GLYDE-II: The GLYcan data exchange format.

Rene Ranzinger, Krys J Kochut, John A Miller, Matthew Eavenson, Thomas Lütteke, William S York

Abstract read

In one paragraph

Article in Perspectives in science, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it

0cells of the map it votes in

1citing papers in PubMed

–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

1 citing paper in PubMed.

Molecular representations in AI-driven drug discovery: a review and practical guide.Journal of cheminformatics · 2020
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

6 authors.

Rene RanzingerComplex Carbohydrate Research Center, University of Georgia, USA.

Krys J KochutComputer Science Department, University of Georgia, USA.

John A MillerComputer Science Department, University of Georgia, USA.

Matthew EavensonComputer Science Department, University of Georgia, USA.

Thomas LüttekeInstitute of Veterinary Physiology and Biochemistry, Justus-Liebig-University Giessen, Germany.

William S YorkComplex Carbohydrate Research Center, University of Georgia, USA.

Funding

TR&D1: Stem Cell and Induced Pluripotent Stem Cell Resources (Pages 116-134)P41GM103490 · NIGMS · UNIVERSITY OF GEORGIA · PI PIERCE, J. MICHAEL · 2012 to 2018

$13.7M

NIGMS NIH HHS P41 GM103490

6 · The paper itself

Abstract

The GLYcan Data Exchange (GLYDE) standard has been developed for the representation of the chemical structures of monosaccharides, glycans and glycoconjugates using a connection table formalism formatted in XML. This format allows structures, including those that do not exist in any database, to be unambiguously represented and shared by diverse computational tools. GLYDE implements a partonomy model based on human language along with rules that provide consistent structural representations, including a robust namespace for specifying monosaccharides. This approach facilitates the reuse of data processing software at the level of granularity that is most appropriate for extraction of the desired information. GLYDE-II has already been used as a key element of several glycoinformatics tools. The philosophical and technical underpinnings of GLYDE-II and recent implementation of its enhanced features are described.

Indexed as

BioinformaticsGlycanRepresentationStructureXML

Identifiers

PMID28955652

DOI10.1016/j.pisc.2016.05.013

PMCPMC5611833

What OpenQuestion holds

Textmetadata

LicenceCC BY

Read underepoch 390

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.