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BP1 Expression Promotes Tumorigenesis and Aggression in MCF-7 Breast Cancer Cells

ABSTRACT: This study was designed to identify genes that are differentially expressed when BP1 homeobox gene is overexpressed in MCF-7 breast cancer cells. The goal is to understand the functional role of BP1 in breast tumorigenesis. MCF-7 overexpressing pcDNA3.2-BP1 clones, O1 and O4 as replicates vs. MCF-7 transfected with pcDNA3.2 vector clones, V1 and V2 as replicates

ORGANISM(S): Homo sapiens

SUBMITTER: Holly Stevenson

PROVIDER: E-GEOD-21657 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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BP1 Expression Promotes Tumorigenesis and Aggression in MCF-7 Breast Cancer Cells

Project description:This study was designed to identify genes that are differentially expressed when BP1 homeobox gene is overexpressed in MCF-7 breast cancer cells. The goal is to understand the functional role of BP1 in breast tumorigenesis.

2010-05-05 | GSE21657 | GEO

Genetic Analysis of opaque 2 Modifier Loci in Quality Protein Maize

Project description:Quality Protein Maize (QPM) was created by selecting for genetic modifiers that convert the starchy endosperm of an opaque2 (o2) mutant to a hard, vitreous phenotype. Genetic analysis has shown there are multiple, unlinked o2 modifiers (Opm), but their identity and mode of action are unknown. A microarray hybridization performed with RNA obtained from true breeding o2 progeny with vitreous and opaque kernel phenotypes identified a small group of differentially expressed genes, some of which map at or near the Opm QTLs. Compared 18 days after pollination endosperm transcript profiles in true breeding modified (vitreous; V) and non-modified (opaque; O) opaque 2 kernels. Used four vitreous biological reps (V1-V4) and four opaque biological reps (O1-O4). Each biological rep is a pool of 25 kernels representing 5 kernels form each of 5 uniform phenotype ears (vitreous or opaque). Four arrays used: Array 1= V1 vs O1, Array 2 = V2 vs O2, Array 3 = V3 vs O3, Array 4 = V4 vs O4

2010-05-26 | E-GEOD-10449 | biostudies-arrayexpress

Homo sapiens

Project description:BP1 Expression Promotes Tumorigenesis and Aggression in MCF-7 Breast Cancer Cells

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Expression data from ALK over-expressed MCF-7 clones and control clones

Project description:To evaluate the function of ALK in breast cancer, we enforcing expressed full length wild type ALK in the parental MCF-7 breast cancer cell line that we have established in previous studies have a very low invasive capacity, do not form tumor emboli nor do they invade into the dermal lymphatics when grown as xenografts. Whole unbiased transcriptome analysis were performed using ALK over-expressed MCF-7 clones and control clones. Pathway mapping revealed that the presence of ALK induced up and down regulation changes of series of genes within several canonical signal pathway.

2012-10-17 | E-GEOD-41635 | biostudies-arrayexpress

Transcriptomic profiling by RNA-Seq of MCF-7 cells heterozygously depleted in the ARID4B locus by the CRISPR/Cas9 System

Project description:The role of ARID4B in breast cancer development has not been completely elucidated. The aim of this study was to investigate the effect of loss of function mutations generated using the CRISPR/Cas9 system in human breast cancer cells. For this, we characterized the proliferation, viability, and migration rates of different clones with insertions and deletions compared to wild-type cells. We report the transcriptomic profile of mutated MCF-7 clones and negative control.

2023-02-04 | GSE224514 | GEO

O1->O139 Serogroup conversion / KanR selected (15%)

Project description:These experiment were performed to show a serogroup conversion in Vibrio cholerae from O1 to O139. For this purpose, V. cholerae O1 WT = A1552 was grown on crab shell fragments to induce natural competence for transformation. Purified DNA (2 ug each) from strain VCO139-Kan was added after 24h and the cells grwon further for 24h. The VCO139-Kan strain is a MO10 derivative (both O139 serogroup) which harbors a Kanamycin cassette in the O139 region (as part of the operon between wbfA and wbfB w/o own promotor) for better selection. Transformants were selected on LB+Kan plates. Two groups of transformants were gained: Group I had a full exchange of the O1 region by the O139 region (clones serogroup-converted: SGC#1-3); the crossovers for the homologous recombination event had occurred within or upstream of the gmhD gene and in most instances within or downstream of the homolog gene of VC0271. This implies an exchange of an at least 33 kb spanning O1 genomic region by more than 42 kb of the O139 region. Group II had only half of the O139 region transfered and therefore half of the O1 region kept (clones HSGC#4-6). We analyzed their genotype and found that all of them had undergone a homologous recombination event with one crossover in or upstream of the gmhD gene and the second one inside the VC0254 and IS1358 gene. The transformation experiment was done three independent times (I - III). Three clones from group I and group II were selected from each experiment and analyzed by microarray hybridization (BioPrime. Array CGH Genomic Labeling from Invitrogen). Two microarray replicates were done per clone. A genotyping experiment design type classifies an individual or group of individuals on the basis of alleles, haplotypes, SNP's. Strain Name: -III for experimental replicates (transformation); clones #1 -#3 full region exchanged; clones #4-#6 half region exchanged. Two MA replicates for each clone Keywords: genotyping_design, array CGH

2007-04-25 | GSE5120 | GEO

Knock-down and Over-expression of JMJD6 in MCF-7 and/or MDA-MB231

Project description:By survival analysis of breast cancer patients, JMJD6 was found to be significantly associated with poor prognosis. Over-expression and knock-down of JMJD6 in breast cancer cell lines suggested a role in proliferation. In order to study the transcriptional events that occur following JMJD6 expression changes, siRNA-mediated knock-down of JMJD6 was performed in MCF-7 and MDA-MB231 and stable over-expression of JMJD6 was performed in MCF-7. There are 2 different siRNA-mediated knock-downs of JMJD6 with 2 biological replicates in MCF-7 and MDA-MB231; 3 clones of JMJD6 over-expression with 3 biological replicates in MCF-7. The control for the knock-downs is scrambled siRNA-treated MCF-7 and MDA-MB231 and the control for JMJD6 over-expression is empty vector over-expression in MCF-7.

2012-05-09 | E-GEOD-31782 | biostudies-arrayexpress

siRNA profiling if human MCF-7 cell line to investigate the role of FAK, dominant-negative FAK, FAK-CD and FAKsiRNA in MCF-7 human breast cancer cell tumorigenesis

Project description:Focal adhesion kinase (FAK) is a non-receptor tyrosine kinase that plays an important role in proliferation, motility, adhesion, invasion, angiogenesis, and survival signaling. Focal adhesion kinase has been shown to be overexpressed in many types of tumors, including breast cancer at early stages of tumorigenesis. To study the biological role of FAK in breast tumorigenesis, we used FAKsiRNA to down-regulate FAK in MCF-7 cell lines. Experiment Overall Design: Eight samples were analyzed in MCF-7, MCF-7-Vector, MCF-7 control (luciferase) siRNA and FAKsiRNA#1, FAKsiRNA#2

2009-08-22 | E-GEOD-11581 | biostudies-arrayexpress

Gene expression changes in human K562 cells by a synthetic transcription factor (peptide), that mimics the Homeobox protein DLX4 or its isoforms, DLX7 or BP1.

Project description:Homeobox proteins are known as master regulators of developmental morphogenesis. DLX genes encode transcription factors that significantly regulate the hematopoitic system. DLX4 and its isoform BP1 are expressed in different stages of development in human hematopoitic cells and regulate further differentiation. BP1 is the repressor of adult beta and delta globin genes found in fetal and embryonic tissues and rarely observed in adult tissues. In K562, a human chronic myelogenous leukemia cell line, BP1 is found to be over-expressed. In this study we have designed and synthesized a peptide-based artificial transcription factor that mimics the DNA binding domain of DLX4 homeodomain and can antagonise its binding. For the micro-array analysis we have taken peptide treated K562 cells and as control untreated K562 cells. Our study provides gene expression profile upon treatment of the homeodomain mimic.

2018-08-10 | GSE102390 | GEO

Mixed biofilm - cluster transfer O1 to O139

Project description:These experiments were performed to show serogroup conversion in Vibrio cholerae from O1 to O139 in a mixed communities / biofilms. For this purpose, V. cholerae O1 El Tor A1552 and VCO139-Kan strain (a MO10 derivative; O139 serogroup) were grown on crab shell fragments to induce natural competence for transformation. Transformants were selected on LB+Kan+Rif plates. O139 positive transformants have undergone a full exchange of the O1 region by the O139 region. This implies an exchange of an at least 32 kb spanning O1 genomic region by more than 42 kb of the O139 region. The transformation experiment was done at least five independent times; data from four experiments are shown; per experiment one to three clones were analysed by CGH with two experimental replicates each. A genotyping experiment design type classifies an individual or group of individuals on the basis of alleles, haplotypes, SNP's. Keywords: all_pairs, array CGH

2007-04-25 | GSE5932 | GEO

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