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MetabolomicsAn online atlas of human plasma metabolite signatures of gut microbiome composition

Human gut microbiota produce a variety of molecules, some of which enter the bloodstream and impact health. Conversely, dietary or pharmacological compounds may affect the microbiota before entering the circulation. Characterization of these interactions is an important step towards understanding...

2022-05-19 | MTBLS407 | MetaboLights
MetabolomicsAn Atlas of Ferroptosis-induced Secretomes promotes Macrophage priming
Cells undergoing regulated necrosis systemically communicate with the immune system via release of protein and non-protein secretomes. Ferroptosis is a recently described iron-dependent type of regulated necrosis driven by massive lipid peroxidation. While membrane rupture occurs during ferroptosis,...
2025-03-04 | MTBLS9798 | MetaboLights
MetabolomicsTen Mouse Organs Proteome and Metabolome Atlas from Adult to Aging

The complexity of the aging process, encompassing numerous organs and systems, poses a significant challenge in identifying and targeting key factors that drive age-related decline. The multi-organ synchronous molecular intricacies underlying natural aging remain elusive. Here we presented a data...

2025-08-29 | MTBLS10642 | MetaboLights
MetabolomicsCell Atlas and Novel Signal Processing Strategy in Primate Insular Cortex

The anterior insular cortex (AIC) is a critical hub integrating exteroceptive and interoceptive information into high-order cognition, yet its neural basis remains incompletely understood. Here, by combining whole-cell-based single-cell transcriptomics with Patch-seq recordings, we resolved and c...

2026-02-28 | MTBLS13927 | MetaboLights
MetabolomicsUnknown Metabolite Annotation in Mouse Aging using Ion Mobility Collision Cross-Section Atlas (AllCCS)

The metabolome includes not just known but also unknown metabolites; however, metabolite annotation remains the bottleneck in untargeted metabolomics. Ion mobility – mass spectrometry (IM-MS) has emerged as a promising technology by providing multi-dimensional characterizations of metabolites. He...

2020-07-28 | MTBLS1622 | MetaboLights
MetabolomicsKnown Metabolite Annotation in Different Biological Samples using Ion Mobility Collision Cross-Section Atlas (AllCCS)

The metabolome includes not just known but also unknown metabolites; however, metabolite annotation remains the bottleneck in untargeted metabolomics. Ion mobility – mass spectrometry (IM-MS) has emerged as a promising technology by providing multi-dimensional characterizations of metabolites. He...

2020-07-28 | MTBLS1693 | MetaboLights
TranscriptomicsSingle-cell identification of L1HS-Ta retrotransposons in preimplantation embryos by ATLAS-seq
We used ATLAS-seq to comprehensively map the genomic location of LINE-1 elements belonging to the youngest and potentially polymorphic subfamily (L1HS-Ta). This was performed in single-cells of 2 preimplantation embryos (E3 and E6) as well as from the remaining inner cell mass (denoted T). In brief,...
ORGANISM(S): Homo sapiens 
2023-09-30 | E-MTAB-8616 | biostudies-arrayexpress
TranscriptomicsIdentification of de novo LINE-1 (L1) retrotransposon integration sites in HeLa S3 cells by ATLAS-seq-neo (unselected insertions)
We used ATLAS-seq-neo to map the sites of integration of an engineered LINE-1 (L1) retrotransposon into the genome of HeLa S3 cells. In brief, we transfected cells with a plasmid-borne L1.3 element carrying a neomycin-resistance-based retrotransposition cassette, as well as a hygromycin-resistance c...
ORGANISM(S): Homo sapiens 
2019-04-03 | E-MTAB-7644 | biostudies-arrayexpress
TranscriptomicsRice expression atlas: Plant reproductive process
Gene expression throughout the reproductive process in rice (Oryza sativa) beginning with primordia development through pollination/fertilization to zygote formation was analyzed. We analyzed 25 stages/organs of rice reproductive development including early microsporogenesis stages with 57,381 probe...
ORGANISM(S): Oryza sativa 
2010-11-11 | E-GEOD-14304 | biostudies-arrayexpress
TranscriptomicsAn Atlas of Bovine Gene Expression Reveals Novel Distinctive Tissue Characteristics and Evidence for Improving Genome Annotation
Background: A comprehensive transcriptome survey, or "gene atlas", provides information essential for a complete understanding of the genomic biology of an organism. We present an atlas of RNA abundance for 92 adult, juvenile and fetal cattle tissues and 3 cattle cell lines. Results: The ...
ORGANISM(S): Bos taurus 
2010-09-28 | E-GEOD-21544 | biostudies-arrayexpress
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