GEO DataSets

(Submitter supplied) The RET gene has been identified previously as a target of activated ALK at the mRNA level in both human neuroblastoma cell lines and primary tumors as well as in murine tumors driven by mutated Alk and MYCN. Moreover, it has been shown that tumor growth of murine TH-MYCN/KI Alkmut tumors was impaired upon Ret inhibition by the vandetanib inhibitor, suggesting RET as a therapeutic target in ALK mutated neuroblastoma. more...

Organism:

Mus musculus

Type:

Expression profiling by array; Third-party reanalysis

Platform:

GPL16368

6 Samples

Download data: CEL, TXT

(Submitter supplied) The expression profiles of 64 neuroblastic tumors (mainly neuroblastoma) were determined on Affymetrix chips HG U133 Plus 2.0.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

64 Samples

Download data: CEL

(Submitter supplied) Neuroblastoma is an embryonal neoplasm that remains of dramatic prognosis in its aggressive forms. Activating mutations of the ALK tyrosine kinase receptor have been identified in sporadic and familial cases of this cancer. We generated knock-in mice carrying the two most frequent Alk mutations observed in neuroblastoma patients. We used microarrays to detail the global programme of gene expression underlying the impact of ALK mutations on neuroblastoma formation in a MYCN amplified background.

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL16225

31 Samples

Download data: CEL

(Submitter supplied) The goal of this study is to identify the mechanism for how ALK promotes tumorigenesis in neuroblastoma. We developed a human stem cell model of neuroblastoma and generated isogenic tumors using MYCN and MYCN/ALK. RNAseq analysis of both tumors revealed an enrichment in focal adhesion signaling and allowed us to find POSTN as a key mediator of ALK-mediated tumor growth.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24676

9 Samples

Download data: RESULTS

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Homo sapiens

Type:

Expression profiling by array; Expression profiling by high throughput sequencing

Platforms:

GPL18573 GPL14550

16 Samples

Download data: TXT

(Submitter supplied) ALK mutations occur in 10% of primary neuroblastoma and represent a major target for precision treatment. In combination with MYCN amplification, ALK mutations infer an ultra-high-risk phenotype with very poor prognosis. To anticipate to future precision drugging, a deeper understanding of the molecular consequences of constitutive ALK signaling and its relationship to MYCN activity in this aggressive pediatric tumor, will be essential to understand treatment responses and failure as well as to ensure improved design of drugging combinations. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18573

12 Samples

Download data: TXT

(Submitter supplied) ALK mutations occur in 10% of primary neuroblastoma and represent a major target for precision treatment. In combination with MYCN amplification, ALK mutations infer an ultra-high-risk phenotype with very poor prognosis. To anticipate to future precision drugging, a deeper understanding of the molecular consequences of constitutive ALK signaling and its relationship to MYCN activity in this aggressive pediatric tumor, will be essential to understand treatment responses and failure as well as to ensure improved design of drugging combinations. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL14550

4 Samples

Download data: TXT

(Submitter supplied) The ALK^F1174L mutation is associated with intrinsic and acquired resistance to crizotinib and cosegregates with MYCN in neuroblastoma. In this study, we generated a mouse model overexpressing ALK^F1174L in the neural crest. Comapred to mice expressing ALK^F1174L or MYCN alone, combined expression of the two aberrations led to development of neuroblastoma with a shorter latency and higher penetrance. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL10787

10 Samples

Download data: TXT

(Submitter supplied) The prognosis of advanced stage neuroblastoma patients remains poor and, despite intensive therapy, the 5-year survival rate remains less than 50%. We previously identified histone deacetylase (HDAC) 8 as an indicator of poor clinical outcome and a selective drug target for differentiation therapy in vitro and in vivo. Here we performed kinome-wide RNAi screening to identify genes that are synthetically lethal with HDAC8 inhibitors. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL10558

6 Samples

Download data: IDAT

(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

(Submitter supplied) Neuroblastoma is an embryonal tumor arising from the neural crest. It can be mimicked in mice by neural crest-specific overepxression of oncogenes such as MYCN or mutated ALK.

Organism:

Mus musculus

Type:

Expression profiling by array

Dataset:

GDS4621

Platform:

GPL1261

13 Samples

Download data: CEL

Analysis of neuroblastomas (NB) induced by mutated anaplastic lymphoma kinase (ALKF1174L), MYCN, or both oncogenes. ALK is a gene normally expressed in the developing nervous system. Results provide insight into the role of mutated ALK in tumorigenesis.

Organism:

Mus musculus

Type:

Expression profiling by array, transformed count, 4 genotype/variation, 2 tissue sets

Platform:

GPL1261

Series:

GSE32386

13 Samples

Download data: CEL

(Submitter supplied) We performed gene expression profiling by Affymetrix primeview array in both NGP CRISPR control cells and NGP ALK(LF655del) cells.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL16043

6 Samples

Download data: CEL

(Submitter supplied) Neuroblastoma in advanced stages is among the most intractable pediatric cancers, even with the recent therapeutic advances. Neruroblastoma harbours a variety of genetic changes, including a high frequency of MYCN amplification, loss of heterozygosity in 1p36 and 11q, and gain of genetic material from 17q, all of which have been implicated in the pathogenesis of neuroblastoma. However, the scarcity of reliable molecular targets has hampered the development of effective therapeutic agents targeting neuroblastoma. more...

Organism:

Homo sapiens

Type:

Genome variation profiling by SNP array

Platforms:

GPL2005 GPL3718 GPL2004

262 Samples

Download data: CEL, CHP

(Submitter supplied) We performed SMC1A-mediated HiChIP analysis in sensitive, resistant, resistant shBORIS and resistant shGFP Kelly cells.

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL11154

12 Samples

Download data: BED, TXT

(Submitter supplied) We performed gene expression profiling by Affymetrix primeview array in both shBORIS and shLUC resistant Kelly cells.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL16043

4 Samples

Download data: CEL

(Submitter supplied) We performed SMC1-mediated ChIA-PET analysis in both shBORIS and shLUC resistant Kelly cells.

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL11154

4 Samples

Download data: CSV

(Submitter supplied) We performed single-cell RNA-seq analysis in TAE684-sensitive, intermediate resistant and fully resistant Kelly cells.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20301

3 Samples

Download data: MTX, TSV

(Submitter supplied) We performed ChIPseq on histone modification marks, transcriptional factors and chromatin architectural proteins in TC-32 and TC-71 Ewing sarcoma cell lines.

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL18573

16 Samples

Download data: BROADPEAK, BW, NARROWPEAK

(Submitter supplied) We performed ChIP-seq on MYCN in both TAE684 sensitive and resistant Kelly cells.

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL18573

7 Samples

Download data: BW, NARROWPEAK