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Links from GEO DataSets

Items: 20

1.

Transcriptomic Profiling of Posterior Polymorphous Corneal Dystrophy

(Submitter supplied) To investigate the molecular basis of posterior polymorphous corneal dystrophy (PPCD) by examining the transcriptome in affected individuals and the effect of decreased ZEB1 expression on corneal endothelial gene expression.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL21290 GPL16791
13 Samples
Download data: XLS
Series
Accession:
GSE90489
ID:
200090489
2.

Transcriptomic and gene ontology profiling of the human corneal cell types

(Submitter supplied) Purpose: To identify distinct gene expression and functional profiles for the three main cell types (epithelial, keratocyte and endothelial) of the human cornea. Methods: RNA-sequencing was performed using total RNA isolated from ex vivo corneal epithelial cells (evCEpC), keratocytes (evK) and endothelial cells (evCEnC) obtained from 3 donor corneas obtained from a commercial eye bank. Transcriptomic analysis was performed using Kallisto (alignment (hg38) and quantification) and Sleuth (differential gene expression(DGE)), with transcript abundances calculated as transcripts per kilobase million (TPM). more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL16791
9 Samples
Download data: TXT
Series
Accession:
GSE121922
ID:
200121922
3.

ZEB1 insufficiency causes corneal endothelial cell state transition and altered cellular processing

(Submitter supplied) The zinc finger e-box binding homeobox 1 (ZEB1) transcription factor is a master regulator of the epithelial to mesenchymal transition (EMT), and of the reverse mesenchymal to epithelial transition (MET) processes. ZEB1 plays an integral role in mediating cell state transitions during cell lineage specification, wound healing and disease. EMT/MET are characterized by distinct changes in molecular and cellular phenotype that are generally context-independent. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL20301
12 Samples
Download data: TXT
Series
Accession:
GSE121680
ID:
200121680
4.

Alterations in GRHL2-OVOL2-ZEB1 Axis and Aberrant Activation of Wnt Signaling Lead to Altered Gene Transcription in Posterior Polymorphous Corneal Dystrophy

(Submitter supplied) To investigate the molecular basis of posterior polymorphous corneal dystrophy (PPCD) by examining the transcriptome in an affected individuals with an OVOL2 promoter mutation c.307T>C (PPCD1).
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL21290
2 Samples
Download data: XLS
Series
Accession:
GSE126487
ID:
200126487
5.

Confirmation of the OVOL2 Promoter Mutation c.-307T>C in Posterior Polymorphous Corneal Dystrophy 1

(Submitter supplied) Purpose: To identify the genetic basis of posterior polymorphous corneal dystrophy (PPCD) in families mapped to the PPCD1 locus and in affected individuals without ZEB1 coding region mutations. Methods: The promoter and/or coding regions of OVOL2 were screened in the PPCD family in which linkage analysis established the PPCD1 locus and in 26 PPCD probands who did not harbor a ZEB1 mutation. Copy number variation (CNV) analysis in the PPCD1 and PPCD3 intervals was performed on DNA samples from eight probands using aCGH. more...
Organism:
Homo sapiens
Type:
Genome variation profiling by genome tiling array
Platform:
GPL22253
8 Samples
Download data: TXT
Series
Accession:
GSE84940
ID:
200084940
6.

Agilent-079141 PPCD1-3_loci G4126A 8X60 array (Feature number version)

(Submitter supplied) Agilent-079141 PPCD1-3_loci G4126A Array design is based on genome build hg19/GRCh37. Arrays of this design have barcodes that begin with 16079141 or 2579141 Orientation: Features are numbered numbered Left-to-Right, Top-to-Bottom as scanned by an Agilent scanner (barcode on the left, DNA on the back surface, scanned through the glass), matching the FeatureNum output from Agilent's Feature Extraction software. more...
Organism:
Homo sapiens
1 Related Platform
Download data: TXT
Platform
Accession:
GPL22252
ID:
100022252
7.

Transcriptome Analysis of the Human Corneal Endothelium

(Submitter supplied) Defining the normal and age-dependent HCEnC transcriptome will further refine our understanding of the functional roles that the endothelium plays in the cornea and will provide a basis upon which to compare transcriptomes of normal and dystrophic endothelium for the subsequent development of gene-targeted therapies. We used microarrays to comprehensively characterize human corneal endothelial cell (HCEnC) gene expression, age-dependent differential gene expression and to identify expressed genes mapped to chromosomal loci associated with the corneal endothelial dystrophies PPCD1, FECD4 and XECD
Organism:
Homo sapiens
Type:
Expression profiling by array
Dataset:
GDS5432
Platform:
GPL11532
11 Samples
Download data: CEL
Series
Accession:
GSE58315
ID:
200058315
8.
Full record GDS5432

Age effect on corneal endothelium

Analysis of corneal endothelium from pediatric (4-11 years old) and adult (53-70 years old) donor corneas. Results provide insight into differential molecular expression between pediatric and adult corneal endothelial cells.
Organism:
Homo sapiens
Type:
Expression profiling by array, transformed count, 3 age sets
Platform:
GPL11532
Series:
GSE58315
9 Samples
Download data: CEL
9.

Transcriptomic analysis of cultured corneal endothelial cells as a validation for their use in cell-replacement therapy

(Submitter supplied) The corneal endothelium plays a primary role in maintaining corneal homeostasis and clarity, and must be surgically replaced with allogenic donor corneal endothelium in the event of visually significant dysfunction. However, a worldwide shortage of donor corneal tissue has led to a search for alternative sources of transplantable tissue. Cultured human corneal endothelial cells (HCEnC) have been shown to restore corneal clarity in experimental models of corneal endothelial dysfunction in animal models, but characterization of cultured HCEnC remains incomplete. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL16791
15 Samples
Download data: TXT
Series
Accession:
GSE65991
ID:
200065991
10.

Transcriptome of Human Primary Corneal Endothelial Cells with SLC4A11 deficiency

(Submitter supplied) Mutations in the solute-linked carrier family 4 member 11 (SLC4A11) gene are associated with several corneal endothelial dystrophies, in all of which visually significant cornea edema may require corneal transplantation. To elucidate the pathogenesis of SLC4A11 associated corneal endothelial dystrophies, we analyzed the transcriptome of SLC4A11 knock-down primary human corneal endothelium (SLC4A11 KD pHCEnC) and scrambled RNA treated pHCEnC as controls.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL20301
6 Samples
Download data: TXT
Series
Accession:
GSE142636
ID:
200142636
11.

Transcriptome of Immortalized Mouse Corneal Endothelial Cells with SLC4A11 deficiency

(Submitter supplied) Mutations in the solute-linked carrier family 4 member 11 (SLC4A11) gene are associated with several corneal endothelial dystrophies, in all of which visually significant cornea edema may require corneal transplantation. To elucidate the pathogenesis of SLC4A11 associated corneal endothelial dystrophies, we analyzed the transcriptome of immortalized mouse corneal endothelial cells (Slc4a11-/- MCEnC) and Slc4a11+/+ MCEnC as controls.
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL21493
12 Samples
Download data: TXT
Series
Accession:
GSE142635
ID:
200142635
12.

Novel strategies to enforce an epithelial phenotype in mesenchymal cells

(Submitter supplied) E-cadherin downregulation in cancer cells is associated with epithelial-to-mesenchymal transition (EMT) and metastatic prowess, but the underlying mechanisms are incompletely characterized. In this study, we probed E-cadherin expression at the plasma membrane as a functional assay to identify genes involved in E-cadherin downregulation. The assay was based on the E-cadherin-dependent invasion properties of the intracellular pathogen Listeria monocytogenes. more...
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL570
3 Samples
Download data: CEL
Series
Accession:
GSE57660
ID:
200057660
13.

Nickel exposure induces persistent mesenchymal phenotype in human lung epithelial cells through epigenetic activation of ZEB1

(Submitter supplied) Purpose: Environmentally induced diseases, including cancer typically develop long after the exposure has occurred. However, most of the toxicological studies are conducted during active exposure. Therefore, environmental exposure-induced adverse effects that persist after cessation of exposure is poorly understood. Methods: Immortalized human bronchial epithelial cells (BEAS-2B) were cultured in Dulbecco’s Modified Eagle’s Medium (DMEM, Cellgro) supplemented with 1% Penicillin Streptomycin and 10% Fetal Bovine Serum (FBS, Atlanta Biologicals) at 37 degree C and 5 % CO2. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL16791
20 Samples
Download data: CSV
Series
Accession:
GSE95180
ID:
200095180
14.

Expression profiling of EpH4 mouse mammary epithelial cells overexpressing the AP-1 transcription factor component Fra1

(Submitter supplied) RNA of control mouse mammary epithelial cells (EpH4 control) and corresponding fra1 overexpressing cells (EpH4fra1 cl1 and EpH4fra1 cl2) was hybridized onto an 53MM chip and differentially expressed targets were further analysed. For each sample hybridization was performed in technical triplicate
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL18447
3 Samples
Download data: GPR
Series
Accession:
GSE56089
ID:
200056089
15.

Inactivation of Zeb1 in GRHL2-deficient mouse embryos rescues mid-gestation viability and secondary palate closure

(Submitter supplied) Aim: Identify molecular pathways controlling palate closure Methods: First pharygneal arch of wild-type and Grhl2-/- e10.5 moues embryos was subjected to RNAseq Results: Grhl2-/- PA1 displayed a shift from epithelial to mesenchymal gene expression Conclusions: Grhl2 maintains epithelial cellular identity during palate closure
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL18480
10 Samples
Download data: CSV
Series
Accession:
GSE106130
ID:
200106130
16.

Defining the role of ZEB1 in the pathogenesis of lung cancer

(Submitter supplied) Using an in vitro model for malignant transformation of human bronchial epithelial cells (HBECs) we have found epithelial-to-mesenchymal transition (EMT) and expression of the EMT-transcription factor ZEB1 are early and critical events. Specifically, we found preexisting oncogenic mutations in TP53 and KRAS were required for HBECs to engage EMT machinery in response to microenvironmental (serum/TGFβ) or specific oncogenetic (MYC) EMT-inducing factors, which induce EMT through distinct TGFβ-dependent and vitamin D receptor (VDR)-dependent pathways, respectively, with both requiring ZEB1. more...
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL10558
10 Samples
Download data: IDAT, TXT
Series
Accession:
GSE77925
ID:
200077925
17.

Zeb1 and Snail1 engage miR-200f transcriptional and epigenetic regulation during EMT

(Submitter supplied) Cell plasticity is emerging as a key regulator of tumor progression and metastasis. During carcinoma dissemination epithelial cells undergo epithelial to mesenchymal transition (EMT) processes characterized by the acquisition of migratory/invasive properties, while the reverse, mesenchymal to epithelial transition (MET) process, is also essential for metastasis outgrowth. Different transcription factors, called EMT-TFs, including Snail, bHLH and Zeb families are drivers of the EMT branch of epithelial plasticity, and can be post-transcriptionally downregulated by several miRNAs, as the miR-200 family. more...
Organism:
Canis lupus familiaris
Type:
Expression profiling by array
Platform:
GPL11351
21 Samples
Download data: TXT
Series
Accession:
GSE61217
ID:
200061217
18.

Expression profile of PC-3-derived cell lines after transendothelial migration

(Submitter supplied) Metastatic colonization involves cancer cell lodgment or adherence in the microvasculature and subsequent migration of those cells across the endothelium into a secondary organ site. To study this process further, we analyzed transendothelial migration of human PC-3 prostate cancer cells in vitro. We isolated a subpopulation of cells, TEM4-18, that crossed an endothelial barrier more efficiently, but surprisingly, were less invasive than parental PC-3 cells in other contexts in vitro. more...
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL570
6 Samples
Download data: CEL, CHP
Series
Accession:
GSE14405
ID:
200014405
19.

Identification of Novel Molecular Markers through Transcriptomic Analysis in Human Fetal and Adult Corneal Endothelial Cells

(Submitter supplied) Corneal endothelium is composed of a monolayer of corneal endothelial cells (CECs) in the inner layer of cornea, which is essential for maintaining corneal transparency. In order to better characterize CECs in different developmental stages, we profiled mRNA transcriptomes in human fetal and adult corneal endothelium with the goal to identify novel molecular markers in these cells. By comparing CECs with 12 other types of tissues, we identified 245 and 284 signature genes that are highly expressed in fetal and adult CECs, respectively. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL11154
5 Samples
Download data: TXT
Series
Accession:
GSE41616
ID:
200041616
20.

Identification of Potentially Pathogenic Variants in the Posterior Polymorphous Corneal Dystrophy 1 Locus

(Submitter supplied) Purpose: To identify the genetic basis of posterior polymorphous corneal dystrophy 1 (PPCD1). Methods: Next-generation sequencing was performed on DNA samples from 4 affected and 4 unaffected members of a previously reported family with PPCD1 linked to chromosome 20 between D20S182 and D20S195. Custom capture probes were utilized for targeted region capture of the linked interval. Single nucleotide variants (SNVs) and insertions/deletions (indels) were identified using two bioinformatics pipelines and two annotation databases. more...
Organism:
Homo sapiens
Type:
Genome variation profiling by genome tiling array
Platform:
GPL20879
8 Samples
Download data: TXT
Series
Accession:
GSE72617
ID:
200072617
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