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TranscriptomicsEndogenous siRNAs derived from transposons and mRNAs in Drosophila somatic cells
Small interfering RNAs (siRNAs) direct RNA interference (RNAi) in eukaryotes. In flies, somatic cells produce siRNAs from exogenous double-stranded RNA as a defense against viral infection. Here, we identify 21-nt long, endogenous siRNAs (endo-siRNAs) corresponding to transposons and heterochromatic...
ORGANISM(S): Drosophila melanogaster 
2008-04-10 | E-GEOD-11019 | biostudies-arrayexpress
ProteomicsDIA-based deep proteome and phosphoproteome profiling of early cold response in tomato fruits
Low temperature storage, a widely used technique for extending shelf life of tomato (Solanum lycopersicum) fruits, also induces chilling injury and results in fruit quality loss and consumer dissatisfaction. Numerous studies have been performed to dissect the molecular mechanisms of the cold toleran...
ORGANISM(S): Solanum Lycopersicum 
2024-06-18 | PXD053222 |
TranscriptomicsSorting of Drosophila small silencing RNAs partitions microRNA* strands into the RNA interference pathway
In flies, small silencing RNAs are sorted between Argonaute1 (Ago1), the central protein component of the microRNA (miRNA) pathway, and Argonaute2 (Ago2), which mediates RNA interference. Extensive double-stranded characterM-bM-^@M-^Tas is found in small interfering RNAs (siRNAs)M-bM-^@M-^Tdirects d...
ORGANISM(S): Drosophila melanogaster 
2009-10-31 | E-GEOD-18806 | biostudies-arrayexpress
TranscriptomicsDicer Partner Proteins Tune the Length of Mature miRNAs in Flies and Mammals
Drosophila Dicer-1 produces microRNAs (miRNAs) from pre-miRNA, whereas Dicer-2 generates small interfering RNAs (siRNAs) from long dsRNA. loquacious (loqs) encodes three Dicer partner proteins, Loqs-PA, Loqs-PB, and, Loqs-PD, generated by alternative splicing. To understand the function of each Loqs...
ORGANISM(S): Mus musculus 
2012-12-07 | E-GEOD-37443 | biostudies-arrayexpress
TranscriptomicsThe Exoribonuclease Nibbler Controls 3' End Processing of MicroRNAs in Drosophila
MicroRNAs (miRNAs) are endogenous noncoding small RNAs with important roles in many biological pathways; their generation and activity are under precise regulation. Emerging evidence suggests that miRNA pathways are precisely modulated with controls at the level of transcription, processing, and sta...
ORGANISM(S): Drosophila melanogaster 
2011-11-17 | E-GEOD-31689 | biostudies-arrayexpress
ProteomicsProteome of TGF-β1-Induced Human Primary Mesothelial Cells treated with and without BCAT1/2 inhibitor
Peritoneal fibrosis is a serious complication of long-term peritoneal dialysis, primarily driven by TGF-β1-induced mesothelial-to-mesenchymal transition. BCAT1 and BCAT2 are key enzymes in branched-chain amino acid metabolism, yet their specific roles and mechanisms in peritoneal fibrosis remain unc...
ORGANISM(S): Homo Sapiens 
2025-10-23 | PXD069866 |
ProteomicsIntegrated multi-omics analysis of zinc deficiency
Zinc is an essential trace micronutrient and exerts important physiological and biochemical roles. Zinc deficiency is a global public-health problem. Standing untreated zinc deficiency can cause series adverse effects, including growth retardation, poor appetite, delayed sexual development, impaired...
ORGANISM(S): Rattus Norvegicus 
2019-06-05 | PXD014079 |
ProteomicsDeep Multilayer Tissue Proteomics Identifies Molecular Networks in Alzheimer’s Disease Progression, human data
The molecular networks underlying Alzheimer’s disease (AD) are not well-defined. We present temporal profiling of >14,000 proteins and >34,000 phosphosites at the asymptomatic and symptomatic stages of AD, deep proteomics analysis of transgenic mouse models.
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2024-10-17 | MSV000096123 | MassIVE
TranscriptomicsType 1 interferons induce changes in core metabolism that are critical for immune function
Type 1 interferons (IFNs) induce complex responses that can be beneficial or deleterious, depending on context. Greater understanding of the mechanisms of action of these cytokines could allow new therapeutic approaches. We found that type 1 IFNs induced changes in cellular metabolism that were cr...
ORGANISM(S): Mus musculus 
2016-07-01 | E-GEOD-81889 | biostudies-arrayexpress
TranscriptomicsSystematic evaluation of variability in simulated ChIP-chip experiments
The most widely-used method for detecting and measuring genome-wide protein-DNA interactions is chromatin immunoprecipitation on tiling microarrays, commonly known as ChIP-chip. Many tiling array platforms, amplification methods, and analysis algorithms exist for ChIP-chip, but a rigorous assessment...
ORGANISM(S): Homo sapiens 
2008-01-31 | E-GEOD-9842 | biostudies-arrayexpress
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