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MetabolomicsIntegrating two chromatographies in a co-fractionation mass spectrometry approach improved protein-metabolite interactions (PMIs) mapping capabilities and revealed novel protein-ligand pairings in Escherichia coli.
The protein-metabolite interactome remains understudied. We previously developed a co-fractionation mass-spectrometry-based approach called PROMIS to address this gap. PROMIS relies on size separation chromatography of protein-metabolite complexes from lysates, followed by proteomics and metabolomic...
2025-04-25 | MTBLS9098 | MetaboLights
TranscriptomicsA comprehensive Xist interactome reveals cohesin repulsion and an RNA-directed chromosome conformation
The inactive X chromosome (Xi) serves as a model to understand gene silencing on a global scale. Here, we perform identification of direct RNA interacting proteins? (iDRiP) to isolate a comprehensive protein interactome for Xist, an RNA required for Xi silencing. We discover multiple classes of inte...
ORGANISM(S): Mus musculus 
2015-06-19 | E-GEOD-67516 | biostudies-arrayexpress
TranscriptomicsMapping RNA-RNA interactome and RNA structures in vivo with MARIO
Many biological processes are regulated by RNA-RNA interactions 1, nonetheless it remains formidable to analyze the entire RNA interactome. We developed a method, MARIO (MApping Rna-rna Interactions in vivO), to map protein-assisted RNA-RNA interactions in vivo. By circumventing the selection for a ...
ORGANISM(S): Mus musculus 
2016-06-23 | E-GEOD-61489 | biostudies-arrayexpress
UnknownGenomic data integration systematically biases interactome mapping.
Not available
S-EPMC6192561 | biostudies-literature
TranscriptomicsIdentification of LMO2 transcriptome and interactome in diffuse large B-cell lymphoma
LMO2 regulates gene expression facilitating the formation of multipartite DNA-binding complexes. In B cells, LMO2 is specifically up-regulated in the Germinal Center (GC) reaction and is expressed in GC-derived non-Hodgkin’s lymphomas. LMO2 is one of the most powerful prognostic indicators in DLBCL ...
ORGANISM(S): Homo sapiens 
2012-07-12 | E-GEOD-34576 | biostudies-arrayexpress
TranscriptomicsRIA to verify MARIO in mapping RNA-RNA interactome and RNA structures in vivo
Many biological processes are regulated by RNA-RNA interactions 1, nonetheless it remains formidable to analyze the entire RNA interactome. We developed a method, MARIO (MApping Rna-rna Interactions in vivO), to map protein-assisted RNA-RNA interactions in vivo. By circumventing the selection for a ...
ORGANISM(S): Mus musculus 
2016-06-23 | E-GEOD-65849 | biostudies-arrayexpress
UnknownA Yeast BiFC-seq Method for Genome-wide Interactome Mapping.
Not available
S-EPMC9880813 | biostudies-literature
GenomicsMapping the joint-nerve interactome of the knee
Mapping the joint-nerve interactome of the knee
PRJNA1450679 | ENA
GenomicsMapping the chemotherapy-induced RNA interactome in Glioblastoma
Mapping the chemotherapy-induced RNA interactome in Glioblastoma
PRJNA384134 | ENA
GenomicsMapping the joint-nerve interactome of the knee
Mapping the joint-nerve interactome of the knee
PRJNA1450678 | ENA
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