# Harnessing AACR Project GENIE to Define the Molecular Features of Desmoplastic Small Round Cell Tumor

**Authors:** Sowmya Kolluru, Nicole Horio, Elijah Torbenson, Beau Hsia, Abubakar Tauseef

PMC · DOI: 10.3390/cimb48010085 · 2026-01-15

## TL;DR

This study uses the AACR GENIE database to analyze the genetic features of DSRCT, a rare and aggressive cancer, to better understand its mutations and demographics.

## Contribution

The study identifies specific genetic mutations and demographic patterns in DSRCT using a large cancer genomics database.

## Key findings

- ARID1A, TP53, ATM, TERT, and FGFR4 are the most frequently mutated genes in DSRCT.
- Copy number alterations include homozygous deletions in tumor suppressor genes.
- Mutational patterns vary by demographics, with distinct mutations in primary and metastatic samples.

## Abstract

Desmoplastic small round cell tumor (DSRCT) is a rare but aggressive soft tissue sarcoma of the abdomen. With an asymptomatic course and rapid dissemination, DSRCT’s prognosis is poor at diagnosis. This study characterizes the demographic variation and genomic profile of DSRCT to guide studies into diagnosis and treatment. The AACR GENIE database was utilized to identify genetic alterations in DSRCT. Data was queried to identify disease prevalence by different demographic variables. Information was collected on frequency of somatic mutations and copy number alterations, rates of mutation co-occurrence, and mutations seen in primary and metastatic samples. ARID1A, TP53, ATM, TERT, and FGFR4 were the most frequently identified somatic mutations. Copy number alterations seen in DSRCT were commonly homozygous deletions in tumor suppressor genes. Independent of sex, WT1 mutations were most common. Non-White patients saw single occurrences of many mutations but recurrent ones in ANKRD11 and KMT2C. Co-occurrence was found between FGFR4 and EP300. Moreover, primary tumor samples had exclusive mutations in AKAP9, KDM2B, MAGED1, MKI67, PCLO, and TRAF1. Metastatic samples had exclusive mutations in FIP1L1 and NRIP1. Our data highlights mutational variation across demographic cohorts. These patterns are vital to future studies into identifying diagnostic markers or therapeutic targets.

## Linked entities

- **Genes:** ARID1A (AT-rich interaction domain 1A) [NCBI Gene 8289], TP53 (tumor protein p53) [NCBI Gene 7157], ATM (ATM serine/threonine kinase) [NCBI Gene 472], TERT (telomerase reverse transcriptase) [NCBI Gene 7015], FGFR4 (fibroblast growth factor receptor 4) [NCBI Gene 2264], WT1 (WT1 transcription factor) [NCBI Gene 7490], ANKRD11 (ankyrin repeat domain 11) [NCBI Gene 29123], KMT2C (lysine methyltransferase 2C) [NCBI Gene 58508], EP300 (EP300 lysine acetyltransferase) [NCBI Gene 2033], AKAP9 (A-kinase anchoring protein 9) [NCBI Gene 10142], KDM2B (lysine demethylase 2B) [NCBI Gene 84678], MAGED1 (MAGE family member D1) [NCBI Gene 9500], MKI67 (marker of proliferation Ki-67) [NCBI Gene 4288], PCLO (piccolo presynaptic cytomatrix protein) [NCBI Gene 27445], TRAF1 (TNF receptor associated factor 1) [NCBI Gene 7185], FIP1L1 (factor interacting with PAPOLA and CPSF1) [NCBI Gene 81608], NRIP1 (nuclear receptor interacting protein 1) [NCBI Gene 8204]
- **Diseases:** Desmoplastic small round cell tumor (MONDO:0019373), DSRCT (MONDO:0019373)

## Full-text entities

- **Genes:** EP300 (EP300 lysine acetyltransferase) [NCBI Gene 2033] {aka KAT3B, MKHK2, RSTS2, p300}, FIP1L1 (factor interacting with PAPOLA and CPSF1) [NCBI Gene 81608] {aka FIP1, Rhe, hFip1}, ARID1A (AT-rich interaction domain 1A) [NCBI Gene 8289] {aka B120, BAF250, BAF250a, BM029, C1orf4, CSS2}, KDM2B (lysine demethylase 2B) [NCBI Gene 84678] {aka CXXC2, FBXL10, Fbl10, JHDM1B, NEDCRO, PCCX2}, TP53 (tumor protein p53) [NCBI Gene 7157] {aka BCC7, BMFS5, LFS1, P53, TRP53}, KMT2C (lysine methyltransferase 2C) [NCBI Gene 58508] {aka HALR, KLEFS2, MLL3}, ATM (ATM serine/threonine kinase) [NCBI Gene 472] {aka AT1, ATA, ATC, ATD, ATDC, ATE}, WT1 (WT1 transcription factor) [NCBI Gene 7490] {aka AWT1, GUD, NPHS4, WAGR, WIT-2, WT-1}, FGFR4 (fibroblast growth factor receptor 4) [NCBI Gene 2264] {aka CD334, JTK2, TKF}, AKAP9 (A-kinase anchoring protein 9) [NCBI Gene 10142] {aka AKAP-9, AKAP350, AKAP450, CG-NAP, HYPERION, LQT11}, MKI67 (marker of proliferation Ki-67) [NCBI Gene 4288] {aka KIA, MIB-, MIB-1, PPP1R105}, MAGED1 (MAGE family member D1) [NCBI Gene 9500] {aka DLXIN-1, NRAGE}, ANKRD11 (ankyrin repeat domain 11) [NCBI Gene 29123] {aka ANCO-1, ANCO1, LZ16, T13}, PCLO (piccolo presynaptic cytomatrix protein) [NCBI Gene 27445] {aka ACZ, PCH3}, TRAF1 (TNF receptor associated factor 1) [NCBI Gene 7185] {aka EBI6, MGC:10353}, NRIP1 (nuclear receptor interacting protein 1) [NCBI Gene 8204] {aka CAKUT3, RIP140}, TERT (telomerase reverse transcriptase) [NCBI Gene 7015] {aka CMM9, DKCA2, DKCB4, EST2, PFBMFT1, TCS1}
- **Diseases:** tumor (MESH:D009369), soft tissue sarcoma (MESH:D012509), DSRCT (MESH:D058405)
- **Species:** Homo sapiens (human, species) [taxon 9606]

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Source: https://tomesphere.com/paper/PMC12840229