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GenomicsBisulphite-sequencing of chromatin immunoprecipitated DNA (BisChiP-seq) directly informs methylation status
Bisulphite sequencing enables DNA methylation analysis of every cytosine residue. We have optimized conditions for combining chromatin immunoprecipation (ChIP) with high throughput bisulphite sequencing to study the relationship between histone modifications and DNA methylation. Paired-end bisulphit...
ORGANISM(S): Homo sapiens 
2012-01-18 | E-GEOD-30558 | biostudies-arrayexpress
GenomicsEvaluation of affinity-based genome-wide DNA methylation data: effects of CpG density, amplification bias and copy number variation
Abstract: DNA methylation is an essential epigenetic modification that plays a key role associated with the regulation of gene expression during differentiation but in disease states such as cancer, the DNA methylation landscape is often deregulated. There are now numerous technologies available to...
ORGANISM(S): Homo sapiens 
2010-10-08 | E-GEOD-24546 | biostudies-arrayexpress
TranscriptomicsExome-capture RNAseq of matched microdissected FF and FFPE human breast cancer cells, cancer-associated fibroblasts, and surrounding tumor-infiltrating lymphocytes.
We examined the performance and reproducibility of exome-capture RNA-seq with the TruSeq® protocol for gene expression profiling of microdissected TC (~20 mm2) FFPE and matched FF sections
ORGANISM(S): Homo sapiens 
2022-11-30 | E-MTAB-11903 | biostudies-arrayexpress
TranscriptomicsExome-capture RNAseq of microdissected FFPE human breast cancer cells, cancer-associated fibroblasts, and surrounding tumor-infiltrating lymphocytes
Here we describe the development of a robust method for RNA extraction and exome-capture RNA-sequencing of laser-capture microdissected (LCM) tumor cells (TC) and stromal immune cells (TIL) based on their morphology. We applied this method on seven tumor specimens and microbiopsies of triple-negativ...
ORGANISM(S): Homo sapiens 
2021-10-31 | E-MTAB-8760 | biostudies-arrayexpress
TranscriptomicsComparative Transcriptomics of Soybean Near Isogenic Lines in Response to Phytophthora Sojae
Phytophthora root and stem rot (PRR) of soybean, caused by Phytophthora sojae, is effectively controlled by Rps genes in soybean. Rps genes are race-specific, yet the mechanism of resistance, as well as susceptibility, remains largely unclear. Taking advantage of RNA-seq technology, we sequenced the...
ORGANISM(S): Glycine max 
2014-04-16 | E-GEOD-48524 | biostudies-arrayexpress
TranscriptomicsTranscriptomic response to benzo[a]pyrene treatment in HepG2 cells (RNA-Seq)
Whole-genome transcriptome measurements are pivotal for characterizing carcinogenic mechanisms of chemicals and predicting toxic classes, such as genotoxicity, from in vitro and in vivo assays. DNA microarrays have evolved as the gold standard for this purpose. In recent years deep sequencing techno...
ORGANISM(S): Homo sapiens 
2012-11-16 | E-GEOD-36242 | biostudies-arrayexpress
UnknownProtocol and Statistical Analysis Plan for a Multicenter Randomized Trial of Ketamine vs Etomidate for Emergency Tracheal Intubation.
Not available
S-EPMC12747562 | biostudies-literature
TranscriptomicsTranscriptomic response to benzo[a]pyrene treatment in HepG2 cells
This SuperSeries is composed of the following subset Series: GSE36242: Transcriptomic response to benzo[a]pyrene treatment in HepG2 cells (RNA-Seq) GSE36243: Transcriptomic response to benzo[a]pyrene treatment in HepG2 cells (Affymetrix) Refer to individual Series
ORGANISM(S): Homo sapiens 
2012-11-16 | E-GEOD-36244 | biostudies-arrayexpress
TranscriptomicsNew partners in regulation of gene expression: the Enhancer of Trithorax and Polycomb Corto interacts with methylated Ribosomal Protein L12 via its chromodomain.
Chromodomains are found in many regulators of chromatin structure. Most of them recognize methylated histones. Here, we investigate the role of the Corto chromodomain. This Drosophila melanogaster Enhancer of Polycomb and Trithorax is involved in both silencing and activation of gene expression. Ove...
ORGANISM(S): Drosophila melanogaster 
2012-09-05 | E-GEOD-38435 | biostudies-arrayexpress
UnknownDistributed battery-free bioelectronic implants with improved network power transfer efficiency via magnetoelectrics.
Not available
S-EPMC12557647 | biostudies-literature
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