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TranscriptomicsThe dsRBP and inactive editor, ADR-1, utilizes dsRNA binding to regulate A-to-I RNA editing across the C. elegans transcriptome
Purpose: The purpose of this experiment is to expand the repertoire of C. elegans edited transcripts and identify the roles of ADR-1 as indirect regulator of editing and ADR-2 as the only active deaminase in vivo. Methods: Strand-specific RNA sequencing of wild-type and adr mutant worms, followed by...
ORGANISM(S): Caenorhabditis elegans 
2014-01-20 | E-GEOD-51556 | biostudies-arrayexpress
TranscriptomicsMap transformed DNA into W6G from VCXB21
Vibrio cholerae isolate W6G transformed with DNA from VCXB21 and selected for chitosan metabolism. Nine independent transformants compared to parental W6G on microarrays containing probes for all N16961 ORFs. Regions acquired from VCXB21 hybridize more strongly to the array. A genotyping experimen...
ORGANISM(S): Vibrio cholerae 
2007-08-16 | E-GEOD-8791 | biostudies-arrayexpress
GenomicsSemiconductor-based sequencing of genome-wide DNA methylation states
Methylated DNA immunoprecipitation sequencing (MeDIP-Seq) is a widely used approach to study DNA methylation genome-wide. Here, we present a novel MeDIP-Seq protocol compatible with the Ion Torrent semiconductor-based sequencing platform that is scalable and accurately identifies sites of differe...
ORGANISM(S): Homo sapiens 
2015-06-10 | E-GEOD-61968 | biostudies-arrayexpress
MetabolomicsMetabolic characterization of the natural progression of chronic hepatitis B (Biogenic amine and Acyl-carnitine assays)
Background: Worldwide, over 350 million people are chronically infected with the hepatitis B virus (HBV) and are at increased risk of developing progressive liver diseases. The confinement of HBV replication to the liver, which also acts as the central hub for metabolic and nutritional regulation, e...
2016-06-06 | MTBLS280 | MetaboLights
TranscriptomicsIP of 5-methylcytosine (5-mc) enriched DNA fragments from control, PB treated mouse livers, resulting Ctnnb1 mutated PB liver tumours and PB minus Ha-Ras mutate liver tumour
Through the analysis of mouse liver tumours promoted by distinct routes (DEN exposure alone, DEN exposure plus non-genotoxic insult with phenobarbital and non-alcoholic fatty liver disease); we report that the cancer associated hyper-methylated CGI events in mice are also predicated by silent promot...
ORGANISM(S): Mus musculus 
2016-05-17 | E-GEOD-77727 | biostudies-arrayexpress
MetabolomicsMetabolic characterization of the natural progression of chronic hepatitis B (Lipid assays)
Background: Worldwide, over 350 million people are chronically infected with the hepatitis B virus (HBV) and are at increased risk of developing progressive liver diseases. The confinement of HBV replication to the liver, which also acts as the central hub for metabolic and nutritional regulation, e...
2016-06-06 | MTBLS279 | MetaboLights
ProteomicsLarge-Scale Analysis of Breast Cancer-Related Conformational Changes in Proteins using Limited Proteolysis
Conformational changes in proteins can lead to disease. Thus, methods for identifying conformational changes in proteins can further improve our understanding and facilitate detection of disease states. Here we combine limited proteolysis (LiP) with Stable Isotope Labeling with Amino Acids in Cell ...
ORGANISM(S): Homo sapiens (Human) 
2016-12-23 | PXD005210 | Pride
Proteomics Limited proteolysis Mass spectrometry Silac Mcf-10a Mcf-7 Protein folding 
ProteomicsProteome-Wide Characterization of Phosphorylation-Induced Conformational and Stability Changes in Breast Cancer
Large-scale studies of protein phosphorylation have generally focused on determining the sites and stoichiometry of phosphorylated proteins derived from different biological specimens such as cell lines and tissue samples. While such information is important for understanding the role of phosphoryla...
ORGANISM(S): Homo sapiens (Human) 
2019-11-12 | PXD007916 | Pride
Protein stability Phosphorylation Human breast cancer Protein conformation 
MetabolomicsMetabolic characterization of the natural progression of chronic hepatitis B (Oxylipin assay)
Background: Worldwide, over 350 million people are chronically infected with the hepatitis B virus (HBV) and are at increased risk of developing progressive liver diseases. The confinement of HBV replication to the liver, which also acts as the central hub for metabolic and nutritional regulation, e...
2016-06-06 | MTBLS253 | MetaboLights
UnknownVitamin C induces Tet-dependent DNA demethylation and a blastocyst-like state in ES cells.
Not available
S-EPMC3893718 | biostudies-literature
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