Evidence map›Paper›PMID 38201477›Full record

ArticleCancers2023

Integration of Computational Docking into Anti-Cancer Drug Response Prediction Models.

Oleksandr Narykov, Yitan Zhu, Thomas Brettin, Yvonne A Evrard, Alexander Partin, Maulik Shukla, Fangfang Xia, Austin Clyde, Priyanka Vasanthakumari, James H Doroshow and 1 more

Abstract read
In one paragraph

Article in Cancers, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.

0numbers the graph read from it
0cells of the map it votes in
6citing 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

6 citing papers in PubMed.

  1. Article
  2. Review
  3. Review
  4. Review
  5. Article
  6. Article
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

11 authors.

Oleksandr NarykovComputing, Environment and Life Sciences, Argonne National Laboratory, Lemont, IL 60439, USA.ORCID 0000-0002-3336-0534
Yitan ZhuComputing, Environment and Life Sciences, Argonne National Laboratory, Lemont, IL 60439, USA.
Thomas BrettinComputing, Environment and Life Sciences, Argonne National Laboratory, Lemont, IL 60439, USA.
Yvonne A EvrardLeidos Biomedical Research, Frederick National Laboratory for Cancer Research, Frederick, MD 21702, USA.
Alexander PartinComputing, Environment and Life Sciences, Argonne National Laboratory, Lemont, IL 60439, USA.ORCID 0000-0002-9279-9213
Maulik ShuklaComputing, Environment and Life Sciences, Argonne National Laboratory, Lemont, IL 60439, USA.
Fangfang XiaComputing, Environment and Life Sciences, Argonne National Laboratory, Lemont, IL 60439, USA.ORCID 0000-0001-6567-0564
Austin ClydeComputing, Environment and Life Sciences, Argonne National Laboratory, Lemont, IL 60439, USA.
Priyanka VasanthakumariComputing, Environment and Life Sciences, Argonne National Laboratory, Lemont, IL 60439, USA.ORCID 0000-0003-0822-5936
James H DoroshowDevelopmental Therapeutics Branch, National Cancer Institute, Bethesda, MD 20892, USA.
Rick L StevensComputing, Environment and Life Sciences, Argonne National Laboratory, Lemont, IL 60439, USA.

Funding

CCR NIH HHS HHSN261200800001CNCI NIH HHS Contract No. HHSN261200800001ENCI NIH HHS HHSN261200800001E
6 · The paper itself

Abstract

Cancer is a heterogeneous disease in that tumors of the same histology type can respond differently to a treatment. Anti-cancer drug response prediction is of paramount importance for both drug development and patient treatment design. Although various computational methods and data have been used to develop drug response prediction models, it remains a challenging problem due to the complexities of cancer mechanisms and cancer-drug interactions. To better characterize the interaction between cancer and drugs, we investigate the feasibility of integrating computationally derived features of molecular mechanisms of action into prediction models. Specifically, we add docking scores of drug molecules and target proteins in combination with cancer gene expressions and molecular drug descriptors for building response models. The results demonstrate a marginal improvement in drug response prediction performance when adding docking scores as additional features, through tests on large drug screening data. We discuss the limitations of the current approach and provide the research community with a baseline dataset of the large-scale computational docking for anti-cancer drugs.

Indexed as

anti-cancer drug response predictionbinding affinitycomputational dockingdeep learningmachine learningmolecular mechanisms of action

Identifiers

PMID38201477
PMCPMC10777918

What OpenQuestion holds

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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.