Homo sapiens
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA363022 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:Transcriptional profiling of human leukemia HL-60 cells comparing ATRA treated HL-60 cells with ATRA plus ATO. Goal was to determine the effects of ATO on ATRA induced differentiation of HL-60 cells.
2015-03-31 | GSE67420 | GEO
Project description:Transcriptional profiling of human leukemia?HL-60 cells comparing ATRA treated HL-60 cells with ATRA plus ATO. Goal was to determine the effects of ATO on ATRA induced differentiation of HL-60 cells. Two-condition experiment, ATRA vs. ATRA plus ATO treated HL-60 cells.
2015-03-31 | E-GEOD-67420 | biostudies-arrayexpress
Project description:These ChIP-seq data were generated to correlate with genomic interaction data in a related Hi-C analysis.The goal of ChIP-seq are to annotate active promoter and enhancer of ATRA treated and control HL-60 cells. After ATRA induction, H3K27ac peaks distal to gene promoters showed significant changes. Those changes were correlated with interaction intensity between promoters and enhancers.
2018-03-07 | GSE93994 | GEO
Project description:These RNA-seq data were generated to correlate with genomic interaction data in a related Hi-C analysis. Analysis revealed differential expressed genes in ATRA treated and control HL-60 cells. Changes of gene expression with topological associated domains (TADs) were showd to be correlated with chromatin structure alteration
2018-03-07 | GSE93996 | GEO
Project description:We performed RNA-Seq on acute promyelocytic leukemia (APL) cells treated with both all-trans retinoic acid (ATRA) and trichostatin A (TSA) to identify transcriptional changes potentially associated with changes in APL cell mechanical properties. As a control, we performed the same treatments and RNA-Seq analysis on HL-60 cells, which were derived from a patient diagnosed with APL but whose cells lacked the hallmark fusion gene associated with APL. We performed RNA-Seq on these three cell lines (AP-1060, NB4, HL-60) under different conditions (untreated, TSA, ATRA, TSA + ATRA), and identified differentially expressed genes between samples and conditions. This study identified differentially expressed genes and enriched gene sets associated with (1) a resistance to differentiation induced by ATRA or (2) changes in mechanical properties. Overall, we find evidence that ATRA resistance and mechanical properties may be linked by the degree of chromatin condensation in APL cells.
2021-05-26 | GSE175507 | GEO
Project description:To characterize genome-wide H3K4me3 and H3K27me3 chromatin-state of HL-60 cells.
2018-06-13 | GSE100485 | GEO
Project description:Differential Gene Expression between ATRA treated and control HL-60 Cells [RNA-seq]
| PRJNA363025 | ENA
Project description:All-trans retinoic acid (ATRA)-based differentiation therapy has achieved success with the treatment of acute promyelocytic leukemia (APL), a unique subtype of acute myeloid leukemia (AML). However, other subtypes of AML display resistance to ATRA-based treatment. Here, we demonstrate that a novel natural vibsane-type diterpenoid vibsanine A promotes the differentiation of myeloid leukemia cell lines and primary AML blasts. To reveal how vibsanine A function on promoting myeloid leukemia cell differentiation, we analyzed and compared the gene expression profiles in myeloid leukemia HL-60 cells treated with vibsanine A, PMA, and ATRA. HL-60 cells were treated with vibsanine A, PMA and ATRA for 6 hours or longer up to 24 hours. Gene expression profiling was conducted
2016-02-28 | E-GEOD-78734 | biostudies-arrayexpress
Project description:The leukemic cell line HL-60 is widely used to study normal and aberrant myelopoiesis. HL-60 cells can be treated with ATRA (all-trans retinoic acid) and Vit-D3 (1,25-Dihydroxyvitamin D3, calcitriol) to differentiate into granulocytes and monocytes respectively. Induced myeloid differentiation helps us to understand the molecular basis of myeloid differentiation. To understand the genome-wide gene expression changes associated with HL-60 cells upon myeloid differentiation, RNA-sequencing was carried out. We subjected the HL-60 cells with 10 µM ATRA and 50 nM Vit-D3 for 72 hours. Post induction, the uninduced and induced cells were sorted based on CD11b and CD14 markers. The uninduced cells were negative for both the markers while ATRA and Vit D3 inductions were highly positive for CD11b-FITC and CD14-APC-H7 markers respectively. Two biological replicates were used for this experiment. Sorted cells were collected for RNA extraction using RNAeasy Kit from Qiagen and RNA quality was assessed using Bioanalyzer. High quality RNA with RIN values greater than 8, were used to generate library using TrueSeq stranded library preparation kit from Illumina following manufacturer’s instructions. Finally, barcoded libraries were pooled, and a final concentration of 10 nM was loaded in HiSeq 2500 Illumina platform and paired-end sequencing for 2*126 cycles were carried out.
2023-01-25 | E-MTAB-12267 | biostudies-arrayexpress
Project description:We developed a general approach to small molecule library screening called GE-HTS (Gene Expression-Based High Throughput Screening) in which a gene expression signature is used as a surrogate for cellular states and applied it to the identification of compounds inducing the differentiation of acute myeloid leukemia cells. In screening 1,739 compounds, we identified 8 that reliably induced the differentiation signature, and furthermore yielded functional evidence of bona fide differentiation. This data set contains HL-60 cells treated in a time course, in replicate, with 1 uM all trans retinoic acid (ATRA) and 10 nM phorbol 12-myristate 13-acetate (PMA). Also included are untreated HL-60 controls. This data set was used to select marker genes that distinguish the undifferentiated from the PMA or ATRA differentiated states. Keywords = AML Keywords = leukemia Keywords = HL-60 Keywords = chemical genomics Keywords: repeat sample
2004-01-30 | GSE985 | GEO