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Analyze chromatin
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Long non-coding RNAs play an important role in the development of colorectal cancer (CRC), while many CRC-related lncRNAs have not yet been identified. The relationship between the expression of LINC00955 (Long Intergenic Non-protein Coding RNA 955) and the prognosis of colorectal cancer patients was analyzed using the sequencing results of the TCGA database.
20p
vioracle
29-09-2023
3
2
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The importance of transcription factors (TFs) and epigenetic modifications in the control of gene expression is widely accepted. However, causal relationships between changes in TF binding, histone modifications, and gene expression during the response to extracellular stimuli are not well understood. Here, we analyze the ordering of these events on a genome-wide scale in dendritic cells in response to lipopolysaccharide (LPS) stimulation.
15p
vigalileogalilei
27-02-2022
8
1
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Single-cell sequencing assay for transposase-accessible chromatin (scATAC-seq) is the state-of-the-art technology for analyzing genome-wide regulatory landscapes in single cells. Single-cell ATAC-seq data are sparse and noisy, and analyzing such data is challenging.
36p
viarchimedes
26-01-2022
8
0
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Understanding how transcription occurs requires the integration of genome-wide and locus-specific information gleaned from robust technologies. Chromatin immunoprecipitation (ChIP) is a staple in gene expression studies, and while genome-wide methods are available, high-throughput approaches to analyze defined regions are lacking.
16p
visilicon2711
20-08-2021
4
1
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In diploid cells, it is important to construct maternal and paternal Hi-C contact maps respectively since the two homologous chromosomes can differ in chromatin three-dimensional (3D) organization.
13p
vijeeni2711
30-06-2021
8
1
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Co-localized combinations of histone modifications (“chromatin states”) have been shown to correlate with promoter and enhancer activity. Changes in chromatin states over multiple time points (“chromatin state trajectories”) have previously been analyzed at promoter and enhancers separately.
19p
vilichoo2711
25-06-2021
10
1
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High-throughput technologies for analyzing chromosome conformation at a genome scale have revealed that chromatin is organized in topologically associated domains (TADs). While TADs are relatively stable across cell types, intra-TAD activities are cell type specific.
7p
vicoachella2711
27-10-2020
7
0
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In epigenetics, the change of the combination of histone modifcations at the same genomic location during cell diferentiation is of great interest for understanding the function of these modifcations and their combinations.
14p
vicolorado2711
22-10-2020
6
0
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The tumor suppressor gene E-cadherin gene is frequently silenced in chronic lymphocytic leukemia (CLL) cells and results in wnt-pathway activation. We analyzed the role of histone epigenetic modifications in E-cadherin gene silencing.
11p
vijisoo2711
29-09-2020
11
0
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At the chromatin level, methylated CpG dinucleotides are R.Msp1 resistant compared with nonmethylated counterparts. The DNA of two E.coli strains was analyzed following transformationwith bacterial cytosine-5-methyltransferase gene M.Msp1 in mammalian transfection vector pcDNA3.
9p
vitamix
19-02-2019
24
0
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It was shown previously [Riedinger, H. J., van Betteraey-Nikoleit, M & Probst, H. (2002)Eur. J. Biochem.269, 2383–2393] that initiation ofin vivo SV40 DNA replication is reversibly suppressed by hypoxia in a state where viral minichromosomes exhibit a nearly complete set of repli-cation proteins. Reoxygenation triggers fast completion and post-translational modifications.
11p
tumor12
20-04-2013
29
1
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Mixed lineage leukemias (MLLs) are histone H3 at lysine 4 (H3K4)-spe-cific methylases that play a critical role in regulating gene expression in humans. As chromatin condensation, relaxation and differential gene expression are keys to correct cell cycle progression, we analyzed the dynamic association of MLL and H3K4 trimethylation at different stages of the cell cycle.
12p
vinaphone15
27-02-2013
35
1
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