Evidence map›Paper›PMID 38355753›Full record

ArticleScientific reports2024

Identification and characterization of intact glycopeptides in human urine.

Fernando Garcia-Marques, Keely Fuller, Abel Bermudez, Nikhiya Shamsher, Hongjuan Zhao, James D Brooks, Mark R Flory, Sharon J Pitteri

Open access · goldAbstract read
In one paragraph

Article in Scientific reports, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing papers in PubMed
0.7field-weighted citation impact, top 33% of its field
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

2 citing papers in PubMed, 3 citations in OpenAlex.

  1. Foods (Basel, Switzerland) · 2025
    Article
  2. Article
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

8 authors at 3 institutions in 1 country.

Fernando Garcia-MarquesCanary Center at Stanford for Cancer Early Detection, Department of Radiology, Stanford University School of Medicine, 3155 Porter Drive MC5483, Palo Alto, CA, 94304, USA.
Keely FullerCanary Center at Stanford for Cancer Early Detection, Department of Radiology, Stanford University School of Medicine, 3155 Porter Drive MC5483, Palo Alto, CA, 94304, USA.
Abel BermudezCanary Center at Stanford for Cancer Early Detection, Department of Radiology, Stanford University School of Medicine, 3155 Porter Drive MC5483, Palo Alto, CA, 94304, USA.
Nikhiya ShamsherCanary Center at Stanford for Cancer Early Detection, Department of Radiology, Stanford University School of Medicine, 3155 Porter Drive MC5483, Palo Alto, CA, 94304, USA.
Hongjuan ZhaoDepartment of Urology, Stanford University School of Medicine, Stanford, CA, 94305, USA.
James D BrooksCanary Center at Stanford for Cancer Early Detection, Department of Radiology, Stanford University School of Medicine, 3155 Porter Drive MC5483, Palo Alto, CA, 94304, USA.
Mark R FloryCancer Early Detection Advanced Research (CEDAR) Center, Knight Cancer Institute, Oregon Health & Science University, Portland, OR, 97239-3098, USA.
Sharon J PitteriCanary Center at Stanford for Cancer Early Detection, Department of Radiology, Stanford University School of Medicine, 3155 Porter Drive MC5483, Palo Alto, CA, 94304, USA. spitteri@stanford.edu.ORCID http://orcid.org/0000-0002-3119-873X
Stanford University · USOregon Health & Science University · USStanford Medicine · US

Funding

Stanford O'Brien Urology Research CenterU54DK130065 · NIDDK · STANFORD UNIVERSITY · PI JAMES D. BROOKS · 2021 to 2026
$8.3M
Glycosylation and Immune Evasion in Urologic TumorsU01CA226051 · NCI · STANFORD UNIVERSITY · PI BERTOZZI, CAROLYN, BROOKS, JAMES D. · 2019 to 2023
$3.0M
NCI NIH HHS U01 CA226051NIDDK NIH HHS U54 DK130065
6 · The paper itself

Abstract

Glycoproteins in urine have the potential to provide a rich class of informative molecules for studying human health and disease. Despite this promise, the urine glycoproteome has been largely uncharacterized. Here, we present the analysis of glycoproteins in human urine using LC-MS/MS-based intact glycopeptide analysis, providing both the identification of protein glycosites and characterization of the glycan composition at specific glycosites. Gene enrichment analysis reveals differences in biological processes, cellular components, and molecular functions in the urine glycoproteome versus the urine proteome, as well as differences based on the major glycan class observed on proteins. Meta-heterogeneity of glycosylation is examined on proteins to determine the variation in glycosylation across multiple sites of a given protein with specific examples of individual sites differing from the glycosylation trends in the overall protein. Taken together, this dataset represents a potentially valuable resource as a baseline characterization of glycoproteins in human urine for future urine glycoproteomics studies.

Indexed as

GlycopeptidesTandem Mass SpectrometryChromatography, LiquidGlycoproteinsHumansPolysaccharidesProteomeGlycopeptidesGlycoproteinsPolysaccharidesProteome

Identifiers

PMID38355753
PMCPMC10866872
OpenAlexW4391814732

What Socratic holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

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 Socratic graph.