# Mitochondria Pathway Signature Predicts Prognosis and Therapeutic Response and Identifies REXO2 as a Crucial Regulator in Breast Cancer

**Authors:** Zizhao Guo, Heng Cao, Chuqi Lei, Dongxu Ma, Jiang Wu, Zeyu Xing, Chenyu Zhao, Xiang Wang, Jianxiu Cui

PMC · DOI: 10.1155/mi/8994064 · Mediators of Inflammation · 2026-02-16

## TL;DR

A new signature based on mitochondrial pathways helps predict breast cancer outcomes and identifies REXO2 as a key player in cancer progression.

## Contribution

A novel mitochondria pathway-associated signature (MPAS) and the identification of REXO2 as a crucial regulator in breast cancer.

## Key findings

- MPAS effectively predicts prognosis and treatment response in breast cancer patients.
- High MPAS scores correlate with poor clinical outcomes and immunosuppressive tumor environments.
- REXO2 silencing inhibits breast cancer cell proliferation and induces apoptosis.

## Abstract

Mitochondrial‐related pathways (MRPs) play a crucial role in cancer metabolism and progression; however, their prognostic value in breast cancer (BC) is still poorly understood.

We integrated multiomics data to investigate the landscape of MRPs in BC. A mitochondria pathways‐associated signature (MPAS) was established using multimachine learning framework and interpreted by SHAP analysis across independent BC cohorts. Additionally, a series of functional experiments were employed to explore the role of RNA exonuclease 2 (REXO2) in BC cells.

MRPs are extensively activated in BC at multiomics level. MPAS demonstrates outstanding predictive performance across multiple BC cohorts, with high scores indicating poor clinical outcomes. Moreover, it was observed that high MPAS scores are closely associated with immunosuppressive states and inflammatory microenvironments. SHAP analysis identified REXO2 as a hub factor of MPAS. Cell‐based work confirmed that silencing REXO2 greatly inhibited cell proliferation and induced apoptosis in BC.

Our proposed MPAS could effectively evaluate the prognosis and treatment response of BC patients, providing new reference for clinical decision‐making. Furthermore, REXO2 regulates cell proliferation and apoptosis, making it a promising potential therapeutic target for inhibiting BC progression.

## Linked entities

- **Genes:** REXO2 (RNA exonuclease 2) [NCBI Gene 25996]
- **Diseases:** breast cancer (MONDO:0004989)

## Full-text entities

- **Genes:** TP53 (tumor protein p53) [NCBI Gene 7157] {aka BCC7, BMFS5, LFS1, P53, TRP53}, HSPA9 (heat shock protein family A (Hsp70) member 9) [NCBI Gene 3313] {aka CRP40, CSA, EVPLS, GRP-75, GRP75, HEL-S-124m}, REXO2 (RNA exonuclease 2) [NCBI Gene 25996] {aka CGI-114, REX2, RFN, SFN}, VSTM2L (V-set and transmembrane domain containing 2 like) [NCBI Gene 128434] {aka C20orf102, dJ1118M15.2}, GSTK1 (glutathione S-transferase kappa 1) [NCBI Gene 373156] {aka GST, GST 13-13, GST13, GST13-13, GSTK1-1, hGSTK1}, TACO1 (translational activator of cytochrome c oxidase I) [NCBI Gene 51204] {aka CCDC44, MC4DN8}, SDC1 (syndecan 1) [NCBI Gene 6382] {aka CD138, SDC, SYND1, syndecan}, CDH1 (cadherin 1) [NCBI Gene 999] {aka Arc-1, BCDS1, CD324, CDHE, ECAD, LCAM}, SLC25A6 (solute carrier family 25 member 6) [NCBI Gene 293] {aka AAC3, ANT, ANT 2, ANT 3, ANT3, ANT3Y}, USP6NL (USP6 N-terminal like) [NCBI Gene 9712] {aka RNTRE, TRE2NL, USP6NL-IT1}, CASP9 (caspase 9) [NCBI Gene 842] {aka APAF-3, APAF3, ICE-LAP6, MCH6, PPP1R56}, ABCC1 (ATP binding cassette subfamily C member 1 (ABCC1 blood group)) [NCBI Gene 4363] {aka ABC29, ABCC, DFNA77, GS-X, MRP, MRP1}, BNIP3 (BCL2 interacting protein 3) [NCBI Gene 664] {aka HABON, NIP3}, POTEF (POTE ankyrin domain family member F) [NCBI Gene 728378] {aka A26C1B, POTE2alpha, POTEACTIN}, NFKB1 (nuclear factor kappa B subunit 1) [NCBI Gene 4790] {aka CVID12, EBP-1, KBF1, NF-kB, NF-kB1, NF-kappa-B1}, CD80 (CD80 molecule) [NCBI Gene 941] {aka B7, B7-1, B7.1, BB1, CD28LG, CD28LG1}, SHROOM4 (shroom family member 4) [NCBI Gene 57477] {aka MRXSSDS, SHAP, shrm4}, ITGB1 (integrin subunit beta 1) [NCBI Gene 3688] {aka CD29, FNRB, GPIIA, MDF2, MSK12, VLA-BETA}, MRPS7 (mitochondrial ribosomal protein S7) [NCBI Gene 51081] {aka COXPD34, MRP-S, MRP-S7, RP-S7, RPMS7, S7mt}, SLC7A11 (solute carrier family 7 member 11) [NCBI Gene 23657] {aka CCBR1, xCT}, CD70 (CD70 molecule) [NCBI Gene 970] {aka CD27-L, CD27L, CD27LG, LPFS3, TNFSF7, TNLG8A}, TNF (tumor necrosis factor) [NCBI Gene 7124] {aka DIF, IMD127, TNF-alpha, TNFA, TNFSF2, TNLG1F}, CTLA4 (cytotoxic T-lymphocyte associated protein 4) [NCBI Gene 1493] {aka ALPS5, CD, CD152, CELIAC3, CTLA-4, GRD4}, MDK (midkine) [NCBI Gene 4192] {aka ARAP, MK, NEGF2}, USP14 (ubiquitin specific peptidase 14) [NCBI Gene 9097] {aka TGT, Ubp6}, VDAC1 (voltage dependent anion channel 1) [NCBI Gene 7416] {aka PORIN, VDAC-1}
- **Diseases:** BRCA (MESH:D001941), esophageal cancer (MESH:D004938), HCC (MESH:D006528), bladder cancer (MESH:D001749), gastric cancer (MESH:D013274), BC (MESH:D001943), lymphoma (MESH:D008223), tumorigenesis (MESH:D063646), Cancer (MESH:D009369), multiple myeloma (MESH:D009101), prostate cancer (MESH:D011471), melanoma (MESH:D008545), MPAS (MESH:C564971), metastasis (MESH:D009362), inflammation (MESH:D007249), colorectal cancer (MESH:D015179)
- **Chemicals:** P22077 (MESH:C570895), EdU (MESH:C022811), lapatinib (MESH:D000077341), ROS (MESH:D017382), docetaxel (MESH:D000077143), artesunate (MESH:D000077332), DAPI (MESH:C007293), glutathione (MESH:D005978), CO2 (MESH:D002245), 5-fluorouracil (MESH:D005472), TRIzol (MESH:C411644), paraformaldehyde (MESH:C003043), nucleotide (MESH:D009711), lipid (MESH:D008055), gefitinib (MESH:D000077156), Hoechst 33342 (MESH:C017807), rapamycin (MESH:D020123), streptomycin (MESH:D013307), fatty acid (MESH:D005227), Triton X-100 (MESH:D017830), GSK269962A (MESH:C516969), H&amp;E (MESH:D006371), CCK-8 (-), cisplatin (MESH:D002945), PI (MESH:D011419), penicillin (MESH:D010406), puromycin (MESH:D011691)
- **Species:** Mycoplasma (genus) [taxon 2093], Homo sapiens (human, species) [taxon 9606]
- **Cell lines:** MCF7 — Homo sapiens (Human), Invasive breast carcinoma of no special type, Cancer cell line (CVCL_0031), MDA-MB-468 — Homo sapiens (Human), Breast adenocarcinoma, Cancer cell line (CVCL_0419), MCF10A — Homo sapiens (Human), Spontaneously immortalized cell line (CVCL_0598), MDA-MB-231 — Homo sapiens (Human), Breast adenocarcinoma, Cancer cell line (CVCL_0062)

## Full text

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## Figures

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## References

43 references — full list in the complete paper: https://tomesphere.com/paper/PMC12910182/full.md

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Source: https://tomesphere.com/paper/PMC12910182