Evidence map›Paper›PMID 40909623›Full record

ArticlebioRxiv : the preprint server for biology2025

GlycoEnzDB: A database of enzymes involved in human glycosylation.

Yusen Zhou, Vishnu Ghosh, Shriramprasad Venkatesan, Shyam Sriram, Edward Sobczak, Srirangaraj Setlur, Rudiyanto Gunawan, Sriram Neelamegham

Abstract readPreprint
In one paragraph

Article in bioRxiv : the preprint server for biology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it
0cells of the map it votes in
0citing 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

0 citing papers in PubMed.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

8 authors.

Yusen ZhouDepartment of Chemical & Biological Engineering, State University of New York, Buffalo, NY 14260.
Vishnu GhoshDepartment of Chemical & Biological Engineering, State University of New York, Buffalo, NY 14260.
Shriramprasad VenkatesanDepartment of Chemical & Biological Engineering, State University of New York, Buffalo, NY 14260.
Shyam SriramDepartment of Chemical & Biological Engineering, State University of New York, Buffalo, NY 14260.
Edward SobczakDepartment of Computer Science and Engineering, State University of New York, Buffalo, NY 14260.
Srirangaraj SetlurDepartment of Computer Science and Engineering, State University of New York, Buffalo, NY 14260.
Rudiyanto GunawanDepartment of Chemical & Biological Engineering, State University of New York, Buffalo, NY 14260.ORCID 0000-0002-6480-7976
Sriram NeelameghamDepartment of Chemical & Biological Engineering, State University of New York, Buffalo, NY 14260.ORCID 0000-0002-1371-8500

Funding

Project 3: Role of Glycosaminoglycans in HematopoiesisP01HL151333 · NHLBI · VERSITI WISCONSIN, INC. · PI HOFFMEISTER, KARIN MARIA · 2021 to 2025
$12.3M
Systems Biology of GlycosylationR01HL103411 · NHLBI · STATE UNIVERSITY OF NEW YORK AT BUFFALO · PI NEELAMEGHAM, SRIRAM · 2011 to 2025
$7.1M
NHLBI NIH HHS P01 HL151333NHLBI NIH HHS R01 HL103411
6 · The paper itself

Abstract

The glycan distribution on cells is governed by the stochastic activity of different families of enzymes that are together called 'glycoEnzymes'. These include ~400 gene products or 2% of the proteome, that have recently been curated in an ontology called GlycoEnzOnto. With the goal of making this ontology more accessible to the larger biomedical and biotechnology community, we organized a web resource called GlycoEnzDB, presenting this enzyme classification both in terms of enzyme function and the pathways that they participate in. This information is linked to i) Figures from the " Essentials of Glycobiology" textbook, ii) General gene, enzyme and pathway data appearing in external databases, iii) Manual and generative-artificial intelligence (AI) based text describing the function and pathways regulated by these entities, iv) Single-cell expression data across cell lines, normal human cell-types and tissue, and v) CRISPR-knockout/activation/inactivation and Transcription factor activity predictions. Whereas these data are curated for human glycoEnzymes, the knowledge framework may be extended to other species also. The user-friendly web interface is accessible at www.virtualglycome.org/glycoenzdb.

Indexed as

glycoinformaticsglycoscienceglycosidaseglycosyltransferasepathway

Identifiers

PMID40909623
PMCPMC12407983

What OpenQuestion 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 OpenQuestion graph.