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Development of gene expression signatures for breast cancer stem cells (SP cells)

ABSTRACT: To further compare gene expression profile between breast cancer stem cells (SP cells) and non-SP cells, we have employed illumina GEX microarray as a discovery platform to identify gene differential expression between SP with non-SP cells.

ORGANISM(S): Homo sapiens

PROVIDER: GSE26677 | GEO | 2011/01/19

SECONDARY ACCESSION(S): PRJNA136577

REPOSITORIES: GEO

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Development of gene expression signatures for breast cancer stem cells (SP cells)

Project description:To further compare gene expression profile between breast cancer stem cells (SP cells) and non-SP cells, we have employed illumina GEX microarray as a discovery platform to identify gene differential expression between SP with non-SP cells. SP analysis and sorting were done using a FACSVantage SE.The breast cancer cells were sorted into SP and non-SP cells.Total RNA was isolated from the FACS-sorted SP or non-SP cells, and gene expression signiture was detected by microarray.

2011-01-19 | E-GEOD-26677 | biostudies-arrayexpress

Rabbit limbal epithelial side population (SP) cells and non-SP cells

Project description:Corneal epithelial stem cells reside in the limbus that is the transitional zone between the cornea and conjunctiva, and are essential to maintain the homeostasis of corneal epithelium. However, their characterization is poorly understood. Therefore, we constructed gene expression profiles of limbal epithelial SP and non-SP cell using RNA-sequencing. As a result, limbal epithelial SP cells have immature cell phenotypes with endothelial/mesenchymal cell markers, while limbal epithelial non-SP cells have epithelial progenitor cell markers.

2016-04-18 | GSE79620 | GEO

Comparing the transcriptome of SP cells with that of non-SP cells in rainbow trout

2013-08-06 | GSE49565 | GEO

Gene expression in IGROV1 SP and non-SP cells

Project description:Side populations have recently been identified in ovarian cancers and may play an important role in post treatment relapse and resistance to chemotherapeutic drugs. In this study, we aimed to identify the differential expression between IGROV1 SP and NSP on Affymetrix HG-U133plus2 microarrays. We found ovarian tumour SP cells frequently over-express the multi-drug resistance associated P-glycoprotein (ABCB1) by Rank Product (FDR<0.05), and by geneset enrichment analysis, embryonic stem cell-associated ‘NOS’ signature (Notch/Oct4/Sox2 regulated genes) and Polycomb Repressive Complex 2 (PRC2) genes were over-expressed, while PRC2-repressed target genes were significantly under-expressed in the SP from ovarian cell lines compared to non-SP (FDR<10-4). Cells were isolated using Hoechst 33342 cell sorting without other treatment. The experiment was carried out in triplicates: 3 SP samples and 3 non-SP samples

2011-02-09 | E-GEOD-25191 | biostudies-arrayexpress

Gene expression in IGROV1 SP and non-SP cells

2011-02-09 | GSE25191 | GEO

Comparing the transcriptome of SP cells with that of non-SP cells in rainbow trout

Project description:In rainbow trout, type A spermatogonia can be split into SP cells and non-SP cells by the ability to exclude Hoechst 33342 dye (H33342). The H33342 fluorescence of SP cells are lower than that of non-SP cells, after H33342 staining. To investigate whether SP cells were transcriptomically distinct from non-SP cells, we compared the transcriptome of these cells. We used fluorescence-activated cell sorting (FACS) to isolate SP cells and non-SP cells from the type A spermatogonia in rainbow trout. To compensate unavailability of genetically uniform rainbow trout in independent sampling, SP cells and non-SP cells were collected at 3 times from 3 different parental fish groups. This experimental design allowed us to estimate effects specific to each parental fish genotype on mRNA expression in SP cells by a statistical modeling and to exclude the effects in subsequent analysis.

2013-08-06 | E-GEOD-49565 | biostudies-arrayexpress

Project description:WTCCC2 project Schizophrenia (SP) samples

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Gene expression profiling of side population (SP) cells and non-SP cells in Hodgkin Lymphoma (HL) cell lines_2

Project description:SP cells in HL cell lines are characterized by up-regulation of genes related to TNF-alpha Signaling via NF-κB, Inflammatory Response and Hypoxia compared to the non-SP cells.

2021-06-28 | GSE142413 | GEO

Gene expression profiling of side population (SP) cells and non-SP cells in Hodgkin Lymphoma (HL) cell lines_1

2021-06-28 | GSE142411 | GEO

Differential gene expression profiles of side population and non-side population cells of malignant pleural mesothelioma

Project description:Malignant pleural mesothelioma (MPM), which is associated with occupational asbestos exposure, is a deadly disease with no effective treatments due mainly to its high resistance to anti-cancer drugs. The molecular mechanisms responsible for its chemotherapeutic resistance are complicated and undefined. However, the presence of side population cells (SP cells) in tumors is a well-accepted explanation for their anti-cancer drug resistance. To identify SP cell-specific gene expression signature, microarray technique has been employed. Our data show differential gene expression profiles between SP and non-SP cells of H2714 mesothelioma cells. SP cells over-expressed genes associated with cancer stem cell (CSC) and drug resistance: DUSP6, SPRY2 and IL6, as well as multi-pathways, including the cancer stem cell-associated pathways Notch and c-Kit. Therefore, we believe that targeting CSC-specific genes and pathways in SP cells may hold the key to the discovery of effective treatments for reversing chemotherapeutic resistance to MPM treatment.

2011-11-18 | GSE33734 | GEO

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