Browse
Submit Data
Databases
API
Help

Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Murine female muscle 4 month old: control vs Calsequestrin1 genetic ablated (calsequestrin1 null)

ABSTRACT: Transcriptional profiling of mouse Extensior Digitorum Longus muscle comparing control Wilde type (WT) C57BL/6J, 4 month old female with Calsequestrin 1-null muscles of the same age and gender without any treatment Two-condition experiment, KO vs. WT muscle. Biological replicates: 1 pool with 6 WT controls, 4 KO independently grown. Two replicates per array and dye swap.

ORGANISM(S): Mus musculus

SUBMITTER: Gerolamo Lanfranchi

PROVIDER: E-GEOD-25984 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Murine female muscle 4 month old: control vs Calsequestrin1 genetic ablated (calsequestrin1 null)

Project description:Transcriptional profiling of mouse Extensior Digitorum Longus muscle comparing control Wilde type (WT) C57BL/6J, 4 month old female with Calsequestrin 1-null muscles of the same age and gender without any treatment

2012-12-24 | GSE25984 | GEO

Differential isoform expression and selective muscle involvement in muscular dystrophies

Project description:To test the hypothesis that different muscles may express variable amounts of different isoforms of muscle genes, we applied a custom-designed exon microarray containing probes for 57 muscle-specific genes to assay the transcriptional profiles in sets of human adult, lower limb skeletal muscles. Muscle biopsies from 15 individuals were selected for analysis dissected from 21 anatomically different muscles collected from eight men and seven women, ranging from 61 to 91 years The muscle tissue samples collected included samples from 11 different thigh muscles––vastus medialis, vastus lateralis, vastus intermedialis, sartorius, gracilis, semimembranosus, semitendinosus, biceps femoris, adductor magnus, adductor longus, and rectus femoris––and 10 lower leg muscles––flexor digitorum longus, extensor digitorum longus, tibialis posterior, tibialis anterior, peroneus longus/brevis, extensor hallucis longus, gastrocnemius lateralis, gastrocnemius medialis, flexor hallucis longus, and soleus. Approximately five to seven muscle pieces were collected from each individual muscle sampled. The muscle sample pieces obtained for histological analysis measured roughly 10 mm x 5 mm, and the pieces for RNA isolation 5 mm x 5 mm. The samples were obtained directly from the proximal vital parts of the amputated limbs and processed immediately following their removal to avoid tissue degradation.To test the hypothesis that different muscles may express variable amounts of different isoforms of muscle genes, we applied a custom-designed Agilent exon microarray containing probes for 57 muscle-specific genes to assay the transcriptional profiles in sets of human adult, lower limb skeletal muscles

2015-06-17 | E-GEOD-69938 | biostudies-arrayexpress

Comparative Transcriptome Analysis between SOL and EDL Muscle in Yorkshire pigs using Affymetrix microarray

Project description:Skeletal muscle is heterogeneous in nature and distinguished as red muscle and white muscle because of their myofiber composition. Soleus (SOL) is a typical red muscle and extensor digitorum longus (EDL) is a typical white muscle. In this study, we compared the transcriptome difference of soleus and extensor digitorum longus from three 10-week-old Yorkshire boars with porcine Affymetrix microarray.

2014-12-31 | E-MTAB-2419 | biostudies-arrayexpress

Transcriptional responses to chronic oxidative stress in skeletal muscle

Project description:We measured gene expression differences in the extensor digitorum longus (edl) skeletal muscle between wild-type and mice lacking Cu, Zn-superoxide dismutase to determine the effect of chronic oxidative stress on skeletal muscle. We analyzed 4 edl samples from WT mice and 4 samples from the SOD1 knockouts.

2011-04-26 | E-GEOD-28837 | biostudies-arrayexpress

Transcriptional responses to chronic oxidative stress in skeletal muscle

2011-04-26 | GSE28837 | GEO

Effect of insulin insufficiency on ultrastructure and function in skeletal muscle

Project description:Decreased insulin availability and high blood glucose levels, the hallmark features of poorly controlled diabetes, drive disease progression and are associated with decreased skeletal muscle mass. We have shown that mice with -cell dysfunction and normal insulin sensitivity have decreased skeletal muscle mass. This project asks how insulin deficiency impacts on the structure and function of the remaining skeletal muscle in these animals. Methods: Skeletal muscle function was determined by measuring exercise capacity and specific muscle strength prior to and after insulin supplementation for 28 days in 12-week-old mice with conditional -cell deletion of the ATP binding cassette transporters ABCA1 and ABCG1 (β-DKO mice). Abca1 and Abcg1 floxed (fl/fl) mice were used as controls. RNAseq was used to quantify changes in transcripts in soleus and extensor digitorum longus muscles. Skeletal muscle and mitochondrial morphology were assessed by transmission electron microscopy. Myofibrillar Ca2+ sensitivity and maximum isometric single muscle fibre force were assessed using MyoRobot biomechatronics technology. Results: RNA transcripts were significantly altered in β-DKO mice compared to fl/fl controls (32 in extensor digitorum longus and 412 in soleus). Exercise capacity and muscle strength were significantly decreased in β-DKO mice compared to fl/fl controls (p = 0.012), and a loss of structural integrity was also observed in skeletal muscle from the β-DKO mice. Supplementation of β-DKO mice with insulin restored muscle integrity, strength and expression of 13 and 16 of the dysregulated transcripts in and extensor digitorum longus and soleus muscles, respectively. Conclusions: Insulin insufficiency due to -cell dysfunction perturbs the structure and function of skeletal muscle. These adverse effects are rectified by insulin supplementation.

2023-09-26 | E-MTAB-13315 | biostudies-arrayexpress

Gene Expression in Myotonic Dystrophy

Project description:In order to examine the changes in gene expression between normal and myotonic dystrophic animals, gene expression array studies were done with extensor digitorum longus (EDL) of transgenic HSALR line 20b mice using Affymetrix MOE430 2.0 microarrays. We used EDL muscle from transgenic HSALR line 20b mice, maintained as homozygotes in an FVB inbred background and wild-type FVB mice purchased from Taconic. Affymetrix gene expression arrays were performed on HSALR and wild type EDL muscle

2012-10-21 | E-GEOD-24920 | biostudies-arrayexpress

Gene Expression in Myotonic Dystrophy

2012-10-21 | GSE24920 | GEO

Subcellular localization analysis of long non-non coding RNAs (lncRNAs) in skeletal muscle myofibers

Project description:In order to study the subcellular localization of lncRNAs in myofibers of skeletal muscle, single myofibers were isolated from Soleus, Extensor Digitorum Longus (EDL) and Tibialis Anterior (TA) of 9 mice. RNA was extracted from nuclei and cytoplasmic fractions of 5-10 isolated myofibers and than separately hybridized on microarrays. Preferential expression in nuclear or cytoplasmic compartment of each lncRNA was determined.

2019-01-07 | GSE112768 | GEO

Galectin-3 Deficiency Exacerbates Hyperglycemia and the Endothelial Response to Diabetes

Project description:Microarray analyses were performed in order to determine the effect of galectin-3 ablation on the endothelial transcriptional response in a mouse model of type 2 diabetes. Galectin-3-deficient mice (KO) and wild-type C57BL/6 (WT) were fed a high-fat diet (60% fat calories) or standard chow for 8 weeks. CD105+/CD45- endothelial cells were isolated from the aortae and skeletal muscles of these mice by FACS. Whole genome microarray expression profiling revealed greater transcriptional dysregulation in the endothelium of the KO after high-fat feeding compared to WT. Transcripts dysregulated in the KO endothelium after HFD include those involved in glucose uptake and insulin signaling, oxidative stress, vasoregulation, coagulation, and atherogenesis. Real-time PCR confirmed transcriptional downregulation of the glucose transporter, Glut4, and immunofluorescence staining confirmed reduced GLUT4 protein in the endothelium and mudcle of the KO compared to WT. The transcriptional and histological data was consistent with physiological studies showing exacerbated hyperglycemia and coagulation in the KO. These results suggest that galectin-3 serves a protective role against metabolic dysregulation and endothelial dysfunction in diabetes. Galectin-3-deficient mice (KO) and wild-type C57BL/6 (WT) were fed either a high-fat diet (60% fat calories) or standard chow diet (12% fat calories) for 8 weeks. Three independent experiments were performed. For each experiment, the aorta and skeletal muscle from 3-4 animals per diet/genotype group were excised and pooled for each tissue. Live, CD105+/CD45- endothelial cells were isolated from the aortic and muscle suspensions by FACS.

2015-08-01 | E-GEOD-57329 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data