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MetabolomicsCharacterization of Yak Common Biofluids Metabolome by Means of Proton Nuclear Magnetic Resonance Spectroscopy
The aim of this study was to evaluate the metabolic profiles of yak (Bos grunniens) serum, feces, and urine by using proton nuclear magnetic resonance (1H-NMR), to serve as a reference guide for the healthy yak milieu. A total of 108 metabolites, giving information about diet, protein digestion, and...
2019-03-27 | MTBLS841 | MetaboLights
MetabolomicsRedirected nuclear glutamate dehydrogenase supplies Tet3 with α-ketoglutarate in neurons

Tet3 is the main α-ketoglutarate (αKG)-dependent dioxygenase in neurons that converts 5-methyl-dC into 5-hydroxymethyl-dC and further on to 5-formyl- and 5-carboxy-dC. Neurons possess high levels of 5-hydroxymethyl-dC that further increase during neural activity to establish transcriptional plast...

2021-06-24 | MTBLS2852 | MetaboLights
MetabolomicsClinacanthus nutans fractions exert anti-nasopharyngeal carcinoma effects: integrating untargeted metabolomics, network pharmacology, molecular docking and experimental validation

Background: Clinacanthus nutans (C. nutans), a Southeast Asian medicinal herb, has ethnopharmacological potential against nasopharyngeal carcinoma (NPC). This study aimed to elucidate the bioactive compounds, potential molecular targets, and regulatory pathways responsible for the anticancer acti...

2026-01-05 | MTBLS13610 | MetaboLights
TranscriptomicsMitochondrial-nuclear DNA interactions contribute to the regulation of nuclear transcript levels as part of the inter-organelle communication system
Nuclear and mitochondrial organelles must maintain a communication system. Loci on the mitochondrial genome were recently reported to interact with nuclear loci. To determine whether this is part of a DNA based communication system we used genome conformation capture to map the global network of DNA...
ORGANISM(S): Saccharomyces cerevisiae 
2013-01-17 | E-GEOD-34132 | biostudies-arrayexpress
TranscriptomicsAnalysis of fetal livers from male mice after protein-restricted diet in mothers
Prenatal nutrition as influenced by nutritional status of the mother has been identified as a determinant of adult disease. Feeding low-protein diets during pregnancy in rodents is a well-established model to induce “programming” events in offspring. We hypothesized that protein restriction would in...
ORGANISM(S): Mus musculus 
2009-11-02 | E-GEOD-15280 | biostudies-arrayexpress
TranscriptomicsInter- and intra- chromosomal interactions change on a global scale according to the metabolic regime employed by Saccharomyces cerevisiae
Nuclear and mitochondrial organelles must maintain a communication system. Loci on the mitochondrial genome were recently reported to interact with nuclear loci. To determine whether this is part of a DNA based communication system we used genome conformation capture to map the global network of DNA...
ORGANISM(S): Saccharomyces cerevisiae 
2013-01-17 | E-GEOD-33074 | biostudies-arrayexpress
ProteomicsCombining affinity purification and mass spectrometry to define the network of the nuclear proteins interacting with the N-terminal region of FMRP
We identified a nuclear interactome of FMRP by combining subcellular fractionation of rat brains at the post-natal day 14 with pull down affinity purification and mass spectrometry analysis. By this approach, we have listed 55 candidate nuclear partners.
ORGANISM(S): Rattus norvegicus (Rat) 
2022-08-14 | PXD034157 | Pride
Nuclear protein network Mrna metabolism Proteomics Nuclear fractionation Fmrp 
TranscriptomicsModeling regulatory relationships in Arabidopsis immune signaling network.
Expression profiles of 22 reference Arabidopsis immunity mutants were collected using the Arabidopsis Pathoarray 464_001 (GPL3638) in order to build a network model predicting the Arabidopsis immune signaling network. Biological signaling processes may be mediated by complex networks in which netwo...
ORGANISM(S): Arabidopsis thaliana 
2010-07-22 | E-GEOD-19663 | biostudies-arrayexpress
MetabolomicsUsing an NMR metabolomics approach to investigate the pathogenicity of amyloid-beta and alpha-synuclein
INTRODUCTION: The pathogenicity at differing points along the aggregation pathway of many fibril-forming proteins associated with neurodegenerative diseases is unclear. Understanding the effect of different aggregation states of these proteins on cellular processes is essential to enhance understand...
2018-06-11 | MTBLS455 | MetaboLights
GenomicsGenome-wide mapping of Nuclear Factor I binding sites using ChIP-Seq in WT and NFI-C knock-out MEFs
The Nuclear Factor I (NFI) family of DNA binding proteins (also called CAAT box transcription factors or CTF) is involved both in replication of adenoviral DNA and in regulation of gene expression. Using chromatin immuno-precipitation and high throughput sequencing (method termed ChIP-Seq) we perfor...
ORGANISM(S): Mus musculus 
2010-04-24 | E-GEOD-15844 | biostudies-arrayexpress
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