Effect of HS-mediated telomere disruption on Nalm6 cells
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1172720 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:Nalm6 tumour cells were engineered with focused ultrasound (FUS)-controllable CRISPR (heat-inducible CRISPR) with telomere-targeting gRNA or control non-targeting (NT) gRNA, and either treated with heat shock (HS) or no HS (control, CT). We observed that a relatively short duration of HS (10 min) significantly inhibited the proliferation of the cells engineered with telomere FUS-CRISPR, but not that of the cells with NT FUS-CRISPR, suggesting that telomere disruption rather than hyperthermia itself suppressed cell growth. Bulk RNA-seq further revealed that FUS-CRISPR-mediated telomere disruption led to the upregulation of multiple genes associated with the stress response p53 signaling pathway and apoptotic process and the TNF family in the engineered cells to trigger cell cycle arrest.
2024-10-14 | GSE279445 | GEO
Project description:We examined differential expression of genes within 10MBs of telomeres in myoblasts with long or short telomeres We offer telomere looping with telomere length as a partial mechanistic explanation for the changes gene expression that is observed. Compare expression of genes within 10MB of the telomere in normal myoblasts with long (15 kb) and short (6 kb) telomeres.
2014-07-17 | E-GEOD-48973 | biostudies-arrayexpress
Project description:Gene expression of different flocculent (HS 10 and HS 34) and powdery (HS 12 and HS 37) yeast strains compared to each other during exponential and stationary growth phase was analysed. The isolation of RNA was done by disruption of the cells under liquid nitrogen using mortar and pistil and then the Qiagen RNeasy Midi Kit with some modifications within the manufacturers´ protocol and the Qiagen RNase-Free DNase Set were applied. 6 µg of the total RNA per sample was used for each microarray experiments. The indirect labelling by the tyramide-signal-amplification method (MicromaxTM TSATM labelling and detection Kit from Perkin Elmer life sciences) was used to increase the Cy3 and Cy5 signals of microarray detection. Each cDNA containing Biotin- and Fluorescein-nucleotides respectively was purified with a QIAquick PCR purification kit and suspended in 11 µl of the formamide containing hybridization buffer. The slides were hybridized at 42°C over night under a cover slip. The microarrays were scanned by the Axon 4000B scanner; image intensity data were extracted and analysed with GenePix® Pro 6.0 software. Data from different scans of Dye-swap experiment were extracted by GenePix Pro 6.0 software, normalized and united. An outliertest has been applied in order to find outliers amongst the gene replicats. Subsequently, a t-test (1% and 5% probability of error) has been used in order to find regulated genes. Keywords: sorted yeast cells Microarray experiments were realised with dye swap.
2008-12-11 | E-GEOD-12369 | biostudies-arrayexpress
Project description:Gene expression of different flocculent (HS 10 and HS 34) and powdery (HS 12 and HS 37) yeast strains compared to each other during exponential and stationary growth phase was analysed. The isolation of RNA was done by disruption of the cells under liquid nitrogen using mortar and pistil and then the Qiagen RNeasy Midi Kit with some modifications within the manufacturers´ protocol and the Qiagen RNase-Free DNase Set were applied. 6 µg of the total RNA per sample was used for each microarray experiments. The indirect labelling by the tyramide-signal-amplification method (MicromaxTM TSATM labelling and detection Kit from Perkin Elmer life sciences) was used to increase the Cy3 and Cy5 signals of microarray detection. Each cDNA containing Biotin- and Fluorescein-nucleotides respectively was purified with a QIAquick PCR purification kit and suspended in 11 µl of the formamide containing hybridization buffer. The slides were hybridized at 42°C over night under a cover slip. The microarrays were scanned by the Axon 4000B scanner; image intensity data were extracted and analysed with GenePix® Pro 6.0 software. Data from different scans of Dye-swap experiment were extracted by GenePix Pro 6.0 software, normalized and united. An outliertest has been applied in order to find outliers amongst the gene replicats. Subsequently, a t-test (1% and 5% probability of error) has been used in order to find regulated genes. Keywords: sorted yeast cells
2008-12-12 | GSE12369 | GEO
Project description:CHIP-seq performed with no drug treatment in NALM6 cells
2020-01-23 | GSE115764 | GEO
Project description:Identify the expression intensity for all genes in Nalm6 cells and all the genes are divided into 4 equal groups with group 1 containing the 25% of genes that were expressed at the highest levels, and group 4 containing the 25% of genes that were expressed at the lowest levels. Total RNA are isolated from 3 lots of Nalm6 cells and gene expression are determined by microarray gene expression analysis with Nimblegen Human 385K array.
2015-11-03 | E-GEOD-44214 | biostudies-arrayexpress
Project description:We examined differential expression of genes within 10MBs of telomeres in myoblasts with long or short telomeres We offer telomere looping with telomere length as a partial mechanistic explanation for the changes gene expression that is observed.
2014-07-17 | GSE48973 | GEO
Project description:Transcriptional profiling of A549, U2OS, and Nalm6 comparing dexamethason with vehicle control, 3 hour timepoint
2012-07-31 | GSE38971 | GEO
Project description:Deefgea sp. HS strain:HS Genome sequencing and assembly
| PRJNA984196 | ENA
Project description:Transcriptional profiling of A549, U2OS, and Nalm6 comparing dexamethason with vehicle control, 3 hour timepoint Two conditions (treated and untreated), three cell types. Biological replicates: 3 treated and 3 vehicle controls for each cell type. Each array is a two-color hyb of treated vs control in a single cell type (9 arrays total). One dye swap for each condition
2012-07-30 | E-GEOD-38971 | biostudies-arrayexpress