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Active mRNA transcripts obtained using ribosomal pulldown from mouse myocytes (myofibers)

ABSTRACT: Active mRNA transcripts obtained using ribosomal pulldown from mouse myocytes (myofibers)

PROVIDER: PRJNA1010201 | ENA |

REPOSITORIES: ENA

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Active mRNA transcripts obtained using ribosomal pulldown from mouse myocytes (myofibers)

Project description:We have generated mice expressing a hemagglutinin tag in the ribosomes of myocytes (Myogenin-Cre x RiboTag-Rpl22fl/fl-HA) to be able to isolate active (polysome-bound) myocyte transcripts under various experimental factors (e.g. sex, age, exercise status) RNA was obtained by immunoprecipitation of HA-tagged polysomes of left leg solei

2024-05-07 | GSE241830 | GEO

Dystrophic single myofibers vs. control single myofibers

Project description:Dystrophic single myofibers vs. control single myofibers

| PRJNA125993 | ENA

Dystrophic single myofibers vs control single myofibers

Project description:Dystrophic single myofibers vs control single myofibers

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Proteogenomic single cell analysis of skeletal muscle myocytes

Project description:Background: Skeletal muscle myocytes have evolved into slow and fast-twitch types. These types are functionally distinct as a result of differential gene and protein expression. However, an understanding of the complexity of gene and protein variation between myofibers is unknown. Methods: We performed deep, whole cell, single cell RNA-seq on intact and fragments of skeletal myocytes from the mouse flexor digitorum brevis muscle. We compared the genomic expression data of 171 of these cells with two human proteomic datasets. The first was a spatial proteomics survey of mosaic patterns of protein expression utilizing the Human Protein Atlas (HPA) and the HPASubC tool. The second was a mass-spectrometry (MS) derived proteomic dataset of single human muscle fibers. Immunohistochemistry and RNA-ISH were used to understand variable expression. Results: scRNA-seq identified three distinct clusters of myocytes (a slow/fast 2A cluster and two fast 2X clusters). Utilizing 1,605 mosaic patterned proteins from visual proteomics, and 596 differentially expressed proteins by MS methods, we explore this fast 2X division. Only 36 genes/proteins were mosaic across all three studies, of which nine are newly described as variable between fast/slow twitch myofibers. An additional 414 genes/proteins were identified by two methods. Immunohistochemistry and RNA-ISH generally validated variable expression across methods presumably due to species-related differences. Conclusions: In this first integrated proteogenomic analysis of mature skeletal muscle myocytes we validate the main fiber types and greatly expand the known repertoire of twitch-type specific genes/proteins. We also demonstrate the importance of integrating genomic and proteomic datasets.

2020-01-15 | GSE143636 | GEO

Dystrophic single myofibers vs control single myofibers

Project description:MicroRNA-expression profile of dystrophic single fibres vs wild type single fibers isolated from different muscle of mdx and c57bl mice. Myofibers were isolated from different muscle type (tibialis, diaphragm and quadriceps of gender- (male) and age- (3 month old and half) matched wt and dystrophic mice). 9 total samples per animal model, 3 replicates per muscle type sample

2012-12-21 | E-GEOD-21219 | biostudies-arrayexpress

Dystrophic single myofibers vs. control single myofibers

Project description:MicroRNA-expression profile of dystrophic single fibers compared to wild type single fibers isolated from different muscles of mdx and C57BL mice. Myofibers were isolated from different muscle types (tibialis, diaphragm and quadriceps) of gender- (male) and age- (3 month old and half) matched wt and dystrophic mice. 9 total samples per animal model (C57BL, mdx), 3 replicates per muscle type.

2015-11-25 | E-GEOD-21498 | biostudies-arrayexpress

RNA pulldown target circGLS2

Project description:RNA pulldown target circGLS2

| PRJNA786500 | ENA

Dystrophic single myofibers vs control single myofibers

2012-12-21 | GSE21219 | GEO

FoxP3 Pulldown-seq (Nucleosomal DNA)

Project description:FoxP3 Pulldown-seq (Nucleosomal DNA)

| PRJNA1018996 | ENA

miR-146a Pulldown-sequencing data

Project description:miR-146a Pulldown-sequencing data

| PRJNA675568 | ENA