Literature DB >> 31427807

Starfish enterprise: finding RNA patterns in single cells.

Jeffrey M Perkel.   

Abstract

Keywords:  Computational biology and bioinformatics; Imaging; Technology; Transcriptomics

Mesh：

Substances：

Year:  2019        PMID： 31427807     DOI： 10.1038/d41586-019-02477-9

Source DB:  PubMed          Journal:  Nature        ISSN： 0028-0836            Impact factor:   49.962


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  7 in total

1.  DNA Microscopy: Optics-free Spatio-genetic Imaging by a Stand-Alone Chemical Reaction.

Authors:  Joshua A Weinstein; Aviv Regev; Feng Zhang
Journal:  Cell       Date:  2019-06-20       Impact factor: 41.582

2.  Atlas of Subcellular RNA Localization Revealed by APEX-Seq.

Authors:  Furqan M Fazal; Shuo Han; Kevin R Parker; Pornchai Kaewsapsak; Jin Xu; Alistair N Boettiger; Howard Y Chang; Alice Y Ting
Journal:  Cell       Date:  2019-06-20       Impact factor: 41.582

3.  Spatial organization of the somatosensory cortex revealed by osmFISH.

Authors:  Simone Codeluppi; Lars E Borm; Amit Zeisel; Gioele La Manno; Josina A van Lunteren; Camilla I Svensson; Sten Linnarsson
Journal:  Nat Methods       Date:  2018-10-30       Impact factor: 28.547

4.  Slide-seq: A scalable technology for measuring genome-wide expression at high spatial resolution.

Authors:  Samuel G Rodriques; Robert R Stickels; Aleksandrina Goeva; Carly A Martin; Evan Murray; Charles R Vanderburg; Joshua Welch; Linlin M Chen; Fei Chen; Evan Z Macosko
Journal:  Science       Date:  2019-03-28       Impact factor: 47.728

5.  Simultaneous Multiplexed Imaging of mRNA and Proteins with Subcellular Resolution in Breast Cancer Tissue Samples by Mass Cytometry.

Authors:  Daniel Schulz; Vito Riccardo Tomaso Zanotelli; Jana Raja Fischer; Denis Schapiro; Stefanie Engler; Xiao-Kang Lun; Hartland Warren Jackson; Bernd Bodenmiller
Journal:  Cell Syst       Date:  2017-12-27       Impact factor: 10.304

6.  Transcriptome-scale super-resolved imaging in tissues by RNA seqFISH.

Authors:  Chee-Huat Linus Eng; Michael Lawson; Qian Zhu; Ruben Dries; Noushin Koulena; Yodai Takei; Jina Yun; Christopher Cronin; Christoph Karp; Guo-Cheng Yuan; Long Cai
Journal:  Nature       Date:  2019-03-25       Impact factor: 49.962

7.  Three-dimensional intact-tissue sequencing of single-cell transcriptional states.

Authors:  Xiao Wang; William E Allen; Matthew A Wright; Emily L Sylwestrak; Nikolay Samusik; Sam Vesuna; Kathryn Evans; Cindy Liu; Charu Ramakrishnan; Jia Liu; Garry P Nolan; Felice-Alessio Bava; Karl Deisseroth
Journal:  Science       Date:  2018-06-21       Impact factor: 47.728
  7 in total
  16 in total

1.  High-Spatial-Resolution Multi-Omics Sequencing via Deterministic Barcoding in Tissue.

Authors:  Yang Liu; Mingyu Yang; Yanxiang Deng; Graham Su; Archibald Enninful; Cindy C Guo; Toma Tebaldi; Di Zhang; Dongjoo Kim; Zhiliang Bai; Eileen Norris; Alisia Pan; Jiatong Li; Yang Xiao; Stephanie Halene; Rong Fan
Journal:  Cell       Date:  2020-11-13       Impact factor: 41.582

Review 2.  Spatial components of molecular tissue biology.

Authors:  Giovanni Palla; David S Fischer; Aviv Regev; Fabian J Theis
Journal:  Nat Biotechnol       Date:  2022-02-07       Impact factor: 68.164

3.  Improved Methods for Single-Molecule Fluorescence In Situ Hybridization and Immunofluorescence in Caenorhabditis elegans Embryos.

Authors:  Dylan M Parker; Lindsay P Winkenbach; Annemarie Parker; Sam Boyson; Erin Osborne Nishimura
Journal:  Curr Protoc       Date:  2021-11

4.  Discovering New Lipidomic Features Using Cell Type Specific Fluorophore Expression to Provide Spatial and Biological Specificity in a Multimodal Workflow with MALDI Imaging Mass Spectrometry.

Authors:  Marissa A Jones; Sung Hoon Cho; Nathan Heath Patterson; Raf Van de Plas; Jeffrey M Spraggins; Mark R Boothby; Richard M Caprioli
Journal:  Anal Chem       Date:  2020-05-06       Impact factor: 6.986

Review 5.  Imaging-based screens of pool-synthesized cell libraries.

Authors:  Michael Lawson; Johan Elf
Journal:  Nat Methods       Date:  2021-02-15       Impact factor: 28.547

Review 6.  Museum of spatial transcriptomics.

Authors:  Lambda Moses; Lior Pachter
Journal:  Nat Methods       Date:  2022-03-10       Impact factor: 28.547

7.  Summit: Automated Analysis of Arrayed Single-Cell Gel Electrophoresis.

Authors:  Julea Vlassakis; Kevin A Yamauchi; Amy E Herr
Journal:  SLAS Technol       Date:  2021-09-02       Impact factor: 3.047

8.  dotdotdot: an automated approach to quantify multiplex single molecule fluorescent in situ hybridization (smFISH) images in complex tissues.

Authors:  Kristen R Maynard; Madhavi Tippani; Yoichiro Takahashi; BaDoi N Phan; Thomas M Hyde; Andrew E Jaffe; Keri Martinowich
Journal:  Nucleic Acids Res       Date:  2020-06-19       Impact factor: 16.971

Review 9.  Spatial omics and multiplexed imaging to explore cancer biology.

Authors:  Verena C Wimmer; Delphine Merino; Kelly L Rogers; Shalin H Naik; Sabrina M Lewis; Marie-Liesse Asselin-Labat; Quan Nguyen; Jean Berthelet; Xiao Tan
Journal:  Nat Methods       Date:  2021-08-02       Impact factor: 28.547

10.  FR-Match: robust matching of cell type clusters from single cell RNA sequencing data using the Friedman-Rafsky non-parametric test.

Authors:  Yun Zhang; Brian D Aevermann; Trygve E Bakken; Jeremy A Miller; Rebecca D Hodge; Ed S Lein; Richard H Scheuermann
Journal:  Brief Bioinform       Date:  2021-07-20       Impact factor: 13.994
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