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Omics score: 51

Ba/F3 cells expressing ETV6-PDGFRb and FIP1L1-PDGFRa treated or not with Glivec

ABSTRACT: Gene expression profiles in Ba/F3 cells expressing ETV6-PDGFRB, FIP1L1-PDGFRA or a control vector, treated or not with imatinib (Glivec) Overall design: Ba/F3 cells expressing FIP1L1-PDGFRA or ETV6-PDGFRB were cultured in the presence or absence of imatinib for 4 hours before RNA extraction followed by hybridization on Affymetrix microarrays. In a control condition Ba/F3 cells were cultured in the presence of IL3 in the absence or in the presence of imatinib for 4 hours before RNA extraction. 4 hours treatment with imatinib in Ba/F3 cells expressing ETV6-PDGFRB, FIP1L1-PDGFRA or a control vector

INSTRUMENT(S): [Mouse430A_2] Affymetrix Mouse Genome 430A 2.0 Array

ORGANISM(S): Mus musculus

SUBMITTER: Jean-Baptiste Demoulin

PROVIDER: GSE44810 | GEO |

SECONDARY ACCESSION(S): PRJNA192425

REPOSITORIES: GEO

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Ba/F3 cells expressing ETV6-PDGFRb and FIP1L1-PDGFRa treated or not with Glivec

Project description:Gene expression profiles in Ba/F3 cells expressing ETV6-PDGFRB, FIP1L1-PDGFRA or a control vector, treated or not with imatinib (Glivec) Ba/F3 cells expressing FIP1L1-PDGFRA or ETV6-PDGFRB were cultured in the presence or absence of imatinib for 4 hours before RNA extraction followed by hybridization on Affymetrix microarrays. In a control condition Ba/F3 cells were cultured in the presence of IL3 in the absence or in the presence of imatinib for 4 hours before RNA extraction. 4 hours treatment with imatinib in Ba/F3 cells expressing ETV6-PDGFRB, FIP1L1-PDGFRA or a control vector

2014-03-21 | E-GEOD-44810 | ArrayExpress

Mus musculus

Project description:Ba/F3 cells expressing ETV6-PDGFRb and FIP1L1-PDGFRa treated or not with Glivec

| PRJNA192425 | ENA

Gene expression profiling of imatinib-treated and untreated human Hematopoetic progenitors expressing the ETV6-PDGFRB oncogene

Project description:In order to investigate the mechanism whereby TEL-PDGF-beta (ETV6-PDGFRB) interferes with human hematopoietic progenitors proliferation and differentiation, we analyzed the gene expression response downstream this oncogene. CD34+ cells infected with lentivirus coding for TEL-PDGFRb were cultured for 7 days in the absence of cytokines. Using Affymetrix microarrays, we compared gene expression in these cells and in cells treated for 4 h with low dose imatinib (Glivec), a potent PDGFR inhibitor, to switch off TEL-PDGFRb signaling. This experiment was performed in three biological replicates. In each replicate gene expression profiling from CD34+ HSCs expressing TEL-PDGFRb untreated with Glivec was compared to the corresoniding treated condition. Total RNA were extracted from transduced CD34+ cells using Trizol reagent (Invitrogen) and the RNeasy kit (QIAGEN).

2012-04-09 | E-GEOD-28698 | ArrayExpress

Gene expression profiling of imatinib-treated and untreated human Hematopoetic progenitors expressing the ETV6-PDGFRB oncogene

Project description:In order to investigate the mechanism whereby TEL-PDGF-beta (ETV6-PDGFRB) interferes with human hematopoietic progenitors proliferation and differentiation, we analyzed the gene expression response downstream this oncogene. CD34+ cells infected with lentivirus coding for TEL-PDGFRb were cultured for 7 days in the absence of cytokines. Using Affymetrix microarrays, we compared gene expression in these cells and in cells treated for 4 h with low dose imatinib (Glivec), a potent PDGFR inhibitor, to switch off TEL-PDGFRb signaling. Overall design: This experiment was performed in three biological replicates. In each replicate gene expression profiling from CD34+ HSCs expressing TEL-PDGFRb untreated with Glivec was compared to the corresoniding treated condition. Total RNA were extracted from transduced CD34+ cells using Trizol reagent (Invitrogen) and the RNeasy kit (QIAGEN).

2012-04-10 | GSE28698 | GEO

U2AF35(S34F) Promotes Transformation by Directing Aberrant ATG7 Pre-mRNA 3’ End Formation

Project description:We sequenced mRNA from Ba/F3 cells with U2AF35(S34F) expressing or parental Ba/F3 Overall design: Examination of alternative splicing between U2AF35(S34F) expressing and parental Ba/F3

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Murine Ba/F3 Cells: Ba/F3 cells expressing wild type JAK2 (WT cells) vs. Ba/F3 cells expressing JAK2 V617F mutant (VF cells)

Project description:Transcriptional profiling of transformed Ba/F3 cells by myeloproliferative neoplasm-associated JAK2 V617F mutant comparing control Ba/F3 cells expressing wild type JAK2. Two-condition experiment, WT cells vs. VF cells. One replicate per array.

2013-10-31 | E-GEOD-34239 | ArrayExpress

microRNA-7 modulates Rb1 and c-Myc expression in myeloid leukemias harboring c-Kit mutations

Project description:The receptor tyrosine kinase, c-kit, plays a pivotal role in hematopoiesis and self-renewal. Aberrant activation of c-kit can be induced by genetic alterations and is thought to confer therapeutic resistance in leukemia. Significantly, the c-kit D816V mutation is a well-known indicator of poor prognosis in acute myeloid leukemias harboring t(8;21) chromosomal translocations; however, the mechanism by which this mutation promotes therapeutic resistance is still unclear. Our study identified that miR-7 directly targets Retinoblastoma-like Protein 1 (Rb1) and is regulated by the MEK pathway. In addition, we also found that c-Myc is upregulated by the D816V mutation, and is indirectly downregulated by miR-7. Overall design: Sample: (1)Ba/F3 (2)Ba/F3 c-kit V814 (3)MEK inhibitor treated Ba/F3 c-kit V814 ((1)vs(2)), ((2)vs(3)) To screen candidate microRNAs, an array was used to identify differences in microRNA expression between Ba/F3 cells and V814+Ba/F3 cells, as well as V814+Ba/F3 cells in the presence or absence of MEK inhibitor.

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Mus musculus

Project description:Murine Ba/F3 Cells: Ba/F3 cells expressing wild type JAK2 (WT cells) vs. Ba/F3 cells expressing JAK2 V617F mutant (VF cells)

| PRJNA149807 | ENA

Expression data from newborn mouse brain expressing a constitutively active PDGFRb

Project description:To identify targets of PDGFRb signaling and potentially new markers for pericyte activation, we used microarray analysis to compare gene expression in control and mutant pericytes expressing a constitutively active PDGFRb. We chose 1 day after birth as a time point for analysis because the number of pericytes and morphology of the vasculature is similar between mutants and controls at this time. We dissociated P1 mouse brains and isolated microvessel fragments with their associated pericytes by affinity to anti-PECAM-coated magnetic beads. RNA was then isolated from four control (wild type) and four mutant (PDGFRb D849V knockin) brains, and then used to prepare labeled samples for array hybridization.

2011-06-15 | E-GEOD-29284 | ArrayExpress

Comparison of expression profiles of Ba/F3 cells transduced with human CALR or human CALR + Type 1 mutation (hCALR-del52) by RNA-seq

Project description:Murine Ba/F3 cells were transduced with retroviral vectors (pMSCV-IRES-GFP) expressing hCALR or hCALR-del52 and treated with 1ng/ml interleukin-3 (IL-3). RNA-seq was performed in triplicates, with on average 109 M reads per group (36 M reads per replicate). Overall design: Three replicates of Ba/F3 cells constitutively expressing hCALR or hCALR-del52 were treated with IL-3 and subjected to RNA-seq, followed by differential expression analysis.

| GSE62822 | GEO

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