Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Somatic CNV profile of congenital ectopic thyroids

ABSTRACT: To assess whether specific genes have relevant somatic genetic or epigenetic alterations in ectopic tissue, we used a combined analysis of transcriptome (confirmed by qRT-PCR on 68 genes), methylome, structural genome variations (copy number variants, CNVs) and miRNA profile of ectopic compared with orthotopic thyroids.

ORGANISM(S): Homo sapiens

PROVIDER: GSE17463 | GEO | 2010/10/27

SECONDARY ACCESSION(S): PRJNA118741

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Somatic CNV profile of congenital ectopic thyroids

2010-10-27 | E-GEOD-17463 | biostudies-arrayexpress

Methylome analysis of congenital ectopic thyroids

2010-10-27 | GSE17581 | GEO

Methylome analysis of congenital ectopic thyroids

Project description:To assess whether specific genes have relevant somatic genetic or epigenetic alterations in ectopic tissue, we used a combined analysis of transcriptome (confirmed by qRT-PCR on 68 genes), methylome, structural genome variations (copy number variants, CNVs) and miRNA profile of ectopic compared with orthotopic thyroids. The MeDIP-chip was performed using pair of enriched methylated fraction (IP) and nomal fraction (IN) of genomic DNA from the three available cases and the three controls. The methylated fraction of genomic DNA was enriched using the methylated DNA immunoprecipitation (MeDIP) assay (Weber et al. Nat Genetics, 2005) and interrogated on human Promoter plus CpG Island Tiling Arrays with a ChIP design for CpG islands and promoter regions (n=28,226) from HG18 using 385,020 Probes selected from CGH probe bank with a median spacing of 101bp (Roche NimbleGen, Madison, WI).

2010-10-27 | E-GEOD-17581 | biostudies-arrayexpress

Analysis of transcriptome in ectopic versus orthotopic thyroid tissue.

Project description:Congenital hypothyroidism from thyroid dysgenesis (CHTD) is a sporadic disease characterized by defects in the differentiation, migration or growth of thyroid tissue. Of these defects, incomplete migration resulting in ectopic thyroid tissue is the most common (up to 80%). We obtained flashfrozen samples of ectopic thyroid tissue removed from 3 girls aged 8, 10 and 15 yr, because it caused local symptoms. For comparison, we used orthotopic thyroid tissue from a Caucasian female, age 68 with gall bladder cancer. Analysis of transcriptome revealed up to 1011 genes more than twofold induced or repressed. Microarray hybridization was performed on three independent pairs of ectopic thyroids (one pair performed in duplicate) compared to control thyroid tissue. After amplification and labelling, sample pairs were hybridized onto Human Exonic Evidence Based Oligonucleotide HEEBO slides (Stanford Functional Genomics Facility, CA). The oligonucleotide set consists of 44544 70-mer probes that were designed using a transcriptome-based annotation of exonic structure for genomic loci. Hybridizations were replicated with dye swap.

2010-10-28 | E-GEOD-16804 | biostudies-arrayexpress

Analysis of transcriptome in ectopic versus orthotopic thyroid tissue.

2010-10-28 | GSE16804 | GEO

7q11.23 CNV altered proteome in iPSC differentiating neurons

Project description:Copy number variations (CNVs) at 7q11.23 cause Williams-Beuren (WBS) and 7q microduplication syndromes (7Dup), two neurodevelopmental disorders with shared and opposite cognitive-behavioral phenotypes. Using patient-derived and isogenic neurons, we integrated transcriptomics, translatomics and proteomics to elucidate the molecular underpinnings of this dosage effect. We found that 7q11.23 CNVs cause opposite alterations in neuronal differentiation and neuronal excitability. Here, the 7q11.23 CNV altered proteome in iPSC differentiating neurons was measured by a fast SWATH-MS method.

2024-10-17 | PXD038156 | Pride

Expression data from normal adults and fetal human thyroids

Project description:Transcriptomic signature of human embryonic thyroid is not described so far. The goal of this project was to evaluate what enables the transition from differentiation to functional maturation of the human developing thyroid, by performing transcriptomic analysis of human thyroids covering the period of gestation weeks 7-11 and comparing it to adult human thyroids. We defined a non TSH (thyroid stimulating hormone) dependent transition from differentiation to maturation of thyroid. The study also sought to shed light on possible factors that could replace TSH, which is absent in this window of gestational age, to trigger transition to the emergence of thyroid function.

2021-07-15 | GSE165706 | GEO

miRNA and gene expression profiling in human thyroid carcinomas and non-neoplastic thyroids [RNA]

Project description:We performed miRNA and gene expression profiling in a series of 30 thyroid carcinomas and 6 non-neoplastic thyroids.

2020-09-30 | GSE104005 | GEO

miRNA and gene expression profiling in human thyroid carcinomas and non-neoplastic thyroids [miRNA]

Project description:We performed miRNA and gene expression profiling in a series of 30 thyroid carcinomas and 6 non-neoplastic thyroids.

2020-09-30 | GSE103996 | GEO

Homo sapiens

Project description:Methylome analysis of congenital ectopic thyroids

| PRJNA118685 | ENA