# Molecular classification and prognosis study of pancreatic ductal adenocarcinoma through multi-omics integrated clustering analysis

**Authors:** Guodong Zhong, Lei Wang, Peiling Fu, Beibei Xi, Houqiang Li, Yanhong Cheng, Jianlong Lin, Linying Chen

PMC · DOI: 10.7717/peerj.20619 · PeerJ · 2026-02-16

## TL;DR

This study identifies two distinct subtypes of pancreatic cancer using multi-omics data and finds that one subtype is more aggressive and less responsive to immune activity.

## Contribution

A novel multi-omics clustering approach identifies two PDAC subtypes with distinct prognostic and therapeutic implications.

## Key findings

- Two PDAC subtypes (CS1 and CS2) were identified with differing survival rates and immune characteristics.
- CS1 subtype is high-risk, immunosilent, and more chemotherapy-sensitive compared to CS2.
- The IL20RB gene shows strong predictive power and potential as a therapeutic target.

## Abstract

Pancreatic ductal adenocarcinoma (PDAC) is a lethal malignancy characterized by significant heterogeneity. We conducted a multi-omics integrated clustering analysis to categorize PDAC molecular subtypes.

Multi-omics data from The Cancer Genome Atlas-Pancreatic Adenocarcinoma (TCGA-PAAD) were integrated using ten clustering algorithms. Comparisons across PDAC subtypes were performed regarding prognosis, gene mutations, pathways, tumor microenvironment (TME), and chemotherapy sensitivity. A prognostic model was constructed utilizing Cox and Lasso regression based on subtype-related genes.

Samples from the TCGA-PAAD cohort were classified into two subtypes. The CS1 subtype was identified as a high-risk, immunosilent subtype, while the CS2 subtype was characterized as a low-risk, immunoactive subtype. Compared to CS2 subtype, CS1 subtype exhibited shorter survival, higher frequency of genetic mutations, more aggressive tumor-promoting nature, lower TME immune score, and increased sensitivity to chemotherapy. The prognostic model related to PDAC subtypes displayed robust predictive efficiency; IL20RB gene emerged having superior predictive capability.

We successfully identified two distinct PDAC subtypes. The developed prognostic model exhibited strong predictive efficacy; and the upregulation of IL20RB was identified as a promising therapeutic target for PDAC.

## Linked entities

- **Genes:** IL20RB (interleukin 20 receptor subunit beta) [NCBI Gene 53833]
- **Diseases:** pancreatic ductal adenocarcinoma (MONDO:0005184)

## Full-text entities

- **Genes:** NFKB1 (nuclear factor kappa B subunit 1) [NCBI Gene 4790] {aka CVID12, EBP-1, KBF1, NF-kB, NF-kB1, NF-kappa-B1}, SLURP1 (secreted LY6/PLAUR domain containing 1) [NCBI Gene 57152] {aka ANUP, ARS, ArsB, LY6-MT, LY6LS, MDM}, SLAMF7 (SLAM family member 7) [NCBI Gene 57823] {aka 19A, CD319, CRACC, CS1}, POTEF (POTE ankyrin domain family member F) [NCBI Gene 728378] {aka A26C1B, POTE2alpha, POTEACTIN}, PIK3CB (phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit beta) [NCBI Gene 5291] {aka P110BETA, PI3K, PI3KBETA, PIK3C1}, UCA1 (urothelial cancer associated 1) [NCBI Gene 652995] {aka CUDR, LINC00178, NCRNA00178, UCAT1, onco-lncRNA-36}, BLNK (B cell linker) [NCBI Gene 29760] {aka AGM4, BASH, BLNK-S, LY57, SLP-65, SLP65}, HAVCR1 (hepatitis A virus cellular receptor 1) [NCBI Gene 26762] {aka CD365, HAVCR, HAVCR-1, KIM-1, KIM1, TIM}, TNFRSF9 (TNF receptor superfamily member 9) [NCBI Gene 3604] {aka 4-1BB, CD137, CDw137, ILA, IMD109}, IL19 (interleukin 19) [NCBI Gene 29949] {aka IL-10C, MDA1, NG.1, ZMDA1}, SMAD4 (SMAD family member 4) [NCBI Gene 4089] {aka DPC4, JIP, MADH4, MYHRS}, IL24 (interleukin 24) [NCBI Gene 11009] {aka C49A, FISP, IL10B, MDA7, MOB5, ST16}, CDK4 (cyclin dependent kinase 4) [NCBI Gene 1019] {aka CMM3, MCPH31, PSK-J3}, CDKN2A (cyclin dependent kinase inhibitor 2A) [NCBI Gene 1029] {aka ARF, CAI2, CDK4I, CDKN2, CMM2, INK4}, IL20 (interleukin 20) [NCBI Gene 50604] {aka IL-20, IL10D, ZCYTO10}, TP53 (tumor protein p53) [NCBI Gene 7157] {aka BCC7, BMFS5, LFS1, P53, TRP53}, IL20RB (interleukin 20 receptor subunit beta) [NCBI Gene 53833] {aka DIRS1, FNDC6, IL-20R-beta, IL-20R2, IL-20RB}, SPINK7 (serine peptidase inhibitor Kazal type 7) [NCBI Gene 84651] {aka ECG2, ECRG2}, MYOZ2 (myozenin 2) [NCBI Gene 51778] {aka C4orf5, CMH16, CS-1, FATZ-2}, STAT3 (signal transducer and activator of transcription 3) [NCBI Gene 6774] {aka ADMIO, ADMIO1, APRF, HIES}, MYC (MYC proto-oncogene, bHLH transcription factor) [NCBI Gene 4609] {aka MRTL, MYCC, bHLHe39, c-Myc}, LY6D (lymphocyte antigen 6 family member D) [NCBI Gene 8581] {aka E48, Ly-6D}, IL6 (interleukin 6) [NCBI Gene 3569] {aka BSF-2, BSF2, CDF, HGF, HSF, IFN-beta-2}, AKT1 (AKT serine/threonine kinase 1) [NCBI Gene 207] {aka AKT, PKB, PKB-ALPHA, PRKBA, RAC, RAC-ALPHA}, FGG (fibrinogen gamma chain) [NCBI Gene 2266], CTLA4 (cytotoxic T-lymphocyte associated protein 4) [NCBI Gene 1493] {aka ALPS5, CD, CD152, CELIAC3, CTLA-4, GRD4}, MROH9 (maestro heat like repeat family member 9) [NCBI Gene 80133] {aka ARMC11, C1orf129}, TNF (tumor necrosis factor) [NCBI Gene 7124] {aka DIF, IMD127, TNF-alpha, TNFA, TNFSF2, TNLG1F}, CD247 (CD247 molecule) [NCBI Gene 919] {aka CD3-ZETA, CD3H, CD3Q, CD3Z, CD3ZETA, IMD25}, BPIFB4 (BPI fold containing family B member 4) [NCBI Gene 149954] {aka C20orf186, LPLUNC4, RY2G5, dJ726C3.5}, PDCD1 (programmed cell death 1) [NCBI Gene 5133] {aka ADMIO4, AIMTBS, CD279, PD-1, PD1, SLEB2}, CSH2 (chorionic somatomammotropin hormone 2) [NCBI Gene 1443] {aka CS-2, CSB, GHB1, PL, hCS-B}, CD8A (CD8 subunit alpha) [NCBI Gene 925] {aka CD8, CD8alpha, IMD116, Leu2, p32}, FGA (fibrinogen alpha chain) [NCBI Gene 2243] {aka AMYLD2, Fib2}, FLG (filaggrin) [NCBI Gene 2312] {aka ATOD2, FLG-1, FLG1}, TGFB1 (transforming growth factor beta 1) [NCBI Gene 7040] {aka CAEND1, CED, DPD1, IBDIMDE, LAP, TGF-beta1}, KRT9 (keratin 9) [NCBI Gene 3857] {aka CK-9, EPPK, K9}, IL1B (interleukin 1 beta) [NCBI Gene 3553] {aka IL-1, IL1-BETA, IL1F2, IL1beta}, IL20RA (interleukin 20 receptor subunit alpha) [NCBI Gene 53832] {aka CRF2-8, IL-20R-alpha, IL-20R1, IL-20RA}, KRAS (KRAS proto-oncogene, GTPase) [NCBI Gene 3845] {aka 'C-K-RAS, C-K-RAS, CFC2, K-RAS2A, K-RAS2B, K-RAS4A}, IL22RA1 (interleukin 22 receptor subunit alpha 1) [NCBI Gene 58985] {aka CRF2-9, IL22R, IL22R1}, PCDH15 (protocadherin related 15) [NCBI Gene 65217] {aka CDHR15, DFNB23, USH1F}, TNFRSF4 (TNF receptor superfamily member 4) [NCBI Gene 7293] {aka ACT35, CD134, IMD16, OX40, TXGP1L}, PAX7 (paired box 7) [NCBI Gene 5081] {aka CMYO19, CMYP19, HUP1, MYOSCO, PAX7B, RMS2}
- **Diseases:** DFI (MESH:D015673), bladder cancer (MESH:D001749), aneuploidy (MESH:D000782), papillary renal cell carcinoma (MESH:D002292), McCulloch-Pitts (MESH:D054877), PDAC (MESH:D021441), inflammation (MESH:D007249), bone metastasis (MESH:D009362), small cell lung cancer (MESH:D055752), death (MESH:D003643), Pancreatic Adenocarcinoma (MESH:D010190), lung cancer (MESH:D008175), IC (MESH:D007154), Cancer (MESH:D009369)
- **Chemicals:** TB (MESH:D013725), Eosin (MESH:D004801), gemcitabine (MESH:D000093542), vinorelbine (MESH:D000077235), polyvinylidene difluoride (MESH:C024865), docetaxel (MESH:D000077143), GSVA (-), H&amp;E (MESH:D006371), Hematoxylin (MESH:D006416), EDTA (MESH:D004492), paclitaxel (MESH:D017239)
- **Species:** Homo sapiens (human, species) [taxon 9606]
- **Mutations:** K005599P, K008033P

## Full text

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## Figures

10 figures with captions in the complete paper: https://tomesphere.com/paper/PMC12919317/full.md

## References

30 references — full list in the complete paper: https://tomesphere.com/paper/PMC12919317/full.md

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Source: https://tomesphere.com/paper/PMC12919317