Evidence map›Paper›PMID 40473660›Full record

ArticleScientific reports2025

Assessing individual head and neck squamous cell carcinoma patient response to therapy through integration of functional and genomic data.

Daniel Bottomly, Chase Mathieson, Myles Vigoda, Sophia Jeng, Nathaniel Evans, Ashley Anderson, Aurora Blucher, Aletha Lesch, Christina Zheng, Ted Laderas and 3 more

Abstract read
In one paragraph

Article in Scientific reports, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing 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

1 citing paper in PubMed.

  1. 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.

Daniel Bottomly *OHSU Knight Cancer Institute, Portland, OR, 97239, USA.
Chase Mathieson *OHSU School of Dentistry, Portland, OR, 97239, USA.
Myles VigodaMichigan State University College of Osteopathic Medicine, East Lansing, USA.
Sophia JengOHSU Knight Cancer Institute, Portland, OR, 97239, USA.
Nathaniel EvansOHSU Knight Cancer Institute, Portland, OR, 97239, USA.
Ashley AndersonProgram in Biomedical Sciences, Anesthesiology and Perioperative Medicine, School of Medicine, Oregon Health & Science University, Portland, OR, 97239, USA.
Aurora BlucherRecursion Pharmaceuticals, Salt Lake City, UT, USA.
Aletha LeschDepartment of Dermatology, Oregon Health & Science University, Portland, OR, 97239, USA.
Christina ZhengOHSU Knight Cancer Institute, Portland, OR, 97239, USA.
Ted LaderasFred Hutch Cancer Center, Seattle, WA, USA.
James JacobsRandall Children's Cancer and Blood Disorders Program at Legacy Emmanuel, Portland, OR, USA.
Molly Kulesz-MartinOHSU Knight Cancer Institute, Portland, OR, 97239, USA.
Shannon McWeeneyOHSU Knight Cancer Institute, Portland, OR, 97239, USA. mcweeney@ohsu.edu.

Funding

Tumor Evolution and Metastasis ProgramP30CA016672 · NCI · UNIVERSITY OF TX MD ANDERSON CAN CTR · PI Scott Kopetz · 1985 to 2026
$290.8M
Understanding the origins of rapid recurrence of pancreatic cancer after resectionP30CA069533 · NCI · OREGON HEALTH & SCIENCE UNIVERSITY · PI Luiz Eduardo Bertassoni · 1997 to 2026
$60.5M
Training in the Molecular Basis of Skin/Mucosa PathobiologyT32CA106195 · NCI · OREGON HEALTH & SCIENCE UNIVERSITY · PI KULESZ-MARTIN, MOLLY F. · 2004 to 2018
$3.8M
Illuminating molecular targetable pathways in HNSCCR01CA192405 · NCI · OREGON HEALTH & SCIENCE UNIVERSITY · PI MCWEENEY, SHANNON K. · 2015 to 2019
$2.5M
High Performance Computing and Machine Learning Infrastructure for Oregon Life SciencesS10OD034224 · OD · OREGON HEALTH & SCIENCE UNIVERSITY · PI ELLROTT, KYLE · 2023 to 2023
$2.0M
NCI NIH HHS P30 CA016672NCI NIH HHS P30 CA069533NCI NIH HHS R01 CA192405NCI NIH HHS T32 CA106195NIH HHS S10 OD034224
6 · The paper itself

Abstract

Even though head and neck squamous cell carcinoma (HNSCC) is the seventh most common cancer worldwide, there are only two PD-1 targeted immunotherapies (pembrolizumab and nivolumab) and one tumor intrinsic EGFR targeted therapy (cetuximab) that are FDA approved for treatment of HNSCC. Taking advantage of a high throughput inhibitor assay and computational tools originally showing success in leukemia, we designed and employed HNSCC-specific inhibitor panels that capture the diversity of aberrational pathways in HNSCC to test viable cells derived from patients' HNSCC tumors. This provides a functional context to the multi-omic readouts conducted on these samples (mutations, protein expression and copy number alterations). In addition to generating these deeply characterized functional genomics datasets, we also developed additional visual analytics that have the potential to provide greater insight into HNSCC drug response patterns and potentially aid precision oncology tumor boards in evaluation and assessment of effective targeted therapeutic agents.

Indexed as

GenomicsHead and Neck NeoplasmsSquamous Cell Carcinoma of Head and NeckDNA Copy Number VariationsHumansMutationPrecision MedicineAntitumor drug screening assaysHNSCCMulti-Omics

Identifiers

PMID40473660
PMCPMC12141454

What OpenQuestion holds

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Registered trials

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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.