140984 Results

Show all   Save search   Copy query
Sort   by:  
 Page size 
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
ProteomicsLigand-induced disorder-to-order transitions characterized by structural proteomics and molecular dynamics simulations
We have studied both the Spy and the FKBP protein-ligand systems by structural proteomics and molecular -dynamics simulations. We have used hydrogen/deuterium exchange, differential crosslinking, and surface modification to characterize the conformational changes that occur upon both peptide bindin...
ORGANISM(S): Escherichia coli 
2021-09-08 | PXD015275 | Pride
Structural proteomics  mass spectrometry  discrete molecular dynamics simulations  protein-ligand interaction  hydrogen/deuterium exchange  crosslinking/mass spectrometry  surface modification  conformational change  quantitative protein structure  intrinsically disordered protein  protein folding 
TranscriptomicsLigand-Dependent Enhancer Activation Regulated by Topoisomerase-I Activity
The discovery that enhancers are regulated transcription units, encoding eRNAs, has raised new questions about the mechanisms of their activation. Here, we report an unexpected molecular mechanism that underlies ligand-dependent enhancer activation, based on DNA nicking to relieve torsional stress f...
ORGANISM(S): Homo sapiens 
2015-01-22 | E-GEOD-63202 | biostudies-arrayexpress
ProteomicsThe HLA-Ligand-Atlas. A resource of natural HLA ligands presented on benign tissues
The human leukocyte antigen (HLA) complex regulates the adaptive immune response by showcasing the intracellular and extracellular protein content to the immune system. T cells recognize these HLA-presented peptides as self or foreign and can elicit an immune response. In this work, we describe the...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2024-10-31 | MSV000096271 | MassIVE
TranscriptomicsTranscription profiling of mouse spermatagonia stimulated with kit ligand, bone morphogenetic protein 4 (BMP4) or all-trans retinoic acid
wide genome analysis of difference in gene expression induced by treatment with kit ligand (KL), or bone mprphogenetic protein 4 (BMP4), or all-trans retinoic acid in spermatogonia from 7-day-old mice, using Mouse Genome 430 2.0 Array from Affymetrix, representing approximately 45000 mouse known gen...
ORGANISM(S): Mus musculus 
2007-08-01 | E-MEXP-1126 | biostudies-arrayexpress
TranscriptomicsFoam cell specific LXRM-NM-1 ligand
OBJECTIVE: The liver X receptor M-NM-1 (LXRM-NM-1) is a ligand-dependent nuclear receptor and the major regulator of reverse cholesterol transport in macrophages. This makes it an interesting target for mechanistic study and treatment of atherosclerosis. METHODS AND RESULTS: We optimized a promising...
ORGANISM(S): Homo sapiens 
2013-09-05 | E-GEOD-39079 | biostudies-arrayexpress
ProteomicsHigh-throughput peptide-centric local stability assay extends protein-ligand identification to membrane proteins, tissues, and bacteria
High-throughput peptide-centric local stability assay extends protein-ligand identification to membrane proteins, tissues, and bacteria
ORGANISM(S): Mus musculus (Mouse) Homo sapiens (Human) Escherichia coli 
2025-09-22 | PXD062869 | Pride
Protein-ligand interactions 
GenomicsDNA Ligand Evolution
DNA Ligand Evolution
PRJEB2213 | ENA
TranscriptomicsHLA ligand profiles of primary renal cell carcinoma maintained in metastases.sue
In recent years, several approaches have been taken in the peptide-based immunotherapy of metastatic renal cell carcinoma (RCC), although little is known about HLA presentation on metastases compared to primary tumor and normal tissue of RCC. In this study we compared primary tumor, normal tissue an...
ORGANISM(S): Homo sapiens 
2008-09-03 | E-GEOD-12606 | biostudies-arrayexpress
TranscriptomicsMolecular mechanism of DNA minor groove binding ligand as a radiation modulator
Radiation-induced DNA damage initiates a complex series of overlapping responses responsible for the maintenance of genome integrity. This study reports the expression analysis in response to DNA minor groove binding ligand (DMA-5-(4-methylpiperazin-1-yl)-2-[2’-(3,4-dimethoxyphenyl)-5`-benzimidazoly...
ORGANISM(S): Homo sapiens 
2011-07-31 | E-GEOD-30044 | biostudies-arrayexpress
Sort   by:  
 Page size