Evidence map›Paper›PMID 37505720›Full record

ArticleToxins2023

Discovering Venom-Derived Drug Candidates Using Differential Gene Expression.

Joseph D Romano, Hai Li, Tanya Napolitano, Ronald Realubit, Charles Karan, Mandë Holford, Nicholas P Tatonetti

Open access · goldAbstract read
In one paragraph

Article in Toxins, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.

0numbers the graph read from it
0cells of the map it votes in
5citing papers in PubMed
1.6field-weighted citation impact, top 15% 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

5 citing papers in PubMed, 5 citations in OpenAlex.

  1. Review
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  4. Review
  5. 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

7 authors at 4 institutions in 1 country.

Joseph D RomanoDepartment of Biostatistics, Epidemiology and Informatics, University of Pennsylvania, Philadelphia, PA 19104, USA.ORCID 0000-0002-7999-4399
Hai LiDepartment of Systems Biology, Columbia University, New York, NY 10032, USA.
Tanya NapolitanoDepartment of Chemistry, CUNY Hunter College, New York, NY 10032, USA.
Ronald RealubitDepartment of Systems Biology, Columbia University, New York, NY 10032, USA.
Charles KaranDepartment of Systems Biology, Columbia University, New York, NY 10032, USA.
Mandë HolfordDepartment of Chemistry, CUNY Hunter College, New York, NY 10032, USA.ORCID 0000-0001-9476-2687
Nicholas P TatonettiDepartment of Computational Biomedicine, Cedars-Sinai Medical Center, Los Angeles, CA 90069, USA.ORCID 0000-0002-2700-2597
New York Genome Center · USThe Graduate Center, CUNY · USCedars-Sinai Medical Center · USUniversity of Pennsylvania · US

Funding

Translational Research Support CoreP30ES013508 · NIEHS · UNIVERSITY OF PENNSYLVANIA · PI Rebecca A Simmons · 2006 to 2026
$35.3M
TUFCCC/HC Regional Comprehensive Cancer Health PartnershipU54CA221704 · NCI · HUNTER COLLEGE · PI Joel Erblich, Jennifer S Ford · 2018 to 2026
$10.6M
Precision Pharmacology and Pharmacovigilance: Leveraging AI to address drug safety knowledge gapsR35GM131905 · NIGMS · COLUMBIA UNIVERSITY HEALTH SCIENCES · PI Nicholas P Tatonetti · 2019 to 2026
$3.3M
Discovering clinical endpoints of toxicity via graph machine learning and semantic data analysisR00LM013646 · NLM · UNIVERSITY OF PENNSYLVANIA · PI ROMANO, JOSEPH DANIEL · 2023 to 2025
$646k
NCI NIH HHS U54 CA221704NCI NIH HHS U54-CA221704NIEHS NIH HHS P30 ES013508NIEHS NIH HHS P30-ES013508NIGMS NIH HHS R35 GM131905NLM NIH HHS R00 LM013646
6 · The paper itself

Abstract

Venoms are a diverse and complex group of natural toxins that have been adapted to treat many types of human disease, but rigorous computational approaches for discovering new therapeutic activities are scarce. We have designed and validated a new platform-named VenomSeq-to systematically identify putative associations between venoms and drugs/diseases via high-throughput transcriptomics and perturbational differential gene expression analysis. In this study, we describe the architecture of VenomSeq and its evaluation using the crude venoms from 25 diverse animal species and 9 purified teretoxin peptides. By integrating comparisons to public repositories of differential expression, associations between regulatory networks and disease, and existing knowledge of venom activity, we provide a number of new therapeutic hypotheses linking venoms to human diseases supported by multiple layers of preliminary evidence.

Indexed as

PeptidesVenomsAnimalsGene ExpressionGene Expression ProfilingHumansPeptidesVenomsdrug discoveryRNA-Seqsystems biologytranscriptomicstranslational bioinformaticsvenoms

Identifiers

PMID37505720
PMCPMC10467105
OpenAlexW4383820362

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.