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Modeling of Capicua Family Fusion Oncoprotein-Driven Cancers Reveals Gene-Specific Functionality. Mol Cancer Res. 2026 Jan 23. Luck C, Luo Y, Vasileva E, Jacobs KA, Riad J, Macaraig CD, Ponce RKM, Amatruda JF, Okimoto RA. PMID: 41575738; PMCID: PMC12930430.
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The CIC::DUX4 oncoprotein maintains DNA integrity through direct regulation of the catalytic subunit of DNA polymerase epsilon (POLE). Oncogene. 2025 Oct; 44(38):3598-3608. Kosibaty Z, Luck C, Okimoto RA. PMID: 40760094; PMCID: PMC12436161.
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First Generation Tools for the Modeling of Capicua (CIC) - Family Fusion Oncoprotein-Driven Cancers. bioRxiv. 2025 May 14. Luck C, Jacobs KA, Riad J, Macaraig CD, Ponce RKM, Okimoto RA. PMID: 40463157; PMCID: PMC12132549.
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The Capicua C1 Domain Is Required for Full Activity of the CIC::DUX4 Fusion Oncoprotein. Cancer Res Commun. 2024 12 01; 4(12):3099-3113. Luck C, Jacobs KA, Okimoto RA. PMID: 39530749; PMCID: PMC11626509.
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A platform to deliver single and bi-specific Cas9/guide RNA to perturb genes in vitro and in vivo. Mol Ther. 2024 Oct 02; 32(10):3629-3649. Li YJ, Chien SH, Huang R, Herrmann A, Zhao Q, Li PC, Zhang C, Martincuks A, Santiago NL, Zong K, Swiderski P, Okimoto RA, Song M, Rodriguez L, Forman SJ, Wang X, Yu H. PMID: 39091030; PMCID: PMC11489542.
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The Capicua C1 Domain is Required for Full Activity of the CIC::DUX4 Fusion Oncoprotein. bioRxiv. 2024 Jun 09. Luck C, Jacobs KA, Okimoto RA. PMID: 38895482; PMCID: PMC11185703.
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Molecular and therapeutic advancements in Capicua (CIC)-rearranged sarcoma. Front Cell Dev Biol. 2024; 12:1416697. Ponce RKM, Luck C, Okimoto RA. PMID: 38882060; PMCID: PMC11176417.
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Quantification of cerebrospinal fluid tumor DNA in lung cancer patients with suspected leptomeningeal carcinomatosis. NPJ Precis Oncol. 2024 May 28; 8(1):121. Azad TD, Nanjo S, Jin MC, Chabon JJ, Kurtz DM, Chaudhuri AA, Connolly ID, Hui AB, Liu CL, Merriott D, Ko R, Yoo C, Carter J, Chen E, Bonilla R, Hata A, Katakami N, Irie K, Yano S, Okimoto R, Bivona TG, Newman AM, Iv M, Nagpal S, Gephart MH, Alizadeh AA, Diehn M. PMID: 38806586; PMCID: PMC11133465.
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Mapping chromatin state and transcriptional response in CIC-DUX4 undifferentiated round cell sarcoma. bioRxiv. 2023 Oct 12. Thomas NJ, Luck C, Shlimon N, Ponce RK, Kosibaty Z, Okimoto RA. PMID: 37873100; PMCID: PMC10592754.
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The CIC-ERF co-deletion underlies fusion-independent activation of ETS family member, ETV1, to drive prostate cancer progression. Elife. 2022 Nov 16; 11. Gupta N, Song H, Wu W, Ponce RK, Lin YK, Kim JW, Small EJ, Feng FY, Huang FW, Okimoto RA. PMID: 36383412; PMCID: PMC9668335.
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Capicua suppresses YAP1 to limit tumorigenesis and maintain drug sensitivity in human cancer. Cell Rep. 2022 10 04; 41(1):111443. Kim JW, Luck C, Wu W, Ponce RK, Lin YK, Gupta N, Okimoto RA. PMID: 36198276; PMCID: PMC9674208.
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Primary and metastatic tumors exhibit systems-level differences in dependence on mitochondrial respiratory function. PLoS Biol. 2022 09; 20(9):e3001753. Bennett NK, Nakaoka HJ, Laurent D, Okimoto RA, Sei Y, Horvai AE, Bivona TG, Ten Hoeve J, Graeber TG, Nakamura K, Nakamura JL. PMID: 36137002; PMCID: PMC9498964.
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Deficiency of the splicing factor RBM10 limits EGFR inhibitor response in EGFR-mutant lung cancer. J Clin Invest. 2022 07 01; 132(13). Nanjo S, Wu W, Karachaliou N, Blakely CM, Suzuki J, Chou YT, Ali SM, Kerr DL, Olivas VR, Shue J, Rotow J, Mayekar MK, Haderk F, Chatterjee N, Urisman A, Yeo JC, Skanderup AJ, Tan AC, Tam WL, Arrieta O, Hosomichi K, Nishiyama A, Yano S, Kirichok Y, Tan DS, Rosell R, Okimoto RA, Bivona TG. PMID: 35579943; PMCID: PMC9246391.
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Clinical genomic profiling in the management of patients with soft tissue and bone sarcoma. Nat Commun. 2022 06 15; 13(1):3406. Gounder MM, Agaram NP, Trabucco SE, Robinson V, Ferraro RA, Millis SZ, Krishnan A, Lee J, Attia S, Abida W, Drilon A, Chi P, Angelo SP, Dickson MA, Keohan ML, Kelly CM, Agulnik M, Chawla SP, Choy E, Chugh R, Meyer CF, Myer PA, Moore JL, Okimoto RA, Pollock RE, Ravi V, Singh AS, Somaiah N, Wagner AJ, Healey JH, Frampton GM, Venstrom JM, Ross JS, Ladanyi M, Singer S, Brennan MF, Schwartz GK, Lazar AJ, Thomas DM, Maki RG, Tap WD, Ali SM, Jin DX. PMID: 35705558; PMCID: PMC9200814.
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WEE1 kinase is a therapeutic vulnerability in CIC-DUX4 undifferentiated sarcoma. JCI Insight. 2022 03 22; 7(6). Ponce RKM, Thomas NJ, Bui NQ, Kondo T, Okimoto RA. PMID: 35315355; PMCID: PMC8986087.
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Tumor morphology and location associate with immune cell composition in pleomorphic sarcoma. Cancer Immunol Immunother. 2021 Oct; 70(10):3031-3040. Wustrack RL, Shao E, Sheridan J, Zimel M, Cho SJ, Horvai AE, Luong D, Kwek SS, Fong L, Okimoto RA. PMID: 33864502; PMCID: PMC8423706.
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Single-cell lineages reveal the rates, routes, and drivers of metastasis in cancer xenografts. Science. 2021 02 26; 371(6532). Quinn JJ, Jones MG, Okimoto RA, Nanjo S, Chan MM, Yosef N, Bivona TG, Weissman JS. PMID: 33479121; PMCID: PMC7983364.
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Functional screening identifies aryl hydrocarbon receptor as suppressor of lung cancer metastasis. Oncogenesis. 2020 Nov 19; 9(11):102. Nothdurft S, Thumser-Henner C, Breitenbücher F, Okimoto RA, Dorsch M, Opitz CA, Sadik A, Esser C, Hölzel M, Asthana S, Forster J, Beisser D, Kalmbach S, Grüner BM, Bivona TG, Schramm A, Schuler M. PMID: 33214553; PMCID: PMC7677369.
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Capicua in Human Cancer. Trends Cancer. 2021 01; 7(1):77-86. Kim JW, Ponce RK, Okimoto RA. PMID: 32978089; PMCID: PMC7770027.
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Negative MAPK-ERK regulation sustains CIC-DUX4 oncoprotein expression in undifferentiated sarcoma. Proc Natl Acad Sci U S A. 2020 08 25; 117(34):20776-20784. Lin YK, Wu W, Ponce RK, Kim JW, Okimoto RA. PMID: 32788348; PMCID: PMC7456153.
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CIC-DUX4 oncoprotein drives sarcoma metastasis and tumorigenesis via distinct regulatory programs. J Clin Invest. 2019 07 22; 129(8):3401-3406. Okimoto RA, Wu W, Nanjo S, Olivas V, Lin YK, Ponce RK, Oyama R, Kondo T, Bivona TG. PMID: 31329165; PMCID: PMC6668665.
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Nuclear TARBP2 Drives Oncogenic Dysregulation of RNA Splicing and Decay. Mol Cell. 2019 09 05; 75(5):967-981.e9. Fish L, Navickas A, Culbertson B, Xu Y, Nguyen HCB, Zhang S, Hochman M, Okimoto R, Dill BD, Molina H, Najafabadi HS, Alarcón C, Ruggero D, Goodarzi H. PMID: 31300274; PMCID: PMC6731133.
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Metastasis: From head to tail. Cell Cycle. 2017 03 19; 16(6):487-488. Okimoto RA, Bivona TG. PMID: 28055306; PMCID: PMC5384580.
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Inactivation of Capicua drives cancer metastasis. Nat Genet. 2017 01; 49(1):87-96. Okimoto RA, Breitenbuecher F, Olivas VR, Wu W, Gini B, Hofree M, Asthana S, Hrustanovic G, Flanagan J, Tulpule A, Blakely CM, Haringsma HJ, Simmons AD, Gowen K, Suh J, Miller VA, Ali S, Schuler M, Bivona TG. PMID: 27869830; PMCID: PMC5195898.
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Preclinical efficacy of a RAF inhibitor that evades paradoxical MAPK pathway activation in protein kinase BRAF-mutant lung cancer. Proc Natl Acad Sci U S A. 2016 11 22; 113(47):13456-13461. Okimoto RA, Lin L, Olivas V, Chan E, Markegard E, Rymar A, Neel D, Chen X, Hemmati G, Bollag G, Bivona TG. PMID: 27834212; PMCID: PMC5127364.
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An improved CTC isolation scheme for pairing with downstream genomics: Demonstrating clinical utility in metastatic prostate, lung and pancreatic cancer. Cancer Lett. 2016 09 28; 380(1):144-52. Premasekharan G, Gilbert E, Okimoto RA, Hamirani A, Lindquist KJ, Ngo VT, Roy R, Hough J, Edwards M, Paz R, Foye A, Sood R, Copren KA, Gubens M, Small EJ, Bivona TG, Collisson EA, Friedlander TW, Paris PL. PMID: 27343980.
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Tracking Down Response and Resistance to TRK Inhibitors. Cancer Discov. 2016 Jan; 6(1):14-6. Okimoto RA, Bivona TG. PMID: 26747892; PMCID: PMC4709026.
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RAS-MAPK dependence underlies a rational polytherapy strategy in EML4-ALK-positive lung cancer. Nat Med. 2015 Sep; 21(9):1038-47. Hrustanovic G, Olivas V, Pazarentzos E, Tulpule A, Asthana S, Blakely CM, Okimoto RA, Lin L, Neel DS, Sabnis A, Flanagan J, Chan E, Varella-Garcia M, Aisner DL, Vaishnavi A, Ou SH, Collisson EA, Ichihara E, Mack PC, Lovly CM, Karachaliou N, Rosell R, Riess JW, Doebele RC, Bivona TG. PMID: 26301689; PMCID: PMC4734742.
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AXL receptor tyrosine kinase as a therapeutic target in NSCLC. Lung Cancer (Auckl). 2015; 6:27-34. Okimoto RA, Bivona TG. PMID: 28210148; PMCID: PMC5217513.
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Prednisolone-induced predisposition to femoral head separation and the accompanying plasma protein changes in chickens. Biomark Insights. 2015; 10:1-8. Packialakshmi B, Liyanage R, Lay J, Okimoto R, Rath N. PMID: 25635167; PMCID: PMC4295844.
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77-year-old woman with a dural-based mass. Marginal zone B-cell lymphoma (MZBCL). Brain Pathol. 2015 Jan; 25(1):111-2. Okimoto RA, Perry A, Rubenstein JL. PMID: 25521182; PMCID: PMC4942276.
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Recent advances in personalized lung cancer medicine. Per Med. 2014; 11(3):309-321. Okimoto RA, Bivona TG. PMID: 25506379; PMCID: PMC4263209.
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Navigating the road toward optimal initial therapy for chronic myeloid leukemia. Curr Opin Hematol. 2011 Mar; 18(2):89-97. Okimoto RA, Van Etten RA. PMID: 21252655; PMCID: PMC3496274.
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Mutations in the neutral sphingomyelinase gene SMPD3 implicate the ceramide pathway in human leukemias. Blood. 2008 May 01; 111(9):4716-22. Kim WJ, Okimoto RA, Purton LE, Goodwin M, Haserlat SM, Dayyani F, Sweetser DA, McClatchey AI, Bernard OA, Look AT, Bell DW, Scadden DT, Haber DA. PMID: 18299447; PMCID: PMC2343601.
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Regulation of expression of BIK proapoptotic protein in human breast cancer cells: p53-dependent induction of BIK mRNA by fulvestrant and proteasomal degradation of BIK protein. Cancer Res. 2006 Oct 15; 66(20):10153-61. Hur J, Bell DW, Dean KL, Coser KR, Hilario PC, Okimoto RA, Tobey EM, Smith SL, Isselbacher KJ, Shioda T. PMID: 17047080.
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Epidermal growth factor receptor kinase domain mutations in esophageal and pancreatic adenocarcinomas. Clin Cancer Res. 2006 Jul 15; 12(14 Pt 1):4283-7. Kwak EL, Jankowski J, Thayer SP, Lauwers GY, Brannigan BW, Harris PL, Okimoto RA, Haserlat SM, Driscoll DR, Ferry D, Muir B, Settleman J, Fuchs CS, Kulke MH, Ryan DP, Clark JW, Sgroi DC, Haber DA, Bell DW. PMID: 16857803; PMCID: PMC3807136.
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Frequent met oncogene amplification in a Brca1/Trp53 mouse model of mammary tumorigenesis. Cancer Res. 2006 Apr 01; 66(7):3452-5. Smolen GA, Muir B, Mohapatra G, Barmettler A, Kim WJ, Rivera MN, Haserlat SM, Okimoto RA, Kwak E, Dahiya S, Garber JE, Bell DW, Sgroi DC, Chin L, Deng CX, Haber DA. PMID: 16585167.
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Amplification of MET may identify a subset of cancers with extreme sensitivity to the selective tyrosine kinase inhibitor PHA-665752. Proc Natl Acad Sci U S A. 2006 Feb 14; 103(7):2316-21. Smolen GA, Sordella R, Muir B, Mohapatra G, Barmettler A, Archibald H, Kim WJ, Okimoto RA, Bell DW, Sgroi DC, Christensen JG, Settleman J, Haber DA. PMID: 16461907; PMCID: PMC1413705.
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American founder mutation for Lynch syndrome. Prevalence estimates and implications. Cancer. 2006 Jan 15; 106(2):448-52. Lynch HT, de la Chapelle A, Hampel H, Wagner A, Fodde R, Lynch JF, Okimoto R, Clark MB, Coronel S, Trowonou A, Fu YX, Haynatzki GR, Gong G. PMID: 16353207.
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Response of some head and neck cancers to epidermal growth factor receptor tyrosine kinase inhibitors may be linked to mutation of ERBB2 rather than EGFR. Clin Cancer Res. 2005 Nov 15; 11(22):8105-8. Cohen EE, Lingen MW, Martin LE, Harris PL, Brannigan BW, Haserlat SM, Okimoto RA, Sgroi DC, Dahiya S, Muir B, Clark JR, Rocco JW, Vokes EE, Haber DA, Bell DW. PMID: 16299242.
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Inherited susceptibility to lung cancer may be associated with the T790M drug resistance mutation in EGFR. Nat Genet. 2005 Dec; 37(12):1315-6. Bell DW, Gore I, Okimoto RA, Godin-Heymann N, Sordella R, Mulloy R, Sharma SV, Brannigan BW, Mohapatra G, Settleman J, Haber DA. PMID: 16258541.
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Epidermal growth factor receptor mutations and gene amplification in non-small-cell lung cancer: molecular analysis of the IDEAL/INTACT gefitinib trials. J Clin Oncol. 2005 Nov 01; 23(31):8081-92. Bell DW, Lynch TJ, Haserlat SM, Harris PL, Okimoto RA, Brannigan BW, Sgroi DC, Muir B, Riemenschneider MJ, Iacona RB, Krebs AD, Johnson DH, Giaccone G, Herbst RS, Manegold C, Fukuoka M, Kris MG, Baselga J, Ochs JS, Haber DA. PMID: 16204011.
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Irreversible inhibitors of the EGF receptor may circumvent acquired resistance to gefitinib. Proc Natl Acad Sci U S A. 2005 May 24; 102(21):7665-70. Kwak EL, Sordella R, Bell DW, Godin-Heymann N, Okimoto RA, Brannigan BW, Harris PL, Driscoll DR, Fidias P, Lynch TJ, Rabindran SK, McGinnis JP, Wissner A, Sharma SV, Isselbacher KJ, Settleman J, Haber DA. PMID: 15897464; PMCID: PMC1129023.
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Activating mutations in the epidermal growth factor receptor underlying responsiveness of non-small-cell lung cancer to gefitinib. N Engl J Med. 2004 May 20; 350(21):2129-39. Lynch TJ, Bell DW, Sordella R, Gurubhagavatula S, Okimoto RA, Brannigan BW, Harris PL, Haserlat SM, Supko JG, Haluska FG, Louis DN, Christiani DC, Settleman J, Haber DA. PMID: 15118073.
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A founder mutation of the MSH2 gene and hereditary nonpolyposis colorectal cancer in the United States. JAMA. 2004 Feb 11; 291(6):718-24. Lynch HT, Coronel SM, Okimoto R, Hampel H, Sweet K, Lynch JF, Barrows A, Wijnen J, van der Klift H, Franken P, Wagner A, Fodde R, de la Chapelle A. PMID: 14871915.
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Molecular analysis of hereditary nonpolyposis colorectal cancer in the United States: high mutation detection rate among clinically selected families and characterization of an American founder genomic deletion of the MSH2 gene. Am J Hum Genet. 2003 May; 72(5):1088-100. Wagner A, Barrows A, Wijnen JT, van der Klift H, Franken PF, Verkuijlen P, Nakagawa H, Geugien M, Jaghmohan-Changur S, Breukel C, Meijers-Heijboer H, Morreau H, van Puijenbroek M, Burn J, Coronel S, Kinarski Y, Okimoto R, Watson P, Lynch JF, de la Chapelle A, Lynch HT, Fodde R. PMID: 12658575; PMCID: PMC1180263.
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Mytilus mitochondrial DNA contains a functional gene for a tRNASer(UCN) with a dihydrouridine arm-replacement loop and a pseudo-tRNASer(UCN) gene. Genetics. 1999 Jun; 152(2):641-52. Beagley CT, Okimoto R, Wolstenholme DR. PMID: 10353906; PMCID: PMC1460622.
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The mitochondrial genomes of two nematodes, Caenorhabditis elegans and Ascaris suum. Genetics. 1992 Mar; 130(3):471-98. Okimoto R, Macfarlane JL, Clary DO, Wolstenholme DR. PMID: 1551572; PMCID: PMC1204866.
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Bizarre tRNAs inferred from DNA sequences of mitochondrial genomes of nematode worms. Proc Natl Acad Sci U S A. 1987 Mar; 84(5):1324-8. Wolstenholme DR, Macfarlane JL, Okimoto R, Clary DO, Wahleithner JA. PMID: 3469671; PMCID: PMC304420.
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Coordinate gene expression during somatic embryogenesis in carrots. Proc Natl Acad Sci U S A. 1983 May; 80(9):2661-5. Sung ZR, Okimoto R. PMID: 16593311; PMCID: PMC393887.
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Embryonic proteins in somatic embryos of carrot. Proc Natl Acad Sci U S A. 1981 Jun; 78(6):3683-7. Sung ZR, Okimoto R. PMID: 16593035; PMCID: PMC319635.
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