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GenomicsHigh-throughput sequencing of methylated cytosine enriched by modification-dependent restriction endonuclease MspJI
In this study, we combine MspJI digestion and electrophoretic band selection with next generation high-throughput sequencing technology to detect 5-methylcytosines in Arabidopsis genome. By developing a bioinformatics workflow to attribute the CNNR sites recognized by MspJI to the reference genome, ...
ORGANISM(S): Arabidopsis thaliana 
2013-05-01 | E-GEOD-46428 | biostudies-arrayexpress
GenomicsDNA Methylation Analysis of Prostate Cancer Cell Lines and Tissues Using Next Generation Sequencing

Aberrant DNA methylation changes are known to occur during prostate cancer progression beginning with precursor lesions. Utilizing fifty nanograms of genomic DNA in Methylplex-Next Generation Sequencing (M-NGS) we mapped the global DNA methylation patterns in prostate tissues (n=17) and cells (n=...

phs000597.v1.p1 | EGA
TranscriptomicsDirect ChIP-bisulfite sequencing reveals a role of H3K27me3 mediating aberrant hypermethylation of promoter CpG islands in cancer cells (RNA-seq)
Aberrant DNA hypermethylation of CpG island (CGI) promoters are associated with transcriptional repression of many tumor suppressor genes and lead to tumor progression in many cancers. Most recently, one research group observed that aberrantly hypermethylated genes in multiple cancers are already re...
ORGANISM(S): Homo sapiens 
2014-07-01 | E-GEOD-43093 | biostudies-arrayexpress
TranscriptomicsThe transcriptomes for primary panicle in four near-isogenic lines combined of different allele of two major grain length loci GS3 and qGL3 in rice
To investigate the genetic relationship between two major grain length loci GS3 and qGL3, we developed the near-isogenic lines (NILs), NIL-GS3 (GS3/qGL3), NIL-qgl3 (gs3/qgl3), NIL-GS3/qgl3 (GS3/qgl3) in the background of 93-11 (gs3/qGL3) by crossing and MAS approach. Four samples was analyzed: thre...
ORGANISM(S): Oryza sativa 
2014-07-22 | E-GEOD-59619 | biostudies-arrayexpress
TranscriptomicsHIV Infection and Antiretroviral Therapy Have Divergent Effects on Mitochondria in Adipose Tissue
Exploratory microarray analysis identified significant changes in gene expression in adipose tissue. These included changes in genes regulating lipid and steroid metabolic processes and electron carrier activity in HIV-infected patients receiving antiretroviral therapy (ART). Additional genes invo...
ORGANISM(S): Homo sapiens 
2011-07-07 | E-GEOD-30310 | biostudies-arrayexpress
GenomicsDirect ChIP-bisulfite sequencing reveals a role of H3K27me3 mediating aberrant hypermethylation of promoter CpG islands in cancer cells (ChIP-BS)
The model describing that aberrant CpG island (CGI) methylation leads to transcription repression of tumor suppressor genes and thereby is implicated in tumor progression has been established in many cancers. However, recent studies indicated aberrantly hypermethylated genes in multiple cancers are ...
ORGANISM(S): Homo sapiens 
2014-07-01 | E-GEOD-43094 | biostudies-arrayexpress
ProteomicsIntegrative Proteogenomic Characterization Reveals Therapeutic Targets in Poorly Differentiated and Anaplastic Thyroid Cancers
In our study, we constructed a multicenter thyroid-cancer cohort consisting of 467 formalin-fixed paraffin-embedded (FFPE) samples, among which WES, proteome, and phosphorylated proteome analysis were conducted. Thyroid tumors consisted of 124 ATC samples, 47 PDTC samples and 177 PTC samples (includ...
ORGANISM(S): Homo Sapiens 
2025-03-16 | PXD054521 |
UnknownComparison of the Oral Calcimimetics Evocalcet and Cinacalcet in East Asian Patients on Hemodialysis with Secondary Hyperparathyroidism.
Not available
S-EPMC10658267 | biostudies-literature
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