Evidence map›Paper›PMID 35309349›Full record

ArticleFrontiers in immunology2022

Combined Single Cell Transcriptome and Surface Epitope Profiling Identifies Potential Biomarkers of Psoriatic Arthritis and Facilitates Diagnosis

Jared Liu, Sugandh Kumar, Julie Hong, Zhi-Ming Huang, Diana Paez, Maria Castillo, Maria Calvo, Hsin-Wen Chang, Daniel D Cummins, Mimi Chung and 8 more

Abstract read
In one paragraph

Article in Frontiers in immunology, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
22citing papers in PubMed, 1 pooled it
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

22 citing papers in PubMed, 1 synthesis or guideline pooled it.

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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

18 authors.

Jared LiuDepartment of Dermatology, University of California at San Francisco, San Francisco, CA, United States.
Sugandh KumarDepartment of Dermatology, University of California at San Francisco, San Francisco, CA, United States.
Julie HongDepartment of Dermatology, University of California at San Francisco, San Francisco, CA, United States.
Zhi-Ming HuangDepartment of Dermatology, University of California at San Francisco, San Francisco, CA, United States.
Diana PaezDivision of Rheumatology, Department of Medicine, University of California at San Francisco, San Francisco, CA, United States.
Maria CastilloDivision of Rheumatology, Department of Medicine, University of California at San Francisco, San Francisco, CA, United States.
Maria CalvoDivision of Rheumatology, Department of Medicine, University of California at San Francisco, San Francisco, CA, United States.
Hsin-Wen ChangDepartment of Dermatology, University of California at San Francisco, San Francisco, CA, United States.
Daniel D CumminsDepartment of Dermatology, University of California at San Francisco, San Francisco, CA, United States.
Mimi ChungDepartment of Dermatology, University of California at San Francisco, San Francisco, CA, United States.
Samuel YeroushalmiDepartment of Dermatology, University of California at San Francisco, San Francisco, CA, United States.
Erin BartholomewDepartment of Dermatology, University of California at San Francisco, San Francisco, CA, United States.
Marwa HakimiDepartment of Dermatology, University of California at San Francisco, San Francisco, CA, United States.
Chun Jimmie YeDivision of Rheumatology, Department of Medicine, University of California at San Francisco, San Francisco, CA, United States.
Tina BhutaniDepartment of Dermatology, University of California at San Francisco, San Francisco, CA, United States.
Mehrdad MatloubianDivision of Rheumatology, Department of Medicine, University of California at San Francisco, San Francisco, CA, United States.
Lianne S GenslerDivision of Rheumatology, Department of Medicine, University of California at San Francisco, San Francisco, CA, United States.
Wilson LiaoDepartment of Dermatology, University of California at San Francisco, San Francisco, CA, United States.

Funding

RESOURCE-BASED CENTER FOR THE ADVANCEMENT OF PRECISION MEDICINE IN RHEUMATOLOGYP30AR070155 · NIAMS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI Mary C Nakamura · 2016 to 2026
$8.2M
UCSF Dermatology Training GrantT32AR007175 · NIAMS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI Wilson Liao, Michael David Rosenblum · 1986 to 2026
$6.1M
Using whole-exome sequencing to uncover key genetic variants related to Hidradenitis Suppurativa risk in African American and Hispanic population.R01AR078688 · NIAMS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI LIAO, WILSON, MI, QING-SHENG · 2021 to 2025
$4.1M
Genetic regulation and immunological function of ERAP2 haplotypesR01AI136972 · NIAID · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI YE, CHUN JIMMIE · 2018 to 2022
$3.5M
Fine mapping rheumatic disease variants using functional genomic sequencingR01AR071522 · NIAMS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI YE, CHUN JIMMIE · 2017 to 2020
$1.5M
Fine mapping rheumatic disease variants using functional genomic sequencingU01HG012192 · NHGRI · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI YE, CHUN JIMMIE · 2021 to 2021
$526k
NHGRI NIH HHS U01 HG012192NIAID NIH HHS R01 AI136972NIAMS NIH HHS P30 AR070155NIAMS NIH HHS R01 AR071522NIAMS NIH HHS R01 AR078688NIAMS NIH HHS T32 AR007175
6 · The paper itself

Abstract

Early diagnosis of psoriatic arthritis (PSA) is important for successful therapeutic intervention but currently remains challenging due, in part, to the scarcity of non-invasive biomarkers. In this study, we performed single cell profiling of transcriptome and cell surface protein expression to compare the peripheral blood immunocyte populations of individuals with PSA, individuals with cutaneous psoriasis (PSO) alone, and healthy individuals. We identified genes and proteins differentially expressed between PSA, PSO, and healthy subjects across 30 immune cell types and observed that some cell types, as well as specific phenotypic subsets of cells, differed in abundance between these cohorts. Cell type-specific gene and protein expression differences between PSA, PSO, and healthy groups, along with 200 previously published genetic risk factors for PSA, were further used to perform machine learning classification, with the best models achieving AUROC ≥ 0.87 when either classifying subjects among the three groups or specifically distinguishing PSA from PSO. Our findings thus expand the repertoire of gene, protein, and cellular biomarkers relevant to PSA and demonstrate the utility of machine learning-based diagnostics for this disease.

Indexed as

Arthritis, PsoriaticPsoriasisBiomarkersEpitopesHumansMachine LearningTranscriptomeBiomarkersEpitopesCITE-seqdiagnostic testmachine learningpsoriasispsoriatic arthritissingle cell

Identifiers

PMID35309349
PMCPMC8924042

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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.