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MetabolomicsComparative non-targeted LC-MS metabolomic profiling of murine bone marrow-derived macrophages cultured in 2D versus 3D

Macrophages are key drivers of inflammatory and fibrotic diseases and their activation is shaped by interactions in their tissue microenvironment. However, dissecting the processes that drive immunopathology has proved challenging as traditional 2D culture methods fail to capture the complex mole...

2026-06-08 | MTBLS12917 | MetaboLights
TranscriptomicsRNA-seq analysis of Arabidopsis thaliana cells treated with RN1 and 2,4-D
A PSB-D wild type Arabidopsis thaliana cell culture (Arabidopsis Biological Resource Center stock: CCL84840) was grown after subculturing for one week and divided into separate 10 mL samples for 24 h. Samples were then treated with 50 µM RubNeddin1 (RN1, Chembridge ID 6389186), 2,4-D, or an equal vo...
ORGANISM(S): Arabidopsis thaliana 
2021-08-03 | E-MTAB-7761 | biostudies-arrayexpress
MetabolomicsExperimental and computational approaches for deep metabolome annotation with application to the ecotoxicological model organism Daphnia magna

Identifying metabolomes with greater coverage and confidence is a critical step towards interpreting the metabolic basis of human and environmental health. Yet for over two decades the field of metabolomics has been inhibited by limited metabolite identification. To address this, we developed the...

MTBLS2273 | MetaboLights
TranscriptomicsGene expression profile of mouse breast cancer V720 cells treated with vehicle or PD 0332991
D-cyclins represent components of cell cycle machinery. To test the efficacy of targeting D-cyclins in cancer treatment, we engineered mouse strains which allow acute and global ablation of individual D-cyclins in a living animal. Ubiquitous shutdown of cyclin D1 or inhibition of cyclin D associated...
ORGANISM(S): Mus musculus 
2012-10-16 | E-GEOD-40513 | biostudies-arrayexpress
TranscriptomicsAnalysis of vitamin D response element binding protein target genes reveals a role for vitamin D in osteoblast mTOR signaling
Heterogeneous nuclear ribonucleoprotein (hnRNP) C1/C2 plays a pivotal role in vitamin D receptor (VDR) signaling by acting as a vitamin D response element (VDRE)-binding protein (VDRE-BP). Transcriptional regulation by active 1,25-dihydroxyvitamin D3 (1,25(OH)2D3) involves occupancy of VDRE by VDRE-...
ORGANISM(S): Homo sapiens 
2010-11-19 | E-GEOD-22523 | biostudies-arrayexpress
TranscriptomicsVitamin D and Gene Expression
This SuperSeries is composed of the following subset Series: GSE22172: Vitamin D and Gene Expression [A589] GSE22174: Vitamin D and Gene Expression [A690] Refer to individual Series
ORGANISM(S): Homo sapiens 
2010-07-08 | E-GEOD-22176 | biostudies-arrayexpress
TranscriptomicsEffects of vitamin D supplementation on alveolar macrophage gene expression
The objective of the overall study was to determine the effects of oral vitamin D supplementation on alveolar macrophages from human subjects. In this substudy, subjects treated with vitamin D (intervention group) in paired analysis had small, but significant effects on immune-related differential ...
ORGANISM(S): Homo sapiens 
2014-04-08 | E-GEOD-56583 | biostudies-arrayexpress
TranscriptomicsResponse of Escherichia coli to acetate in presence of 100 mM methyl α-D-glucopyranoside
This experiment was performed to challenge E. coli response to acetate when its growth rate flux is reduced by 40% with 100 mM methyl α-D-glucopyranoside. Control without inhibition in the exact same conditions was already published on ArrayExpress database (accession number E-MTAB-9086) and could ...
ORGANISM(S): Escherichia coli K-12 
2022-09-23 | E-MTAB-11717 | biostudies-arrayexpress
TranscriptomicsIdentification of miRNAs regulated by vitamin D within primary human osteoblasts
Identified a series of miRNAs transcriptionally regulated by vitamin D treatment within osteoblasts. Several miRNAs were validated in dose escalation experiments. Furthermore, downstream miRNA targets were appraised and found to regulate target message and protein levels. These findings were assesse...
ORGANISM(S): Homo sapiens 
2012-07-31 | E-GEOD-34144 | biostudies-arrayexpress
ProteomicsLong-term exposure of Daphnia magna to polystyrene microplastics induces changes in their proteome.
In the past years, the research focus on the effects of microplastics (MP) on aquatic organisms extended from marine systems towards freshwater systems. An important freshwater model organism in the MP field is the cladoceran Daphnia, which plays a central role in lacustrine ecosystems and has been ...
ORGANISM(S): Daphnia magna 
2021-07-07 | PXD025108 | Pride
Proteomics Polystyrene Mass spectrometry Microplastics Daphnia 
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