GEO DataSets

(Submitter supplied) Pbx homeodomain proteins have been implicated in the regulation of gene expression during muscle development. Whether Pbx proteins are required broadly for the regulation of muscle gene expression or are required for the expression of a specific subset of muscle gene expression is not known. We employed microarrays to determine the requirements for Pbx proteins during zebrafish development. Keywords: developmental time course analysis

Organism:

Danio rerio

Type:

Expression profiling by array

Platform:

GPL1319

12 Samples

Download data: CEL

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Danio rerio

Type:

Expression profiling by array; Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL16509 GPL15583 GPL14688

17 Samples

Download data: GPR, WIG

(Submitter supplied) Identification of Ta and Tbx16 binding sites during gastrulation, and Mixl1 binding sites during endoderm specification

Organism:

Danio rerio

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL16509 GPL15583

6 Samples

Download data: WIG

(Submitter supplied) Identification of genes downstream of ta/tbx16 in zebrafish embryos, and identification of direct targets by reference to Ta and Tbx16 ChIP-seq data

Organism:

Danio rerio

Type:

Expression profiling by array

Platform:

GPL14688

12 Samples

Download data: GPR

(Submitter supplied) Gene expression changes induced by MyoD or Myf5 were examined in a double-knockout fibroblast cell line lacking endogenous functional myoD or myf5 genes. Use of this cell line precluded the possibility of auto- or cross-activation of endogenous myoD or myf5. Myogenin or hrGFP were expressed in parallel samples as controls. Following infection with retrovirus - expressing the relevant myogenic regulatory factor (MRF) from the viral LTR promoter and hrGFP through an IRES element in the same mRNA transcript - GFP+ cells were sorted by FACS and harvested for total RNA. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL81

12 Samples

Download data: CEL, EXP

(Submitter supplied) Muscle satellite cells are a self-renewing pool of stem cells that give rise to daughter myogenic precursor cells in adult skeletal muscle. Published and preliminary data indicated that MyoD and p53 genes are involved in satellite cell differentiation. We would like to know what downstream genes of both transcription factors are affected in satellite cell-derived myoblasts (MyoD-/-, p53 -/-). Keywords: other

Organism:

Mus musculus

Type:

Expression profiling by array

Platforms:

GPL82 GPL83 GPL81

25 Samples

Download data: CEL, EXP

(Submitter supplied) We used a combination of genome-wide and promoter-specific DNA binding and expression analyses to assess the functional roles of Myod and Myog in regulating the program of skeletal muscle gene expression. Our findings indicate that Myod and Myog have distinct regulatory roles at a similar set of target genes. At genes expressed throughout the program of myogenic differentiation, Myod can bind and recruit histone acetyltransferases. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Dataset:

GDS2334

Platform:

GPL339

36 Samples

Download data: CEL, EXP

Temporal analysis of embryonic Myf-5/Myod null fibroblasts tranduced with a Myod-estrogen receptor hormone binding domain fusion protein alone or in combination with a constitutively expressed Myog. Results provide insight into the roles of Myod and Myog in muscle differentiation.

Organism:

Mus musculus

Type:

Expression profiling by array, transformed count, 3 agent, 2 cell line, 4 time sets

Platform:

GPL339

Series:

GSE3858

36 Samples

Download data: CEL, EXP

(Submitter supplied) The basic helix-loop-helix factor Myod initiates skeletal muscle differentiation by directly and sequentially activating sets of muscle differentiation genes, including those encoding muscle contractile proteins. We hypothesize that Pbx homeodomain proteins direct Myod to a subset of its transcriptional targets, in particular fast twitch muscle differentiation genes, thereby regulating the competence of muscle precursor cells to differentiate. more...

Organism:

Danio rerio

Type:

Expression profiling by high throughput sequencing

Platform:

GPL14875

12 Samples

Download data: CSV

(Submitter supplied) Three male 8-week-old Wistar rats were used. The peroneal nerve of the animals was transected and sutured to the biceps femoris muscle. Four weeks later, the proximal stump was sutured to the distal stump. The animals survived for 8 weeks. All experiments were performed under Ketanest (ketamine hydrochloride, Essex Pharma GmbH, Munich, Germany; 100 mg/kg) and Rompun (xylazine hydrochloride, Bayer, Leverkusen, Germany; 10 mg/kg) anesthesia. more...

Organism:

Rattus norvegicus

Type:

Expression profiling by array

Dataset:

GDS2243

Platform:

GPL341

6 Samples

Download data

Analysis of reinnervated tibialis anterior muscles that were previously denervated for 4 weeks. Denervation-induced myofiber atrophy can be reversed by reinnervation. Results provide insight into the molecular mechanisms contributing to myofiber growth after reinnervation.

Organism:

Rattus norvegicus

Type:

Expression profiling by array, count, 2 protocol sets

Platform:

GPL341

Series:

GSE2566

6 Samples

Download data

(Submitter supplied) In this study, we used ChIP-seq to map Six4 binding profile in different C2C12 cell lines 24 hours after differentiation (T24). We performed ChIP-seq using two different antibodies: anti-Flag antibody in Flag-Six4 C2C12 cell line or in parental C2C12 cells; a custom-made anti-Six4 antibody in shNS C2C12 cell line (a control cell line) or shSix4 C2C12 (C2C12 with stable Six4 knockdown using short hairpin RNA). more...

Organism:

Mus musculus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL13112

7 Samples

Download data: BED, BEDGRAPH

(Submitter supplied) In this study, we used C3H/10T1/2 cells, a well known model of myogenic conversion, to study the effect of Six4 knockdown on the expression of genes during fibroblasts to myocytes conversion induced by ectopic expression of MyoD

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL4134

12 Samples

Download data: TXT

(Submitter supplied) We outline an in vivo cellular program of bovine longissimus muscle development inferred from expression data from 60 days post conception to 3 months postnatal. Analytic challenges included changes in cellular composition, ambiguous ‘diagnostic’ markers of cell type and contrasts between cattle human and mouse myogenesis. Nevertheless, the expression profiles of the myosin isoforms support slow and fast muscle fibres emanating from primary and secondary myogenesis respectively, while expression of the prenatal myosin subunits is down regulated prior to birth. more...

Organism:

Bos taurus

Type:

Expression profiling by array

Platform:

GPL9712

20 Samples

Download data: TXT

(Submitter supplied) INO80 complex is an ATPase-dependent chormatin remodeling complex, which regulates various DNA metabolic processes such as DNA replication and repair. Additionally, INO80 complex also contributes to the regulation of gene expression in sterss response and development. In order to investigate the function of INO80 complex in rhabdomyosarcoma, we examined the knockdown of subunits of INO80 complex Actr5, Ies6, and Ino80 in human rhabdomyosarcoma RD cells. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL20844

4 Samples

Download data: TXT

(Submitter supplied) Skeletal muscle development requires the coordinated expression of numerous transcription factors to control the specification of the muscle fate in mesodermal cells and the differentiation of the committed myoblasts into functional contractile fibers. The bHLH transcription factor MyoD plays a key role in these processes, since its forced expression is sufficient to induce the myogenesis in a variety of non-muscle cells in culture. more...

Organism:

Homo sapiens; Mus musculus

Type:

Expression profiling by array

Dataset:

GDS1710

Platform:

GPL2677

6 Samples

Download data

Analysis of C2C12 myoblast cell line following RNAi knockdown of the bHLH transcription factor MyoD. RNA prepared from cells after 1, 3, and 6 days of myogenic differentiation in DMEM medium supplemented with 2% horse serum. Results identify targets of MyoD.

Organism:

Homo sapiens; Mus musculus

Type:

Expression profiling by array, log2 ratio, 3 time sets

Platform:

GPL2677

Series:

GSE3014

6 Samples

Download data

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL17021

22 Samples

Download data: CSV

(Submitter supplied) In this work we compare the molecular functions of Myf5 and MyoD, two highly related bHLH transcription factors that regulate skeletal muscle specification and differentiation. We find MyoD and Myf5 bind the same sites genome-wide but have distinct functions: Myf5 induces histone acetylation without Pol II recruitment or robust gene activation, whereas MyoD induces histone acetylation, recruits PolII and robustly activates gene transcription.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17021

12 Samples

Download data: CSV

(Submitter supplied) In this work we compare the molecular functions of Myf5 and MyoD, two highly related bHLH transcription factors that regulate skeletal muscle specification and differentiation. We find MyoD and Myf5 bind the same sites genome-wide but have distinct functions: Myf5 induces histone acetylation without Pol II recruitment or robust gene activation, whereas MyoD induces histone acetylation, recruits PolII and robustly activates gene transcription.

Organism:

Mus musculus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL17021

10 Samples

Download data: CSV