Lapatinib and retinoic acid combination treatment of SKBR3 breast cancer cells
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ABSTRACT: SKBR3 cells, which bear both an HER2 and a RARA gene amplification, were treated for 12 or 48 hours with 100 nM retinoic acid, 100 nM lapatinib or the combination.The two drugs synergize and induce massive apoptosis. The aim is to find the molecular mechanism(s) of this synergism. Gene expression profiling was performed using Agilent two-color 4X44K arrays. Original processed data are available in the archive: http://www.ebi.ac.uk/arrayexpress/files/E-MEXP-3192/E-MEXP-3192.additional.zip
Project description:In this experiment, total RNA was extracted from asynchronous population of L1210 cells and hybridized to Affymetrix 430A 2.0 arrays in order to obtain an expression profile of these cells. We have previously mapped the replication timing of the entire mouse genome in this cell line, using mouse CGH arrays (see E-MEXP-1022). We wanted to validate in our system the known correlation between early replication and expression and to analyze its extent. To this end, we have measured the expression in the same cell line (L1210 cells). Two biological replicates were hybridized to 2 identical microarrays. Expression levels were highly similar between the 2 replicates (r=0.98).
Project description:Parallel transcription profiling of cardiomyocyte clusters derived from human embryonic stem cells. Both mRNA (E-MEXP-2654) and miRNA (this experiment) transcription are measured and fetal and adult heart tissues are included as controls. This experiment was updated on 7th July 2011 to fix incorrect AH6 and FH3 files
Project description:Expression profiling of Nup153 RNAi-mediated depletion in Drosophila S2 and Kc cells. This experiment is related to experiment E-MEXP-2525.
Project description:Employing a transcriptomic approach, the gene expression profiles of C57BL/6 and CBA macrophages, before and after L. amazonensis infection in vitro, were compared. These strains were selected due to their different degrees of susceptibility to this parasite.
Project description:We used the BALB/c3T3 cell line model to correlate citotoxicity and transformation endpoints to expression gene profiles after IR exposure. Citotoxicity and Cell Transformation Assay (CTA) were performed 20h after IR exposure by using BALB/c3T3 cells.<br>At the same time, RNAs of exposed cells to a low dose (0.25Gy) and to a high dose (3Gy) were extracted for microarray experiments.
Project description:SKBR-3 cells were transfected with Luciferase siRNA or VE-cadherin siRNA and then treated with 10-7M retinoic acid (RA) for 48 hours.
Project description:We derived B-lineage cells by in vitro culture of neonatal cord blood CD34+ cells on MS-5 stromal cells with recombinant IL-7. These cultures yielded CD19+CD127+ and CD19+CD127- cell populations. We performed gene expression profiling on these populations and compared these with each other and with published expression profiles of freshly isolated BM precursor B-cell subsets (E-MEXP-384). These analyses yielded new insights into their different functionality and developmental stage.<br><br>A file containing statistical analysis of the normalized data is included in the file named E-MEXP-2878.additional.zip on the FTP site for this experiment.
Project description:Examine the dose response characteristics of a set of eight artificial transcripts (IVT) when spiked into a Universal Human RNA background at different copy numbers. The experiment was designed to <br>(i) evaluate the technical reproducibility of array data generated on the Agilent Whole Human 44K array with use of a set of external RNA controls <br> (ii) employ two panels of the same external RNA controls, which differed in copy number between panels, in order to simulate normal and disease states. We employed 8 different pools which were comprised of 8 different external RNA standards in a total human reference RNA background. Each different standard was present at a different copy number within any single pool (see file: E-MEXP-2670.additional.zip). Each control was present at a different concentration in each of the 8 pools. Standard microarray analysis was performed on the data and the differences in abundance between external RNA controls determined in terms of fold change differences.
Project description:At eight weeks of age, male mice were divided into two groups (15 mice per group) fed iso-energetic diet: a control-diet or the same diet supplemented with 0.2% of curcumin (Sigma Aldrich) for 16 weeks (Table S1). The dose of curcumin used in this study is equivalent to 1g curcumin consumption in humans, a level of consumption achievable in South-Asian countries. No significant difference in weight gain was observed between the two groups at the end of the experimental period (data not shown). After 16 weeks, mice were anaesthetized (40 mg pentobarbital/kg of body weight) and blood was collected from the abdominal aorta into heparinised tubes and plasma was stored at -80 C. After washing with sterilized PBS, aorta and heart samples were immediately frozen in liquid nitrogen and stored at -80 C. Original processed data are available in the archive: http://www.ebi.ac.uk/arrayexpress/files/E-MEXP-3185/E-MEXP-3185.additional.zip