# HIF sustain a transcriptional regulatory circuit of EPAS1 expression in renal clear cell carcinoma

**Authors:** Stephanie Naas, René Krüger, Steffen Grampp, Victoria Lauer, Andre Kraus, Julia Naas, Fabian Müller, Franziska Gsottberger, Mario Schiffer, Bernd Wullich, Arndt Hartmann, Marc P. Stemmler, Johannes Schödel

PMC · DOI: 10.1038/s41467-026-68576-0 · Nature Communications · 2026-02-19

## TL;DR

This paper explores how the EPAS1 gene is overactive in a type of kidney cancer called clear cell renal cell carcinoma, revealing a self-reinforcing regulatory loop involving HIF and lineage-specific factors.

## Contribution

The study identifies an oncogenic enhancer and a feed-forward regulatory circuit of EPAS1 transcription driven by HIF and lineage-specific factors in renal cancer.

## Key findings

- An oncogenic enhancer of EPAS1 was identified that depends on HIF and lineage-specific factors.
- A feed-forward regulatory circuit of HIF-2α promotes renal cancer growth.
- Transcriptional dysregulation of EPAS1 is linked to HIF stabilization in clear cell renal cell carcinoma.

## Abstract

Initiation and sustainment of oncogenic signaling is a hallmark of cancer evolution and progression. In renal clear cell carcinoma, loss of von Hippel-Lindau protein causes stabilization of hypoxia-inducible transcription factors (HIF) evoking a pseudo-hypoxic response, perturbing epithelial homeostasis and leading to cancer development. Although genetic polymorphisms link the EPAS1 oncogene (coding for HIF-2α) to renal cancer and anti-HIF-2 compounds emerge as renal tumor therapies, little is known about transcriptional dysregulation of this factor in renal malignancies. We use genetic, epigenetic and transcriptomic data from large patient cohorts and cell models to dissect mechanisms of augmented EPAS1 transcription in clear cell renal cell carcinoma. We define an oncogenic enhancer of EPAS1 which operates depending on the presence of HIF and renal lineage-specific factors, thereby providing evidence for an auto-regulatory feed-forward circuit of HIF-2α regulation which promotes renal cancer growth.

The mechanisms of increased EPAS1 transcription in clear cell renal cell carcinoma remain to be explored. Here, the authors propose a regulatory circuitry of EPAS1 expression which is dependent on HIF and lineage-specific transcription factors.

## Linked entities

- **Genes:** EPAS1 (endothelial PAS domain protein 1) [NCBI Gene 2034]
- **Proteins:** hif (transcription factor protein), EPAS1 (endothelial PAS domain protein 1)
- **Diseases:** renal clear cell carcinoma (MONDO:0005005), clear cell renal cell carcinoma (MONDO:0005005)

## Full-text entities

- **Genes:** EPAS1 (endothelial PAS domain protein 1) [NCBI Gene 2034] {aka ECYT4, HIF2A, HLF, MOP2, PASD2, bHLHe73}, HNF1B (HNF1 homeobox B) [NCBI Gene 6928] {aka ADTKD3, FJHN, HNF-1-beta, HNF-1B, HNF1beta, HNF2}, XCL1 (X-C motif chemokine ligand 1) [NCBI Gene 6375] {aka ATAC, LPTN, LTN, SCM-1, SCM-1a, SCM1}, Pecam1 (platelet/endothelial cell adhesion molecule 1) [NCBI Gene 18613] {aka Cd31, PECAM-1, Pecam}, CCND1 (cyclin D1) [NCBI Gene 595] {aka BCL1, D11S287E, PRAD1, U21B31}, HIF1A (hypoxia inducible factor 1 subunit alpha) [NCBI Gene 3091] {aka HIF-1-alpha, HIF-1A, HIF-1alpha, HIF1, HIF1-ALPHA, MOP1}, ARNT (aryl hydrocarbon receptor nuclear translocator) [NCBI Gene 405] {aka ARNT1, HIF-1-beta, HIF-1beta, HIF1-beta, HIF1B, HIF1BETA}, CDH1 (cadherin 1) [NCBI Gene 999] {aka Arc-1, BCDS1, CD324, CDHE, ECAD, LCAM}, Vhl (von Hippel-Lindau tumor suppressor) [NCBI Gene 22346] {aka Vhlh, pVHL}, Hnf1b (HNF1 homeobox B) [NCBI Gene 21410] {aka HNF-1-beta, HNF-1B, HNF-1Beta, Hnf1beta, LFB3, Tcf-2}, Pax8 (paired box 8) [NCBI Gene 18510] {aka Pax-8}, Ndrg1 (N-myc downstream regulated gene 1) [NCBI Gene 17988] {aka CAP43, CMT4D, DRG1, HMSNL, NMSL, Ndr1}, LGR5 (leucine rich repeat containing G protein-coupled receptor 5) [NCBI Gene 8549] {aka FEX, GPR49, GPR67, GRP49, HG38}, NDRG1 (N-myc downstream regulated 1) [NCBI Gene 10397] {aka CAP43, CMT4D, DRG-1, DRG1, GC4, HMSNL}, HOMER2 (homer scaffold protein 2) [NCBI Gene 9455] {aka ACPD, CPD, DFNA68, HOMER-2, VESL-2}, ABCB6 (ATP binding cassette subfamily B member 6 (LAN blood group)) [NCBI Gene 10058] {aka ABC, LAN, MTABC3, PRP, umat}, Arnt (aryl hydrocarbon receptor nuclear translocator) [NCBI Gene 11863] {aka D3Ertd557e, Drnt, ESTM42, Hif1b, bHLHe2, mKIAA4051}, Hif1a (hypoxia inducible factor 1, alpha subunit) [NCBI Gene 15251] {aka HIF-1-alpha, HIF1-alpha, HIF1alpha, MOP1, bHLHe78}, PAX8 (paired box 8) [NCBI Gene 7849] {aka PAX-8}, GLB1 (galactosidase beta 1) [NCBI Gene 2720] {aka EBP, ELNR1, MPS4B}, TF (transferrin) [NCBI Gene 7018] {aka HEL-S-71p, PRO1557, PRO2086, TFQTL1}, HNF1A (HNF1 homeobox A) [NCBI Gene 6927] {aka HNF-1-alpha, HNF-1A, HNF1, HNF1alpha, IDDM20, LFB1}, VHL (von Hippel-Lindau tumor suppressor) [NCBI Gene 7428] {aka HRCA1, RCA1, VHL1, pVHL}, VEGFA (vascular endothelial growth factor A) [NCBI Gene 7422] {aka L-VEGF, MVCD1, VEGF, VPF}, DNMT3A (DNA methyltransferase 3 alpha) [NCBI Gene 1788] {aka DNMT3A2, HESJAS, M.HsaIIIA, TBRS}, EGF (epidermal growth factor) [NCBI Gene 1950] {aka HOMG4, URG}, Actb (actin, beta) [NCBI Gene 11461] {aka Actx, E430023M04Rik, beta-actin}, Egln3 (egl-9 family hypoxia-inducible factor 3) [NCBI Gene 112407] {aka 2610021G09Rik, Hif-p4h-3, Phd3, SM-20}, EGLN3 (egl-9 family hypoxia inducible factor 3) [NCBI Gene 112399] {aka HIFP4H3, HIFPH3, PHD3}, POTEF (POTE ankyrin domain family member F) [NCBI Gene 728378] {aka A26C1B, POTE2alpha, POTEACTIN}, Epas1 (endothelial PAS domain protein 1) [NCBI Gene 13819] {aka HIF-2alpha, HIF2A, HLF, HRF, MOP2, bHLHe73}, MUL1 (mitochondrial E3 ubiquitin protein ligase 1) [NCBI Gene 79594] {aka C1orf166, GIDE, MAPL, MULAN, RNF218}, INS (insulin) [NCBI Gene 3630] {aka IDDM, IDDM1, IDDM2, ILPR, IRDN, MODY10}, PRKCE (protein kinase C epsilon) [NCBI Gene 5581] {aka PKCE, nPKC-epsilon}, HPRT1 (hypoxanthine phosphoribosyltransferase 1) [NCBI Gene 3251] {aka HGPRT, HPRT}, tgo (tango) [NCBI Gene 41084] {aka ARNT, Arnt, CG11987, DARNT, Dmel\CG11987, HIF-1}, Vegfa (vascular endothelial growth factor A) [NCBI Gene 22339] {aka L-VEGF, Vegf, Vpf}, SLC49A4 (solute carrier family 49 member 4) [NCBI Gene 84925] {aka DIRC2, RCC4}, Ccnd1 (cyclin D1) [NCBI Gene 12443] {aka CycD1, Cyl-1, PRAD1, bcl-1, cD1}, MYC (MYC proto-oncogene, bHLH transcription factor) [NCBI Gene 4609] {aka MRTL, MYCC, bHLHe39, c-Myc}, sima (similar) [NCBI Gene 43580] {aka 7951, CG31031, CG45051, CG7951, DMU43090, Dmel\CG45051}, Car9 (carbonic anhydrase 9) [NCBI Gene 230099] {aka CAIX, Ca9, MN/CA9}
- **Diseases:** dislocation (MESH:D004204), GBM (MESH:D005909), Kidney renal clear cell carcinoma (MESH:D002292), brain tumors (MESH:D001932), clear (MESH:D018227), Kidney chromophobe (MESH:D007674), LGG (MESH:D008228), VHL-associated cancers (MESH:D006623), chromophobe (MESH:D000238), deficient (MESH:D007153), DOR (MESH:D005597), mycoplasma infection (MESH:D009175), kidney cancer (MESH:D007680), hypoxia (MESH:D000860), hypoxic (MESH:D002534), Cancer (MESH:D009369), tubular lesions (MESH:D000230), glioma (MESH:D005910), PTC (MESH:D007673)
- **Chemicals:** PBS (MESH:D007854), spermidine (MESH:D013095), T3 (MESH:D014284), PVDF (MESH:C024865), DAB (MESH:C000469), formalin (MESH:D005557), DMSO (MESH:D004121), McCoy s 5 A Medium (MESH:C113109), L-glutamine (MESH:D005973), chloroform (MESH:D002725), agarose (MESH:D012685), PT2385 (MESH:C000614279), UREA (MESH:D014508), selenium (MESH:D012643), Alexa Fluor 488, (MESH:C000711379), hydrogen peroxide (MESH:D006861), A-21206 (-), Dox (MESH:D004317), penicillin (MESH:D010406), Hematoxylin (MESH:D006416), HEPES (MESH:D006531), SDS (MESH:D012967), Alexa Fluor 555, (MESH:C000608607), ethanol (MESH:D000431), DMOG (MESH:C040947), Belzutifan (MESH:C000720612), phenol (MESH:D019800), water (MESH:D014867), xylene (MESH:D014992), NP-40 (MESH:C010615), digitonin (MESH:D004072), EDTA (MESH:D004492), hydrocortisone (MESH:D006854), F-12 (MESH:C007782), streptomycin (MESH:D013307), MgCl2 (MESH:D015636), paraffin (MESH:D010232), doxycycline (MESH:D004318), NaCl (MESH:D012965), oxygen (MESH:D010100)
- **Species:** Drosophila melanogaster (fruit fly, species) [taxon 7227], Rattus norvegicus (brown rat, species) [taxon 10116], Homo sapiens (human, species) [taxon 9606], Sus scrofa (pig, species) [taxon 9823], Mus musculus (house mouse, species) [taxon 10090]
- **Mutations:** rs11894252, rs12617313
- **Cell lines:** HKC-8 — Homo sapiens (Human), Transformed cell line (CVCL_Y910), U-87 — Homo sapiens (Human), Glioblastoma, Cancer cell line (CVCL_0022), HA — Mus musculus (Mouse), Hybridoma (CVCL_A3CD), RCC4/i — Homo sapiens (Human), Clear cell renal cell carcinoma, Cancer cell line (CVCL_0498), 786-M1A — Homo sapiens (Human), Renal cell carcinoma, Cancer cell line (CVCL_VR30), Caki-1 — Homo sapiens (Human), Clear cell renal cell carcinoma, Cancer cell line (CVCL_0234), PTC #4 — Mus musculus (Mouse), Transformed cell line (CVCL_0416), E2_HIF — Homo sapiens (Human), Colon carcinoma, Cancer cell line (CVCL_B1DP), 786-0 — Homo sapiens (Human), Renal cell carcinoma, Cancer cell line (CVCL_1051), Kelly — Homo sapiens (Human), Neuroblastoma, Cancer cell line (CVCL_2092), SCID-gamma — Homo sapiens (Human), Fibrosarcoma, Cancer cell line (CVCL_C0D4)

## Full text

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## Figures

7 figures with captions in the complete paper: https://tomesphere.com/paper/PMC12921326/full.md

## References

9 references — full list in the complete paper: https://tomesphere.com/paper/PMC12921326/full.md

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Source: https://tomesphere.com/paper/PMC12921326