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

Transcription profiling of horned and polled and scurs cattle

ABSTRACT: Transciprional profiling of horn forming region of Bos taurus comparing horned, polled and scurred cattle. 3 condition experiment, Polled vs Horned, Polled vs Scurred, Scurred vs Horned, male and female samples, including dye swaps. 5 chips. No confounding between sex and chip. No confounding between indivdual and chip.

ORGANISM(S): Bos taurus

SUBMITTER: Sean McWilliam

PROVIDER: E-GEOD-21585 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Hepatic proteome analysis of Atlantic salmon (Salmo salar) after exposure to environmental concentrations of human pharmaceuticals

Project description:Pharmaceuticals are pseudo persistent aquatic pollutants with unknown effects at environmentally relevant concentrations. Atlantic salmon (Salmo salar) were exposed to Acetaminophen: 54.77 ± 34.67; Atenolol: 11.08 ± 7.98 and Carbamazepine: 7.85 ± 0.13 µg•L-1 for 5 days. After Acetaminophen treatment, 19 proteins were differently expressed, of which 11 were significant with respect to the control group (eight up-regulated and three down-regulated). After Atenolol treatment, 7 differently expressed proteins were obtained in comparison with the control, of which 6 could be identified (four up-regulated and 2 down-regulated). Carbamazepine exposure resulted in 15 differently expressed proteins compared with the control, with 10 of them identified (seven up-regulated and three down-regulated). Out of these, 3 features were common between Acetaminophen and Carbamazepine and one between Carbamazepine and Atenolol. One feature was common across all treatments. Principal component analysis and heat map clustering showed a clear grouping of the variability due to the applied treatments. The obtained data suggest (1) that exposure to environmentally relevant concentrations of the pharmaceuticals alters the hepatic protein expression profile of the Atlantic salmon; and (2) the existence of treatment specific processes that may be useful for biomarker development.

2014-11-18 | PXD001354 | Pride

ChIP-chip analysis of CspC binding in Salmonella enterica serovar Typhimurium strain SL1344

Project description:We performed Chromatin Immunoprecipitation (ChIP) and microarray hybridization analysis of CspC binding in Salmonella Typhimurium strain SL1344 which has been genetically engineered to express a 3xFLAG tagged CspC protein. Chromatin samples were prepared from SL1344 CspC 3xFLAG grown to exponential phase (OD600nm = 0.2). CspC FLAG ChIP and mock normal mouse IgG ChIP reactions were carried out. The purified ChIP DNA samples were hybridized to SL1344 tiling microarrays.

2015-02-26 | E-GEOD-66288 | biostudies-arrayexpress

Epigenetically induced paucity of histone H2A.Z stabilizes fission yeast ectopic centromeres

Project description:In most eukaryotes, the centromere is epigenetically defined by nucleosomes that contain the histone H3 variant centromere protein A (CENP-A). Specific targeting of the CENP-A-loading chaperone to the centromere is vital for stable centromere propagation; however, the existence of ectopic centromeres (neocentromeres) indicates that this chaperone can function in different chromatin environments. The mechanism responsible for accommodating the CENP-A chaperone at novel chromatin regions is poorly understood. Here, we report the identification of transient, immature neocentromeres in Schizosaccharomyces pombe, which show reduced association with the CENP-A chaperone Scm3 attributable to persistence of the histone H2A variant H2A.Z. Following acquisition of adjacent heterochromatin or relocation of the immature neocentromeres to subtelomeric regions, H2A.Z was depleted and Scm3 was replenished, leading to subsequent stabilization of the neocentromeres. These findings provide novel insights into histone variant-mediated epigenetic control of neocentromere establishment. Comparison of chromosomal distributions of centromeric proteins and heterochromatin proteins between the NC survivors and their derivatives.

2013-11-03 | E-GEOD-37094 | biostudies-arrayexpress

The 19S proteasome subunit Rpt3 regulates distribution of CENP-A by associating with centromeric chromatin

Project description:CENP-A, a variant of histone H3, is incorporated into centromeric chromatin and plays a role during kinetochore establishment. In fission yeast, the localization of CENP-A is limited to a region spanning 10 to 20 kb of the core domain of the centromere. Here, we report a mutant (rpt3-1) in which this region is expanded to 40 to 70 kb. Likely due to abnormal distribution of CENP-A, this mutant exhibits chromosome instability and enhanced gene silencing. Interestingly, the rpt3+ gene encodes a subunit of the 19S proteasome, which localizes to the nuclear membrane. While Rpt3 associates with centromeric chromatin, the mutant protein has lost this localization. A loss of the cut8+ gene encoding an anchor of the proteasome to the nuclear membrane causes similar phenotypes as observed in the rpt3-1 mutant. Thus, we propose that the proteasome (or its subcomplex) associates with centromeric chromatin and regulates distribution of CENP-A. Chromosomal distributions of differentially expressed centromere protein A in wild-type and a proteasome mutant.

2014-04-07 | E-GEOD-44594 | biostudies-arrayexpress

Female adult to male adult comparison and 1st instar larvae to adult comparisons

Project description:This SuperSeries is composed of the following subset Series: GSE11363: Female adult hornfly gene expression vs male adult hornfly gene expression GSE11364: Hornfly 1st instar larvae vs pooled adult + egg Refer to individual Series

2010-05-26 | E-GEOD-11828 | biostudies-arrayexpress

Expression profiling of the genes responding to zearalenone and its analogues using estrogen-responsive genes.

Project description:Comparing the expression profiles of the genes in response to estrogen or 17b-estradiol (E2) and a mycotoxin, zearalenone (ZEA), and its analogues. Keywords: Gene expression profiling Two-condition experiment, E2- or ZEA-treated vs. control cells. 2 to 3 biological replicates, independently grown and harvested. Two to three replicates per array.

2010-09-09 | E-GEOD-15249 | biostudies-arrayexpress

LPS-induced gene expression in wildtype and MAL knockout mouse macrophages

Project description:Comparison of gene expression in WT and MAL knockout (MALKO) mouse macrophages treated with 10ng/ml lipopolysaccharide (LPS) with that of mock-treated cells incubated for the same time (10 days). Cells from 4 mice of each genotype were used and each individual served as its own control. Hybridizations of treated and control samples were dye swapped. Two experiments: WT vs. LPS-treated WT, and MALKO vs. LPS-treated MALKO. 4 individual biological replicates for each genotype, and each mouse served as its own mock control.

2010-01-28 | E-GEOD-20091 | biostudies-arrayexpress

Karyotype analysis of S. cerevisiae chromosome replacement lines - alpha-type cells

Project description:The S. cerevisiae hybrid karyotypes were analyzed by array-CGH to identify small regions of duplication or homeologous chromosomal exchange occurring during the strain construction. alpha-type cells. S. cerevisiae vs. Chromosome replacement lines. Biological replicates: 1 control (S. bayanus), 11 Chromosome replacement lines, independently grown and harvested. Two replicate per array.

2010-06-25 | E-GEOD-12776 | biostudies-arrayexpress

Karyotype analysis of S. cerevisiae chromosome replacement lines - a-type cells

Project description:The S. cerevisiae hybrid karyotypes were analyzed by array-CGH to identify small regions of duplication or homeologous chromosomal exchange occurring during the strain construction. a-type cells. S. cerevisiae vs. Chromosome replacement lines. Biological replicates: 1 control (S. bayanus), 11 Chromosome replacement lines, independently grown and harvested. Two replicate per array.

2010-06-25 | E-GEOD-12775 | biostudies-arrayexpress

WT vs KO of lp_2991 comparison

Project description:A mutant of L. plantarumWCFS1 (deletion of lp_2991) was compared with the wildtype grown in standard MRS broth. Cells were sampled at OD1 for mRNA extraction. Knockout vs wildtype. Technical replicates (same mRNA isolation) used for a dye swap.

2010-04-01 | E-GEOD-20515 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

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