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Metabolomics1H NMR metabolite monitoring during the differentiation of human induced pluripotent stem cells provides new insights into the molecular events that regulate embryonic chondrogenesis
The integration of cell metabolism with signalling pathways, transcription factor networks and epigenetic mediators is critical in coordinating molecular and cellular events during embryogenesis. Induced pluripotent stem cells (IPSCs) are an established model for embryogenesis, germ layer specificat...
2023-05-24 | MTBLS4854 | MetaboLights
TranscriptomicsTranscriptional characterization of Human Lung Organoids (HLOs) using RNAseq
Human lung organoids (HLOs) were derived from human embryonic stem cell line H9 NIH registry #0062. Sequencing of HLOs was performed by the UM DNA Sequencing Core, using Illumina Hi-Seq platform and single-end 50 bp reads. The UM Bioinformatics Core downloaded the reads files from the Sequencing Cor...
ORGANISM(S): Homo sapiens 
2015-03-09 | E-MTAB-3339 | biostudies-arrayexpress
Proteomicsbreast cancer mitochondria pulldown
pull-down of protein extracted from isolated mitochondria fraction
ORGANISM(S): Homo sapiens (Human) 
2022-02-22 | PXD030730 | Pride
Cancer Mitochondria Pull-down 
ProteomicsHuman glomerular cell-derived extracellular mantrix
We isolated the extracellular matrix from human podocytes and endothelial cells in monoculture and coculture and analysed the matrix proteins by mass-spectrometry. The glomerular basement membrane (GBM) is a specialized extracellular matrix (ECM) compartment within the glomerulus and is known to con...
ORGANISM(S): Homo sapiens (Human) 
2014-01-29 | PXD000643 | Pride
Coculture Endothelial cells Pododcytes 
ProteomicsCarbon fixation in the chemolithoautotrophic bacterium Aquifex aeolicus involves two low-potential ferredoxins as partners of the pentameric PFOR and OGOR enzymes
Aquifex aeolicus is a microaerophilic hydrogen- and sulfur -oxidizing bacterium that assimilates CO2 via the reverse tricarboxylic acid cycle (rTCA). Key enzymes of this pathway are pyruvate:ferredoxin oxidoreductase (PFOR) and 2-oxoglutarate:ferredoxin oxidoreductase (OGOR), which are responsible, ...
ORGANISM(S): Aquifex aeolicus 
2023-05-10 | PXD040248 | Pride
Carbon fixation  reverse tca cycle  low potential ferredoxin  pyruvate:ferredoxin oxidoreductase  oxoglutarate:ferredoxin oxidoreductase  wood-ljungdahl pathway  chemolithoautotrophic bacteria  hyperthermophilic bacteria  hydrogenase 
TranscriptomicsMultiomic (Joint snRNA/snATAC) sequencing data of intestinal crypts and epithelial only organoids derived from human fetal duodenum
Here, we used joint single-nuclei RNA-sequencing (snRNA-seq) and single-nuclei ATAC sequencing (scATAC) to profile freshly isolated crypts from the human fetal intestine and matched intestinal epithelial only organoids (also known as enteroids) derived from these crypts after one passage of in vitro...
ORGANISM(S): Homo sapiens 
2022-07-16 | E-MTAB-11908 | biostudies-arrayexpress
TranscriptomicsscRNA-seq of intestinal epithelial organoids derived from human fetal duodenum
Here, we used single-cell RNA-sequencing (scRNA-seq) to profile intestinal epithelial only organoids (also known as enteroids) from human fetal duodenum after one passage of in vitro growth. Organoids were grown in the standard 25% LWRN media with either 100 ng/ml of EGF or 1 ng/ml of EREG added.
ORGANISM(S): Homo sapiens 
2022-07-17 | E-MTAB-11912 | biostudies-arrayexpress
UnknownChIP-seq of plasma cell-free nucleosomes identifies gene expression programs of the cells of origin.
Not available
S-EPMC7610786 | biostudies-literature
ProteomicsHuman kidney proteomics, glomerular and tubular cellular and matrix fractions
Glomerular and tubulointerstitial fractions were enriched from human kidneys samples. Ages of human kidney samples: 15, 29, 37, 61, 67 and 69 years of age. The glomerular and tubulointerstitial samples were processed to enrich for extracellular matrix components and the fractions analysed by mass sp...
ORGANISM(S): Homo sapiens (Human) 
2022-02-22 | PXD022219 | Pride
Tubulointerstitial Tubular Glomerular Kidney Age 
ProteomicsLysine acetylation of DosR regulates the hypoxia response of Mycobacterium tuberculosis
Tuberculosis caused by Mycobacterium tuberculosis (Mtb) infection remains a huge global public health problem. One striking characteristic of Mtb is its ability to adapt to hypoxia, and thus ensuing transition to dormant state for persistent infection, but how the hypoxia responses of Mtb is regulat...
ORGANISM(S): Mycobacterium tuberculosis H37Rv 
2018-10-22 | PXD008587 | Pride
Lysine acetylation  mtb dosr  hypoxia growth dna binding 
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