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GenomicsHomo sapiens
Mapping nucleolus-associated chromatin interactions by nucleolus-Hi-C reveals repression network
PRJNA354332 | ENA
TranscriptomicsBisulfite-free and Base-resolution Analysis of 5-formylcytosine at Whole-genome Scale
Active DNA demethylation in mammals involves TET-mediated oxidation of 5-methylcytosine (5mC) to 5-hydroxymethylcytosine (5hmC), 5-formylcytosine (5fC) and 5-carboxycytosine (5caC). However, genome-wide detection of 5fC at single-base resolution remains challenging. Here we present a bisulfite-free ...
ORGANISM(S): Mus musculus 
2015-09-07 | E-GEOD-66144 | biostudies-arrayexpress
GenomicsSingle-Cell 5-Hydroxymethylcytosine Landscapes of Mammalian Early Embryos at Single-Base Resolution
Single-Cell 5-Hydroxymethylcytosine Landscapes of Mammalian Early Embryos at Single-Base Resolution
PRJNA899848 | ENA
TranscriptomicsChemical Pull-Down Reveals Comprehensive and Dynamic Pseudouridylation in Mammalian Transcriptome
Pseudouridine (Ψ) is the most abundant RNA modification, yet little is known about its content, dynamics and function in mRNA and ncRNA. Here, we perform quantitative MS analysis and develop CAP-seq for transcriptome-wide Ψ profiling. The unexpected high Ψ content (Ψ/U ratio: ~ 0.2% to 0.6%) indicat...
ORGANISM(S): Mus musculus 
2015-06-05 | E-GEOD-63655 | biostudies-arrayexpress
TranscriptomicsReversible and Dynamic m1A Methylation in the Human Transcriptome
N1-methyladenosine (m1A) is an abundant post-transcriptional RNA modification, yet little is known about its prevalence, topology and dynamics in mRNA. Here, we show that m1A is abundant in human mRNA, with an m1A/A ratio of ~0.02%. We develop m1A-ID-Seq, based on m1A immunoprecipitation and the in...
ORGANISM(S): Homo sapiens 
2016-02-05 | E-GEOD-73941 | biostudies-arrayexpress
ProteomicsAffinity purification of TRMT6/61A protein complexes
In order to identify the molecular mechanism leading to the increase of TRMT6/61A complex in aged HSCs, we purified proteins interacting with TRMT6 and TRMT61A via affinity purification. HEK293T cells stably expressing SFB-tagged TRMT6 or SFB-TRMT61A were lysed in NETN buffer (20 mM Tris-HCl [pH 8.0...
ORGANISM(S): Homo Sapiens 
2023-11-30 | PXD047430 |
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