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TranscriptomicsPRPF8 CLIP seq for iPSC, kidney organoid, retinal organoid, and retinal epithelium derived from c.6926A>C RPE with Retinitis Pigmentosa patients and CRISPR/Cas9 corrected
Retinitis Pigmentosa is a group of inherited eye disorders characterized by progressive degeneration of photoreceptor cells in the retina, leading to vision loss and eventual blindness. One of the known genetic mutations associated with RP is the c.6926A>C mutation in the RPE (retinal pigment epithe...
ORGANISM(S): Homo sapiens 
2024-03-13 | E-MTAB-13171 | biostudies-arrayexpress
TranscriptomicsTranscriptional profile of mouse lung during the fibrotic phase of the response to bleomycin
Wildtype mice were given saline or bleomycin by oropharyngeal instillation. After 14 days, during the fibrotic phase of the response, lungs were dissected and total RNA was extracted and used for gene expression profiling. The aim was to identify those genes regulated during the development of fibro...
ORGANISM(S): Mus musculus 
2009-07-07 | E-GEOD-16846 | biostudies-arrayexpress
MetabolomicsMetabolic phenotyping of urine from a dementia research cohort
To better understand the molecular mechanisms underpinning physiological variation in human populations, metabolic phenotyping approaches are increasingly being applied to studies involving hundreds and thousands of biofluid samples. Hyphenated ultra-performance liquid chromatography-mass spectromet...
2022-03-01 | MTBLS719 | MetaboLights
ProteomicsProteomic analysis of glomerular organoid extracellular matrix
Introduction Points to consider adding: -The matrix in the kidney/glomerulus is specialised and complex with basement membrane structures in addition to interstitial matrix components. -The glomerular basement membrane undergoes change in isoform composition of key matrix components including type I...
ORGANISM(S): Homo sapiens (Human) 
2019-01-03 | PXD012198 | Pride
Ecm Proteomics Mass spectrometry Organoid Glomerulus Matrix 
MetabolomicsDifferent carboxyl-rich alicyclic molecules proxy compounds select distinct bacterioplankton for oxidation of dissolved organic matter in the mesopelagic Sargasso Sea

Marine dissolved organic matter (DOM) varies in its recalcitrance to rapid microbial degradation. DOM of varying recalcitrance can be exported from the ocean surface to depth by subduction or convective mixing and oxidized over months to decades in deeper seawater. Carboxyl-rich alicyclic molecul...

2024-02-20 | MTBLS3512 | MetaboLights
ProteomicsCullin-independent recognition of HHARI substrates by a dynamic RBR catalytic domain
RING-Between-RING (RBR) E3 ligases mediate ubiquitin transfer through an obligate E3- ubiquitin thioester intermediately prior to substrate ubiquitination. While RBRs share a conserved catalytic module, substrate recruitment mechanisms remain enigmatic and the relevant domains have yet to be identi...
ORGANISM(S): Homo sapiens (Human) 
2023-05-24 | PXD030849 | Pride
Kojak Cross-linking mass spectrometry Proxl Skyline Cullin Xl-ms Hhari Ubiquitin Rbr E3 ligase 
ProteomicsQuantitative XL-MS Analysis of HHARI in the presence or absence of 4EHP
RING-Between-RING (RBR) E3 ligases mediate ubiquitin transfer through an obligate E3- ubiquitin thioester intermediately prior to substrate ubiquitination. While RBRs share a conserved catalytic module, substrate recruitment mechanisms remain enigmatic and the relevant domains have yet to be identi...
ORGANISM(S): Homo Sapiens 
PXD030871 | panorama
TranscriptomicsRNA-seq analysis following REVERBalpha knockdown in fibroblasts
The aim of the study was to identify how REVERBalpha modulates myofibroblast differentiation; by sequencing fibroblasts twelve and twenty-four hours after siRNA knockdown.
ORGANISM(S): Mus musculus 
2019-12-10 | E-MTAB-8499 | biostudies-arrayexpress
MetabolomicsDissolved metabolites from the Bermuda Atlantic Time-series Study: 2016-2019

Organic carbon in seawater plays a significant role in the global carbon cycle. The concentration and composition of dissolved organic carbon, operationally defined in this project as organic carbon that passes through a 0.2 µm filter, reflect the actions of the biological community and chemical ...

2022-02-09 | MTBLS2356 | MetaboLights
TranscriptomicsCurated collection of yeast transcription factor DNA binding specificity data reveals novel structural and gene regulatory insights
Transcription factors (TFs) play a central role in regulating gene expression by interacting with cis regulatory DNA elements associated with their target genes. Recent surveys have examined the DNA binding specificities of most Saccharomyces cerevisiae transcription factors but a comprehensive eval...
ORGANISM(S): Saccharomyces cerevisiae 
2011-12-10 | E-GEOD-34306 | biostudies-arrayexpress
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