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Items: 1 to 20 of 39313

1.

Influence of Pleurotus sapidus fruiting bodies on performance, cecum microbiome and intermediary metabolism in liver and breast muscle of broilers

(Submitter supplied) Despite the need to enhance feed production for monogastric farm animals, this challenge is complicated by the fact that natural resources are becoming increasingly limited and climate protection goals have to be considered. Thus, there is a need for alternative feed sources, which are produced in a resource-efficient and sustainable manner. Valorization of low-value agricultural sidestreams by edible fungi, such as Pleurotus sapidus (PSA), has been proposed as a strategy to utilize such sidestreams as a sustainable source of feed for monogastric farm animals, because P. more...
Organism:
Gallus gallus
Type:
Expression profiling by array
Platform:
GPL19014
18 Samples
Download data: CEL, XLSX
Series
Accession:
GSE288500
ID:
200288500
2.

Singel cell RNA sequencing of an F1 cross of Marek’s disease resistant and susceptible chickens

(Submitter supplied) Marek's disease virus (MDV) is a highly contagious alphaherpesvirus with widespread incidence in the poultry industry. The double stranded DNA virus infects chickens and turkeys causing a lymphoproliferative disease known as Marek's disease (MD). Infected and susceptible birds develop T cell lymphomas that cause peripheral nerve degeneration, partial or complete paralysis and immunosuppression. Previously, our lab performed scRNA seq of splenic-derived cells from MD resistant Line 6 (L6) and MD susceptible Line 7 (L7) during MDV infection to identify major immune cell subsets. more...
Organism:
Gallus gallus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL26853
6 Samples
Download data: H5
Series
Accession:
GSE278696
ID:
200278696
3.

DNA methylation-based age prediction and sex-specific epigenetic aging in a lizard with female-biased longevity

(Submitter supplied) Sex differences in lifespan are widespread across animal taxa, but their causes remain unresolved. Alterations to the epigenome are hypothesized to contribute to vertebrate aging, and DNA methylation-based aging clocks allow for quantitative estimation of biological aging trajectories. Here, we investigate the influence of age, sex, and their interaction on genome-wide DNA methylation patterns in the brown anole (Anolis sagrei), a lizard with pronounced female-biased survival and longevity. more...
Organism:
Anolis sagrei
Type:
Methylation profiling by high throughput sequencing
Platform:
GPL33576
40 Samples
Download data: TAB
Series
Accession:
GSE285624
ID:
200285624
4.

Se-methyselenocysteine inhibits inflammatory response in an LPS stimulated chicken HD11 macrophage-like cells model through the NFKB2 pathway

(Submitter supplied) We used LPS-stimulated chicken HD11 macrophage-like cell as a model to identify the key transcription factors involved in transcriptome regulation responsible for SeMC treatment. RNA-seq identified 3,263 transcripts significantly differentially expressed between the SeMC treated group and the control group, and 1,344 transcripts significantly differentially expressed between LPS+SeMC and LPS treated group (FDR < 0.05, FDR > 1.5). more...
Organism:
Gallus gallus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL19005
12 Samples
Download data: TXT
Series
Accession:
GSE278197
ID:
200278197
5.

Rules of engagement for cohesin and condensin complexes during mitotic chromosome formation

(Submitter supplied) During mitosis interphase chromatin is rapidly converted into rod-shaped mitotic chromosomes. Using Hi-C, imaging, proteomics, and polymer modeling we determine how the interplay between loop-extruding SMC motors accomplishes this dramatic transition. We find that condensin disassembles interphase chromatin loop organization by evicting or displacing extrusive cohesin. In contrast, condensins bypass cohesive cohesins, thereby maintaining sister chromatid cohesion while separating the sisters. more...
Organism:
Gallus gallus
Type:
Other
Platform:
GPL23499
136 Samples
Download data: BW, MCOOL, TSV, TXT
Series
Accession:
GSE262525
ID:
200262525
6.

Brain transcriptomics of social challenge and maternal aggression in incubating female tree swallows

(Submitter supplied) Aggressive behavior is ubiquitous across many contexts, including defense of territories, mates, and offspring. For decades, researchers have detailed the effect of aggressive behavior on physiology, but our understanding of these mechanisms in females lags behind that of males, despite the fact that female aggression is widespread, particularly in the context of maternal defense (i.e., maternal aggression). more...
Organism:
Tachycineta bicolor
Type:
Expression profiling by high throughput sequencing
Platform:
GPL34814
40 Samples
Download data: TXT
Series
Accession:
GSE274514
ID:
200274514
7.

RNA-seq reveals the effect of formaldehyde exposure on chicken embryo liver transcriptomic landscape

(Submitter supplied) Hatchery fumigation is recognized as a crucial step to control the microbial bloom in the environment and formaldehyde is one of the most widely used disinfectants, to ensure successful hatchability and healthy production. Although in humans its usage is strictly regulated in many developed countries due to its carcinogenic properties, FA remains widely used in poultry hatcheries. Recent studies have shown it also poses significant risks to poultry health and performance. more...
Organism:
Gallus gallus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL19787
8 Samples
Download data: TXT
Series
Accession:
GSE287311
ID:
200287311
8.

TGFβ signaling controls neural crest developmental plasticity via Smad2/3 [ATAC-seq]

(Submitter supplied) The neural crest is a highly plastic stem cell population that represents a notable exception to the germ layer theory. Despite being of ectodermal origin, these cells can differentiate into skeletal derivatives like cartilage and bone, tissues that are typically formed by mesoderm. The inductive program that endows the neural crest with these unique properties is still poorly understood. Here, we report that Smad2/3-mediated TGFβ signaling endows cranial neural crest cells with enhanced developmental potential. more...
Organism:
Gallus gallus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL19787
12 Samples
Download data: BW
Series
Accession:
GSE278072
ID:
200278072
9.

TGFβ signaling controls neural crest developmental plasticity via Smad2/3 [RNA-seq]

(Submitter supplied) The neural crest is a highly plastic stem cell population that represents a notable exception to the germ layer theory. Despite being of ectodermal origin, these cells can differentiate into skeletal derivatives like cartilage and bone, tissues that are typically formed by mesoderm. The inductive program that endows the neural crest with these unique properties is still poorly understood. Here, we report that Smad2/3-mediated TGFβ signaling endows cranial neural crest cells with enhanced developmental potential. more...
Organism:
Gallus gallus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL19787
6 Samples
Download data: TXT
Series
Accession:
GSE278071
ID:
200278071
10.

TGFβ signaling controls neural crest developmental plasticity via Smad2/3

(Submitter supplied) The neural crest is a highly plastic stem cell population that represents a notable exception to the germ layer theory. Despite being of ectodermal origin, these cells can differentiate into skeletal derivatives like cartilage and bone, tissues that are typically formed by mesoderm. The inductive program that endows the neural crest with these unique properties is still poorly understood. Here, we report that Smad2/3-mediated TGFβ signaling endows cranial neural crest cells with enhanced developmental potential. more...
Organism:
Gallus gallus
Type:
Other
Platforms:
GPL24517 GPL19787
6 Samples
Download data: BW
Series
Accession:
GSE175808
ID:
200175808
11.

TGFβ signaling controls neural crest developmental plasticity via Smad2/3

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Gallus gallus; Homo sapiens
Type:
Other; Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL24517 GPL19787 GPL20795
38 Samples
Download data: BW
Series
Accession:
GSE175811
ID:
200175811
12.

Metformin alters liver metabolism to sustain egg production in the reproductively aging broiler breeder hen

(Submitter supplied) The liver plays a critical role in avian reproduction as it is the primary site of de novo lipogenesis and yolk precursor synthesis. Broiler breeder hens, the parents of commercial broiler chickens, often experience poor reproductive efficiency primarily due to declining egg production beginning around 45 weeks of age. Metformin, an antidiabetic drug, exerts its primary effects in the liver by increasing insulin sensitivity and reducing hepatic glucose production in humans. more...
Organism:
Gallus gallus
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL19005 GPL34854
15 Samples
Download data: TXT
Series
Accession:
GSE286522
ID:
200286522
13.

Identification of lens-regulated genes driving anterior eye development and eye size.

(Submitter supplied) Signals from the lens regulate multiple aspects of eye development, including establishment of eye size, patterning of the presumptive iris and ciliary body in the anterior optic cup and migration and differentiation of neural crest cells. To advance understanding of the molecular regulation of eye development by the lens, we performed transcriptome analysis of lens-removed and contralateral unoperated embryonic chicken eyes. more...
Organism:
Gallus gallus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL19787
10 Samples
Download data: TXT
Series
Accession:
GSE284063
ID:
200284063
14.

Transcriptome responses to Salmonella enterica serovar Reading in vaccinated and unvaccinated turkeys

(Submitter supplied) The 2017-2019 foodborne outbreak of Salmonella enterica serovar Reading (S. Reading) in North America revealed the need for effective control of this serovar in turkey production. This study evaluated two live-attenuated Salmonella vaccines against an outbreak-associated strain of S. Reading in turkeys. At 1 day and 3 weeks of age, male turkey poults were either mock-vaccinated or given either an internally developed cross-protective vaccine and a commercially available vaccine. more...
Organism:
Meleagris gallopavo
Type:
Expression profiling by high throughput sequencing
Platform:
GPL27940
48 Samples
Download data: TXT
Series
Accession:
GSE283163
ID:
200283163
15.

The transcriptional landscape of the developing chick trigeminal ganglion

(Submitter supplied) The trigeminal ganglion is a critical structure in the peripheral nervous system, responsible for transmitting sensations of touch, pain, and temperature from craniofacial regions to the brain. Trigeminal ganglion development depends upon intrinsic cellular programming as well as extrinsic signals exchanged by diverse cell populations. With its complex anatomy and dual cellular origin from cranial placodes and neural crest cells, the trigeminal ganglion offers a rich context for examining diverse biological processes, including cell migration, fate determination, adhesion, and axon guidance. more...
Organism:
Gallus gallus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL21476
18 Samples
Download data: TXT
Series
Accession:
GSE282770
ID:
200282770
16.

The AP-1 transcription factor complex is required for avian neural crest cell specification

(Submitter supplied) During embryonic development, cellular identity relies upon the complex interplay between signaling systems, transcription factors, and cis-regulatory elements. This is epitomized in the neural crest, whose formation is governed by a comprehensive gene regulatory network (GRN) jumpstarted by several signaling systems including Wnt, BMP, and FGF. Although there is substantial knowledge regarding the nuclear effectors and downstream target genes of Wnt and BMP signaling in neural crest formation; the effectors of FGF signaling remain unclear. more...
Organism:
Gallus gallus
Type:
Expression profiling by high throughput sequencing; Other
Platform:
GPL19787
11 Samples
Download data: NARROWPEAK, TXT
Series
Accession:
GSE221031
ID:
200221031
17.

Temperature dependent sex determination in the turtle Trachemys scripta

(Submitter supplied) Sex determination is the process by which and original bipotential gonad differentiate into either a testis or ovaries. While mammals and birds determine their sex solely by genetic clues (genetic sex determination, GSD), other vertebrates like the turtle Trachemys scripta are influenced by environmental factors, like temperature (environmental sex determination, ESD). In both cases an initially bipotential gonad develops into either testes or ovaries in response to GSD or ESD cues. more...
Organism:
Trachemys scripta elegans
Type:
Expression profiling by high throughput sequencing
Platform:
GPL34669
6 Samples
Download data: MTX, TSV
Series
Accession:
GSE271230
ID:
200271230
18.

Transcriptome analysis of jejunal mucosal tissue in breeder hens exposed to acute heat stress

(Submitter supplied) Heat stress (HS) can damage the integrity of the intestinal mucosal barrier, leading to decreased poultry productivity. This study aimed to identify candidate genes related to acute HS in breeder hens and provide insight into the molecular mechanisms underlying acute HS in gut health. Fifty 28-week-old breeder hens were divided into two groups (25 hens each) raised under thermoneutral zone (23 °C) and acute HS (36 °C, 6 hours) conditions. more...
Organism:
Gallus gallus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL23499
6 Samples
Download data: XLSX
Series
Accession:
GSE279179
ID:
200279179
19.

Satellite cell dynamics is impaired in chicken Wooden Breast myopathy via altered Syndecan-4 function

(Submitter supplied) Introduction: Skeletal muscle satellite cells (MuSCs, or stem cells) play a crucial role in muscle development, maintenance, and regeneration, serving both hypertrophic support and regenerative myogenesis. Syndecans (SDCs) act as communication bridges within the muscle microenvironment, regulating interactions with extracellular matrix components, and contributing significantly to tissue repair and inflammation. more...
Organism:
Gallus gallus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL26853
20 Samples
Download data: TSV
Series
Accession:
GSE279699
ID:
200279699
20.

Dual RNA-seq analysis of gene co-expression and immune response mechanisms in chickens infected by Eimeria tenella

(Submitter supplied) We have analyzed immune chickens undergoing a secondary E. tenella infection using dual RNA-seq. Samples were taken from caecal tissue where the parasites replicate at six timepoints between 0 and 10 days post infection. The results that immune chickens have a much faster response to E. tenella compared to that of naïve chickens, and that there is a clear IFN-signature
Organism:
Gallus gallus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL26853
66 Samples
Download data: CSV
Series
Accession:
GSE233965
ID:
200233965
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