# Integrative Genomic Profiling of Pediatric Solid Tumors Reveals Clinically Relevant Variants and Chromosomal Arm Aneuploidies Signatures

**Authors:** Bingxiao Yan, Jinhu Wang, Jieni Xiong, Shuangai Liu, Yinbing Tang, Ziqi He, Hujin Yan, Bize Guo, Chen Chen, Yijie Zhang, Qinfang Zhu, Jiabin Cai, Min He, Xuan Wu, Junqing Mao, Lifeng Zhang, Weizhong Gu, Zhu Zhu, Zheming Li, Rui Xiao, Qiang Shu, Gang Yu, Ting Tao

PMC · DOI: 10.1002/cam4.71666 · Cancer Medicine · 2026-03-03

## TL;DR

This study provides a detailed genomic analysis of Chinese pediatric solid tumors, identifying key mutations and chromosomal patterns that could guide precision treatments.

## Contribution

The study presents the most comprehensive genomic atlas of Chinese pediatric solid tumors, revealing subtype-specific genomic alterations and clinically actionable targets.

## Key findings

- Tumor-relevant variants were identified in 74.5% of cases, including germline predisposition and somatic mutations.
- 58.5% of tumors harbored therapeutic targets or guideline-recommended biomarkers.
- Distinct chromosomal instability patterns were observed, such as chromosome 8 gains in sarcomas and 17q amplifications in neuroblastoma.

## Abstract

Pediatric malignancies have emerged as the leading cause of disease‐related mortality in children, exhibiting distinct etiological and molecular characteristics compared to adult cancers. Despite advances in genomic profiling, the molecular landscape of pediatric solid tumors, particularly in Chinese populations, remains undercharacterized.

Through targeted next‐generation sequencing of 94 pediatric solid tumors, we systematically analyzed single nucleotide variants, short insertions/deletions, copy number variations, and chromosomal arm‐level aneuploidy, with particular emphasis on subtype‐specific genomic architectures.

Tumor relevant variants were identified in 74.5% of cases, comprising germline predisposition variants (17.0%) with higher prevalence in blastomas and somatic mutations (71.3%). Remarkably, 58.5% harbored therapeutic targets or guideline‐recommended biomarkers, providing molecular rationales for precision therapeutic strategies. Key findings revealed tumor‐type specific chromosomal instability patterns: sarcoma‐characteristic chromosome 8 gains, neuroblastoma‐enriched 17q amplifications, and TP53 mutations co‐occurring with 1q gains—a profile divergent from adult malignancies.

This study establishes the most comprehensive genomic atlas of Chinese pediatric solid tumors to date, delineating subtype‐specific oncogenic variants and chromosomal instability signatures. Our findings advance the understanding of childhood cancer pathogenesis and provide a framework for molecularly guided clinical decision‐making.

## Linked entities

- **Genes:** TP53 (tumor protein p53) [NCBI Gene 7157]
- **Diseases:** sarcoma (MONDO:0005089), neuroblastoma (MONDO:0005072)

## Full-text entities

- **Genes:** DICER1 (dicer 1, ribonuclease III) [NCBI Gene 23405] {aka DCR1, Dicer, Dicer1e, GLOW, HERNA, K12H4.8-LIKE}, SMARCB1 (SWI/SNF related BAF chromatin remodeling complex subunit B1) [NCBI Gene 6598] {aka BAF47, CSS3, INI-1, INI1, MRD15, PPP1R144}, SDHB (succinate dehydrogenase complex iron sulfur subunit B) [NCBI Gene 6390] {aka CWS2, IP, MC2DN4, PGL4, PPGL4, SDH}, APC (APC regulator of Wnt signaling pathway) [NCBI Gene 324] {aka BTPS2, DESMD, DP2, DP2.5, DP3, GS}, MYCN (MYCN proto-oncogene, bHLH transcription factor) [NCBI Gene 4613] {aka FGLDS1, MODED, MPAPA, MYCNsORF, MYCNsPEP, N-myc}, MDM2 (MDM2 proto-oncogene) [NCBI Gene 4193] {aka ACTFS, HDMX, LSKB, hdm2}, MYC (MYC proto-oncogene, bHLH transcription factor) [NCBI Gene 4609] {aka MRTL, MYCC, bHLHe39, c-Myc}, FGFR4 (fibroblast growth factor receptor 4) [NCBI Gene 2264] {aka CD334, JTK2, TKF}, TNFRSF14 (TNF receptor superfamily member 14) [NCBI Gene 8764] {aka ATAR, CD270, HVEA, HVEM, LIGHTR, TR2}, CDKN2A (cyclin dependent kinase inhibitor 2A) [NCBI Gene 1029] {aka ARF, CAI2, CDK4I, CDKN2, CMM2, INK4}, TP53 (tumor protein p53) [NCBI Gene 7157] {aka BCC7, BMFS5, LFS1, P53, TRP53}, CCNE1 (cyclin E1) [NCBI Gene 898] {aka CCNE, pCCNE1}, ERBB2 (erb-b2 receptor tyrosine kinase 2) [NCBI Gene 2064] {aka CD340, HER-2, HER-2/neu, HER2, MLN 19, MLN-19}, EXT2 (exostosin glycosyltransferase 2) [NCBI Gene 2132] {aka SOTV, SSMS}, RECQL4 (RecQ like helicase 4) [NCBI Gene 9401] {aka RECQ4}, CCND2 (cyclin D2) [NCBI Gene 894] {aka KIAK0002, MPPH3}, CTNNB1 (catenin beta 1) [NCBI Gene 1499] {aka CTNNB, EVR7, MRD19, NEDSDV, armadillo}, KLK4 (kallikrein related peptidase 4) [NCBI Gene 9622] {aka AI2A1, ARM1, EMSP, EMSP1, KLK-L1, PRSS17}, VHL (von Hippel-Lindau tumor suppressor) [NCBI Gene 7428] {aka HRCA1, RCA1, VHL1, pVHL}, NF1 (neurofibromin 1) [NCBI Gene 4763] {aka NFNS, VRNF, WSS}, ALK (ALK receptor tyrosine kinase) [NCBI Gene 238] {aka ALK1, CD246, NBLST3}, FANCA (FA complementation group A) [NCBI Gene 2175] {aka FA, FA-H, FA1, FAA, FACA, FAH}, JPT1 (Jupiter microtubule associated homolog 1) [NCBI Gene 51155] {aka ARM2, HN1, HN1A}, FGFR1 (fibroblast growth factor receptor 1) [NCBI Gene 2260] {aka BFGFR, CD331, CEK, ECCL, FGFBR, FGFR-1}, NBN (nibrin) [NCBI Gene 4683] {aka AT-V1, AT-V2, ATV, NBS, NBS1, P95}, CDKN1B (cyclin dependent kinase inhibitor 1B) [NCBI Gene 1027] {aka CDKN4, KIP1, MEN1B, MEN4, P27KIP1}, CDK4 (cyclin dependent kinase 4) [NCBI Gene 1019] {aka CMM3, MCPH31, PSK-J3}, FBXW7 (F-box and WD repeat domain containing 7) [NCBI Gene 55294] {aka AGO, CDC4, DEDHIL, FBW6, FBW7, FBX30}, BRCA2 (BRCA2 DNA repair associated) [NCBI Gene 675] {aka BRCC2, BROVCA2, FACD, FAD, FAD1, FANCD}, SOS1 (SOS Ras/Rac guanine nucleotide exchange factor 1) [NCBI Gene 6654] {aka GF1, GGF1, GINGF, HGF, NS4, SOS-1}, SMARCA4 (SWI/SNF related BAF chromatin remodeling complex subunit ATPase 4) [NCBI Gene 6597] {aka BAF190, BAF190A, BRG1, CSS4, MRD16, OTSC12}
- **Diseases:** hepatoblastoma (MESH:D018197), prostate adenocarcinoma (MESH:D000230), X chromosome abnormalities (MESH:D002869), Cancer (MESH:D009369), fibrosarcomas (MESH:D005354), childhood (MESH:D063766), lung cancer (MESH:D008175), adult (MESH:C538052), malignant peripheral nerve sheath tumor (MESH:D018319), osteosarcomas (MESH:D012516), non (MESH:C580335), adrenocortical carcinoma (MESH:D018268), AC (MESH:D055577), Sarcoma (MESH:D012509), hematologic and solid malignancies (MESH:D019337), blastoma (MESH:D018202), NB (MESH:D009447), renal tumors (MESH:D007680), tumorigenesis (MESH:D063646), oligodendrogliomas (MESH:D009837), RMS (MESH:D012208), lung adenocarcinoma (MESH:D000077192), derived carcinomas (MESH:C536408), Ewing sarcomas (MESH:D012512), nephroblastoma (MESH:D009396), central nervous system tumors (MESH:D016543), T (MESH:D001260), lymphangioma (MESH:D008202), P (MESH:D002972), leukemias (MESH:D007938), ganglioneuroblastomas (MESH:D018305), metastasis (MESH:D009362), neurofibroma (MESH:D009455), CAAs (MESH:D000782), renal cell carcinoma (MESH:D002292), CIN (MESH:D043171), ganglioneuroma (MESH:D005729), hepatocellular carcinoma (MESH:D006528), colorectal and high-grade serous ovarian carcinomas (MESH:D010051), gastrointestinal cancers (MESH:D005770), breast cancer (MESH:D001943), lymphomas (MESH:D008223)
- **Chemicals:** paraffin (MESH:D010232), formalin (MESH:D005557), P/LP (MESH:D011732)
- **Species:** Homo sapiens (human, species) [taxon 9606]
- **Mutations:** C>T, c.1029dup, p.H669Y, p.G266E, 4103T>G, 607C>T, 2005C>T, p.G114D, G>A, 2903T>G, c.2956_2971del, p.Y114C, c.1972_1975del, p.A403V, c.730 + 1G>C, c.3072_3073del, 341G>A, c.423+1G>A
- **Cell lines:** ZJUCH_13 — Homo sapiens (Human), Childhood T acute lymphoblastic leukemia, Cancer cell line (CVCL_1081)

## Full text

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## Figures

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## References

45 references — full list in the complete paper: https://tomesphere.com/paper/PMC12956543/full.md

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Source: https://tomesphere.com/paper/PMC12956543