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Links from GEO DataSets

Items: 9

1.

Evidence against tetrapod-wide digit identities and for a limited frame shift in bird wings

(Submitter supplied) In crown group tetrapods, individual digits are homologized in relation to a pentadactyl ground plan. However, testing hypotheses of digit homology is challenging because it is unclear whether digits develop with distinct and conserved gene regulatory states. Here we show dramatic evolutionary dynamism in the gene expression profiles of digits, challenging the notion that five digit identities are conserved across amniotes. more...
Organism:
Anolis carolinensis; Alligator mississippiensis; Mus musculus
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL24412 GPL13112 GPL15001
59 Samples
Download data: TXT
Series
Accession:
GSE108337
ID:
200108337
2.

mRNA-seq data of embryonic chicken digits

(Submitter supplied) Morphological characters are the result of developmental gene expression. Hence the identity of a character is ultimately grounded in the gene regulatory network directing development and thus whole genome gene expression data can provide evidence about character identity. Here we use transcriptomic data to address one of the most enduring paradoxes in evolutionary biology, the identity of the avian wing digits. more...
Organism:
Gallus gallus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL10223
16 Samples
Download data: TXT
Series
Accession:
GSE28156
ID:
200028156
3.

Digital gene expression tag profiling of digit morphologies in bats

(Submitter supplied) As the only truly flying mammals, bats use their unique wing formed from elongated digits connected by membranes to power their flight. The forelimb of bats consists of four elongated digits (digits II-V) and one shorter digit (digit I) that is morphologically similar to the hindlimb digits. Elongation of bat forelimb digits is thought to results from changes in the temporal and spatial expression of a number of developmental genes. more...
Organism:
Myotis pilosus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL15028
3 Samples
Download data
Series
Accession:
GSE20038
ID:
200020038
4.

mRNA-seq data from embryonic autopods of the common bent-wing bat (Miniopterus schreibersii)

(Submitter supplied) The only freely flying mammals, bats, develop a pair of dramatically elongated hands and broad wing membranes. It is hypothesized that alterations of many gene expressions result in the bat wing formation. However, it remains to be proved. Here, by mRNA-seq, we found that hundreds of genes are significantly high expressed in the elongating forelimb digits.
Organism:
Miniopterus schreibersii
Type:
Expression profiling by high throughput sequencing
Platform:
GPL17699
14 Samples
Download data: FASTA, TXT
Series
Accession:
GSE50699
ID:
200050699
5.

Shifts in pigeon limb identity reveal conserved genetic networks

(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
Series
Accession:
GSE128151
ID:
200128151
6.

Shifts in pigeon limb identity reveal conserved genetic networks

(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:
Columba livia; Gallus gallus
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL19005 GPL22642
96 Samples
Download data: CSV, TXT
Series
Accession:
GSE127775
ID:
200127775
7.

Analysis of the trithorax Group (trxG) genes ash2 and ash1 wing imaginal disc transcriptomes.

(Submitter supplied) The absent, small or homeotic discs 2 (ash2) gene, a member of the trithorax Group (trxG) of transcriptional regulators, is functionally related to ash1. However, ASH2 and ASH1 belong to distinct multimeric complexes of unknown composition and it is unclear how they act to regulate transcription. In this study, examination of gene expression profiles in wing imaginal discs from ash2 and ash1 mutants revealed their transcriptomes are very similar and correlate with wing phenotypes. more...
Organism:
Drosophila melanogaster
Type:
Expression profiling by array
Platform:
GPL3797
12 Samples
Download data
Series
Accession:
GSE4923
ID:
200004923
8.

Digit patterning is controlled by a Bmp-Sox9-Wnt Turing network modulated by morphogen gradients

(Submitter supplied) The goal of this microarray analysis was to see which genes are differentially expressed between Sox9-EGFP positive cells and Sox9-EGFP negative cells in E11.5 mouse limb bud autopods of the reporter Sox9-EGFP knock-in mouse(Nakamura et al 2011). This was done in order to gain insight of the genes that could contribute to the specification of the digits (Sox9 positive cells).
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL13912
6 Samples
Download data: TXT
Series
Accession:
GSE58158
ID:
200058158
9.

Functional roles of Aves class specific cis-regulatory elements on macroevolution of bird-specific features

(Submitter supplied) We carried out a comparative genomic analysis of 48 avian species to identify avian-specific highly conserved elements (ASHCEs). We performed genome-wide chromatin immunoprecipitation sequencing (ChIP-seq) for three enhancer-associated histone modifications (H3K4me1, H3K27ac, H3K27me3), to investigate dynamic regulatory roles of ASHCEs in chicken development. We found that all three enhancer-associated histone marks are enriched in ASHCEs compared to the whole genome background.
Organism:
Gallus gallus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL16133
40 Samples
Download data: BEDGRAPH, TXT
Series
Accession:
GSE75480
ID:
200075480

Supplemental Content

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