A hidden threshold in motor neuron gene networks revealed by modulation of miR-218 dose

Amin, Neal D.; Senturk, Gokhan; Costaguta, Giancarlo; Driscoll, Shawn P.; O’Leary, Brendan; Bonanomi, Dario; Pfaff, Samuel L.

doi:10.1016/j.neuron.2021.07.028

Cited by 26 publications

(44 citation statements)

References 64 publications

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“…When predictive models are developed with experimental bulk RNA sequencing data, a miRNA’s target genes can be identified with high confidence ( Agarwal et al., 2015 ). However, miRNAs can have different effects in neuronal subtypes due to intrinsic differences in expressed mRNAs, levels of miRNA expression, and context-specific effects ( Carroll et al., 2013 ; Amin et al., 2021 ). Neuronal subtype-specific miRNA effects are lost by bulk RNA sequencing methods in which heterogeneous cell populations are combined in a single sample.…”

Section: Before You Beginmentioning

confidence: 99%

“…(2021) E12_1KO (A-C) Bulk RNA seq - E12 Hb9::gfp;miR218-2−/− Amin et al. (2021) E12_2KO (A-C) Bulk RNA seq - E12 Hb9::gfp;miR218-1−/−;miR218-2-/ΔILO Amin et al. (2021) E12_1KO;2-/ΔILO (A-C) Bulk RNA seq - E12 Hb9::gfp;miR218-1−/−;miR218-2−/− Amin et al.…”

Section: Key Resources Tablementioning

confidence: 99%

“…(2021) E12_DKO (A-C scRNAseq - E12 Hb9::gfp Amin et al. (2021) MNscWT(1,2) scRNAseq - E12 Hb9::gfp;miR218-1−/−;miR218-2−/− Amin et al. (2021) MNscDKO(1,2) The bulk and single cell RNA sequencing data sets Amin et al.…”

Section: Key Resources Tablementioning

confidence: 99%

“…This protocol applies differential gene expression testing approaches to identify miRNA target networks in heterogeneous neuronal subpopulations that cannot otherwise be captured by bulk RNA sequencing approaches. For complete details on the use and execution of this protocol, please refer to Amin et al. (2021) .…”

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confidence: 99%

“…For complete details on the use and execution of this protocol, please refer to Amin et al. (2021) .…”

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confidence: 99%

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Detecting microRNA-mediated gene regulatory effects in murine neuronal subpopulations

et al. 2022

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Summary microRNAs (miRNAs) have unique gene regulatory effects in different neuronal subpopulations. Here, we describe a protocol to identify neuronal subtype-specific effects of a miRNA in murine motor neuron subpopulations. We detail the preparation of primary mouse spinal tissue for single cell RNA sequencing and bioinformatics analyses of pseudobulk expression data. This protocol applies differential gene expression testing approaches to identify miRNA target networks in heterogeneous neuronal subpopulations that cannot otherwise be captured by bulk RNA sequencing approaches. For complete details on the use and execution of this protocol, please refer to Amin et al. (2021) .

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Section: Before You Beginmentioning

confidence: 99%