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RNA-seq data from MCF-7 cells (breast cancer model) treated with soy extracts

ABSTRACT: The MCF-7 were infected with either control adenovirus expressing B-galactosidase (Ad) or adenovirus expressing ERB (AdERbeta) for 72 h. For knockdown of the endogenous ERa in MCF-7 cells, cells were treated with siRNA for 24h (AdERbeta+SiERalpha). Then cells were treated with Veh (0.1% EtOH), 10 nM E2 or 1 uM BEs (botanical extracts) for 24h. Duplicate samples run; treatment after knockdown included a control treatment (V), estradiol (E2) or botanical extracts; genistein (Gen), S-equol, liquiritigenin (Liq)

ORGANISM(S): Homo sapiens

SUBMITTER: Charles Greenlief

PROVIDER: E-GEOD-56066 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Transcriptomic analysis identifies gene networks regulated by estrogen receptor α (ERα) and ERβ that control distinct effects of different botanical estrogens.

Gong Ping P Madak-Erdogan Zeynep Z Li Jilong J Cheng Jianlin J Greenlief C Michael CM Helferich William W Katzenellenbogen John A JA Katzenellenbogen Benita S BS

Nuclear receptor signaling 20140912

The estrogen receptors (ERs) ERα and ERβ mediate the actions of endogenous estrogens as well as those of botanical estrogens (BEs) present in plants. BEs are ingested in the diet and also widely consumed by postmenopausal women as dietary supplements, often as a substitute for the loss of endogenous estrogens at menopause. However, their activities and efficacies, and similarities and differences in gene expression programs with respect to endogenous estrogens such as estradiol (E2) are not full ...[more]

PMID: 25363786

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RNA-seq data from MCF-7 cells (breast cancer model) treated with soy extracts

Project description:The MCF-7 were infected with either control adenovirus expressing B-galactosidase (Ad) or adenovirus expressing ERB (AdERbeta) for 72 h. For knockdown of the endogenous ERa in MCF-7 cells, cells were treated with siRNA for 24h (AdERbeta+SiERalpha). Then cells were treated with Veh (0.1% EtOH), 10 nM E2 or 1 uM BEs (botanical extracts) for 24h.

2014-10-24 | GSE56066 | GEO

c-Src Modulates Estrogen-Induced Stress and Apoptosis in Estrogen-Deprived Breast Cancer Cells [MCF-7:5C]

Project description:The emergence of anti-estrogen resistance in breast cancer is an important clinical phenomenon affecting long-term survival in this disease. Identifying factors that convey cell survival in this setting may guide improvements in treatment. Estrogen (E2) can induce apoptosis in breast cancer cells that have been selected for survival after E2 deprivation for long periods (MCF-7:5C cells), but the mechanisms underlying E2-induced stress in this setting have not been elucidated. Here, we report that the c-Src kinase functions as a key adapter protein for the estrogen receptor (ER, ESR1) in its activation of stress responses induced by E2 in MCF-7:5C cells. E2 elevated phosphorylation of c-Src, which was blocked by 4-hydroxytamoxifen (4-OHT), suggesting that E2 activated c-Src through the ER. We found that E2 activated the sensors of the unfolded protein response (UPR), IRE1? (ERN1) and PERK kinase (EIF2AK3), the latter of which phosphorylates eukaryotic translation initiation factor-2? (eIF2?). E2 also dramatically increased reactive oxygen species production and upregulated expression of heme oxygenase HO-1 (HMOX1), an indicator of oxidative stress, along with the central energy sensor kinase AMPK (PRKAA2). Pharmacologic or RNA interference-mediated inhibition of c-Src abolished the phosphorylation of eIF2? and AMPK, blocked E2-induced ROS production, and inhibited E2-induced apoptosis. Together, our results establish that c-Src kinase mediates stresses generated by E2 in long-term E2-deprived cells that trigger apoptosis. This work offers a mechanistic rationale for a new approach in the treatment of endocrine-resistant breast cancer. MCF-7:5C cells were treated with vehicle (0.1% EtOH) as control, E2 (10-9mol/L), 4-OHT (10-6mol/L), E2 (10-9mol/L) plus 4-OHT (10-6mol/L), PP2 (5x10-6mol/L), and E2 (10-9mol/L) plus PP2 (5x10-6mol/L) respectively for 72 hours.

2014-07-18 | E-GEOD-59535 | biostudies-arrayexpress

ChIP-Seq of ERalpha and RNA polymerase II defines genes differentially responding to ligands

Project description:We used ChIP-Seq to map ERalpha binding sites and to profile changes in RNA polymerase II (RNAPII) occupancy in MCF-7 cells in response to estradiol (E2), tamoxifen or fulvestrant. We identified 10,205 high confidence ERalpha binding sites in response to E2 of which 68% contained an estrogen response element (ERE) and only 7% contained a FOXA1 motif. Remarkably, 596 genes already change significantly in RNAPII occupancy (59% up and 41% down) following one hour of E2 exposure. Although pausing of RNA polymerase II occurs frequently in MCF-7 cells (17%) it is only observed on a minority of E2-regulated genes (4%). Tamoxifen and fulvestrant partially reduce ERalpha DNA binding and prevent RNAPII loading on the promoter and coding body on E2-upregulated genes. Both antagonists act differently on E2-downregulated genes. Tamoxifen acts as an agonist, also downregulating these genes while fulvestrant antagonizes E2 induced repression and often increases RNAPII occupancy. Furthermore our data identified genes preferentially regulated by tamoxifen but not by E2 or fulvestrant. Thus, antagonist loaded ERalpha acts mechanistically different on E2-activated and E2-repressed genes. Examination of ERalpha binding sites upon the binding of different ligands and association with transcription via RNAPII occupancy.

2009-03-09 | E-GEOD-14664 | biostudies-arrayexpress

Investigating the effects of estrogen in the transcriptional regulation of SOX2 in breast cancer cells.

Project description:We have evaluated the effects of estrogen over SOX2 expression by maintaining MCF-7 under three distinct conditions: estrogen deprivation for a year (LT -E2 MCF-7), treating MCF-7 cells with estrogen for 48 hours (48hr +E2 MCF-7), and maintaining cells under estrogenic conditions for a year (LT +E2 MCF-7).

2024-11-25 | GSE213750 | GEO

Effect of JMJD2B depletion on the ER signaling pathway

Project description:JMJD2B is expressed in a high proportion of human breast tumors, and the expression levels significantly correlate with estrogen receptor (ER) positivity. To assess the effect of JMJD2B depletion on the ER signaling pathway, we performed genome-wide gene expression analysis using the Affymetrix Human Gene 1.0 ST array. RNA was extracted from steroid-depleted control MCF-7 cells (control E2(-)), control MCF-7 cells treated with E2 (control E2(+)), steroid-depleted JMJD2B-depleted MCF-7 cells (siJ2B E2(-)), and JMJD2B-depleted MCF-7 cells treated with E2 (siJ2B E2(+)).

2010-12-31 | E-GEOD-23445 | biostudies-arrayexpress

Global survey of miRNA microarray of MCF-7 cells with or without estrogen (E2) treatment

Project description:To examine the effect of E2 treatment for the miRNA expression in human MCF-7 cells, MCF-7 cells were treated with or without E2 (100 nM) for 4 hr or 24 hr. Four group experiments; E2 (100 nM) treatment for 4 hr (MCF-7 E2 4h_1, MCF-7 E2 4h_2), vehicle (ethanol) treatment for 4 hr as Mock control (MCF-7 Mock1, MCF-7 Mock2), E2 (100 nM) treatment for 24 hr (MCF-7 E2 24h_1, MCF-7 E2 24h_2, MCF-7 E2 24h_3), vehicle treatment for 24 hr as Mock control (MCF-7 Mock_3, MCF-7 Mock_4, MCF-7 Mock_5).

2010-05-15 | E-GEOD-16737 | biostudies-arrayexpress

The transcription factors Snail and Slug activate the TGF-B signaling pathway in breast cancer

Project description:Gene expression profiling to determine transcriptome changes following Snail or Slug expression in MCF-7 breast cancer cells Samples were isolated in three biological replicates for microarray analysis. Four MCF-7 breast cancer cell subsets: MCF-7(untreated), MCF-7 (with Control adenovirus), MCF-7 (with Snail adenovirus) and MCF-7 (with Slug adenovirus). RNA was purified on Day 0 for untreated, and on days 1,2 and 4 for the remaining three subsets for gene expression profiling on microarray.

2011-10-20 | E-GEOD-29672 | biostudies-arrayexpress

Enhancer Transcripts Mark Active Estrogen Receptor Binding Sites

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2013-05-08 | E-GEOD-43835 | biostudies-arrayexpress

RNA-seq of Arabidopsis response to Tetranychus urticae infestation at altered climate conditions

Project description:The Arabidopsis/Tetranychus urticae pair is a model to analyze the response of the plant to the infestation with phytophagous mites. To deep into the effects of environmental conditions on the response of the plant, we compare the transcriptomes of plants grown at standard conditions with plants grown at low humidity and/or mild warm temperature. Comparisons were performed without a second stressor and after 30 min of mite infestation.

2024-12-14 | E-MTAB-13675 | biostudies-arrayexpress

Affinity Purification of Arglu1 and Human Adenovirus B7 E1A-Associated Proteins

Project description:Identification of novel cellular binding partners of human Arglu1 and human adenovirus B7 E1A.

2024-05-13 | PXD050223 | Pride