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Links from GEO DataSets

Items: 20

1.

GRHL1 acts as a tumor suppressor in neuroblastoma and is negatively regulated by MYCN and HDAC3

(Submitter supplied) Neuroblastoma is an embryonic solid tumor of neural crest origin and accounts for 11% of all cancer-related deaths in children. Novel therapeutic strategies are therefore urgently required. MYCN oncogene amplification, which occurs in 20% of neuroblastomas, is a hallmark of high risk. Here we aimed to exploit molecular mechanisms that can be pharmacologically addressed with epigenetically modifying drugs, such as histone deacetylase (HDAC) inhibitors. more...
Organism:
Homo sapiens
Type:
Expression profiling by array
Dataset:
GDS5263
Platform:
GPL10558
12 Samples
Download data: TXT
Series
Accession:
GSE47407
ID:
200047407
2.
Full record GDS5263

Enforced Grainyhead-like 1 expression effect on BE(2)-C neuroblastoma cell line: time course

Analysis of BE(2)-C cells up to 72 hrs after transient transfection with construct pTRex-GRHL1. The three mammalian GRHL genes (GRHL1, -2, and -3) represent a highly conserved family of β-scaffold transcription factors. Results provide insight into the role of GRHL1 in neuroblastoma biology.
Organism:
Homo sapiens
Type:
Expression profiling by array, count, 2 protocol, 3 time sets
Platform:
GPL10558
Series:
GSE47407
12 Samples
Download data
DataSet
Accession:
GDS5263
ID:
5263
3.

Differential gene expression in neuroblastoma cells after treatment with vehicle control, JQ1, panobinostat, or combination of JQ1 and panobinostat

(Submitter supplied) The bromodomain inhibitor JQ1 and the histone deacetylase inhibitor panobinostat induce synergistic anticancer effects We analyzed whether JQ1 and panobinostat synergistically modulate gene expression
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL16686
12 Samples
Download data: CEL
Series
Accession:
GSE68690
ID:
200068690
4.

MYCN and HDAC2 cooperate to repress miR-183 signaling in neuroblastoma.

(Submitter supplied) MYCN is a master regulator controlling many processes necessary for tumor cell survival. Here, we unravel a microRNA network that causes tumor suppressive effects in MYCN-amplified neuroblastoma cells. In profiling studies, histone deacetylase (HDAC) inhibitor treatment most strongly induced miR-183. Enforced miR-183 expression triggered apoptosis, and inhibited anchorage-independent colony formation in vitro and xenograft growth in mice. more...
Organism:
Homo sapiens
Type:
Non-coding RNA profiling by array
Platform:
GPL8179
6 Samples
Download data: TXT
Series
Accession:
GSE44538
ID:
200044538
5.

Gene expression study in Neuroblastoma after BET inhibition

(Submitter supplied) We studied transcriptional changes by Illumina HumanHT-12 v4 microarrays in 2 Neuroblastoma cell lines after i-BET-726 treatment
Organism:
Homo sapiens
Type:
Expression profiling by array
Datasets:
GDS5364 GDS5365
Platform:
GPL10558
18 Samples
Download data: TXT
Series
Accession:
GSE47386
ID:
200047386
6.
Full record GDS5365

BET inhibitor I-BET726 effect on non-MYCN-amplified neuroblastoma cell line SK-N-SH: dose response

Analysis of SK-N-SH neuroblastoma (NB) cells treated with 0.1 or 1 uM I-BET726, a BET inhibitor. MYCN is unamplified in SK-N-SH. BET inhibitors display anti-proliferative activity in MYC driven hematologic cancer models. Results provide insight into the anti-proliferative activity of I-BET726 in NB.
Organism:
Homo sapiens
Type:
Expression profiling by array, transformed count, 2 agent, 3 dose sets
Platform:
GPL10558
Series:
GSE47386
9 Samples
Download data
7.
Full record GDS5364

BET inhibitor I-BET726 effect on MYCN-amplified neuroblastoma cell line CHP-212: dose response

Analysis of CHP-212 neuroblastoma (NB) cells treated with 0.1 or 1 uM I-BET726, a BET inhibitor. MYCN is amplified in CHP-212. BET inhibitors display anti-proliferative activity in MYC driven hematologic cancer models. Results provide insight into the anti-proliferative activity of I-BET726 in NB.
Organism:
Homo sapiens
Type:
Expression profiling by array, transformed count, 2 agent, 3 dose sets
Platform:
GPL10558
Series:
GSE47386
9 Samples
Download data
8.

Dickkopf-1 is down-regulated by MYCN and inhibits neuroblastoma cell proliferation

(Submitter supplied) Neuroblastomas are tumors of the developing peripheral sympathetic nervous system, which originates from the neural crest. Twenty percent of neuroblastomas show amplification of the MYCN oncogene, which correlates with poor prognosis. The MYCN transcription factor can activate and repress gene expression. To broaden our insight in the spectrum of genes down-regulated by MYCN, we generated gene expression profiles of the neuroblastoma cell lines SHEP-21N and SKNAS-NmycER, in which MYCN activity can be regulated. more...
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL570
16 Samples
Download data: CEL, CHP
Series
Accession:
GSE8066
ID:
200008066
9.

Expression profiling of the murine neural crest precursor cell line, JoMa1

(Submitter supplied) JoMa1 cells are pluripotent precursor cells, derived from the neural crest of mice transgenic for tamoxifen-inducible c-Myc. Following transfection with a cDNA encoding for MYCN, cells become immortlized even in the absence of tamoxifen.
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL1261
8 Samples
Download data: CEL
Series
Accession:
GSE27159
ID:
200027159
10.

Differential gene expression in neuroblastoma cells after transfection with control siRNA, MYCN siRNA or TFAP4 siRNA.

(Submitter supplied) We analyed the gene expression profiles after knocking down MYCN or TFAP4. Results showed that transcription factor MYCN and TFAP4 commonly regulats a subset of genes that may contribute to neuroblastoma cells proliferation and migration.
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL570
6 Samples
Download data: CEL
Series
Accession:
GSE74626
ID:
200074626
11.

FOXP1 inhibits cell growth and attenuates tumorigenicity of neuroblastoma

(Submitter supplied) Single-color gene expression profiles from 3 neuroblastoma cell lines were generated using 44K oligonucleotide microarrays. To gain insights into the molecular processes occurring upon FOXP1 re-expression, we performed series of time-resolved gene expression measurements in FOXP1 and GFP transgenic neuroblastoma cell lines.
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL16876
24 Samples
Download data: TXT
Series
Accession:
GSE62419
ID:
200062419
12.

CaSR modulator in neuroblastoma model

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Mus musculus; Homo sapiens
Type:
Expression profiling by array
Platforms:
GPL17400 GPL17692
31 Samples
Download data: CEL
Series
Accession:
GSE73509
ID:
200073509
13.

CaSR modulator in neuroblastoma model [mouse]

(Submitter supplied) CaSR modulation inhibits neuroblastoma growth
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL17400
16 Samples
Download data: CEL
Series
Accession:
GSE73506
ID:
200073506
14.

CaSR modulator in neuroblastoma model [human]

(Submitter supplied) CaSR modulation inhibits neuroblastoma growth
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL17692
15 Samples
Download data: CEL
Series
Accession:
GSE73504
ID:
200073504
15.

Targeting EZH2 in MYCN-amplified Neuroblastoma

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL11154
24 Samples
Download data: BW
Series
Accession:
GSE85432
ID:
200085432
16.

Targeting EZH2 in MYCN-amplified Neuroblastoma [RNA-seq]

(Submitter supplied) Purpose: Identify new targets in MYCN-amplified Neuroblastoma Methods: Kelly and LAN-1 neuroblastoma cells were treated in duplicate with 2 uM GSK126 (Excess Biosciences M60071-2) or DMSO for 2 or 5 days. RNA was extracted from cells with the RNeasy Kit (Qiagen). RNA libraries were prepared for sequencing using standard Illumina protocols. The pool of sixteen samples was sequenced on two lanes of an Illumina HiSeq, generating single end reads of 32-76 bp length. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL11154
16 Samples
Download data: TXT
17.

Targeting EZH2 in MYCN-amplified Neuroblastoma [ChIP-seq]

(Submitter supplied) Purpose: Identify new targets in MYCN-amplified Neuroblastoma Methods: ChIP-Seq experiments were performed on Kelly and LAN-1 neuroblastoma cells by using the following antibodies: anti-EZH2 (Cell Signaling 5246S); anti-H3K27me3 (Millipore 07-449); anti-H3K4me3 (Abcam ab8580). We evaluated the global EZH2 PRC2-dependence by identifiying direct genome-wide target genes for EZH2, H3K27me3 and H3K4me3. more...
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL11154
8 Samples
Download data: BW
Series
Accession:
GSE85430
ID:
200085430
18.

Gene expression data from primary neuroblastoma tumors

(Submitter supplied) This dataset contains gene expression data from the NRC series (Neuroblastoma Research Consortium) for a total of 283 primary neuroblastoma tumors. All tumor samples are fully annotated including patient age at diagnosis, overall and progresison free survival and MYCN amplification status, enabling subgroup analysis, survival analysis and gene expression network analysis.
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL5175
283 Samples
Download data: CEL
Series
Accession:
GSE85047
ID:
200085047
19.

Network-based, cross-cohort discovery of transcriptional mechanisms presiding over maintenance of high-risk neuroblastoma subtype state

(Submitter supplied) Network-based analysis of neuroblastoma samples from two large cohorts identified master regulator proteins controlling the transcriptional state of three high-risk molecular subtypes. In particular, a TEAD4-MYCN positive feedback loop emerged as the core regulatory motif of a small protein module presiding over implementation and stability of the subtype associated with MYCN amplification. Specifically, MYCN transcriptionally activates TEAD4, which in turn activates MYCN both transcriptionally and post-translationally. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL18573 GPL16791
16 Samples
Download data: BED, TXT
20.

Serial transcriptome analysis and cross species integration identifies CENPE as novel neuroblastoma target

(Submitter supplied) Cancer genomic studies that rely on analysis of diagnostic biopsies from primary tumors may not fully identify the molecular events associated with tumor progression. We hypothesized that characterizing the transcriptome during tumor progression in the TH-MYCN transgenic neuroblastoma model would identify oncogenic drivers that would be targetable therapeutically. We quantified expression of 32,381 murine genes in 9 hyperplastic ganglia harvested at 3 time points, and 4 tumor cohorts of progressively larger size (n=6 each group) in mice homozygous for the TH-MYCN transgene. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL2995
35 Samples
Download data: TXT
Series
Accession:
GSE17740
ID:
200017740
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