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TranscriptomicsSlamseq of whole mouse primary cortical neurons (mPCN) with perturbed mRNA degradation machinery
We perturbed mRNA degradation machinery in mouse primary cortical neurons (mPCN) and investigated the change in mRNA half-lives. We performed SLAMseq Metabolic RNA Labeling on Mutant mPCN line harbouring a ponasteroneA-inducible heterozygous dominant-negative Caf1 (dnCaf1) and on GFP-transfected mPC...
ORGANISM(S): Mus musculus 
2022-11-14 | E-MTAB-11575 | biostudies-arrayexpress
TranscriptomicsmRNA-seq of neuronal compartments with perturbed mRNA degradation machinery in mouse primary cortical neurons (mPCN)
We have perturbed mRNA degradation machinery and investigated the change in subcellular localization of mRNA in mouse primary cortical neurons (mPCNs). Mutant mPCN line harbouring a ponasteroneA-inducible heterozygous dominant-negative Caf1 (dnCaf1) was generated, separated into neuronal compartment...
ORGANISM(S): Mus musculus 
2022-11-14 | E-MTAB-11572 | biostudies-arrayexpress
TranscriptomicsSequencing of a human Orfeome in subcellular compartments of mouse primary cortical neurons (mPCN)
To study how the codon composition of the coding sequence affects subcellular localization of mRNA in an unbiased way, mouse primary cortical neurons were transfected with a collection of human open reading frames (ORFs) with identical untranslated regions, separated into soma and neurites, and subj...
ORGANISM(S): Mus musculus 
2023-07-12 | E-MTAB-11571 | biostudies-arrayexpress
Transcriptomicsm6A-RIP-seq of Ascl1-induced neurons.
We performed m6A-RIPs in Ascl1-induced neurons (iNeurons) to investigate the neuronal m6A epitranscriptome. Immunoprecipitation was done twice using two different antibodies, acquired from Abcam and Synaptic Systems (SySy), allowing for a more robust detection of m6A modification marks. Additionally...
ORGANISM(S): Mus musculus 
2023-07-12 | E-MTAB-9542 | biostudies-arrayexpress
TranscriptomicsDepletion of m6A methylation by conditional Mettl3 knockout in Ascl1-induced neurons
We have perturbed RNA methylation machinery and investigated the change in subcellular localization of mRNA in Ascl1-induced neurons (iNeurons). Mutant iNeuron line harbouring tagged endogenous Mettl3 was generated which allowed for the selective and targeted depletion of Mettl3 protein with the ad...
ORGANISM(S): Mus musculus 
2023-07-12 | E-MTAB-9643 | biostudies-arrayexpress
TranscriptomicsSlamseq of subcellular compartments in neurons
We performed a SLAMseq Metabolic RNA Labeling on neuronal subcellular compartments, e.g. neurites and soma, derived from Ascl1-induced neurons (iNeurons). This experimental approach provides a snapshot of mRNA kinetics which allows to estimate the half-lives of mRNAs. These data was used to investig...
ORGANISM(S): Mus musculus 
2023-07-12 | E-MTAB-9400 | biostudies-arrayexpress
TranscriptomicsSlamseq of whole neurons with perturbed mRNA degradation machinery
We perturbed mRNA degradation machinery in Ascl1-induced neurons (iNeurons) and investigated the change in mRNA half-lives. We performed SLAMseq Metabolic RNA Labeling on Mutant iNeuron line harbouring a ponasteroneA-inducible heterozygous dominant-negative Caf1 (dnCaf1) and on Wild Type iNeurons (W...
ORGANISM(S): Mus musculus 
2023-07-12 | E-MTAB-9545 | biostudies-arrayexpress
TranscriptomicsRNA-seq of neuronal compartments with perturbed mRNA degradation machinery
We have perturbed mRNA degradation machinery and investigated the change in subcellular localization of mRNA in Ascl1-induced neurons (iNeurons). Mutant iNeuron line harbouring a ponasteroneA-inducible heterozygous dominant-negative Caf1 (dnCaf1) was generated, separated into neuronal compartments (...
ORGANISM(S): Mus musculus 
2023-12-31 | E-MTAB-9398 | biostudies-arrayexpress
TranscriptomicsmRNA-seq of neuronal compartments in shRNA-mediated knockdown of Ythdf1, -2 and -3 in mouse primary cortical neurons (mPCN)
To study the effect of m6A modifications on subcellular mRNA localization we depleted m6A readers Ythdf1, -2 and -3 with shRNAs from mouse primary cortical neurons (mPCN) and sequenced neuritic and somatic compartments in parallel with scrambled shRNA control.
ORGANISM(S): Mus musculus 
2023-07-12 | E-MTAB-11569 | biostudies-arrayexpress
TranscriptomicsmRNA-seq of neuronal compartments in shRNA-mediated + small-molecule knockdown of Mettl3 in mouse primary cortical neurons (mPCN)
To study the effect of m6A modifications on subcellular mRNA localization we depleted m6A writer Mettl3 with shRNA and small molecule from mouse primary cortical neurons (mPCN) and sequenced neuritic and somatic compartments in parallel with scrambled shRNA control.
ORGANISM(S): Mus musculus 
2023-07-12 | E-MTAB-11570 | biostudies-arrayexpress
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