Browse
Submit Data
Databases
API
Help

Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

9 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Genome-wide microarray expression analysis in Neuroblastoma stem-like cells

ABSTRACT: Two commercial neuroblastoma cell lines (SIMA and SK-N-DZ) enriched their cancer stem cell (CSC) like cell population content by the use of conditioned cell culture media for neurospheres. Genome expression by microarray analysis was performed in CSC-like versus standard tumor cells culture.

ORGANISM(S): Homo sapiens

SUBMITTER: Javier Saez-Castresana

PROVIDER: E-MTAB-2867 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Genomic alterations by array CGH analysis in Neuroblastoma stem-like cells

Project description:Two commercial neuroblastoma cell lines (SIMA and SK-N-DZ) enriched their cancer stem cell (CSC) like cell population content by the use of conditioned cell culture media for neurospheres. Genomic gains and losses were analized by comparative genomic hybridization (CGH) array in CSC-like versus standard tumor cells culture.

2014-11-14 | E-MTAB-2866 | biostudies-arrayexpress

Defining AP4- and MYC-regulated gene expression programs in germinal center B cells during cyclic re-entry

Project description:B cells diversify and affinity-mature their antigen receptor repertoire in germinal centers (GC). GC B cells receive help signals during transient interaction with T cells, yet it remains unknown how these transient T-B interactions sustain the subsequent proliferative program of selected B cells. Here we show that the transcription factor AP4 is required for sustained GC B cell proliferation and subsequent establishment of a diverse and protective antibody repertoire. AP4 is induced by c-MYC during the T-B interactions and maintained by T cell-derived IL-21. B cell-specific deletion of AP4 resulted in reduced GC sizes and somatic hypermutation and a failure to control chronic viral infection. These results indicate that AP4 integrates T cell-mediated selection and sustained expansion of GC B cells for humoral immunity. Splenic B cells activated with anti-IgM and CD40L in vitro and germinal center B cells sorted from C57BL/6 mice eight days after immunization with sheep red blood cells (SRBCs) were obtained and genome-wide occupancy of c-MYC, AP4 and active histone marks was profiled by chromatin immunoprecipitation and high-throughput sequencing. Gene expression in MYCâAP4â LZ, MYC+AP4+ LZ, AP4+ DZ, and APâ DZ GC B cells from SRBC-immunized AP4-mCherry / c-MYC-GFP dual reporter mice was profiled by RNA-seq.

2016-08-23 | E-GEOD-80669 | biostudies-arrayexpress

Identification of MEIS2 binding sites through ChIP-seq in the neuroblastoma Kelly and BE(2)-C cell lines.

Project description:In total, 100x106 SK-N-BE(2)-C and Kelly neuroblastoma cells were processed for ChIP-sequencing. Briefly, pellets were prepared by fixing cells in 1% formaldehyde for 15 minutes, and quenching in 1M Tris pH 7.5. Nuclei were prepared using the Sigma Nuclei Isolation Kit (#NUC-101), and sonicated using a Branson digital sonifier as previously. Antibodies to MEIS2 were from Sigma Aldrich (HPA003256). ChIP-seq libraries were prepared using the KAPA HyperPrep ChIP library kit following the manufacturer’s settings, and were sequenced on an Illumina NextSeq 500 machine.

2022-04-14 | E-MTAB-10620 | biostudies-arrayexpress

Differential Expression of miRNAs: Implication in Colon Cancer Racial Health Disparity

Project description:We have demonstrated that the miR-182 level, in addition to being significantly increased in colon cancer compared to adjacent normal colon tissue, is also significantly increased in African American(AA) compared to Caucasian American (CA) colon cancer. Since miR-182 has been previously associated with decreased survival in colon cancer patients and with increased liver metastases, this observation supports the concept that biological differences between AA and CA colon cancers may contribute to AA disparities in colon cancer survival. We aimed to identify miRNAs that were associated with effects of both tumor and race by generating Agilent miRNA expression profiles on paired colon cancer and adjacent normal colon collected from AA and CA colon cancer subjects. For the 30 paired Stony Brook University (SBU) colon cancer and adjacent normal colon samples, attempts were made to control for other covariates such as age, colon cancer location, stage, BMI and smoking in the selection of the CA samples . However no attempt was made to control for the other covariates in the 30 paired Washington University (WU) colon cancer and adjacent normal colon samples.

2015-06-25 | E-GEOD-48267 | biostudies-arrayexpress

Comparative genomic hybridization of the Citrus clementina 39B3 mutant strain to characterize the hemizygous DNA deletion

Project description:Genomic characterization of hemizygous DNA deletions in Citrus clementina 39B3 mutant

2008-09-01 | E-MEXP-1433 | biostudies-arrayexpress

Comparative genomic hybridization of the Citrus clementina 39E7 mutant strain to characterize the hemizygous DNA deletion

Project description:Genomic characterization of hemizygous DNA deletions in Citrus clementina 39E7 mutant

2008-08-11 | E-MEXP-1432 | biostudies-arrayexpress

Transcription profiling of human bronchial epithelial cells to low doses of cigarette smoke condensate - chronic exposure

Project description:BEAS-2B cells have been treated with low doses (20 ug/ml) of CSC for 4 months. As negative control BEAS-2B cells were treated with DMSO (the CSC solvent). Non-treated cells were cultivated in parallel. Experiment Overall Design: After each month total RNA was extracted from three replicates of CSC, DMSO and non-treated BEAS-2B cells and hybridized to Affymetrix GeneChips.

2009-08-09 | E-GEOD-14383 | biostudies-arrayexpress

PNAs-A15 effects on non-small cell lung cancer cell line

Project description:Expression profile of parental wild type non-small cell lung cancer, NCI-H460, and cancer stem cell-rich (CSC-rich) populations treated with PNAs-A15 for 6 h. Results provide the information that PNAs-A15, a peptide nucleic acid of A-repeats length 15 bp, suppressed up-regulated A-repeats containing genes in both parental wild type and CSC-rich cells. In this study, we isolate cancer stem cell-rich (CSC-rich) population from a non-small cell lung cancer (NSCLC) cell line, NCI-H460, by selectively propagating the cells in a spheroid culture condition. The parental wild type H460 and CSC-rich cells were maintained at 37Â°C in 5% CO2 under sterile conditions in Roswell Park Memorial Institute (RPMI) 1640 medium. Cells were treated with PNAs-A15 in 6-well microplates for 6 h. Total RNA was isolated and hybridized on the HumanHT-12 v4 Expression BeadChip. The RNA expressions were evaluated.

2016-03-17 | E-GEOD-79308 | biostudies-arrayexpress

Transcription profiling by array of human CD138 purified bone marrow plasma cells, CD27 memory B-cells, polyclonal plasmablastic cells and human myeloma cell lines

Project description:Gene expression profiling of CD138 purified bone marrow plasma cells of healthy donors, CD27 memory B-cells, cultured ployclonal plasmablastic cells and cultured human myeloma cell lines. Samples from healthy donors have been re-used from ArrayExpress experiment E-MEXP-2360. Some of the myeloma cell line samples have been re-used from E-TABM-937 and E-TABM-1088.

2017-02-23 | E-MTAB-5212 | biostudies-arrayexpress

Molecular Characterization of Three Gametoclones of Citrus clementina

Project description:Gene deletion analysis of three independent gametoclones of Citrus clementina by comparative genomic hybridization

2013-11-12 | E-MEXP-3926 | biostudies-arrayexpress