MH - Breast Neoplasms/metabolism MH - DNA, Complementary/biosynthesis MH - Female MH - Gene Expression Profiling/*methods MH - Humans MH - Mice MH - Organ Specificity MH - RNA, Messenger/metabolism MH - Sequence Analysis, RNA/*methods MH - *Transcriptome DCOM- 20160801 LR - 20160701 DP - 2016 Jul 01 AB - Analysis of the pattern of proteins or messengerRNAs (mRNAs) in histological tissue sections is a cornerstone in biomedical research and diagnostics. This typically involves the visualization of a few proteins or expressed genes at a time. We have devised a strategy, which we call "spatial transcriptomics," that allows visualization and quantitative analysis of the transcriptome with spatial resolution in individual tissue sections. By positioning histological sections on arrayed reverse transcription primers with unique positional barcodes, we demonstrate high-quality RNA-sequencing data with maintained two-dimensional positional information from the mouse brain and human breast cancer. Spatial transcriptomics provides quantitative gene expression data and visualization of the distribution of mRNAs within tissue sections and enables novel types of bioinformatics analyses, valuable in research and diagnostics.