Literature DB >> 29130192

LCM-Seq: A Method for Spatial Transcriptomic Profiling Using Laser Capture Microdissection Coupled with PolyA-Based RNA Sequencing.

Susanne Nichterwitz1, Julio Aguila Benitez1,2, Rein Hoogstraaten1,3, Qiaolin Deng2, Eva Hedlund4.   

Abstract

LCM-seq couples laser capture microdissection of cells from frozen tissues with polyA-based RNA sequencing and is applicable to single neurons. The method utilizes off-the-shelf reagents and direct lysis of the cells without RNA purification, making it a simple and relatively cheap method with high reproducibility and sensitivity compared to previous methods. The advantage with LCM-seq is also that tissue sections are kept intact and thus the positional information of each cell is preserved.

Keywords:  Cresyl violet; Dopamine neuron; HistoGene; Laser capture microscopy; Motor neuron; RNA sequencing; Rapid antibody staining; Smart-seq2

Mesh:

Substances:

Year:  2018        PMID: 29130192     DOI: 10.1007/978-1-4939-7213-5_6

Source DB:  PubMed          Journal:  Methods Mol Biol        ISSN: 1064-3745


  14 in total

Review 1.  Intrinsic mechanisms of neuronal axon regeneration.

Authors:  Marcus Mahar; Valeria Cavalli
Journal:  Nat Rev Neurosci       Date:  2018-06       Impact factor: 34.870

2.  Single-Cell mRNA-Seq of In Vitro-Derived Human Neurons Using Smart-Seq2.

Authors:  Christoph Schweingruber; Jik Nijssen; Julio Aguila Benitez; Eva Hedlund
Journal:  Methods Mol Biol       Date:  2023

Review 3.  Exploring tissue architecture using spatial transcriptomics.

Authors:  Anjali Rao; Dalia Barkley; Gustavo S França; Itai Yanai
Journal:  Nature       Date:  2021-08-11       Impact factor: 49.962

4.  Axon-seq for in Depth Analysis of the RNA Content of Neuronal Processes.

Authors:  Jik Nijssen; Julio Aguila; Eva Hedlund
Journal:  Bio Protoc       Date:  2019-07-20

5.  Spatial RNA Sequencing Identifies Robust Markers of Vulnerable and Resistant Human Midbrain Dopamine Neurons and Their Expression in Parkinson's Disease.

Authors:  Julio Aguila; Shangli Cheng; Nigel Kee; Ming Cao; Menghan Wang; Qiaolin Deng; Eva Hedlund
Journal:  Front Mol Neurosci       Date:  2021-07-08       Impact factor: 5.639

6.  Dissecting the genetic basis of focal cortical dysplasia: a large cohort study.

Authors:  Sara Baldassari; Théo Ribierre; Elise Marsan; Homa Adle-Biassette; Sarah Ferrand-Sorbets; Christine Bulteau; Nathalie Dorison; Martine Fohlen; Marc Polivka; Sarah Weckhuysen; Georg Dorfmüller; Mathilde Chipaux; Stéphanie Baulac
Journal:  Acta Neuropathol       Date:  2019-08-23       Impact factor: 17.088

7.  Effective microtissue RNA extraction coupled with Smart-seq2 for reproducible and robust spatial transcriptome analysis.

Authors:  Miki Yamazaki; Masahito Hosokawa; Koji Arikawa; Kiyofumi Takahashi; Chikako Sakanashi; Takuya Yoda; Hiroko Matsunaga; Haruko Takeyama
Journal:  Sci Rep       Date:  2020-04-27       Impact factor: 4.379

8.  Following hearts, one cell at a time: recent applications of single-cell RNA sequencing to the understanding of heart disease.

Authors:  Matthew Ackers-Johnson; Wilson Lek Wen Tan; Roger Sik-Yin Foo
Journal:  Nat Commun       Date:  2018-10-30       Impact factor: 14.919

9.  Cell Atlas technologies and insights into tissue architecture.

Authors:  Anna Wilbrey-Clark; Kenny Roberts; Sarah A Teichmann
Journal:  Biochem J       Date:  2020-04-30       Impact factor: 3.857

10.  Synaptotagmin 13 is neuroprotective across motor neuron diseases.

Authors:  M Nizzardo; M Taiana; F Rizzo; J Aguila Benitez; J Nijssen; I Allodi; V Melzi; N Bresolin; G P Comi; E Hedlund; S Corti
Journal:  Acta Neuropathol       Date:  2020-02-17       Impact factor: 17.088

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