PXD022989-1

PXD022989 is an original dataset announced via ProteomeXchange.

Title	Intrarenal B cells integrate in situ innate and adaptive immunity in human renal allograft rejection
Description	In human allograft rejection, intrarenal B cell infiltrates identify those with a poor prognosis. However, how intrarenal B cells contribute to rejection is not known. Single cell RNA-sequencing of intrarenal class-switched B cells revealed a unique innate cell transcriptional state resembling murine peritoneal B1 cells (Bin cells). Comparison to the transcriptome of whole renal allograft rejecting tissue revealed that Bin cells existed within a complex autocrine and paracrine network of signaling axes. The immunoglobulins expressed by Bin cells did not bind donor specific antigens nor were they enriched for reactivity to ubiquitously expressed self-antigens. Rather, Bin cells frequently expressed antibodies reactive with renal expressed antigens. Furthermore, local antigens could drive Bin cell proliferation and differentiation into plasma cells expressing self-reactive antibodies. By contributing to local innate immune networks, and expressing antibodies reactive with renal expressed antigens, Bin cells are predicted to amplify local inflammation and tissue destruction.
HostingRepository	PRIDE
AnnounceDate	2021-04-27
AnnouncementXML	Submission_2021-04-26_22:12:12.217.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD022989
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Donald Wolfgeher
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2020-12-08 02:24:56	ID requested
⏵ 1	2021-04-26 22:12:12	announced
2	2021-04-27 21:54:20	announced	2021-04-28: Updated project metadata.
3	2021-07-20 04:06:10	announced	2021-04-28: Updated project metadata. 2021-07-20: Updated publication reference for PubMed record(s): 34272370.

Dataset with its publication pending

submitter keyword: Keywords: renal allograft rejection, human, innate B cells, inflammation, tolerance, autoantibodies, scRNA-seq, transcription, LFQ, Q-Exactive, Human

Dr. Marcus R. Clark
contact affiliation	Section of Rheumatology and The Knapp Center for Lupus and Immunology Research, Department of Medicine, The University of Chicago, Chicago, IL, USA.
contact email	mclark@uchicago.edu
lab head
Donald Wolfgeher
contact affiliation	University of Chicago
contact email	donw@uchicago.edu
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2021/04/PXD022989

PRIDE project URI

• PRIDE
  1. PXD022989
     1. Label: PRIDE project
     2. Name: Intrarenal B cells integrate in situ innate and adaptive immunity in human renal allograft rejection