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TranscriptomicsWhole-genome Haplotype Reconstruction using Proximity-ligation and Shotgun Sequencing
Rapid advances in high-throughput DNA sequencing technologies are accelerating the pace of research into personalized medicine. While methods for variant discovery and genotyping from whole genome sequencing (WGS) datasets have been well established, linking variants together into a single haplotype...
ORGANISM(S): Homo sapiens 
2013-11-03 | E-GEOD-48592 | biostudies-arrayexpress
GenomicsWhole-genome Haplotype Reconstruction using Proximity-ligation and Shotgun Sequencing
Whole-genome Haplotype Reconstruction using Proximity-ligation and Shotgun Sequencing
PRJNA210760 | ENA
GenomicsRNA-DNA interactome of a prokaryotic cell uncovered by proximity ligation
RNA-DNA interactome of a prokaryotic cell uncovered by proximity ligation
PRJNA862901 | ENA
ProteomicsMicroID: A Novel Biotin Ligase Enables Rapid Proximity Ligation Proteomics
Identifying protein-protein interactions is central to dissecting signaling and regulatory processes in cells. BioID is a proximity ligation method that uses a promiscuous biotin ligase to detect protein-protein interactions in cells in a highly reproducible manner. Recent advancements in proximity ...
ORGANISM(S): Homo sapiens (Human) 
2022-08-12 | PXD031146 | Pride
Proximity ligation  bioid  turboid  organelle  mass spectrometry  microid 
Genomics6b4d084a-012c-4adf-98a0-d68594e64428 - samples
This dataset contains: Targeted proximity-ligation assay, enriched using capture probes (1092 samples) Targeted proximity-ligation assay, enriched using 4C (1230 samples) Genome-wide proximity-ligation assay, enriched using HiC ( 6 samples)
EGAD00001006542 | EGA
ProteomicsControl of TurboID-dependent biotinylation intensity in proximity ligation screens
Proximity biotinylation screens are a widely used strategy for the unbiased identification of interacting or vicinal proteins. The latest generation biotin ligase TurboID has broadened the range of potential applications, as this ligase promotes an intense and faster biotinylation, even in subcellul...
ORGANISM(S): Homo sapiens (Human) 
2023-03-29 | PXD040302 | Pride
Biotinylation Proximity ligation screens Protein-protein interactions Proteomics 
GenomicsRNA Proximity Ligation to Resolve Intramolecular RNA Structures in situ
RNA Proximity Ligation to Resolve Intramolecular RNA Structures in situ
PRJNA285680 | ENA
UnknownProximity-Based Sortase-Mediated Ligation.
Not available
S-EPMC5537000 | biostudies-literature
ProteomicsProximity ligation mapping of microcephaly associated SMPD4 shows association with components of the nuclear pore mem-brane
SMPD4 is a neutral sphingomylinase implicated in a specific type of congenital microcephaly. Although not intensively studied, SMPD4 deficiency has also been found to cause cell division defects. This suggests a role for SMPD4 in cell cycle and differentiation. In order to explore this role we used ...
ORGANISM(S): Homo sapiens (Human) 
2022-10-25 | PXD037694 | Pride
Nuclear pore membrane  sphingomyelinase  nup35  smpd4  n-smnase-3 
OtherRNA-DNA interactome of a prokaryotic cell uncovered by proximity ligation
We used one of the RNA-DNA proximity ligation approaches, RedC, for the analysis of an RNA-DNA interactome of microbial cells. We assess the distribution of main RNA types — mRNA, tRNA and rRNA — along the genomes of E.coli, B.subtilis, and thermophilic archaea T. adornatum.
ORGANISM(S): Bacillus subtilis Escherichia coli Thermofilum adornatum 
2023-04-07 | GSE209901 | GEO
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