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MetabolomicsHuman milk as infantile Super Food - the effect of dietary choices and supplementation on the shift of lipidomic profile during different stages of lactation
The objective of this project was to establish an advanced analytical method leveraging high-resolution mass spectrometry LC-HRMS to comprehensively profile the human milk lipidome. Mass spectrometry resolves and quantifies compounds based on a fundamental physical metric: the mass-to-charge ratio. ...
2026-09-22 | MTBLS15678 | MetaboLights
ProteomicsSuper-SILAC Allows Classification of Diffuse Large B-cell Lymphoma Subtypes by Their Protein Expression Profiles
Correct classification of cancer patients into subtypes is a prerequisite for acute diagnosis and effective treatment. Currently this classification relies mainly on histological assessment, but gene expression analysis bymicroarrays has shown great promise. Here we show that high accuracy, quantita...
ORGANISM(S): Homo sapiens (Human) 
2015-04-24 | PXD002098 | Pride
Classification Lymphoma Super silac Dlbcl 
TranscriptomicsSmall RNAs as important regulators for the hybrid vigour of super-hybrid rice
Heterosis is an important biological phenomenon; however, the role of small RNA (sRNA) in heterosis of hybrid rice remains poorly described. Here, we performed sRNA profiling of F1 super-hybrid rice LYP9 and its parents using high-throughput sequencing technology, and identified 355 distinct mature ...
ORGANISM(S): Oryza sativa 
2014-08-17 | E-GEOD-51468 | biostudies-arrayexpress
ProteomicsDefining super-enhancer landscape in triple-negative breast cancer by multiomic profiling
Here we apply integrated epigenomic and transcriptomic profiling to uncover super-enhancer heterogeneity between breast cancer subtypes, and provide clinically relevant biological insights towards TNBC. Using CRISPR/Cas9-mediated gene editing, we identify genes that are specifically regulated by TNB...
ORGANISM(S): Homo Sapiens 
2021-03-04 | PXD024505 |
TranscriptomicsTranscription factor cooperativity in early adipogenic hotspots and super-enhancers
Here we have used a combination of advanced proteomics and genomics approaches to investigate the extent and mechanisms of transcription factor cross-talk at genomic hotspots. We identify ~12,000 transcription factor hotspots in the early phase of adipogenesis, and we find evidence of both simultane...
ORGANISM(S): Mus musculus 
2014-04-17 | E-GEOD-56872 | biostudies-arrayexpress
GenomicsStriatal genes regulated by super-enhancers and displaying low paused RNAPII are preferentially down-regulated in Huntington’s disease [ChIP-seq]
Huntington neurodegenerative disease (HD) is associated with extensive down-regulation of neuronal genes. We show preferential down-regulation of super-enhancer-regulated neuronal function genes in the striatum of HD mice. Striatal super-enhancers display extensive H3K27 acetylation within gene bodi...
ORGANISM(S): Mus musculus 
2015-04-01 | E-GEOD-59570 | biostudies-arrayexpress
GenomicsDiscovery and Characterization of Super-Enhancer Associated Dependencies in Diffuse Large B-Cell Lymphoma
Diffuse Large B-Cell Lymphoma (DLBCL) is a biologically heterogeneous and clinically aggressive disease. Here, we explore the role of BET bromodomain proteins in DLBCL, using integrative chemical genetics and functional epigenomics. We observe highly asymmetric loading of BRD4 at enhancers, with app...
ORGANISM(S): Homo sapiens 
2013-12-10 | E-GEOD-46663 | biostudies-arrayexpress
TranscriptomicsStriatal genes regulated by super-enhancers and displaying low paused RNAPII are preferentially down-regulated in Huntington’s disease [RNA-seq]
Huntington neurodegenerative disease (HD) is associated with extensive down-regulation of neuronal genes. We show preferential down-regulation of super-enhancer-regulated neuronal function genes in the striatum of HD mice. Striatal super-enhancers display extensive H3K27 acetylation within gene bodi...
ORGANISM(S): Mus musculus 
2015-04-01 | E-GEOD-59571 | biostudies-arrayexpress
ProteomicsSpiDe-Sr: blind super-resolution network for precise cell segmentation and clustering in spatial proteomics imaging
Spatial proteomics elucidates cellular biochemical changes with unprecedented topological level. Imaging mass cytometry (IMC) is a high-dimensional single-cell resolution platform for targeted spatial proteomics. However, the precision of subsequent clinical analysis is constrained by imaging noise ...
ORGANISM(S): Homo Sapiens 
2024-02-25 | PXD050123 |
ProteomicsHuman AML cell lines LC-MS/MS - Performance of Super-SILAC based quantitative proteomics for comparison of different acute myeloid leukemia (AML) cell lines
As a direct consequence of the high diversity of the aggressive blood cancer acute myeloid leukemia (AML), proteomic samples from patients are strongly heterogeneous, rendering their accurate relative quantification challenging. In the present study, we investigated the benefits of using a super-SI...
ORGANISM(S): Homo sapiens (Human) 
2014-07-15 | PXD000441 | Pride
Human Orbitrap velos pro Lc-ms Cell lines Super-silac Aml 
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