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MetabolomicsPronounced uptake and metabolism of organic substrates by diatoms revealed by pulse-labeling metabolomics
Diatoms contribute as a major group of microalgae to approximately 20% of the global carbon fixation. In the plankton, these algae are exposed to a plethora of metabolites, especially when competing algae are lysed. In line with evidence that these phototrophs can also engage in heterotrophy we aske...
2021-12-09 | MTBLS2333 | MetaboLights
ProteomicsQuantification of mitochondrial translation by pulse SILAC
We developed a simple method that combined biochemical mitochondria isolation and pulse SILAC approach to monitor the mitochondrial translation. Our approach allows us to quantify 12 out of the 13 mitochondrial translation products, the highest coverage among analogous methods reported, and provide ...
ORGANISM(S): Homo Sapiens (human) 
2022-12-28 | PXD022476 | JPOST Repository
TranscriptomicsThiouracil Pulse-chase, Tachyzoites and Bradyzoites mRNA stability data
Pulse chase measurements using thiouracil (DTU) labeling via UPRT and chasing with uracil Data from tachyzoites is labeled "DTU Pulse Chase". Two independent pulse chase experiments were performed in tachyzoites, pulse chase 1 and 2. Duplicate arrays at each timepoint were performed for...
ORGANISM(S): Toxoplasma gondii 
2005-07-16 | E-GEOD-2947 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of Toxoplasma gondii thiouracil pulse-chase, tachyzoites and bradyzoites mRNA stability data
Pulse chase measurements using thiouracil (DTU) labeling via UPRT and chasing with uracil Data from tachyzoites is labeled "DTU Pulse Chase". Two independent pulse chase experiments were performed in tachyzoites, pulse chase 1 and 2. Duplicate arrays at each timepoint were performed for pulse cha...
ORGANISM(S): Toxoplasma gondii 
2005-07-07 | E-SMDB-2949 | biostudies-arrayexpress
ProteomicsQuantitative nascent proteome profiling by pulse labeling of O-propargyl-puromycin and stable isotope labeled amino acids
Recently, a clickable puromycin analog, O-propargyl-puromycin (OPP), was developed and applied to label C-termini of nascent polypeptide chains (NPCs), followed by a proteomic analysis of NPCs that can be affinity purified via click reaction. Despite its advantage, the affinity purification of NPCs ...
ORGANISM(S): Homo Sapiens (human) 
2020-09-17 | PXD019459 | JPOST Repository
ProteomicsProteome-wide pulse labeling reveals amyloid-impaired protein degradation in Alzheimer’s disease
We here present a large-scale proteome-wide profiling of protein turnover in Alzheimer's disease mice model. We integrated in vivo pulse-SILAC labeling and TMT multiplexing with novel mass spectrometry to precisely measure protein half-lives.
ORGANISM(S): Mus musculus (Mouse) 
2024-10-28 | PXD031830 | Pride
Alzheimer’s disease Tmt Protein turnover Sialc 
TranscriptomicsTranscriptional response of steady-state Escherichia coli cultures to a glucose pulse, in order to elucidate the role of post-transcriptional regulation during carbon catabolite repression
Gene-expression measurements were made over a 60 minute time course as steady state E. coli cells were subjected to a pulse of glucose.
ORGANISM(S): Escherichia coli 
2015-06-29 | E-MTAB-2398 | biostudies-arrayexpress
ProteomicsEngineered allostery in a light-regulated version of TurboID for precise spatiotemporal control of proximity labeling in living cells
Lee SY, Chea JS, Zhao BX, Xu C, Udeshi ND, Roh H, Kim C, Cho K, Carr SA, Ting A. 2022 The incorporation of light-responsive domains into engineered proteins has produced optogenetic tools with the ability to regulate protein localization, interactions, and function with light. We introduced this mod...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2022-11-09 | MSV000090683 | MassIVE
Genomics
Pulse chase 4SU labeling - DCP1a and DCP1b KO cells
PRJNA1081121 | ENA
TranscriptomicsTranscription profiling of mouse SCN after 30-min light pulse
The transmission of information about the photic environment to the circadian clock involves a complex array of neurotransmitters, receptors, and second messenger systems. Using laser capture microscopy and microarray analysis, a population of genes rapidly induced by light in the suprachiasmatic n...
ORGANISM(S): Mus musculus 
2008-06-15 | E-GEOD-6904 | biostudies-arrayexpress
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