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TranscriptomicsBacteria-derived small RNAs that co-purify with KpAGO
The RNA-induced silencing complex, comprising Argonaute and guide RNA, mediates RNA interference. Here we report the 3.2 Å crystal structure of Kluyveromyces Argonaute (KpAGO) fortuitously complexed with guide RNA originating from small-RNA duplexes autonomously loaded by recombinant KpAGO. Despite ...
ORGANISM(S): Vanderwaltozyma polyspora 
2012-05-14 | E-GEOD-37724 | biostudies-arrayexpress
TranscriptomicsGBM-Space: Spatial Transcriptomic Profiling of Glioblastoma (10x Genomics - Visium)
Cancer cells display highly heterogeneous and plastic states in glioblastoma, an incurable brain tumour. However, how these malignant states arise and whether they follow defined cellular trajectories across tumours is poorly understood. Here, we generated a deep single cell and spatial multi-omic a...
ORGANISM(S): Homo sapiens 
2026-09-12 | E-MTAB-17164 | biostudies-arrayexpress
GenomicsChIP-seq analysis of the cAMP binding protein (CRP) in Enteroaggregative Escherichia coli 042
ChIP-seq experiments were carried out in Enteroaggregative Escherichia coli 042. Wildtype 042 cells were grown to mid-log phase in LB medium, before being crosslinked with 1% formaldehyde and sonicated to lyse cells and shear DNA. Immunocomplexes were established using anti-FLAG antibodies. The immu...
ORGANISM(S): Escherichia coli 
2025-07-09 | E-MTAB-14748 | biostudies-arrayexpress
ProteomicsPhosphoproteomic analysis reveals enhanced PKA signaling in aged skeletal muscle is suppressed by caloric restriction
Although caloric restriction (CR) was first shown to extend the lifespan of rodents over 75 years ago, the underlying mechanisms remain unclear. Additionally, the majority of published studies have focused on the effects of short-term CR. To better understand cell signaling alterations in a tissue k...
ORGANISM(S): Mus Musculus (mouse) 
2021-01-30 | PXD018455 | JPOST Repository
MetabolomicsSoil microbial adaptation to carbon deprivation: Shifts in lignocellulolytic gene profiles following long-term plant exclusion

Background:

Lignocellulose represents a primary input of organic carbon (C) into soils, yet the identity of specific microorganisms and genes which drive lignocellulose turnover in soils remain poorly understood. To address this knowledge gap, we used a 10-year grassland plant-exclusion exp...

2025-07-16 | MTBLS12728 | MetaboLights
TranscriptomicsDegradome sequencing from S. castellii
The RNA-induced silencing complex, comprising Argonaute and guide RNA, mediates RNA interference. Here we report the 3.2 M-CM-^E crystal structure of Kluyveromyces Argonaute (KpAGO) fortuitously complexed with guide RNA originating from small-RNA duplexes autonomously loaded by recombinant KpAGO. De...
ORGANISM(S): Naumovozyma castellii 
2012-05-14 | E-GEOD-37723 | biostudies-arrayexpress
TranscriptomicsEthanol exposure disrupts extraembryonic microtubule cytoskeleton and embryonic blastomere cell adhesion, producing epiboly and gastrulation defects
Gene expression was measured using microarrays in 8 hour postfertilization embryos, comparing control versus ethanol-treated (2 to 8 hours postfertilization) embryos. This experiment was performed to determine the gene expression changes that occur in response to ethanol treatment as a model of feta...
ORGANISM(S): Danio rerio 
2014-07-09 | E-GEOD-48380 | biostudies-arrayexpress
ProteomicsIdentifying a GSK3-TRARG1 signaling axis reveals BCL9L as a novel regulator of GLUT4 trafficking
The trafficking regulator of GLUT4-1 (TRARG1) protein positively regulates insulin-stimulated GLUT4 trafficking. Here we identify post-translational modifications on TRARG1 and identify that GSK3 is the upstream kinase responsible for TRARG1 phosphorylation at Serines 72, 76, and 80. We employ affin...
ORGANISM(S): Mus musculus (Mouse) 
2022-08-12 | PXD022765 | Pride
Bcl9l Glut4 Trarg1 Trafficking Phosphorylation 
ProteomicsSystem level analysis of insulin action revels insight into whole body metabolism and insulin action in muscle and adipose tissue
Muscle and adipose tissue insulin resistance are major drivers of metabolic disease. To uncover pathways involved in insulin resistance specifically in these tissues, we leveraged the metabolic diversity of different dietary exposures and discrete inbred mouse strains. This revealed that muscle insu...
ORGANISM(S): Mus musculus (Mouse) 
2022-02-24 | PXD029680 | Pride
Insulin resistance Seven strains Mouse Soleus muscle 
MetabolomicsSurvival, gene and metabolite responses of Litoria verreauxii alpina frogs to fungal disease chytridiomycosis
The fungal skin disease chytridiomycosis has caused the devastating decline and extinction of hundreds of amphibian species globally, yet the potential for evolving resistance, and the underlying pathophysiological mechanisms remain poorly understood. We exposed 406 naïve, captive-raised alpine tree...
2018-01-09 | MTBLS457 | MetaboLights
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