Evidence map›Paper›PMID 35345455›Full record

ArticleiScience2022

PharmOmics: A species- and tissue-specific drug signature database and gene-network-based drug repositioning tool.

Yen-Wei Chen, Graciel Diamante, Jessica Ding, Thien Xuan Nghiem, Jessica Yang, Sung-Min Ha, Peter Cohn, Douglas Arneson, Montgomery Blencowe, Jennifer Garcia and 3 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in iScience, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
23citing papers in PubMed, 1 pooled it
–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

23 citing papers in PubMed, 1 synthesis or guideline pooled it.

  1. Pooled it
  2. Article
  3. Article
  4. Article
  5. Review
  6. Article
  7. Article
  8. Article
  9. Review
  10. Review
  11. Article
  12. Article
  13. DrugRepoBank: a comprehensive database and discovery platform for accelerating drug repositioning.Database : the journal of biological databases and curation · 2024
    Article
  14. Review
  15. Article
  16. Article
  17. Article
  18. Article
  19. A drug repurposing method based on inhibition effect on gene regulatory network.Computational and structural biotechnology journal · 2023
    Article
  20. 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

13 authors.

Yen-Wei ChenDepartment of Integrative Biology and Physiology, University of California, Los Angeles, Los Angeles, CA 90095, USA.
Graciel DiamanteDepartment of Integrative Biology and Physiology, University of California, Los Angeles, Los Angeles, CA 90095, USA.
Jessica DingDepartment of Integrative Biology and Physiology, University of California, Los Angeles, Los Angeles, CA 90095, USA.
Thien Xuan NghiemDepartment of Integrative Biology and Physiology, University of California, Los Angeles, Los Angeles, CA 90095, USA.
Jessica YangDepartment of Integrative Biology and Physiology, University of California, Los Angeles, Los Angeles, CA 90095, USA.
Sung-Min HaDepartment of Integrative Biology and Physiology, University of California, Los Angeles, Los Angeles, CA 90095, USA.
Peter CohnDepartment of Integrative Biology and Physiology, University of California, Los Angeles, Los Angeles, CA 90095, USA.
Douglas ArnesonDepartment of Integrative Biology and Physiology, University of California, Los Angeles, Los Angeles, CA 90095, USA.
Montgomery BlencoweDepartment of Integrative Biology and Physiology, University of California, Los Angeles, Los Angeles, CA 90095, USA.
Jennifer GarciaDepartment of Integrative Biology and Physiology, University of California, Los Angeles, Los Angeles, CA 90095, USA.
Nima ZaghariDepartment of Integrative Biology and Physiology, University of California, Los Angeles, Los Angeles, CA 90095, USA.
Paul PatelDepartment of Integrative Biology and Physiology, University of California, Los Angeles, Los Angeles, CA 90095, USA.
Xia YangDepartment of Integrative Biology and Physiology, University of California, Los Angeles, Los Angeles, CA 90095, USA.

Funding

Systems Genetics Dissection of Non-alcoholic SteatohepatitisR01DK117850 · NIDDK · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI Aldons Jake Lusis · 2019 to 2026
$4.6M
Spatiotemporal Molecular Substrates of TBI at Single Cell ResolutionR01NS117148 · NINDS · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI GOMEZ-PINILLA, FERNANDO, WOLLMAN, ROY · 2020 to 2024
$2.8M
DHA Reverses Gene Network Signatures of Fructose-induced Metabolic SyndromeR01DK104363 · NIDDK · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI YANG, XIA · 2015 to 2019
$2.4M
Dermatology Scientist Training ProgramT32AR071307 · NIAMS · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI MODLIN, ROBERT L · 2017 to 2021
$1.1M
NIAMS NIH HHS T32 AR071307NIDDK NIH HHS R01 DK104363NIDDK NIH HHS R01 DK117850NINDS NIH HHS R01 NS117148
6 · The paper itself

Abstract

Drug development has been hampered by a high failure rate in clinical trials due to our incomplete understanding of drug functions across organs and species. Therefore, elucidating species- and tissue-specific drug functions can provide insights into therapeutic efficacy, potential adverse effects, and interspecies differences necessary for effective translational medicine. Here, we present PharmOmics, a drug knowledgebase and analytical tool that is hosted on an interactive web server. Using tissue- and species-specific transcriptome data from human, mouse, and rat curated from different databases, we implemented a gene-network-based approach for drug repositioning. We demonstrate the potential of PharmOmics to retrieve known therapeutic drugs and identify drugs with tissue toxicity using

Indexed as

Biocomputational methodBioinformaticsIn silico biologySystems biology

Identifiers

PMID35345455
PMCPMC8957031

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.