# Circular and Long Non-Coding RNAs in Cancer Metabolism: Dual Perspective of Biomarkers and Therapeutic Targets

**Authors:** Francesca Pia Carbone, Stefania Hanau, Nicoletta Bianchi

PMC · DOI: 10.3390/ncrna12020011 · 2026-03-19

## TL;DR

This review explores how non-coding RNAs influence cancer metabolism and their potential as biomarkers and therapies.

## Contribution

It highlights the emerging roles of lncRNAs and circRNAs in cancer metabolic regulation and identifies gaps in current research.

## Key findings

- LncRNAs and circRNAs regulate glycolysis, mitochondrial function, and lipid metabolism in cancer.
- They interact with key regulators like HIF-1α and mTOR through multiple mechanisms.
- Current studies lack causal validation and integration with metabolic flux analyses.

## Abstract

Background/Objectives: Metabolic reprogramming is a hallmark of cancer, enabling tumor cells to sustain proliferation, survive under metabolic stress, and develop therapeutic resistance. While oncogenic signaling pathways regulating cancer metabolism have been extensively studied, increasing evidence indicates that non-coding RNAs (ncRNAs) play essential roles in coordinating metabolic adaptation. This review aims to synthesize current knowledge on long non-coding RNAs (lncRNAs) and circular RNAs (circRNAs) as important but relatively less characterized regulators of cancer metabolic adaptation and discuss their potential as biomarkers and therapeutic targets. Methods: We analyzed their roles across multiple types of cancer, prioritizing studies that integrate ncRNA profiling with metabolomics and mechanistic investigations, with particular attention to their diagnostic, prognostic, and predictive value. Results: LncRNAs and circRNAs regulate major metabolic pathways, including glycolysis, mitochondrial function, glutaminolysis, lipid metabolism, and redox balance. They act through transcriptional and epigenetic mechanisms, protein scaffolding, peptide encoding, and miRNA sponging, frequently converging on key regulators such as HIF-1α, c-Myc, p53, AMPK, and mTOR. However, many reported associations remain largely correlative, with limited integration of quantitative metabolic flux analyses and insufficient validation in physiologically relevant models. Conclusions: Although lncRNAs and circRNAs constitute an important context-dependent regulatory layer linking oncogenic signaling to metabolic reprogramming, future studies should combine ncRNA perturbation with stable isotope tracing, fluxomics, spatial metabolomics, long-read sequencing, and single-cell approaches to define causal and spatially resolved metabolic functions. Such integrative strategies may improve biomarker development and support ncRNA-informed, metabolism-oriented therapeutic interventions.

## Linked entities

- **Genes:** HIF1A (hypoxia inducible factor 1 subunit alpha) [NCBI Gene 3091], MYC (MYC proto-oncogene, bHLH transcription factor) [NCBI Gene 4609], TP53 (tumor protein p53) [NCBI Gene 7157], PRKAA1 (protein kinase AMP-activated catalytic subunit alpha 1) [NCBI Gene 5562], MTOR (mechanistic target of rapamycin kinase) [NCBI Gene 2475]

## Full-text entities

- **Genes:** HOTAIR (HOX transcript antisense RNA) [NCBI Gene 100124700] {aka HOXAS, HOXC-AS4, HOXC11-AS1, NCRNA00072}, ACACA (acetyl-CoA carboxylase alpha) [NCBI Gene 31] {aka ACAC, ACACAD, ACACalpha, ACC, ACC1, ACCA}, MIR375 (microRNA 375) [NCBI Gene 494324] {aka MIRN375, hsa-mir-375, miRNA375, mir-375}, STK11 (serine/threonine kinase 11) [NCBI Gene 6794] {aka LKB1, PJS, hLKB1}, PNPLA2 (patatin like domain 2, triacylglycerol lipase) [NCBI Gene 57104] {aka 1110001C14Rik, ATGL, FP17548, PEDF-R, TTS-2.2, TTS2}, LINC00648 (long intergenic non-protein coding RNA 648) [NCBI Gene 100506433], MIR383 (microRNA 383) [NCBI Gene 494332] {aka MIRN383, hsa-mir-383, mir-383}, PCNAP1 (proliferating cell nuclear antigen pseudogene 1) [NCBI Gene 359806] {aka p1PCNA}, LAT (linker for activation of T cells) [NCBI Gene 27040] {aka IMD52, LAT1, pp36}, MEG3 (maternally expressed 3) [NCBI Gene 55384] {aka FP504, GTL2, LINC00023, Lnc-DLK1-35, NCRNA00023, PRO0518}, IDH2 (isocitrate dehydrogenase (NADP(+)) 2) [NCBI Gene 3418] {aka D2HGA2, ICD-M, IDH, IDH-2, IDHM, IDP}, MIR214 (microRNA 214) [NCBI Gene 406996] {aka MIRN214, miRNA214, mir-214}, PVT1 (Pvt1 oncogene) [NCBI Gene 5820] {aka LINC00079, MIR1204HG, NCRNA00079, TP53LC09, onco-lncRNA-100}, ACLY (ATP citrate lyase) [NCBI Gene 47] {aka ACL, ATPCL, CLATP}, OTX2 (orthodenticle homeobox 2) [NCBI Gene 5015] {aka CPHD6, MCOPS5}, MIR154 (microRNA 154) [NCBI Gene 406946] {aka MIRN154, mir-154}, LNCHR1 (lncRNA induced by HCV, regulator of SREBF1) [NCBI Gene 125775239], IL6 (interleukin 6) [NCBI Gene 3569] {aka BSF-2, BSF2, CDF, HGF, HSF, IFN-beta-2}, SCD5 (stearoyl-CoA desaturase 5) [NCBI Gene 79966] {aka ACOD4, DFNA79, FADS4, HSCD5, SCD2, SCD4}, AKT1 (AKT serine/threonine kinase 1) [NCBI Gene 207] {aka AKT, PKB, PKB-ALPHA, PRKBA, RAC, RAC-ALPHA}, SLC25A21-AS1 (SLC25A21 antisense RNA 1) [NCBI Gene 100129794], BCL2 (BCL2 apoptosis regulator) [NCBI Gene 596] {aka Bcl-2, PPP1R50}, SNHG16 (small nucleolar RNA host gene 16) [NCBI Gene 100507246] {aka ELNAT1, Nbla10727, Nbla12061, ncRAN}, FOXO1 (forkhead box O1) [NCBI Gene 2308] {aka FKH1, FKHR, FOXO1A}, NFKB1 (nuclear factor kappa B subunit 1) [NCBI Gene 4790] {aka CVID12, EBP-1, KBF1, NF-kB, NF-kB1, NF-kappa-B1}, MYC (MYC proto-oncogene, bHLH transcription factor) [NCBI Gene 4609] {aka MRTL, MYCC, bHLHe39, c-Myc}, H3P16 (H3 histone pseudogene 16) [NCBI Gene 644914] {aka H3.6, H3F3AP6, p21}, SOX9 (SRY-box transcription factor 9) [NCBI Gene 6662] {aka CMD1, CMPD1, ENH13, SRA1, SRXX2, SRXY10}, MBOAT2 (membrane bound glycerophospholipid O-acyltransferase 2) [NCBI Gene 129642] {aka LPAAT, LPCAT, LPEAT, LPLAT 2, LPLAT13, OACT2}, SLC2A1 (solute carrier family 2 member 1) [NCBI Gene 6513] {aka CSE, DYT17, DYT18, DYT9, EIG12, GLUT}, XIST (X inactive specific transcript) [NCBI Gene 7503] {aka DXS1089, DXS399E, LINC00001, NCRNA00001, SXI1, swd66}, HNRNPU (heterogeneous nuclear ribonucleoprotein U) [NCBI Gene 3192] {aka DEE54, EIEE54, GRIP120, HNRNPU-AS1, HNRPU, SAF-A}, HK2 (hexokinase 2) [NCBI Gene 3099] {aka HKII, HXK2}, RBMX (RNA binding motif protein X-linked) [NCBI Gene 27316] {aka HNRNPG, HNRPG, MRXS11, MRXSG, MRXSH, RBMXRT}, FBXW7 (F-box and WD repeat domain containing 7) [NCBI Gene 55294] {aka AGO, CDC4, DEDHIL, FBW6, FBW7, FBX30}, MIR183 (microRNA 183) [NCBI Gene 406959] {aka MIRN183, miR-183, miRNA183}, MAPK8 (mitogen-activated protein kinase 8) [NCBI Gene 5599] {aka JNK, JNK-46, JNK1, JNK1A2, JNK21B1/2, PRKM8}, SHH (sonic hedgehog signaling molecule) [NCBI Gene 6469] {aka HHG1, HLP3, HPE3, MCOPCB5, SMMCI, ShhNC}, H19 (H19 imprinted maternally expressed transcript) [NCBI Gene 283120] {aka ASM, ASM1, BWS, D11S813E, GMRSP, LINC00008}, TAGLN2 (transgelin 2) [NCBI Gene 8407] {aka HA1756}, MIR338 (microRNA 338) [NCBI Gene 442906] {aka MIRN338, hsa-mir-338, mir-338}, MTOR (mechanistic target of rapamycin kinase) [NCBI Gene 2475] {aka FRAP, FRAP1, FRAP2, RAFT1, RAPT1, SKS}, MALAT1 (metastasis associated lung adenocarcinoma transcript 1) [NCBI Gene 378938] {aka HCN, LINC00047, NCRNA00047, NEAT2, PRO2853, miPEP-52}, PCNA (proliferating cell nuclear antigen) [NCBI Gene 5111] {aka ATLD2}, ERN1 (endoplasmic reticulum to nucleus signaling 1) [NCBI Gene 2081] {aka IRE1, IRE1P, IRE1a, hIRE1p}, SNHG1 (small nucleolar RNA host gene 1) [NCBI Gene 23642] {aka LINC00057, NCRNA00057, U22HG, UHG, lncRNA16}, ABL2 (ABL proto-oncogene 2, non-receptor tyrosine kinase) [NCBI Gene 27] {aka ABLL, ARG}, OTX2-AS1 (OTX2 antisense RNA 1) [NCBI Gene 100309464] {aka OTX2OS1}, CCR7 (C-C motif chemokine receptor 7) [NCBI Gene 1236] {aka BLR2, CC-CKR-7, CCR-7, CD197, CDw197, CMKBR7}, MIR586 (microRNA 586) [NCBI Gene 693171] {aka MIRN586, hsa-mir-586}, REG1CP (regenerating family member 1 gamma, pseudogene) [NCBI Gene 5969] {aka REG1P, REGL, RS}, ACSL1 (acyl-CoA synthetase long chain family member 1) [NCBI Gene 2180] {aka ACS1, FACL1, FACL2, LACS, LACS1, LACS2}, PRPS2 (phosphoribosyl pyrophosphate synthetase 2) [NCBI Gene 5634] {aka PRSII}, LINC00511 (long intergenic non-protein coding RNA 511) [NCBI Gene 400619] {aka LCAL5, onco-lncRNA-12}, MIR133B (microRNA 133b) [NCBI Gene 442890] {aka MIRN133B, miRNA133B, mir-133b}, IGF2BP3 (insulin like growth factor 2 mRNA binding protein 3) [NCBI Gene 10643] {aka CT98, IMP-3, IMP3, KOC, KOC1, VICKZ3}, SACK1A (scaffolding CK1 anchoring protein A) [NCBI Gene 84985] {aka BJ-TSA-9, FAM83A}, SFPQ (splicing factor proline and glutamine rich) [NCBI Gene 6421] {aka POMP100, PPP1R140, PSF}, BRD4 (bromodomain containing 4) [NCBI Gene 23476] {aka CAP, CDLS6, FSHRG4, HUNK1, HUNKI, MCAP}, IGKV7-3 (immunoglobulin kappa variable 7-3 (pseudogene)) [NCBI Gene 28905] {aka B1, IGKV73}
- **Diseases:** metastasis (MESH:D009362), gastrointestinal cancers (MESH:D005770), prostate cancer (MESH:D011471), Hypoxia (MESH:D000860), glioblastoma (MESH:D005909), hepatic cancer (MESH:D008113), Cancer (MESH:D009369), TNBC (MESH:D064726), lung cancer (MESH:D008175), gastric carcinogenesis (MESH:D063646), PDAC (MESH:D021441), lung adenocarcinoma (MESH:D000077192), acidosis (MESH:D000138), EC (MESH:D016889), glioma (MESH:D005910), NPC (MESH:D000077274), injury to (MESH:D014947), ESCC (MESH:D000077277), OCs (MESH:D010051), precancerous lesions (MESH:D011230), osteosarcoma (MESH:D012516), hyperplasia lesions (MESH:D006965), colon cancer (MESH:D015179), Medulloblastoma (MESH:D008527), inflammatory (MESH:D007249), endometrial atypical hyperplasia (MESH:D004714), pancreatic cancer (MESH:D010190), NSCLC (MESH:D002289), endometrial precancerous lesions (MESH:D014591), LNMICC (MESH:D008207), breast cancer (MESH:D001943), toxicity (MESH:D064420), hypoxic (MESH:D002534), gastric and ovarian cancers (MESH:D013276), aneuploidy (MESH:D000782), HCC (MESH:D006528), bladder cancer (MESH:D001749), necrosis (MESH:D009336), dysplasia (MESH:D015792), breast and gastric cancers (MESH:D013274), cervical cancer (MESH:D002583)
- **Chemicals:** glutamate (MESH:D018698), Oxygen (MESH:D010100), rapamycin (MESH:D020123), FADH2 (MESH:C058805), carbon (MESH:D002244), fatty acid (MESH:D005227), paclitaxel (MESH:D017239), lactate (MESH:D019344), GSH (MESH:D005978), amino acid (MESH:D000596), palmitic acid (MESH:D019308), Glutamine (MESH:D005973), retinol (MESH:D014801), citrate (MESH:D019343), monounsaturated fatty acids (MESH:D005229), succinate (MESH:D019802), temsirolimus (MESH:C401859), alpha-ketoglutarate (MESH:D007656), serine (MESH:D012694), unsaturated fatty acids (MESH:D005231), ROS (MESH:D017382), isobutyrate (MESH:D058610), cystine (MESH:D003553), NAD+ (MESH:D009243), linoleic acid (MESH:D019787), glucosamine-6-phosphate (MESH:C001293), C16:0 (-), 4-chlorophenol (MESH:C029107), glycerol (MESH:D005990), TCA (MESH:D014238), mannitol (MESH:D008353), triglyceride (MESH:D014280), everolimus (MESH:D000068338), tryptophan (MESH:D014364), nucleotides (MESH:D009711), sorafenib (MESH:D000077157), NADPH (MESH:D009249), Lipid (MESH:D008055), -essential amino acids (MESH:D000601), nitrogen (MESH:D009584), Glucose (MESH:D005947), pentose phosphate (MESH:D010428), proline (MESH:D011392), cisplatin (MESH:D002945), platinum (MESH:D010984), Acetyl-CoA (MESH:D000105), pyruvate (MESH:D019289), glycyl-L-proline (MESH:C015248), malonyl-CoA (MESH:D008316), iron (MESH:D007501), carbohydrate (MESH:D002241), 3-phosphoglycerate (MESH:C005156), oxaliplatin (MESH:D000077150), Palmitate (MESH:D010168), ATP (MESH:D000255), arginine (MESH:D001120)
- **Species:** Mus musculus (house mouse, species) [taxon 10090], Homo sapiens (human, species) [taxon 9606]
- **Mutations:** Glutamine-to-glutamate

## Figures

5 figures with captions in the complete paper: https://tomesphere.com/paper/PMC13010655/full.md

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Source: https://tomesphere.com/paper/PMC13010655