Evidence map›Paper›PMID 31673949›Full record

ArticleJournal of the American Society for Mass Spectrometry2019

A Scoring Algorithm for the Automated Analysis of Glycosaminoglycan MS/MS Data.

Jiana Duan, Lauren Pepi, I Jonathan Amster

Open access · greenAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Journal of the American Society for Mass Spectrometry, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing papers in PubMed
0.5field-weighted citation impact, top 39% 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

3 citing papers in PubMed, 7 citations in OpenAlex.

  1. Review
  2. Article
  3. Review
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

3 authors at 1 institution in 1 country.

Jiana DuanDepartment of Chemistry, University of Georgia, Athens, GA, 30602, USA.
Lauren PepiDepartment of Chemistry, University of Georgia, Athens, GA, 30602, USA.
I Jonathan AmsterDepartment of Chemistry, University of Georgia, Athens, GA, 30602, USA. jamster@uga.edu.ORCID http://orcid.org/0000-0001-7523-5144
University of Georgia · US

Funding

TR&D3. Approaches to Proteoglycan Function at Biochemical and Cellular LevelsP41GM103390 · NIGMS · UNIVERSITY OF GEORGIA · PI MOREMEN, KELLEY W. · 2012 to 2019
$14.5M
An Automated Platform for the CE-MS Analysis of GlycosaminoglycansU01CA231074 · NCI · UNIVERSITY OF GEORGIA · PI AMSTER, I JONATHAN · 2018 to 2020
$895k
Rapid Sequencing of Sulfated Glycans By CE-MS/MSR21HL136271 · NHLBI · UNIVERSITY OF GEORGIA · PI AMSTER, I JONATHAN · 2016 to 2017
$611k
NCI NIH HHS U01 CA231074NHLBI NIH HHS R21 HL136271NIGMS NIH HHS 5P41GM103390-29NIGMS NIH HHS P41 GM103390NIH HHS 1U01CA231074-01NIH HHS 5R21HL1367271-02
6 · The paper itself

Abstract

The role of glycosaminoglycans (GAGs) in major biological functions is numerous and diverse, yet structural characterization of them by mass spectrometric techniques proves to be challenging. Characterization of GAG structure from tandem mass spectrometry is a tedious and time-consuming process but one that can be automated in a database-independent, high-throughput fashion through the assistance of software implementing a genetic algorithm (J. Am. Soc. Mass Spectrom. 29, 1802-1911, 2018). This work presents the manner in which this data is interpreted by the software, specifically addressing the development of a scoring algorithm. The significance of glycosidic and cross-ring fragment ions and the implications that specific fragments provide for assigning the positions of modifications are discussed. The scoring algorithm is tested for statistical merit using the widely accepted expectation value as the criterion for quality. Using MS/MS data for well-characterized standards, this scoring approach is shown to assign the correct structure, with a low likelihood (1 in 10

Indexed as

AlgorithmsFourier AnalysisGlycosaminoglycansSoftwareTandem Mass SpectrometryGlycosaminoglycansAutomated data analysisAutomationFourier transform mass spectrometryGlycosaminoglycansSoftware

Identifiers

PMID31673949
PMCPMC6917907
OpenAlexW2986804525

What OpenQuestion holds

Textmetadata
LicenceTDM
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 OpenQuestion graph.