Evidence map›Paper›PMID 42284149›Full record

ArticleSTAR protocols2026

Protocol for first-hit oncogenic organoid modeling and lentiviral functional screening.

Farah Yousef, Jaramys Mosley, Olga Karginova, Jose A Seoane, Ameen A Salahudeen

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in STAR protocols, 2026. 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.

No citing paper in PubMed yet.

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

5 authors.

Farah YousefDepartment of Medicine, Division of Hematology and Oncology, University of Illinois College of Medicine, Chicago, IL 60612, USA; Department of Biochemistry and Molecular Genetics, University of Illinois College of Medicine, Chicago, IL 60612, USA.
Jaramys MosleyDepartment of Biochemistry and Molecular Genetics, University of Illinois College of Medicine, Chicago, IL 60612, USA; Department of Pharmaceutical Sciences, University of Illinois Chicago Retzky College of Pharmacy, Chicago, IL 60612, USA.
Olga KarginovaDepartment of Medicine, Division of Hematology and Oncology, University of Illinois College of Medicine, Chicago, IL 60612, USA; Department of Biochemistry and Molecular Genetics, University of Illinois College of Medicine, Chicago, IL 60612, USA.
Jose A SeoaneCancer Computational Biology Group, Vall D'Hebron Institute of Oncology (VHIO), 08035 Barcelona, Spain.
Ameen A SalahudeenDepartment of Medicine, Division of Hematology and Oncology, University of Illinois College of Medicine, Chicago, IL 60612, USA; Department of Biochemistry and Molecular Genetics, University of Illinois College of Medicine, Chicago, IL 60612, USA; University of Illinois Cancer Center, Chicago, IL 60612, USA. Electronic address: ameen@uic.edu.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

We present a protocol for modeling early tumorigenesis using air-liquid interface (ALI) organoids derived from oral, esophageal, and lung epithelia bearing first-hit oncogenic mutations. We describe steps for identifying candidate amplified oncogenes through outlier analysis, establishing ALI organoids, and inducing oncogenic activation. We then perform pooled lentiviral open reading frame (ORF) library delivery, selection, and barcode sequencing for functional screening. This approach enables validation of candidate drivers of neoplastic transformations, addressing a gap between in vitro and in vivo tumorigenesis studies. For complete details on the use and execution of this protocol, please refer to Salahudeen et al.

Indexed as

CarcinogenesisLentivirusOncogenesOrganoidsAnimalsHumansMutationCancerCell cultureOrganoidsSequencing

Identifiers

PMID42284149
PMCPMC13277434

What OpenQuestion holds

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LicenceCC BY-NC
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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.