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Items: 1 to 20 of 102

1.

Global misregulation of genes largely uncoupled to DNA methylome epimutations characterizes a congenital overgrowth syndrome

(Submitter supplied) Assisted reproductive therapies (ART) have become increasingly common worldwide and up to ~6% of children currently born in developed countries were conceived employing these technologies. Numerous retrospective studies have suggested that ART-conceived children are more likely to develop the overgrowth syndrome Beckwith-Wiedemann (BWS). In bovine, the use of ART can induce a similar overgrown condition, which is referred to as large offspring syndrome (LOS). more...
Organism:
Bos taurus indicus x Bos taurus taurus
Type:
Methylation profiling by high throughput sequencing
Platforms:
GPL22943 GPL22942
8 Samples
Download data: BW
Series
Accession:
GSE93775
ID:
200093775
2.

Mapping the mouse Allelome reveals tissue-specific regulation of allelic expression

(Submitter supplied) Allele-specific expression is important in development and disease, but a complete picture is lacking. Therefore, we mapped allelic-specific expression in 23 tissues during mouse development, including 19 female tissues allowing X chromosome inactivation (XCI) escapers to also be detected. By using rRNA depleted RNA-seq we were able to map allelic expression of lncRNAs that may be lowly expressed or non-polyadenylated. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL13112 GPL17021
125 Samples
Download data: TXT
Series
Accession:
GSE75957
ID:
200075957
3.

Expression profiling of fibroblasts treated with miR-211 and miR-320c

(Submitter supplied) mRNA profiles generated from primary fibroblast upon treatment with miR-211, miR-302 or melanoma melanosomes. Abstract: Melanoma originates in the epidermis and enters the metastatic and lethal phase upon invasion into the dermis. However, the interactions between melanoma cells and the dermis prior to this invasion have been poorly studied. Here we uncover that melanoma cells directly affect the formation of the dermal tumor niche by microRNA (miRNA) trafficking prior to invading the dermis. more...
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL20880
8 Samples
Download data: CEL
Series
Accession:
GSE72619
ID:
200072619
4.

Array-based DNA-methylation analysis in individuals with developmental delay/intellectual disability and normal molecular karyotype

(Submitter supplied) We analyzed the DNA methylation of peripheral blood samples from 81 individuals with intellectual disability (ID) and compared this methylation pattern to 19 normal controls using the HumanMethylation450 BeadChip and bisulfite pyrosequencing for validiation. We could not show a global methylation pattern that separates the patients from the normal controls. But we detected in an individual approach DNA methylation changes in the genes COLEC11, SHANK2, GLI2 and KCNQ2, known to be associated with ID, in at least one patient. more...
Organism:
Homo sapiens
Type:
Methylation profiling by array
Platform:
GPL13534
100 Samples
Download data: TXT
Series
Accession:
GSE64380
ID:
200064380
5.

PGC reversion to pluripotency involves erasure of DNA methylation from imprinting control centers followed by locus-specific re-methylation

(Submitter supplied) Primordial germ cells (PGCs) are fate restricted to differentiate into gametes in vivo. However when removed from their embryonic niche PGCs undergo reversion to generate pluripotent embryonic germ cells (EGCs) in vitro. One of the major differences between EGCs and embryonic stem cells (ESCs) involves variable methylation at imprinting control centers (ICCs), a phenomenon that is poorly understood. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL17021
8 Samples
Download data: TXT
Series
Accession:
GSE69354
ID:
200069354
6.

Antenatal maternal long-term hypoxia: acclimatization responses with altered gene expression in ovine fetal carotid arteries

(Submitter supplied) In humans and other species, Longlong-term hypoxia (LTH) during pregnancy can lead to intrauterine growth restriction with reduced body/brain weight, dysregulation of cerebral blood flow (CBF), and other problems in humans and rodents. In contrast, sheep appear to undergo relatively successful acclimatization, not demonstrating any of the above-mentioned problems except at extremely high altitude. To identify the signal transduction genetic pathways and those critical molecules, which may be involved in acclimatization to high altitude LTH, we conducted microarray with advanced bioinformatic analysis on carotid arteries (CA) from the normoxic near-term ovine fetus at sea-level and those acclimatized to high altitude for 110+ days during gestation. more...
Organism:
Ovis aries
Type:
Expression profiling by array
Platform:
GPL10778
8 Samples
Download data: TXT
Series
Accession:
GSE49920
ID:
200049920
7.

ZNF-mediated resistance to imatinib mesylate in gastrointestinal stromal tumor

(Submitter supplied) siRNA knock-down of ZNF genes determined to impact gastrointestinal stromal tumor response to imatinib were used to determine functional significance of ZNFs and identify key targets related to imatinib resistance.
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL5175
16 Samples
Download data: CEL
Series
Accession:
GSE40080
ID:
200040080
8.

Airn transcriptional overlap but not its lncRNA products induce imprinted Igf2r silencing.

(Submitter supplied) To test if the imprinted long non-coding RNA (lncRNA) Airn transcription or its product silences the protein-coding Igf2r gene, we shortened the endogenous lncRNA to four different lengths by inserting polyadenylation (polyA) cassettes on the paternal chromosome via homologous recombination in ES cells. ES cell differentiation was used to recapitulate the developmental onset of Airn and Igf2r imprinted expression and polyA cassettes inserted before (T3, T16, T27) or after (T31, T51) the Igf2r promoter successfully truncated Airn, with the exception of T27. more...
Organism:
Mus musculus
Type:
Expression profiling by genome tiling array
Platform:
GPL11618
7 Samples
Download data: PAIR, TXT
Series
Accession:
GSE41444
ID:
200041444
9.

Major functional transcriptome of an inferred center regulator of an ER(-) breast cancer model system

(Submitter supplied) We aimed to find clinically relevant gene activities ruled by the signal transducer and activator of transcription 3 (STAT3) proteins in an ER(-) breast cancer population via network approach. STAT3 is negatively associated with both lymph nodal category and stage. MYC is a component of STAT3 network. MYC and STAT3 may co-regulate gene expressions for Warburg effect, stem cell like phenotype, cell proliferation and angiogenesis. more...
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL887
102 Samples
Download data: TXT
Series
Accession:
GSE32641
ID:
200032641
10.

The inferred mechanisms for prognostic features of signal transducer and activator of transcription 3 in an ER(+) breast cancer model system

(Submitter supplied) Abstract Aberrantly expressed signal transducer and activator of transcription 3 (STAT3) predicts poor prognosis primarily in estrogen receptor positive (ER(+)) breast cancers and activated STAT3 is overexpressed in luminal A subtype cells. The mechanisms contributing to the prognosis and/or subtype relevant features of *STAT3* in ER(+) breast cancers are* *through multiple interacting regulatory pathways including STAT3-MYC, STAT3-ER , STAT3-MYC-ER interactions and the direct action of activated STAT3. more...
Organism:
Homo sapiens
Type:
Expression profiling by array; Third-party reanalysis
Platform:
GPL887
119 Samples
Download data: TXT
Series
Accession:
GSE24124
ID:
200024124
11.

Chip-seq from MEF cells H3K27me3

(Submitter supplied) Genome wide chromatin maps have shown that spreading repressive histone modifications such as H3K9me3 and H4K20me3 are present on pericentromeric and telomeric repeats and on the inactive X chromosome where H3K27me3 or H3K9me3 alternately modify megabasepair sized domains. However, only a few regions along an autosome of which Homeobox gene clusters are notable examples, have been shown to display spreading of repressive histone modifications. more...
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL9185
1 Sample
Download data: GFF, TXT, WIG
Series
Accession:
GSE12721
ID:
200012721
12.

Mouse Chromosome 17 Mapping in Two MEF Cell Lines

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by genome tiling array; Other; Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL6813 GPL6814 GPL6815
39 Samples
Download data: TXT
Series
Accession:
GSE11389
ID:
200011389
13.

Chip-chip from MEF cells with H3ac, H4ac, H4K20me1, H3K27me3, H3K9me3, H4K20me3, H3K4me2, H3K4me3 and H3K9ac

(Submitter supplied) Genome wide chromatin maps have shown that spreading repressive histone modifications such as H3K9me3 and H4K20me3 are present on pericentromeric and telomeric repeats and on the inactive X chromosome where H3K27me3 or H3K9me3 alternately modify megabasepair sized domains. However, only a few regions along an autosome of which Homeobox gene clusters are notable examples, have been shown to display spreading of repressive histone modifications. more...
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by genome tiling array
Platforms:
GPL6814 GPL6815 GPL6813
34 Samples
Download data: TXT
Series
Accession:
GSE11335
ID:
200011335
14.

RNA-chip from MEF cells

(Submitter supplied) Genome wide chromatin maps have shown that spreading repressive histone modifications such as H3K9me3 and H4K20me3 are present on pericentromeric and telomeric repeats and on the inactive X chromosome where H3K27me3 or H3K9me3 alternately modify megabasepair sized domains. However, only a few regions along an autosome of which Homeobox gene clusters are notable examples, have been shown to display spreading of repressive histone modifications. more...
Organism:
Mus musculus
Type:
Other
Platform:
GPL6815
5 Samples
Download data: TXT
Series
Accession:
GSE11337
ID:
200011337
15.

Pre- and postnatal hepatic expression profiles of two pig breeds differing in body composition

(Submitter supplied) In order to gain insight into hepatic metabolic pathways and key transcripts affecting traits related to body composition we aimed to compare samples of pigs of two breeds, the “obese” German Landrace (DL) and the “lean” Pietrain (Pi) obtained at prenatal stages (35, 63, and 91 days post conceptionem) and at adult age (180 days). In terms of number of genes regulated the most striking differences between DL and Pi were found at adult age with upregulation of key genes of lipid biosynthesis/metabolism pathways (FASN, ACSS2, ACACA) in obese DL pigs on the one hand and upregulation of genes of cell growth and/or maintenance, protein syntheses as well as cell proliferation pathways (PPARD, POU1F1, IGF2R) in lean Pi pigs on the other hand. more...
Organism:
Sus scrofa
Type:
Expression profiling by array
Platform:
GPL1881
13 Samples
Download data
Series
Accession:
GSE5399
ID:
200005399
16.

Active and repressive chromatin in the mammalian genome intersperse without spreading in imprinted gene clusters

(Submitter supplied) The Igf2r imprinted cluster is an epigenetic model of cis-acting silencing in which expression of a ncRNA silences multiple genes. Here, we map chromatin profiles on the maternal and paternal chromosome in a 250 kb region. We show that histone modifications associated with expressed and silent genes are mutually exclusive and localize to discrete regions. Expressed genes are modified in two ways; at promoter regions by H3K4me3+H3K4me2+H3K9Ac and on putative regulatory elements by H3K4me2+H3K9Ac. more...
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by genome tiling array; Expression profiling by genome tiling array
Platform:
GPL4317
40 Samples
Download data: TXT
Series
Accession:
GSE5834
ID:
200005834
17.

Custom Genome PCR Tiling Array of the Igf2r Imprinted Gene Cluster

(Submitter supplied) The tiling array contained only single copy sequence (exons, introns and intergenic regions) from the Igf2r imprinted gene cluster on mouse chromosome 17. Repeat elements were excluded by RepeatMasker (www.repeatmasker.org). PCR primers were designed with Primer3 (http://frodo.wi.mit.edu/cgi-bin/primer3/primer3_www.cgi) to amplify all unique single copy mouse sequence. The PCR products were overlapping with an average size of 430bp. more...
Organism:
Mus musculus
1 Series
40 Samples
Download data
Platform
Accession:
GPL4317
ID:
100004317
18.

IGF2R

Organism:
Homo sapiens
Source name:
GIST-T1 Cell Line
Platform:
GPL5175
Series:
GSE40080
Download data: CEL
Sample
Accession:
GSM984762
ID:
300984762
19.

Airn 51kb truncation

Organism:
Mus musculus
Source name:
Airn T51 5d differentiated D3 ESCs (channel 1) wildtype D3 ESCs_sonicated genomic DNA (channel 2)
Platform:
GPL11618
Series:
GSE41444
Download data: TXT
Sample
Accession:
GSM1017453
ID:
301017453
20.

Airn 31kb truncation

Organism:
Mus musculus
Source name:
Airn T31 5d differentiated D3 ESCs (channel 1) wildtype D3 ESCs_sonicated genomic DNA (channel 2)
Platform:
GPL11618
Series:
GSE41444
Download data: TXT
Sample
Accession:
GSM1017452
ID:
301017452
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