GEO DataSets

(Submitter supplied) Detailed information about stage-specific changes in gene expression is crucial for understanding the gene regulatory networks underlying development and the various signal transduction pathways contributing to morphogenesis. Here, we describe the global gene expression dynamics during early murine limb development, when cartilage, tendons, muscle, joints, vasculature, and nerves are specified and the musculoskeletal system of the limbs is established. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL1261

51 Samples

Download data: CEL

(Submitter supplied) We set out to characterize the gene expression changes which take place during chondrogenesis in the developing mouse limb. RNA derived from pre-condensed mesenchyme, mesenchymal condensations, and cartilage anlagen representing the earliest stages of tibial and fibular development was analysed by whole genome microarray analysis, and revealed 931 genes differentially expressed in these tissues. Among them were 892 genes not previously identified during the initation of chondrogenesis, including members of the Bmp, Wnt, Gdf, Sox, and Fox gene families. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL4134

6 Samples

Download data: GPR

(Submitter supplied) Studies in mouse have led to enormous progress in our understanding of early human development. The identification of genes and the signaling pathways involved in mouse embryogenesis have helped us to better understand fertilization, morulation, gastrulation, organogenesis and embryonic development in mammals. We report a detailed analysis of the global gene expression profiles from oocyte to the end of organogenesis in mouse. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL1261

36 Samples

Download data: CEL, TXT

(Submitter supplied) The goal of this study is to identify genetic network changes that accompany shifts in limb identity.

Organism:

Anolis sagrei

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26286

10 Samples

Download data: TXT

(Submitter supplied) In feather-footed pigeons, mutant alleles of PITX1 and TBX5 drive the partial redeployment of an evolutionarily conserved forelimb genetic program in the hindlimb.

Organism:

Gallus gallus; Columba livia

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL19005 GPL22642

96 Samples

Download data: CSV, TXT

(Submitter supplied) Limb development is a powerful model to investigate transcriptional complexity during differentiation and development, as tissue types appear at various stages, with unique transcriptional signatures. So far, most studies have used conventional expression arrays, which can identify only a predetermined set of cDNAs. However there is growing evidence that most of the non-coding part of the genome is transcribed as well. more...

Organism:

Mus musculus

Type:

Expression profiling by genome tiling array

14 related Platforms

84 Samples

Download data: CEL

(Submitter supplied) The relationship between gene network structure and expression variation among individuals and species: Variation among individuals is a prerequisite of evolution by natural selection. As such, identifying the origins of variation is a fundamental goal of biology. We investigated the link between gene interactions and variation in gene expression among individuals and species, using the mammalian limb as a model system. more...

Organism:

Sus scrofa; Mus musculus; Monodelphis domestica; Carollia perspicillata

Type:

Expression profiling by high throughput sequencing

4 related Platforms

73 Samples

Download data: FASTA, FPKM_TRACKING, TXT

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

Organism:

Sus scrofa; Mus musculus

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL20983 GPL19057

8 Samples

Download data: BIGWIG

(Submitter supplied) Genome-wide comparative analyses of the open chromatin profiles between equivalent stages of mouse and pig limb bud development reveal the extensive functional divergence of their limb regulomes. These alterations affect evolutionary conserved regions located in the genomic landscapes of genes with essential functions during limb development. This analysis uncovers the widespread regulatory changes that appear to underlie the morphological diversion of the artiodactyl limb from the pentadactyl blueprint of tetrapods.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

4 Samples

Download data: BIGWIG

(Submitter supplied) Genome-wide comparative analyses of the open chromatin profiles between equivalent stages of mouse and pig limb bud development reveal the extensive functional divergence of their limb regulomes. These alterations affect evolutionary conserved regions located in the genomic landscapes of genes with essential functions during limb development. This analysis uncovers the widespread regulatory changes that appear to underlie the morphological diversion of the artiodactyl limb from the pentadactyl blueprint of tetrapods.

Organism:

Sus scrofa

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20983

4 Samples

Download data: BIGWIG

(Submitter supplied) We sequenced 17’628 cells coming from three key developmental stages of chicken autopod patterning. We identified 23 cell populations with distinct transcriptional profiles, including essential populations like the apical ectodermal ridge. We also inferred gene co-expression modules that coincide with distinct tissue types across developmental time, and used them to track patterning-relevant cell populations of the forming digits. more...

Organism:

Gallus gallus

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL19787 GPL16133

3 Samples

Download data: TXT

(Submitter supplied) The cerebral cortex plays an important role in cognitive function and specialized perception in mammals and its development requires highly specific spatio-temporal control of gene expression. The study identified stage- and region-specific markers throughout cerebral corticogenesis at various important stages of cerebral cortex development; embryonic day (E) 15.5, E17.5, postnatal day (P) 1.5 and 4-6 months old.

Organism:

Mus musculus

Type:

Expression profiling by SAGE

Platforms:

GPL1349 GPL11

12 Samples

Download data

(Submitter supplied) BACKGROUND: Development of the neural tube is a highly orchestrated process relying on precise, spatio-temporal expression of numerous genes as well as hierarchies of signal transduction and gene regulatory networks. Disruption of expression of a number of genes participating in these networks is believed to underlie developmental anomalies such as neural tube defects (NTDs) resulting from anomalous neural tube morphogenesis. more...

Organism:

Mus musculus; Rattus norvegicus; Homo sapiens

Type:

Non-coding RNA profiling by array

Platform:

GPL10178

9 Samples

Download data: TXT

(Submitter supplied) In order to try and evaluate Hoxd transcript heterogeneity during limb development, we produced single-limb cell transcriptomes of different origins, to see whether the apparently homogenous behavior in Hox gene transcriptional program as observed upon large-scale analyses was confirmed at the cellular level. We report here thatHoxd genes transcripts are present in various combinations in different limb cells and discuss the importance of these results in our understanding of how Hoxd genes are regulated and how their global functions are achieved in these structures. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

225 Samples

Download data: TXT

(Submitter supplied) The regulatory elements that direct tissue-specific gene expression in the developing mammalian embryo remain largely unknown. Although chromatin profiling has proven to be a powerful method for mapping regulatory sequences in cultured cells, chromatin states characteristic of active developmental enhancers have not been directly identified in embryonic tissues. Here we use whole transcriptome analysis coupled with genome-wide profiling of H3K27ac and H3K27me3 to map chromatin states and enhancers in mouse embryonic forelimb and hindlimb. more...

Organism:

Mus musculus

Type:

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

Platforms:

GPL13112 GPL11002

24 Samples

Download data: BED, BW, SAM

(Submitter supplied) This experiment describes gene expression during early Arabidopsis flower development. We used a 35S:AP1-GR ap1 cal line to induce synchronized flower development by specifically activating the AP1-GR fusion protein in ap1 cal inflorescence-like meristems through dexamethasone treatment. Tissue samples were collected immediately after the treatment, as well as at one-day intervals for the following five days. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL2810

20 Samples

Download data: GPR

(Submitter supplied) Sonic hedgehog (Shh) signals via Gli transcription factors to direct digit number and identity in the vertebrate limb. We have characterized the Gli-dependent cis-regulatory network through a combination of whole genome ChIP-on-chip and transcriptional profiling of the developing mouse limb. These analyses identified approximately 5,000 high quality Gli3 binding sites, including all known Gli-dependent enhancers. more...

Organism:

Mus musculus

Type:

Expression profiling by array

9 related Platforms

43 Samples

Download data: BAR, CEL

(Submitter supplied) Sonic hedgehog (Shh) signals via Gli transcription factors to direct digit number and identity in the vertebrate limb. We have characterized the Gli-dependent cis-regulatory network through a combination of whole genome ChIP-on-chip and transcriptional profiling of the developing mouse limb. In this dataset, we include the expression data obtained from dissected mouse forelimbs using a variety of gain- and loss-of-function hedgehog pathway mutants, as well as limbs dissected into responsive (posterior 2/3ds) and non-responsive (anterior 1/3d) Hh tissues. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL6096

28 Samples

Download data: CEL

(Submitter supplied) Sonic hedgehog (Shh) signals via Gli transcription factors to direct digit number and identity in the vertebrate limb. We have characterized the Gli-dependent cis-regulatory network through a combination of whole genome ChIP-on-chip and transcriptional profiling of the developing mouse limb. These analyses identified approximately 5,000 high quality Gli3 binding sites, including all known Gli-dependent enhancers. more...

Organism:

Mus musculus

Type:

Genome binding/occupancy profiling by genome tiling array

8 related Platforms

15 Samples

Download data: BAR, BED, CEL

(Submitter supplied) 4C-seq on mouse E11.5 limb and branchial arches

Organism:

Mus musculus

Type:

Other

Platform:

GPL17021

4 Samples

Download data: TXT