# BRAF inhibitor resistance in melanoma: from resistance mechanisms to therapeutic innovations

**Authors:** Yan Shang, Tingping Cao, Junyan Li, Juan Li, Lingnan Zhang, Qiqi Ma, Lanyan Feng, Hailong Zhao

PMC · DOI: 10.1186/s43556-026-00425-4 · 2026-03-11

## TL;DR

This paper reviews how melanoma becomes resistant to BRAF inhibitors and explores new therapies to overcome this resistance.

## Contribution

The paper provides a structured framework linking resistance mechanisms to targeted therapies in BRAF inhibitor-resistant melanoma.

## Key findings

- Resistance mechanisms include genetic, epigenetic, metabolic, and tumor microenvironment changes.
- Next-generation BRAFi, combination therapies, and RNA-based agents are proposed to combat resistance.
- Technologies like liquid biopsies and AI are highlighted for precision monitoring and treatment.

## Abstract

BRAF inhibitors (BRAFi) have transformed the treatment of BRAF mutant melanoma, but inherent and acquired resistance remains a major barrier to curative outcomes. Resistance arises from interconnected mechanisms: genetic alterations reactivating the MAPK pathway or bypass cascades (e.g., PI3K/AKT/RTK), epigenetic modulation, metabolic reprogramming, and the tumor microenvironment (TME) remodeling. Despite extensive research into these mechanisms, a cohesive framework linking each resistance module to targeted therapeutic strategies is lacking. This review systematically categorizes resistance into intrinsic and acquired subtypes: intrinsic resistance is driven by constitutive molecular traits of BRAF mutant melanoma (e.g., persistent MAPK activation, baseline PI3K/AKT hyperactivity), while acquired resistance emerges via therapeutic pressure-induced genetic mutations, epigenetic shifts, metabolic reprogramming, or TME modifications. For each identified resistance mechanism, we provide a detailed examination of corresponding therapeutic advancements. These encompass the development of next-generation BRAFi, strategically designed combination therapies, epigenetic modulators, immunotherapeutic approaches, and RNA-based therapeutic agents. Furthermore, we underscore the pivotal role of state-of-the-art technologies, such as liquid biopsies, single-cell multi-omics analyses, and artificial intelligence, in facilitating precise resistance monitoring and personalized therapy selection. By integrating these insights, we present a structured, translationally focused framework to guide basic research and clinical decision-making, ultimately advancing precision salvage therapy and trials aimed at preventing or overcoming BRAFi resistance.

## Linked entities

- **Genes:** BRAF (B-Raf proto-oncogene, serine/threonine kinase) [NCBI Gene 673]
- **Diseases:** melanoma (MONDO:0005105)

## Full-text entities

- **Genes:** TP63 (tumor protein p63) [NCBI Gene 8626] {aka AIS, B(p51A), B(p51B), EEC3, KET, LMS}, NF1 (neurofibromin 1) [NCBI Gene 4763] {aka NFNS, VRNF, WSS}, TEAD2 (TEA domain transcription factor 2) [NCBI Gene 8463] {aka ETF, TEAD-2, TEF-4, TEF4}, USP18 (ubiquitin specific peptidase 18) [NCBI Gene 11274] {aka ISG43, PTORCH2, UBP43}, ABL2 (ABL proto-oncogene 2, non-receptor tyrosine kinase) [NCBI Gene 27] {aka ABLL, ARG}, MIR19A (microRNA 19a) [NCBI Gene 406979] {aka C13orf25, MIRH1, MIRHG1, MIRN19A, hsa-mir-19a, miR-19a}, EIF4G1 (eukaryotic translation initiation factor 4 gamma 1) [NCBI Gene 1981] {aka EIF-4G1, EIF4F, EIF4G, EIF4GI, P220, PARK18}, ETV4 (ETS variant transcription factor 4) [NCBI Gene 2118] {aka E1A-F, E1AF, PEA3, PEAS3}, DUSP6 (dual specificity phosphatase 6) [NCBI Gene 1848] {aka HH19, MKP3, PYST1}, PDE4A (phosphodiesterase 4A) [NCBI Gene 5141] {aka DPDE2, PDE4, PDE46}, MTOR (mechanistic target of rapamycin kinase) [NCBI Gene 2475] {aka FRAP, FRAP1, FRAP2, RAFT1, RAPT1, SKS}, CTLA4 (cytotoxic T-lymphocyte associated protein 4) [NCBI Gene 1493] {aka ALPS5, CD, CD152, CELIAC3, CTLA-4, GRD4}, ALDH1A3 (aldehyde dehydrogenase 1 family member A3) [NCBI Gene 220] {aka ALDH1A6, ALDH6, MCOP8, RALDH3}, ALDH1A1 (aldehyde dehydrogenase 1 family member A1) [NCBI Gene 216] {aka ALDC, ALDH-E1, ALDH1, ALDH11, HEL-9, HEL-S-53e}, EPHA3 (EPH receptor A3) [NCBI Gene 2042] {aka EK4, ETK, ETK1, HEK, HEK4, TYRO4}, GPR39 (G protein-coupled receptor 39) [NCBI Gene 2863] {aka ZnR}, TERT (telomerase reverse transcriptase) [NCBI Gene 7015] {aka CMM9, DKCA2, DKCB4, EST2, PFBMFT1, TCS1}, ERBB3 (erb-b2 receptor tyrosine kinase 3) [NCBI Gene 2065] {aka ErbB-3, FERLK, HER3, LCCS2, MDA-BF-1, VSCN1}, LMNB1 (lamin B1) [NCBI Gene 4001] {aka ADLD, LMN, LMN2, LMNB, MCPH26}, IL6 (interleukin 6) [NCBI Gene 3569] {aka BSF-2, BSF2, CDF, HGF, HSF, IFN-beta-2}, ETV1 (ETS variant transcription factor 1) [NCBI Gene 2115] {aka ER81}, SLC27A2 (solute carrier family 27 member 2) [NCBI Gene 11001] {aka ACSVL1, FACVL1, FATP2, HsT17226, VLACS, VLCS}, FASN (fatty acid synthase) [NCBI Gene 2194] {aka FAS, OA-519, SDR27X1}, CARD16 (caspase recruitment domain family member 16) [NCBI Gene 114769] {aka COP, COP1, LLID-114769, PSEUDO-ICE}, BMAL1 (basic helix-loop-helix ARNT like 1) [NCBI Gene 406] {aka ARNTL, ARNTL1, BMAL1c, JAP3, MOP3, PASD3}, SIRT5 (sirtuin 5) [NCBI Gene 23408] {aka SIR2L5}, NAMPT (nicotinamide phosphoribosyltransferase) [NCBI Gene 10135] {aka 1110035O14Rik, PBEF, PBEF1, VF, VISFATIN}, MMP9 (matrix metallopeptidase 9) [NCBI Gene 4318] {aka CLG4B, GELB, MANDP2, MMP-9}, Fancd2 (Fanconi anemia, complementation group D2) [NCBI Gene 211651] {aka 2410150O07Rik, FA-D2, FA4, FACD, FAD, FANCD}, LINC01502 (long intergenic non-protein coding RNA 1502) [NCBI Gene 100130954], HMGCR (3-hydroxy-3-methylglutaryl-CoA reductase) [NCBI Gene 3156] {aka LDLCQ3, LGMDR28, MYPLG}, IGF1R (insulin like growth factor 1 receptor) [NCBI Gene 3480] {aka CD221, IGFIR, IGFR, JTK13}, TFRC (transferrin receptor) [NCBI Gene 7037] {aka CD71, IMD46, T9, TFR, TFR1, TR}, BSG (basigin (Ok blood group)) [NCBI Gene 682] {aka 5F7, CD147, EMMPRIN, EMPRIN, HAb18G, OK}, PTK2 (protein tyrosine kinase 2) [NCBI Gene 5747] {aka FADK, FADK 1, FAK, FAK1, FRNK, PPP1R71}, MAPK8 (mitogen-activated protein kinase 8) [NCBI Gene 5599] {aka JNK, JNK-46, JNK1, JNK1A2, JNK21B1/2, PRKM8}, PMEL (premelanosome protein) [NCBI Gene 6490] {aka D12S53E, HMB-45, HMB45, ME20, ME20-M, ME20M}, MAPK1 (mitogen-activated protein kinase 1) [NCBI Gene 5594] {aka ERK, ERK-2, ERK2, ERT1, MAPK2, NS13}, MAP3K3 (mitogen-activated protein kinase kinase kinase 3) [NCBI Gene 4215] {aka CCM5, MAPKKK3, MEKK3}, CSF1 (colony stimulating factor 1) [NCBI Gene 1435] {aka CSF-1, MCSF, PG-M-CSF}, EZR (ezrin) [NCBI Gene 7430] {aka CVIL, CVL, HEL-S-105, VIL2}, SNHG16 (small nucleolar RNA host gene 16) [NCBI Gene 100507246] {aka ELNAT1, Nbla10727, Nbla12061, ncRAN}, RHO (rhodopsin) [NCBI Gene 6010] {aka CSNBAD1, OPN2, RP4}, ACSS2 (acyl-CoA synthetase short chain family member 2) [NCBI Gene 55902] {aka ACAS2, ACECS, ACS, ACSA, AceCS1, dJ1161H23.1}, ANAPC11 (anaphase promoting complex subunit 11) [NCBI Gene 51529] {aka APC11, Apc11p, HSPC214}, NDUFA7 (NADH:ubiquinone oxidoreductase subunit A7) [NCBI Gene 4701] {aka B14.5a, CI-B14.5a}, CGAS (cyclic GMP-AMP synthase) [NCBI Gene 115004] {aka C6orf150, D4, MB21D1, h-cGAS}, CTNNB1 (catenin beta 1) [NCBI Gene 1499] {aka CTNNB, EVR7, MRD19, NEDSDV, armadillo}, MIR211 (microRNA 211) [NCBI Gene 406993] {aka MIRN211, mir-211}, TP73 (tumor protein p73) [NCBI Gene 7161] {aka CILD47, P73}, NFE2L2 (NFE2 like bZIP transcription factor 2) [NCBI Gene 4780] {aka IMDDHH, NRF2, Nrf-2}, KRAS (KRAS proto-oncogene, GTPase) [NCBI Gene 3845] {aka 'C-K-RAS, C-K-RAS, CFC2, K-RAS2A, K-RAS2B, K-RAS4A}, CAVIN1 (caveolae associated protein 1) [NCBI Gene 284119] {aka CAVIN, CGL4, FKSG13, PTRF, cavin-1}, DPP4 (dipeptidyl peptidase 4) [NCBI Gene 1803] {aka ADABP, ADCP2, CD26, DPPIV, TP103}, TGFB1 (transforming growth factor beta 1) [NCBI Gene 7040] {aka CAEND1, CED, DPD1, IBDIMDE, LAP, TGF-beta1}, KIT (KIT proto-oncogene, receptor tyrosine kinase) [NCBI Gene 3815] {aka C-Kit, CD117, MASTC, PBT, SCFR}, Pgp (phosphoglycolate phosphatase) [NCBI Gene 67078] {aka 1700012G19Rik, AUM, G3PP}, CD8A (CD8 subunit alpha) [NCBI Gene 925] {aka CD8, CD8alpha, IMD116, Leu2, p32}, CRKL (CRK like proto-oncogene, adaptor protein) [NCBI Gene 1399], HDAC9 (histone deacetylase 9) [NCBI Gene 9734] {aka HD7, HD7b, HD9, HDAC, HDAC7B, HDAC9B}
- **Diseases:** colorectal cancer (MESH:D015179), carcinogens (MESH:D011230), thyroid carcinoma (MESH:D013964), metastases (MESH:D009362), cytotoxicity (MESH:D064420), ovarian cancer (MESH:D010051), cutaneous melanoma (MESH:C562393), mitochondrial dysfunction (MESH:D028361), Melanoma (MESH:D008545), glioma (MESH:D005910), disease (MESH:D004194), pigmentation (MESH:D010859), Metastatic (MESH:D000092182), Tumors (MESH:D009369), papillary thyroid cancer (MESH:D000077273), hairy cell leukemia (MESH:D007943), sigmoid colon cancer (MESH:D012811), cutaneous (MESH:D018366), non-small cell lung cancer (MESH:D002289)
- **Chemicals:** doravirine (MESH:C000592662), cystine (MESH:D003553), eravacycline (MESH:C571179), Romidepsin (MESH:C087123), hydrogen sulfide (MESH:D006862), Cumingianoside A (MESH:C109947), DSF (MESH:D004221), curcumin (MESH:D003474), XL888 (MESH:C559121), DIOS (MESH:C039602), D (MESH:D003903), 31P (-), fatty acid (MESH:D005227), avutometinib (MESH:C577924), [18F] FDG (MESH:D019788), TMZ (MESH:D000077204), quinolinol (MESH:D006912), gefitinib (MESH:D000077156), pembrolizumab (MESH:C582435), Ailanthone (MESH:C029825), CpG (MESH:C015772), nilotinib (MESH:C498826), persulfides (MESH:C051552), 3-mercaptopropionic acid (MESH:D015097), cysteine (MESH:D003545), Lipid (MESH:D008055), Dabrafenib (MESH:C561627), PLX8394 (MESH:C000602642), LP (MESH:D008070), quinazoline (MESH:D011799), disopyramide (MESH:D004206), cabotegravir (MESH:C584914), GSH (MESH:D005978), ATP (MESH:D000255), Polyamine (MESH:D011073), Ranolazine (MESH:D000069458), NNMT (MESH:C036243), ROS (MESH:D017382), Avasimibe (MESH:C423185), calcium (MESH:D002118), flavonoid (MESH:D005419), XN (MESH:C104536), mortiamide-D. (MESH:C000632574), acetaldehyde (MESH:D000079), ARV-825 (MESH:C000606252), BMS-202 (MESH:C000707851), violacein (MESH:C063155), Nivolumab (MESH:D000077594), oxindole (MESH:C022960), AZ628 (MESH:C000592454), Pi (MESH:D010716), DHT (MESH:C000713095), phenoxodiol (MESH:C471183), aristolochic acid (MESH:C000228), adenosine (MESH:D000241), methionine (MESH:D008715), pentose phosphate (MESH:D010428), 27-hydroxycholesterol (MESH:C076996), binimetinib (MESH:C581313), alanine (MESH:D000409)
- **Species:** Homo sapiens (human, species) [taxon 9606], Salvia (sages, genus) [taxon 21880], Chromobacterium violaceum (species) [taxon 536], Mortierella (genus) [taxon 4855], Mus musculus (house mouse, species) [taxon 10090], Zingiber officinale (ginger, species) [taxon 94328]
- **Mutations:** V600K, A375V, S649L, D-Arg at position 7, BRAFV600E, serine/threonine
- **Cell lines:** Hs294T — Homo sapiens (Human), Melanoma, Cancer cell line (CVCL_0331), SK-MEL-28V — Homo sapiens (Human), Cutaneous melanoma, Cancer cell line (CVCL_0526), WM9 — Homo sapiens (Human), Melanoma, Cancer cell line (CVCL_6806), MelT79 — Homo sapiens (Human), Mixed embryonal carcinoma and teratoma, Cancer cell line (CVCL_RA80), FO-1 — Homo sapiens (Human), Amelanotic melanoma, Cancer cell line (CVCL_5619), RPMI-7951 — Homo sapiens (Human), Melanoma, Cancer cell line (CVCL_1666)

## Figures

4 figures with captions in the complete paper: https://tomesphere.com/paper/PMC12976322/full.md

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Source: https://tomesphere.com/paper/PMC12976322