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The lupus susceptibility allele DRB1*03:01 encodes a disease driving epitope [RAW264.7]

ABSTRACT: We report RNA sequencing data that shows the differential effects of HLA-DRb1*0301 (LE), HLA-DRb1*0401 (SE) and HLA-DRb1*0402 (PE) on macrophage gene expression under IFNγ cell culture conditions.

ORGANISM(S): Mus musculus

PROVIDER: GSE173875 | GEO | 2022/08/03

REPOSITORIES: GEO

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The lupus susceptibility allele DRB1*03:01 encodes a disease driving epitope [THP-1]

Project description:We report RNA sequencing data that shows the differential effects of HLA-DRb1*0301 (LE), HLA-DRb1*0401 (SE) and HLA-DRb1*0402 (PE) on macrophage gene expression under IFNγ cell culture conditions.

2022-08-03 | GSE173876 | GEO

The lupus susceptibility allele DRB1*03:01 encodes a disease driving epitope

Project description:This SuperSeries is composed of the SubSeries listed below.

2022-08-03 | GSE173877 | GEO

The lupus susceptibility allele DRB1*03:01 encodes a disease driving epitope [RAW264.7]

Project description:The lupus susceptibility allele DRB1*03:01 encodes a disease driving epitope [RAW264.7]

| PRJNA727351 | ENA

The lupus susceptibility allele DRB1*03:01 encodes a disease driving epitope

Project description:The lupus susceptibility allele DRB1*03:01 encodes a disease driving epitope

| PRJNA727339 | ENA

The lupus susceptibility allele DRB1*03:01 encodes a disease driving epitope [THP-1]

Project description:The lupus susceptibility allele DRB1*03:01 encodes a disease driving epitope [THP-1]

| PRJNA727352 | ENA

Effects of HLA DRB1*15:01 interactions with ⍺-syn32-46 on gene expression in the ileum

Project description:HLA DRB1*15:01 is overrepresentated in Parkinson's disease patients and binds with high affinity to the ⍺-synuclein peptide, 32-46. Immunization of humanized mice expressing HLA DRB1*15:01 with ⍺-syn32-46 induces enteric phenotypes similar to those of prodromal Parkinson's disease. We collected the ileum from HLA mice immunized with either Complete Freund's Adjuvant (CFA) with ⍺-syn32-46 or CFA alone, and sequenced the tissue with bulk RNA sequencing at 21 days post immunization to determine changes in gene expression.

2023-08-17 | GSE231873 | GEO

Effects of HLA DRB1*15:01 interactions with ⍺-syn32-46 on gene expression in intestinal immune cells in mice

Project description:HLA DRB1*15:01 is overrepresentated in Parkinson's disease patients and binds with high affinity to the ⍺-synuclein peptide, 32-46. Immunization of humanized mice expressing HLA DRB1*15:01 with ⍺-syn32-46 induces enteric phenotypes similar to those of prodromal Parkinson's disease. We collected the small intestines from HLA mice immunized with either Complete Freund's Adjuvant (CFA) with ⍺-syn32-46 or CFA alone, sorted the CD45+ immune cells, then performed single-cell RNA sequencing to evaluate gene expression at single cell resolution.

2023-08-17 | GSE233572 | GEO

The HLA-DRB1*03:01 ligandome is highly conserved on N- and C-terminal residues outside the peptide-binding cleft

Project description:Human CD4+ T lymphocytes play an important role in inducing potent immune responses. They are activated and stimulated by peptides presented in Major Histocompatibility Complex Class II molecules. These MHC class II molecules typically present peptides of between 12 and 20 amino acids in length. The region that interacts with the MHC molecule, designated as the binding core, is highly conserved in the residues which anchor the peptide to the molecule. In addition, as these peptides are the product of proteolytic cleavages, certain conserved residues may be expected at the N- and C-termini outside the binding core. To study whether similar conserved residues are present in different types of cells , the ligandomes of HLA-DRB1*03:01 derived from two different cell types (dendritic cells and EBV-transformed B-cells) were identified with mass spectrometry and the binding core and N- and C-terminal residues were analysed using the frequencies of the amino acids in the human proteome. Similar binding motifs were found as well as comparable conservations in the N- and C-terminal residues. Furthermore, these terminal conservations of the HLA-DRB1*03:01 ligandome were compared to the N- and C-terminal conservations of the HLA-DRB1*04:01 ligandome acquired from dendritic cells. Again, comparable conservations were evident with only minor differences. Taken all together, these analyses show that there are conservations in the terminal residues of peptides, presumably the result of the activity of proteases involved in antigen processing.

2019-09-16 | PXD014253 | Pride

New Allele HLA-DRB1*03

Project description:Sample od DVMO Brasil, with new allele HLA-DRB1*03.

| PRJEB41331 | ENA

HLA-DRB1*15:01 and HLA-DRB5*01:01 peptidomes

Project description:HLA-DR15 is a haplotype associated with multiple sclerosis. It contains the two DRB* genes DRB1*1501 (DR2b) and DRB5*0101 (DR2a). The reported anchor motif of the corresponding HLA-DR molecules was determined years ago based on a small number of peptide ligands and binding assays. DR2a could display a set of peptides complementary to that presented by DR2b or, alternatively, a similar peptide repertoire but recognized in a different manner by T cells. It is known that DR2a and DR2b share some peptide ligands, although the degree of similarity of their associated peptidomes remains unclear. In addition, the contribution of each molecule to the global peptide repertoire presented by the HLA-DR15 haplotype has not been evaluated. We used mass spectrometry to analyze the peptide pools bound to DR2a and DR2b, identifying 169 and 555 unique peptide ligands of DR2a and DR2b, respectively. The analysis of these sets of peptides allowed the refinement of the corresponding binding motifs revealing novel anchor residues that had been overlooked in previous analyses. Moreover, the number of shared ligands between both molecules was low, indicating that DR2a and DR2b present complementary peptide repertoires to T cells. Finally, our analysis suggests that, quantitatively, both molecules contribute to the peptide repertoire presented by cells expressing the HLA-DR15 haplotype.

2017-10-10 | PXD006534 | Pride

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