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PXD010808

PXD010808 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleB cell Lymphomas present Immunoglobulin Neoantigens
DescriptionImmunoglobulin gene rearrangement and somatic hypermutation have the potential to create neoantigens in non-Hodgkin B cell lymphoma. However, the presentation of these putative immunoglobulin neoantigens by B cell lymphomas has not been proven. We used MHC immunoprecipitation followed by liquid chromatography and tandem mass spectrometry (LC-MS/MS) to define antigens presented by follicular lymphomas (FL), chronic lymphocytic leukemias (CLL), diffuse large B cell lymphoma (DLBCL) and mantle cell lymphomas (MCL). We found presentation of the clonal immunoglobulin molecule, including neoantigens by both class I and class II MHC, though more commonly in class II MHC. To determine whether B cell activation could promote presentation of immunoglobulin neoantigens, we used a toll-like receptor 9 (TLR9) agonists to upregulate expression of MHC-II. This resulted in enhanced class II MHC presentation of the immunoglobulin variable region including neoantigens. These findings demonstrate that immunoglobulin neoantigens are presented across most subtypes of B cell lymphomas. Activation of lymphoma cells to upregulate antigen presentation boosts presentation of immunoglobulin neoantigens and represents a strategy for augmenting lymphoma immunotherapies.
HostingRepositoryPRIDE
AnnounceDate2024-10-22
AnnouncementXMLSubmission_2024-10-22_04:11:03.495.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterNiclas Olsson
SpeciesList scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationListcysteinylation (disulfide with free L-cysteine); phosphorylated residue; monohydroxylated residue; deamidated residue
InstrumentOrbitrap Fusion Lumos; LTQ Orbitrap Elite
Dataset History
RevisionDatetimeStatusChangeLog Entry
02018-08-17 06:47:24ID requested
12019-01-07 05:15:42announced
22024-10-22 04:11:04announced2024-10-22: Updated project metadata.
Publication List
Khodadoust MS, Olsson N, Chen B, Sworder B, Shree T, Liu CL, Zhang L, Czerwinski DK, Davis MM, Levy R, Elias JE, Alizadeh AA, B-cell lymphomas present immunoglobulin neoantigens. Blood, 133(8):878-881(2019) [pubmed]
10.1182/blood-2018-06-845156;
Keyword List
curator keyword: Biological
submitter keyword: lymphoma, neoantigens,MHC, Orbitrap
Contact List
Joshua E Elias
contact affiliationDepartment of Chemical & Systems Biology, Stanford University, USA
contact emailjosh.elias@stanford.edu
lab head
Niclas Olsson
contact affiliationCalico Life Sciences
contact emailnic.e.olsson@gmail.com
dataset submitter
Full Dataset Link List
Dataset FTP location
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PRIDE project URI
Repository Record List
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