Evidence map›Paper›PMID 40909713›Full record

ArticlebioRxiv : the preprint server for biology2025

Seq2Karyotype (S2K): A Method for

Limeng Pu, Karol Szlachta, Virginia Valentine, Meiling Jin, Sivaraman Natarajan, Robert Greenhalgh, Nadezhda V Terekhanova, Jian Wang, Daniel Putnam, Li Dong and 11 more

Abstract readPreprint
In one paragraph

Article in bioRxiv : the preprint server for biology, 2025. 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

21 authors.

Limeng PuDepartment of Computational Biology, St. Jude Children's Research Hospital, Memphis, TN 38105.
Karol SzlachtaDepartment of Computational Biology, St. Jude Children's Research Hospital, Memphis, TN 38105.
Virginia ValentineDepartment of Cytogenetic Shared Resource, St. Jude Children's Research Hospital, Memphis, TN 38105.
Meiling JinDepartment of Computational Biology, St. Jude Children's Research Hospital, Memphis, TN 38105.
Sivaraman NatarajanDepartment of Computational Biology, St. Jude Children's Research Hospital, Memphis, TN 38105.
Robert GreenhalghDepartment of Computational Biology, St. Jude Children's Research Hospital, Memphis, TN 38105.
Nadezhda V TerekhanovaDepartment of Computational Biology, St. Jude Children's Research Hospital, Memphis, TN 38105.
Jian WangDepartment of Computational Biology, St. Jude Children's Research Hospital, Memphis, TN 38105.
Daniel PutnamDepartment of Computational Biology, St. Jude Children's Research Hospital, Memphis, TN 38105.
Li DongDepartment of Computational Biology, St. Jude Children's Research Hospital, Memphis, TN 38105.
Lingxiang JiangDepartment of Radiation Oncology, Indiana University School of Medicine, Indianapolis, IN 46202, USA.
Soumya TumbathDepartment of Radiation Oncology, Indiana University School of Medicine, Indianapolis, IN 46202, USA.
Xiumei HuangDepartment of Radiation Oncology, Indiana University School of Medicine, Indianapolis, IN 46202, USA.
Xiaotu MaDepartment of Computational Biology, St. Jude Children's Research Hospital, Memphis, TN 38105.
Thomas LookDept of Pediatric Oncology, Dana-Farber Cancer Institute, Boston, MA 02215.
Marcin WlodarskiDepartment of Hematology, St. Jude Children's Research Hospital, Memphis, TN 38105.
Lu WangDepartment of Pathology, St. Jude Children's Research Hospital, Memphis, TN 38105.
Steven BurdenDepartment of Cytogenetic Shared Resource, St. Jude Children's Research Hospital, Memphis, TN 38105.
John EastonDepartment of Computational Biology, St. Jude Children's Research Hospital, Memphis, TN 38105.
Xiang ChenDepartment of Computational Biology, St. Jude Children's Research Hospital, Memphis, TN 38105.
Jinghui ZhangDepartment of Computational Biology, St. Jude Children's Research Hospital, Memphis, TN 38105.

Funding

Viral Vector Technology (VVTSR)P30CA021765 · NCI · ST. JUDE CHILDREN'S RESEARCH HOSPITAL · PI CHARLES ROBERTS · 1985 to 2026
$166.9M
EXPLORE AND TARGET THE EPIGENETIC VULNERABILITY OF PAX3-FOXO1-DRIVEN RHABDOMYOSARCOMAR01CA266600 · NCI · ST. JUDE CHILDREN'S RESEARCH HOSPITAL · PI Xiang Chen, Jun Yang · 2022 to 2026
$3.4M
Discovery of Somatic Noncoding Variants that Serve as Drivers in Pediatric CancersR01CA216391 · NCI · ST. JUDE CHILDREN'S RESEARCH HOSPITAL · PI ZHANG, JINGHUI · 2018 to 2022
$2.8M
The Role of Immature Tumor Subpopulations In Pediatric RhabdomyosarcomaR01CA262790 · NCI · ST. JUDE CHILDREN'S RESEARCH HOSPITAL · PI Xiang Chen · 2022 to 2026
$2.1M
NCI NIH HHS P30 CA021765NCI NIH HHS R01 CA216391NCI NIH HHS R01 CA262790NCI NIH HHS R01 CA266600
6 · The paper itself

Abstract

DNA abnormalities characterized by cytogenetic imaging at the single cell resolution, i.e. karyotyping, have long served as cancer diagnostic and prognostic biomarkers. To enable

Identifiers

PMID40909713
PMCPMC12407686

What OpenQuestion holds

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LicenceCC BY-NC
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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.