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GenomicsBenchmark study of different chromatin isolation methods using the E2Fa transcription factor
Genome-wide identification of transcription factor (TF) binding sites is pivotal to our understanding of gene expression regulation. Although much progress has been made in the determination of potential binding regions of proteins by chromatin immunoprecipitation (ChIP), this method has some inhere...
ORGANISM(S): Arabidopsis thaliana 
2014-02-04 | E-GEOD-53422 | biostudies-arrayexpress
ProteomicsIntact Transition Epitope Mapping- Thermodynamic Weak-force Order (ITEM-TWO)
Most important characteristics of antibodies are that they typically strongly bind to specific epitopes, thereby expressing low dissociation constants (KDs) and high Gibbs free binding energies (delta Gs). In this study, we describe an off-line nano-electrospray mass spectrometry method, termed IT...
ORGANISM(S): Homo sapiens (Human) 
2019-11-07 | PXD016024 | Pride
Antibody affinity determination Antibody specificity determination 
ProteomicsLongitudinal proteomic analysis of influenza HA-reactive IgG antibody repertoire over multiple years and repeated vaccinations
Longitudinal proteomic analysis of H1N1 A/California/7/2009 (CA09) hemagglutinin (HA)-reactive serum IgG antibody repertoire over 5 years and multiple (yearly) vaccinations (both pre- and post-vaccination samples) in a donor. Dataset consists of steady-state (pre-vaccination at day 0) and peak-respo...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2018-11-08 | MSV000083120 | MassIVE
ProteomicsSite-specific analysis of CD16a and CD32a N-glycosylation from monocytes display donor variability which modulate affinity to IgG1 Fc
Glycopeptide mass spectra of CD16a and CD32a from isolated monocytes display donor and site variability. CD16a N-glycosylation composition affects the affinity of IgG1 Fc. Peptide coverage of CD16a was ~85% while CD32a was ~61%.
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2019-06-26 | MSV000084012 | MassIVE
UnknownRapid Determination of Antibody-Antigen Affinity by Mass Photometry.
Not available
S-EPMC8056393 | biostudies-literature
TranscriptomicsAntibody repertoire sequencing of human tonsillar B cell subsets
In response to antigen challenge, human B cells clonally expand, undergo selection and differentiate within secondary lymphoid tissues to produce mature B cell subsets and high affinity antibodies necessary for an effective immune response. However, the interplay between affinity, antibody class and...
ORGANISM(S): Homo sapiens 
2020-05-01 | E-MTAB-8999 | biostudies-arrayexpress
ProteomicsMAGE-A4 TCR-like antibody immunoprecipitation in A375 and A375 MAGE-A4 KO xenograft tissue
To demonstrate the on-target binding of the MAGE-A4 antibody to the target HLAp GVYDGREHTV, we developed a reverse immunopeptidomics strategy that uses the HLAp-targeting antibody as a bait to enrich interacting HLAp from A375 xenografts. For this purpose, we immobilized the IgG-format of the MAGE-A...
ORGANISM(S): Homo sapiens (Human) 
2024-04-02 | PXD048298 | Pride
Tcr-like antibody Human tissue Immunopeptidomics 
ProteomicsMAGE-A4 TCR-like antibody immunoprecipitation in A375 and A375 MAGE-A4 KO xenograft tissue
To demonstrate the on-target binding of the MAGE-A4 antibody to the target HLAp GVYDGREHTV, we developed a reverse immunopeptidomics strategy that uses the HLAp-targeting antibody as a bait to enrich interacting HLAp from A375 xenografts. For this purpose, we immobilized the IgG-format of the MAGE-A...
ORGANISM(S): Homo sapiens (Human) 
2024-03-30 | PXD048297 | Pride
Tcr-like antibody Human tissue Immunopeptidomics 
GenomicsThe Mediator complex subunit MED23 couples H2B mono-ubiquitination to transcriptional control and cell fate determination
The Mediator complex orchestrates multiple transcription factors with the Pol II apparatus for precise transcriptional control. However, its interplay with the surrounding chromatin remains poorly understood. Here, we analyze differential histone modifications between WT and MED23-/- (KO) cells and ...
ORGANISM(S): Mus musculus 
2015-09-16 | E-GEOD-59518 | biostudies-arrayexpress
ProteomicsComparison of affinity enrichment methods for O-GlcNAc proteomics
In this work, by using the lysates of PANC-1 (a pancreatic cancer cell line), we provided a head-to-head comparison of three affinity enrichment methods/materials (i.e., antibody, lectin AANL6, and an OGA mutant) for O-GlcNAc proteomics. The enrichment was performed before or after high-pH HPLC frac...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) Saccharomyces Cerevisiae (ncbitaxon:4932) 
2024-04-23 | MSV000094604 | MassIVE
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