Evidence map›Paper›PMID 37205439›Full record

ArticlebioRxiv : the preprint server for biology2023

DrugMechDB: A Curated Database of Drug Mechanisms.

Adriana Carolina Gonzalez-Cavazos, Anna Tanska, Michael D Mayers, Denise Carvalho-Silva, Brindha Sridharan, Patrik A Rewers, Umasri Sankarlal, Lakshmanan Jagannathan, Andrew I Su

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

Article in bioRxiv : the preprint server for biology, 2023. 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, 5 citations in OpenAlex.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

9 authors at 1 institution in 1 country.

Adriana Carolina Gonzalez-CavazosThe Scripps Research Institute, Department of Integrative and Structural Biology, 10550 N Torrey Pines Rd. La Jolla, CA, 92037, USA.
Anna TanskaThe Scripps Research Institute, Department of Integrative and Structural Biology, 10550 N Torrey Pines Rd. La Jolla, CA, 92037, USA.
Michael D MayersThe Scripps Research Institute, Department of Integrative and Structural Biology, 10550 N Torrey Pines Rd. La Jolla, CA, 92037, USA.
Denise Carvalho-SilvaThe Scripps Research Institute, Department of Integrative and Structural Biology, 10550 N Torrey Pines Rd. La Jolla, CA, 92037, USA.
Brindha SridharanThe Scripps Research Institute, Department of Integrative and Structural Biology, 10550 N Torrey Pines Rd. La Jolla, CA, 92037, USA.
Patrik A RewersThe Scripps Research Institute, Department of Integrative and Structural Biology, 10550 N Torrey Pines Rd. La Jolla, CA, 92037, USA.
Umasri SankarlalThe Scripps Research Institute, Department of Integrative and Structural Biology, 10550 N Torrey Pines Rd. La Jolla, CA, 92037, USA.
Lakshmanan JagannathanThe Scripps Research Institute, Department of Integrative and Structural Biology, 10550 N Torrey Pines Rd. La Jolla, CA, 92037, USA.
Andrew I SuThe Scripps Research Institute, Department of Integrative and Structural Biology, 10550 N Torrey Pines Rd. La Jolla, CA, 92037, USA.
Scripps Research Institute · US

Funding

Scripps Translational Science InstituteUL1TR002550 · NCATS · SCRIPPS RESEARCH INSTITUTE, THE · PI TOPOL, ERIC JEFFREY · 2018 to 2022
$28.9M
BioThings Explorer: A platform for distributed knowledge integration across biomedical APIsOT2TR003427 · NCATS · SCRIPPS RESEARCH INSTITUTE, THE · PI SU, ANDREW I · 2020 to 2024
$5.2M
Compound repositioning for Alzheimer's Disease using knowledge graphs, insurance claims data, and gene expression complementarityR01AG066750 · NIA · SCRIPPS RESEARCH INSTITUTE, THE · PI SU, ANDREW I · 2020 to 2024
$4.4M
NCATS NIH HHS OT2 TR003427NCATS NIH HHS UL1 TR002550NIA NIH HHS R01 AG066750
6 · The paper itself

Abstract

Computational drug repositioning methods have emerged as an attractive and effective solution to find new candidates for existing therapies, reducing the time and cost of drug development. Repositioning methods based on biomedical knowledge graphs typically offer useful supporting biological evidence. This evidence is based on reasoning chains or subgraphs that connect a drug to disease predictions. However, there are no databases of drug mechanisms that can be used to train and evaluate such methods. Here, we introduce the Drug Mechanism Database (DrugMechDB), a manually curated database that describes drug mechanisms as paths through a knowledge graph. DrugMechDB integrates a diverse range of authoritative free-text resources to describe 4,583 drug indications with 32,249 relationships, representing 14 major biological scales. DrugMechDB can be employed as a benchmark dataset for assessing computational drug repurposing models or as a valuable resource for training such models.

Identifiers

PMID37205439
PMCPMC10187194
OpenAlexW4368339293

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.