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TranscriptomicsMapping regulatory elements using signatures of open chromatin in Arabidopsis thaliana
Gene expression is controlled by the complex interaction of transcription factors binding to promoters and other regulatory DNA elements. One common characteristic of the genomic regions associated with regulatory proteins is a pronounced sensitivity to DNase I digestion. We reported genome-wide h...
ORGANISM(S): Arabidopsis thaliana 
2012-07-05 | E-GEOD-34318 | biostudies-arrayexpress
GenomicsThe CentO satellite confers translational and rotational phasing on cenH3 nucleosomes in rice centromeres
Plant and animal centromeres comprise megabases of highly repeated satellite sequences, yet centromere function can be specified epigenetically on single-copy DNA by the presence of nucleosomes containing a centromere-specific variant of histone H3 (cenH3). We determined the positions of cenH3 nucle...
ORGANISM(S): Oryza sativa 
2013-11-06 | E-GEOD-50755 | biostudies-arrayexpress
GenomicsDNase I hypersensitive sites in two tissues of rice
Gene expression is controlled by the complex interaction of transcription factors binding to promoters and other regulatory DNA elements. One common characteristic of the genomic regions associated with regulatory proteins is a pronounced sensitivity to DNase I digestion. We generated genome-wide ...
ORGANISM(S): Oryza sativa 
2011-11-09 | E-GEOD-26610 | biostudies-arrayexpress
GenomicsChIP-seq to identify the positions of three histone modifications in the rice genome
Gene expression is controlled by the complex interaction of transcription factors binding to promoters and other regulatory DNA elements. One common characteristic of the genomic regions associated with regulatory proteins is a pronounced sensitivity to DNase I digestion. We generated genome-wide ...
ORGANISM(S): Oryza sativa 
2011-11-09 | E-GEOD-26733 | biostudies-arrayexpress
MetabolomicsShort-Term Clinical Response and Changes in the Fecal Microbiota and Metabolite Levels in Patients with Crohn's Disease After Stem Cell Infusions
Recent studies have shown a close relationship between the gut microbiota and Crohn's disease (CD). This study aimed to determine whether mesenchymal stem cell (MSC) treatment alters the gut microbiota and fecal metabolite pathways and to establish the relationship between the gut microbiota and fec...
2025-07-03 | MTBLS6288 | MetaboLights
UnknownProton-exchange induced reactivity in layered oxides for lithium-ion batteries.
Not available
S-EPMC11560953 | biostudies-literature
TranscriptomicsTranscriptome of rice seedling and callus based on RNA-seq method
To support our research of epigenomics in rice genome, we conducted massively parallel pyrosequencing of mRNAs (RNA-seq) using rice seedling and callus tissues. We obtained a total of 40.1 M reads from seedling and 29.6 M reads from callus.The RNA-seq data derived from the replicates showed high cor...
ORGANISM(S): Oryza sativa Japonica Group 
2011-11-09 | E-GEOD-33265 | biostudies-arrayexpress
ProteomicsTumor-Derived Exosomal CCT6A Serves as a Matchmaker Introducing Chemokines to Tumor-Associated Macrophages in Pancreatic Ductal Adenocarcinoma
CCT6A is a key subunit of the TRiC complex and is responsible for the folding and maturation of approximately 10% of newly synthesized proteins in cells. Given that different TRiC subunits exhibit substrate specificity, we hypothesized that CCT6A might act as a specific binding subunit. To test this...
ORGANISM(S): Homo sapiens (Human) 
2025-05-26 | PXD057101 | Pride
Human  pdac cell line  lc-ms  knockdown of cct6a 
ProteomicsTumor-Derived Exosomal CCT6A Serves as a Matchmaker Introducing Chemokines to Tumor-Associated Macrophages in Pancreatic Ductal Adenocarcinoma
M2-polarized tumor-associated macrophages (TAMs) are a key factor contributing to the poor prognosis of pancreatic ductal adenocarcinoma (PDAC). While various factors within the tumor microenvironment drive their formation, the role of PDAC-derived exosomes in this process remains unclear. We aim to...
ORGANISM(S): Homo sapiens (Human) 
2025-05-26 | PXD056403 | Pride
Exosome Cct6a Pdac 
UnknownN/S-doped biochar-loaded Bi and FeS activated persulfate-driven <sup>1</sup>O<sub>2</sub> efficient degradation of ofloxacin.
Not available
S-EPMC12505686 | biostudies-literature
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