Keiko Akagi, PhD

Peer-Reviewed Articles

1. Lilue, J, Corvelo, A, Gómez-Garrido, J, Akagi, K, Yang, F, Green, G, Ng, BL, Fu, B, Chorostecki, UP, Warner, S, Marcet-Houben, M, Keane, TM, Mullikin, J, Alioto, T, Gabaldón, T, Hubert, B, Symer, DE, Niewiesk, S. A chromosome-level genome assembly of the Hispid cotton rat (Sigmodon hispidus), a model for human pathogenic virus infections. BMC Biology 23(1), 2025. e-Pub 2025. PMID: 40682131.
2. Wotman, MT, Xiao, W, Du, R, Jiang, B, Akagi, K, Liu, S, Gillison, M. Development and Validation of an Assay to Quantify Plasma Circulating Tumor Human Papillomavirus DNA for 13 High-Risk Types that Cause 98% of HPV-Positive Cancers. Head and Neck Pathology 19(1), 2025. e-Pub 2025. PMID: 39998590.
3. Khan, NI, Akagi, K, Jiang, S, Dunn, J, Jiang, B, Xiao, W, O’Hara, MP, Shen, L, Wang, Q, Mohanty, V, Wang, J, Goodwin, S, Hutchins, JL, Coombes, KR, Sastry, JK, Symer, DE, Gillison, M. Human Papillomavirus Integration Induces Oncogenic Host Gene Fusions in Oropharyngeal Cancers. Cancer discovery 15(9):1927-1948, 2025. e-Pub 2025. PMID: 40358390.
4. Jiang, XL, Rudqvist, N, Jiang, B, Ye, S, He, S, Liang, Q, Dou, J, Williams, MD, Dunn, J, Johnson, JM, Akagi, K, Xiao, W, Liang, S, Elayavalli, S, Sun, B, Parra Cuentas, ER, Ferrarotto, R, Garden, AS, Fuller, C, Reddy, JP, Gross, N, Lango, MN, Leung, CH, Liu, S, Liu, D, Li, M, Lee, JJ, Curran, M, Phan, J, Chen, K, Gillison, M. Depletion of Effector Regulatory T Cells Associates with Major Response to Induction Dual Immune Checkpoint Blockade. Cancer discovery 15(8):1569-1592, 2025. e-Pub 2025. PMID: 40249124.
5. Moreno Rueda, LY, Wang, H, Akagi, K, Dang, M, Vora, A, Qin, L, Lee, HC, Patel, K, Lin, P, Mery, D, Zhan, F, Shaughnessy, JD, Yi, Q, Song, Y, Jiang, B, Gillison, M, Thomas, SK, Weber, DM, Diao, L, Wang, J, Kuiatse, I, Manasanch, EE, Symer, DE, Orlowski, R. Single-cell analysis of neoplastic plasma cells identifies myeloma pathobiology mediators and potential targets. Cell Reports Medicine 6(2), 2025. e-Pub 2025. PMID: 39855192.
6. Zacharias NM, Segarra L, Akagi K, Fowlkes NW, Chen H, Alaniz A, de la Cerda C, Pesquera P, Xi Y, Wang J, Chahoud J, Lu X, Rao P, Martinez-Ferrer M, Pettaway CA. Transcriptomic, Proteomic, and Genomic Mutational Fraction Differences Based on HPV Status Observed in Patient-Derived Xenograft Models of Penile Squamous Cell Carcinoma. Cancers (Basel) 16(5), 2024. e-Pub 2024. PMID: 38473423.
7. Shitara K, Muro K, Watanabe J, Yamazaki K, Ohori H, Shiozawa M, Takashima A, Yokota M, Makiyama A, Akazawa N, Ojima H, Yuasa Y, Miwa K, Yasui H, Oki E, Sato T, Naitoh T, Komatsu Y, Kato T, Mori I, Yamanaka K, Hihara M, Soeda J, Misumi T, Yamamoto K, Yamashita R, Akagi K, Ochiai A, Uetake H, Tsuchihara K, Yoshino T. Baseline ctDNA gene alterations as a biomarker of survival after panitumumab and chemotherapy in metastatic colorectal cancer. Nat Med 30(3):730-739, 2024. e-Pub 2024. PMID: 38347302.
8. Kawase T, Imamura H, Yanagimoto Y, Odagiri K, Suzuki Y, Takeyama H, Yamashita M, Sato Y, Kobayashi A, Ikenaga M, Shimizu J, Akagi K, Iwazawa T, Tomita N, Dono K. [Questionnaire Survey on Oral Care and Oral Troubles for Patients with Gastric Cancer Received Chemotherapy]. Gan To Kagaku Ryoho 51(3):308-310, 2024. e-Pub 2024. PMID: 38494814.
9. Ikeda R, Matsuoka Y, Inoue M, Ishikawa A, Akagi K, Kageyama Y. Treatment-related neuroendocrine prostate cancer with BRCA2 germline mutation treated with olaparib. IJU Case Rep 7(2):115-119, 2024. e-Pub 2024. PMID: 38440716.
10. Kawase T, Imamura H, Yanagimoto Y, Odagiri K, Suzuki Y, Takeyama H, Yamashita M, Sato Y, Kobayashi A, Ikenaga M, Shimizu J, Akagi K, Iwazawa T, Tomita N, Dono K. [Regimen Selection by Narrative Approach in Patients with Advanced Gastric Cancer-Paclitaxel or Nab-Paclitaxel?]. Gan To Kagaku Ryoho 51(3):311-313, 2024. e-Pub 2024. PMID: 38494815.
11. Horigome Y, Iino M, Harazaki Y, Kobayashi T, Handa H, Hiramatsu Y, Kuroi T, Tanimoto K, Matsue K, Abe M, Ishida T, Ito S, Iwasaki H, Kuroda J, Shibayama H, Sunami K, Takamatsu H, Tamura H, Hayashi T, Akagi K, Maeda T, Yoshida T, Mori I, Shinozaki T, Iida S. A prospective, multicenter, observational study of ixazomib plus lenalidomide-dexamethasone in patients with relapsed/refractory multiple myeloma in Japan. Ann Hematol 103(2):475-488, 2024. e-Pub 2024. PMID: 37695378.
12. Yoshida S, Morikawa S, Ueda K, Kaneko K, Hanasaki T, Akagi K. Helicity Control of Circularly Polarized Luminescence from Aromatic Conjugated Copolymers and Their Mixture Using Reversibly Photoinvertible Chiral Liquid Crystals. ACS Appl Mater Interfaces 16(3):3991-4002, 2024. e-Pub 2024. PMID: 38183275.
13. Suzuki Y, Ikenaga M, Sato Y, Odagiri K, Yanagimoto Y, Yamashita M, Takeyama H, Kobayashi A, Shimizu J, Kawase T, Akagi K, Iwazawa T, Tamura H, Adachi S, Imamura H. [A Case of Fibromatosis-Like Tumor Which Was Difficult to Differentiate from Local Recurrence of Ascending Colon Cancer]. Gan To Kagaku Ryoho 51(1):87-89, 2024. e-Pub 2024. PMID: 38247101.
14. Suzuki Y, Ikenaga M, Sato Y, Odagiri K, Yanagimoto Y, Yamashita M, Takeyama H, Kobayashi A, Noura S, Shimizu J, Kawase T, Akagi K, Iwazawa T, Tomita N, Imamura H. [A Case of 30s Female with Advanced Anal Canal Adenocarcinoma Managed with Adolescent-And-Young-Adult Team]. Gan To Kagaku Ryoho 51(1):69-71, 2024. e-Pub 2024. PMID: 38247095.
15. Suzuki Y, Ikenaga M, Sato Y, Odagiri K, Yanagimoto Y, Yamashita M, Takeyama H, Kobayashi A, Shimizu J, Kawase T, Akagi K, Iwazawa T, Tamura H, Adachi S, Imamura H. [A Case of Diffuse Large B-Cell Lymphoma Which Was Diagnosed during the Best Supportive Care of Recurrent Ascending Colon Cancer]. Gan To Kagaku Ryoho 51(1):84-86, 2024. e-Pub 2024. PMID: 38247100.
16. Hirata T, Baba S, Akagi K, Matsuda K, Umeda K, Adachi S, Heike T, Takita J. Chloroquine decreases cardiac fibrosis and improves cardiac function in a mouse model of Duchenne muscular dystrophy. PLoS One 19(1):e0297083, 2024. e-Pub 2024. PMID: 38295120.
17. Chikatani K, Ishida H, Mori Y, Nakajima T, Ueki A, Akagi K, Takao A, Yamada M, Taniguchi F, Komori K, Sasaki K, Sudo T, Miyakura Y, Chino A, Yamaguchi T, Tanakaya K, Tomita N, Ajioka Y. Risk of metachronous colorectal cancer after colectomy for first colon cancer in Lynch syndrome: multicenter retrospective study in Japan. Int J Clin Oncol 28(12):1633-1640, 2023. e-Pub 2023. PMID: 37752370.
18. Yamashita M, Shimizu J, Sato Y, Noma T, Hagihara K, Yanagimoto Y, Suzuki Y, Ikenaga M, Kawase T, Imamura H, Akagi K, Iwasawa S, Tomita N. [Tolerability and Outcome of Neoadjuvant GS Therapy for Resectable Pancreatic Cancer]. Gan To Kagaku Ryoho 50(13):1411-1413, 2023. e-Pub 2023. PMID: 38303291.
19. Hayashi F, Akagi K, Taniguchi H, Matsutake T, Kawahara H, Sekine I, Gyotoku H, Takemoto S, Soda H, Ashizawa K, Mukae H. TIM-3 expression induces resistance to PD-1 inhibitor in G-CSF-producing lung spindle cell carcinoma: A case report. Thorac Cancer 14(36):3556-3560, 2023. e-Pub 2023. PMID: 37926435.
20. Mori Y, Ishida H, Chika N, Ito T, Amano K, Chikatani K, Takeuchi Y, Kono M, Shichijo S, Chino A, Nagasaki T, Takao A, Takao M, Nakamori S, Sasaki K, Akagi K, Yamaguchi T, Tanakaya K, Naohiro T, Ajioka Y. Usefulness of genotyping APC gene for individualizing management of patients with familial adenomatous polyposis. Int J Clin Oncol 28(12):1641-1650, 2023. e-Pub 2023. PMID: 37853284.
21. Yamamoto G, Ito T, Suzuki O, Kamae N, Kakuta M, Takahashi A, Iuchi K, Arai T, Ishida H, Akagi K. Concordance between microsatellite instability testing and immunohistochemistry for mismatch repair proteins and efficient screening of mismatch repair deficient gastric cancer. Oncol Lett 26(5):494, 2023. e-Pub 2023. PMID: 37854865.
22. Mori Y, Chika N, Suzuki O, Matsuyama T, Ito T, Muta Y, Chiyonobu N, Hatano S, Momose S, Tanabe N, Akagi K, Ishida H. [A Case of Transverse Colon Cancer Associated with Lynch Syndrome with Excellent Response to Pembrolizumab]. Gan To Kagaku Ryoho 50(10):1111-1113, 2023. e-Pub 2023. PMID: 38035847.
23. Tomono H, Taniguchi H, Fukuda M, Ikeda T, Nagashima S, Akagi K, Ono S, Umeyama Y, Shimada M, Gyotoku H, Takemoto S, Hisamatsu Y, Morinaga R, Tagawa R, Ogata R, Dotsu Y, Senju H, Soda H, Nakatomi K, Hayashi F, Sugasaki N, Kinoshita A, Mukae H. Phase II study of IRInotecan treatment after COmbined chemo-immunotherapy for extensive-stage small cell lung cancer: Protocol of IRICO study. Thorac Cancer 14(28):2890-2894, 2023. e-Pub 2023. PMID: 37675546.
24. Mishima S, Naito Y, Akagi K, Hayashi N, Hirasawa A, Hishiki T, Igarashi A, Ikeda M, Kadowaki S, Kajiyama H, Kato M, Kenmotsu H, Kodera Y, Komine K, Koyama T, Maeda O, Miyachi M, Nishihara H, Nishiyama H, Ohga S, Okamoto W, Oki E, Ono S, Sanada M, Sekine I, Takano T, Tao K, Terashima K, Tsuchihara K, Yatabe Y, Yoshino T, Baba E. Japanese Society of Medical Oncology/Japan Society of Clinical Oncology/Japanese Society of Pediatric Hematology/Oncology-led clinical recommendations on the diagnosis and use of immunotherapy in patients with DNA mismatch repair deficient (dMMR) tumors, third edition. Int J Clin Oncol 28(10):1237-1258, 2023. e-Pub 2023. PMID: 37599324.
25. Xi Y, Negrao MV, Akagi K, Xiao W, Jiang B, Warner SC, Dunn JD, Wang J, Symer DE, Gillison ML. Noninvasive genomic profiling of somatic mutations in oral cavity cancers. Oral Oncol 140:106372, 2023. e-Pub 2023. PMID: 37004423.
26. Akagi K, Symer DE, Mahmoud M, Jiang B, Goodwin S, Wangsa D, Li Z, Xiao W, Dunn JD, Ried T, Coombes KR, Sedlazeck FJ, Gillison ML. Intratumoral Heterogeneity and Clonal Evolution Induced by HPV Integration. Cancer Discov 13(4):910-927, 2023. e-Pub 2023. PMID: 36715691.
27. Broutian TR, Jiang B, Li J, Akagi K, Gui S, Zhou Z, Xiao W, Symer DE, Gillison ML. Human papillomavirus insertions identify the PIM family of serine/threonine kinases as targetable driver genes in head and neck squamous cell carcinoma. Cancer Lett 476:23-33, 2020. e-Pub 2020. PMID: 31958486.
28. Wang Y, Liyanarachchi S, Miller KE, Nieminen TT, Comiskey DF, Li W, Brock P, Symer DE, Akagi K, DeLap KE, He H, Koboldt DC, de la Chapelle A. Identification of Rare Variants Predisposing to Thyroid Cancer. Thyroid 29(7):946-955, 2019. e-Pub 2019. PMID: 30957677.
29. Gleber-Netto FO, Rao X, Guo T, Xi Y, Gao M, Shen L, Erikson K, Kalu NN, Ren S, Xu G, Fisch KM, Akagi K, Seiwert T, Gillison M, Frederick MJ, Johnson FM, Wang J, Myers JN, Califano J, Skinner HD, Pickering CR. Variations in HPV function are associated with survival in squamous cell carcinoma. JCI Insight 4(1). e-Pub 2019. PMID: 30626753.
30. Gillison ML, Akagi K, Xiao W, Jiang B, Pickard RKL, Li J, Swanson BJ, Agrawal AD, Zucker M, Stache-Crain B, Emde AK, Geiger HM, Robine N, Coombes KR, Symer DE. Human papillomavirus and the landscape of secondary genetic alterations in oral cancers. Genome Res 29(1):1-17, 2019. e-Pub 2019. PMID: 30563911.
31. Suarez-Kelly LP, Akagi K, Reeser JW, Samorodnitsky E, Reeder M, Smith A, Roychowdhury S, Symer DE, Carson WE. Metaplastic breast cancer in a patient with neurofibromatosis type 1 and somatic loss of heterozygosity. Cold Spring Harb Mol Case Stud 4(2), 2018. e-Pub 2018. PMID: 29449315.
32. Warburton A, Redmond CJ, Dooley KE, Fu H, Gillison ML, Akagi K, Symer DE, Aladjem MI, McBride AA. HPV integration hijacks and multimerizes a cellular enhancer to generate a viral-cellular super-enhancer that drives high viral oncogene expression. PLoS Genet 14(1):e1007179, 2018. e-Pub 2018. PMID: 29364907.
33. El Refaey M, Xu L, Gao Y, Canan BD, Adesanya TMA, Warner SC, Akagi K, Symer DE, Mohler PJ, Ma J, Janssen PML, Han R. In Vivo Genome Editing Restores Dystrophin Expression and Cardiac Function in Dystrophic Mice. Circ Res 121(8):923-929, 2017. e-Pub 2017. PMID: 28790199.
34. Yoshida J, Akagi K, Misawa R, Kokubu C, Takeda J, Horie K. Chromatin states shape insertion profiles of the piggyBac, Tol2 and Sleeping Beauty transposons and murine leukemia virus. Sci Rep 7:43613, 2017. e-Pub 2017. PMID: 28252665.
35. Burgess MR, Hwang E, Mroue R, Bielski CM, Wandler AM, Huang BJ, Firestone AJ, Young A, Lacap JA, Crocker L, Asthana S, Davis EM, Xu J, Akagi K, Le Beau MM, Li Q, Haley B, Stokoe D, Sampath D, Taylor BS, Evangelista M, Shannon K. KRAS Allelic Imbalance Enhances Fitness and Modulates MAP Kinase Dependence in Cancer. Cell 168(5):817-829.e15, 2017. e-Pub 2017. PMID: 28215705.
36. Starrett GJ, Marcelus C, Cantalupo PG, Katz JP, Cheng J, Akagi K, Thakuria M, Rabinowits G, Wang LC, Symer DE, Pipas JM, Harris RS, DeCaprio JA. Merkel Cell Polyomavirus Exhibits Dominant Control of the Tumor Genome and Transcriptome in Virus-Associated Merkel Cell Carcinoma. MBio 8(1), 2017. e-Pub 2017. PMID: 28049147.
37. Ding X, Ray Chaudhuri A, Callen E, Pang Y, Biswas K, Klarmann KD, Martin BK, Burkett S, Cleveland L, Stauffer S, Sullivan T, Dewan A, Marks H, Tubbs AT, Wong N, Buehler E, Akagi K, Martin SE, Keller JR, Nussenzweig A, Sharan SK. Synthetic viability by BRCA2 and PARP1/ARTD1 deficiencies. Nat Commun 7:12425, 2016. e-Pub 2016. PMID: 27498558.
38. Tomsic J, He H, Akagi K, Liyanarachchi S, Pan Q, Bertani B, Nagy R, Symer DE, Blencowe BJ, de la Chapelle A. A germline mutation in SRRM2, a splicing factor gene, is implicated in papillary thyroid carcinoma predisposition. Sci Rep 5:10566, 2015. e-Pub 2015. PMID: 26135620.
39. He H, Li W, Liyanarachchi S, Srinivas M, Wang Y, Akagi K, Wang Y, Wu D, Wang Q, Jin V, Symer DE, Shen R, Phay J, Nagy R, de la Chapelle A. Multiple functional variants in long-range enhancer elements contribute to the risk of SNP rs965513 in thyroid cancer. Proc Natl Acad Sci U S A 112(19):6128-33, 2015. e-Pub 2015. PMID: 25918370.
40. Dail M, Wong J, Lawrence J, O'Connor D, Nakitandwe J, Chen SC, Xu J, Lee LB, Akagi K, Li Q, Aster JC, Pear WS, Downing JR, Sampath D, Shannon K. Loss of oncogenic Notch1 with resistance to a PI3K inhibitor in T-cell leukaemia. Nature 513(7519):512-6, 2014. e-Pub 2014. PMID: 25043004.
41. Li J, Kannan M, Trivett AL, Liao H, Wu X, bAkagi K, Symer DE. An antisense promoter in mouse L1 retrotransposon open reading frame-1 initiates expression of diverse fusion transcripts and limits retrotransposition. Nucleic Acids Res 42(7):4546-62, 2014. e-Pub 2014. PMID: 24493738.
42. Akagi K, Li J, Broutian TR, Padilla-Nash H, Xiao W, Jiang B, Rocco JW, Teknos TN, Kumar B, Wangsa D, He D, Ried T, Symer DE, Gillison ML. Genome-wide analysis of HPV integration in human cancers reveals recurrent, focal genomic instability. Genome Res 24(2):185-99, 2014. e-Pub 2014. PMID: 24201445.
43. Vyazunova I, Maklakova VI, Berman S, De I, Steffen MD, Hong W, Lincoln H, Morrissy AS, Taylor MD, Akagi K, Brennan CW, Rodriguez FJ, Collier LS. Sleeping Beauty mouse models identify candidate genes involved in gliomagenesis. PLoS One 9(11):e113489, 2014. e-Pub 2014. PMID: 25423036.
44. He H, Bronisz A, Liyanarachchi S, Nagy R, Li W, Huang Y, Akagi K, Saji M, Kula D, Wojcicka A, Sebastian N, Wen B, Puch Z, Kalemba M, Stachlewska E, Czetwertynska M, Dlugosinska J, Dymecka K, Ploski R, Krawczyk M, Morrison PJ, Ringel MD, Kloos RT, Jazdzewski K, Symer DE, Vieland VJ, Ostrowski M, Jarzab B, de la Chapelle A. SRGAP1 is a candidate gene for papillary thyroid carcinoma susceptibility. J Clin Endocrinol Metab 98(5):E973-80, 2013. e-Pub 2013. PMID: 23539728.
45. He H, Li W, Wu D, Nagy R, Liyanarachchi S, Akagi K, Jendrzejewski J, Jiao H, Hoag K, Wen B, Srinivas M, Waidyaratne G, Wang R, Wojcicka A, Lattimer IR, Stachlewska E, Czetwertynska M, Dlugosinska J, Gierlikowski W, Ploski R, Krawczyk M, Jazdzewski K, Kere J, Symer DE, Jin V, Wang Q, de la Chapelle A. Ultra-rare mutation in long-range enhancer predisposes to thyroid carcinoma with high penetrance. PLoS One 8(5):e61920, 2013. e-Pub 2013. PMID: 23690926.
46. Prüfer K, Munch K, Hellmann I, Akagi K, Miller JR, Walenz B, Koren S, Sutton G, Kodira C, Winer R, Knight JR, Mullikin JC, Meader SJ, Ponting CP, Lunter G, Higashino S, Hobolth A, Dutheil J, Karakoç E, Alkan C, Sajjadian S, Catacchio CR, Ventura M, Marques-Bonet T, Eichler EE, André C, Atencia R, Mugisha L, Junhold J, Patterson N, Siebauer M, Good JM, Fischer A, Ptak SE, Lachmann M, Symer DE, Mailund T, Schierup MH, Andrés AM, Kelso J, Pääbo S. The bonobo genome compared with the chimpanzee and human genomes. Nature 486(7404):527-31, 2012. e-Pub 2012. PMID: 22722832.
47. Li J, Akagi K, Hu Y, Trivett AL, Hlynialuk CJ, Swing DA, Volfovsky N, Morgan TC, Golubeva Y, Stephens RM, Smith DE, Symer DE. Mouse endogenous retroviruses can trigger premature transcriptional termination at a distance. Genome Res 22(5):870-84, 2012. e-Pub 2012. PMID: 22367191.
48. Wu X, Northcott PA, Dubuc A, Dupuy AJ, Shih DJ, Witt H, Croul S, Bouffet E, Fults DW, Eberhart CG, Garzia L, Van Meter T, Zagzag D, Jabado N, Schwartzentruber J, Majewski J, Scheetz TE, Pfister SM, Korshunov A, Li XN, Scherer SW, Cho YJ, Akagi K, MacDonald TJ, Koster J, McCabe MG, Sarver AL, Collins VP, Weiss WA, Largaespada DA, Collier LS, Taylor MD. Clonal selection drives genetic divergence of metastatic medulloblastoma. Nature 482(7386):529-33, 2012. e-Pub 2012. PMID: 22343890.
49. Horie K, Kokubu C, Yoshida J, Akagi K, Isotani A, Oshitani A, Yusa K, Ikeda R, Huang Y, Bradley A, Takeda J. A homozygous mutant embryonic stem cell bank applicable for phenotype-driven genetic screening. Nat Methods 8(12):1071-7, 2011. e-Pub 2011. PMID: 22020066.
50. Chang S, Wang RH, Akagi K, Kim KA, Martin BK, Cavallone L, Breast Cancer KCFCFRIF, Haines DC, Basik M, Mai P, Poggi E, Isaacs C, Looi LM, Mun KS, Greene MH, Byers SW, Teo SH, Deng CX, Sharan SK. Tumor suppressor BRCA1 epigenetically controls oncogenic microRNA-155. Nat Med 17(10):1275-82, 2011. e-Pub 2011. PMID: 21946536.
51. He H, Liyanarachchi S, Akagi K, Nagy R, Li J, Dietrich RC, Li W, Sebastian N, Wen B, Xin B, Singh J, Yan P, Alder H, Haan E, Wieczorek D, Albrecht B, Puffenberger E, Wang H, Westman JA, Padgett RA, Symer DE, de la Chapelle A. Mutations in U4atac snRNA, a component of the minor spliceosome, in the developmental disorder MOPD I. Science 332(6026):238-40, 2011. e-Pub 2011. PMID: 21474760.
52. Li Q, Haigis KM, McDaniel A, Harding-Theobald E, Kogan SC, Akagi K, Wong JC, Braun BS, Wolff L, Jacks T, Shannon K. Hematopoiesis and leukemogenesis in mice expressing oncogenic NrasG12D from the endogenous locus. Blood 117(6):2022-32, 2011. e-Pub 2011. PMID: 21163920.
53. Wong JC, Zhang Y, Lieuw KH, Tran MT, Forgo E, Weinfurtner K, Alzamora P, Kogan SC, Akagi K, Wolff L, Le Beau MM, Killeen N, Shannon K. Use of chromosome engineering to model a segmental deletion of chromosome band 7q22 found in myeloid malignancies. Blood 115(22):4524-32, 2010. e-Pub 2010. PMID: 20233966.
54. Mendrysa SM, Akagi K, Roayaei J, Lien WH, Copeland NG, Jenkins NA, Eisenman RN. An Integrated Genetic-Genomic Approach for the Identification of Novel Cancer Loci in Mice Sensitized to c-Myc-Induced Apoptosis. Genes Cancer 1(5):465-479, 2010. e-Pub 2010. PMID: 20927200.
55. Bender AM, Collier LS, Rodriguez FJ, Tieu C, Larson JD, Halder C, Mahlum E, Kollmeyer TM, Akagi K Sarkar G, Largaespada DA, Jenkins RB. Sleeping beauty-mediated somatic mutagenesis implicates CSF1 in the formation of high-grade astrocytomas. Cancer Res 70(9):3557-65, 2010. e-Pub 2010. PMID: 20388773.
56. Dail M, Li Q, McDaniel A, Wong J, Akagi K, Huang B, Kang HC, Kogan SC, Shokat K, Wolff L, Braun BS, Shannon K. Mutant Ikzf1, KrasG12D, and Notch1 cooperate in T lineage leukemogenesis and modulate responses to targeted agents. Proc Natl Acad Sci U S A 107(11):5106-11, 2010. e-Pub 2010. PMID: 20194733.
57. Akagi K, Stephens RM, Li J, Evdokimov E, Kuehn MR, Volfovsky N, Symer DE. MouseIndelDB: a database integrating genomic indel polymorphisms that distinguish mouse strains. Nucleic Acids Res 38(Database issue):D600-6, 2010. e-Pub 2010. PMID: 19933259.
58. Ishimura A, Terashima M, Kimura H, Akagi K, Suzuki Y, Sugano S, Suzuki T. Jmjd2c histone demethylase enhances the expression of Mdm2 oncogene. Biochem Biophys Res Commun 389(2):366-71, 2009. e-Pub 2009. PMID: 19732750.
59. Lauchle JO, Kim D, Le DT, Akagi K Crone M, Krisman K, Warner K, Bonifas JM, Li Q, Coakley KM, Diaz-Flores E, Gorman M, Przybranowski S, Tran M, Kogan SC, Roose JP, Copeland NG, Jenkins NA, Parada L, Wolff L, Sebolt-Leopold J, Shannon K. Response and resistance to MEK inhibition in leukaemias initiated by hyperactive Ras. Nature 461(7262):411-4, 2009. e-Pub 2009. PMID: 19727076.
60. Rahrmann EP, Collier LS, Knutson TP, Doyal ME, Kuslak SL, Green LE, Malinowski RL, Roethe L, Akagi K, Waknitz M, Huang W, Largaespada DA, Marker PC. Identification of PDE4D as a proliferation promoting factor in prostate cancer using a Sleeping Beauty transposon-based somatic mutagenesis screen. Cancer Res 69(10):4388-97, 2009. e-Pub 2009. PMID: 19401450.
61. Kim YJ, Kim YS, Larochelle A, Renaud G, Wolfsberg TG, Adler R, Donahue RE, Hematti P, Hong BK, Roayaei J, Akagi K, Riberdy JM, Nienhuis AW, Dunbar CE, Persons DA. Sustained high-level polyclonal hematopoietic marking and transgene expression 4 years after autologous transplantation of rhesus macaques with SIV lentiviral vector-transduced CD34+ cells. Blood 113(22):5434-43, 2009. e-Pub 2009. PMID: 19339698.
62. Davé UP, Akagi K, Tripathi R, Cleveland SM, Thompson MA, Yi M, Stephens R, Downing JR, Jenkins NA, Copeland NG. Murine leukemias with retroviral insertions at Lmo2 are predictive of the leukemias induced in SCID-X1 patients following retroviral gene therapy. PLoS Genet 5(5):e1000491, 2009. e-Pub 2009. PMID: 19461887.
63. Keng VW, Villanueva A, Chiang DY, Dupuy AJ, Ryan BJ, Matise I, Silverstein KA, Sarver A, Starr TK, Akagi K, Tessarollo L, Collier LS, Powers S, Lowe SW, Jenkins NA, Copeland NG, Llovet JM, Largaespada DA. A conditional transposon-based insertional mutagenesis screen for genes associated with mouse hepatocellular carcinoma. Nat Biotechnol 27(3):264-74, 2009. e-Pub 2009. PMID: 19234449.
64. Tessarollo L, Palko ME, Akagi K, Coppola V. Gene targeting in mouse embryonic stem cells. Methods Mol Biol 530:141-64, 2009. e-Pub 2009. PMID: 19266325.
65. Akagi K, Li J, Stephens RM, Volfovsky N, Symer DE. Extensive variation between inbred mouse strains due to endogenous L1 retrotransposition. Genome Res 18(6):869-80, 2008. e-Pub 2008. PMID: 18381897.
66. Suzuki T, Minehata K, Akagi K, Jenkins NA, Copeland NG. Tumor suppressor gene identification using retroviral insertional mutagenesis in Blm-deficient mice. EMBO J 25(14):3422-31, 2006. e-Pub 2006. PMID: 16858412.
67. Keng VW, Yae K, Hayakawa T, Mizuno S, Uno Y, Yusa K, Kokubu C, Kinoshita T, Akagi K, Jenkins NA, Copeland NG, Horie K, Takeda J. Region-specific saturation germline mutagenesis in mice using the Sleeping Beauty transposon system. Nat Methods 2(10):763-9, 2005. e-Pub 2005. PMID: 16179923.
68. Calmels B, Ferguson C, Laukkanen MO, Adler R, Faulhaber M, Kim HJ, Sellers S, Hematti P, Schmidt M, von Kalle C, Akagi K, Donahue RE, Dunbar CE. Recurrent retroviral vector integration at the Mds1/Evi1 locus in nonhuman primate hematopoietic cells. Blood 106(7):2530-3, 2005. e-Pub 2005. PMID: 15933056.
69. Dupuy AJ, Akagi K, Largaespada DA, Copeland NG, Jenkins NA. Mammalian mutagenesis using a highly mobile somatic Sleeping Beauty transposon system. Nature 436(7048):221-6, 2005. e-Pub 2005. PMID: 16015321.
70. Shin MS, Fredrickson TN, Hartley JW, Suzuki T, Akagi K, Agaki K, Morse HC. High-throughput retroviral tagging for identification of genes involved in initiation and progression of mouse splenic marginal zone lymphomas. Cancer Res 64(13):4419-27, 2004. e-Pub 2004. PMID: 15231650.
71. Akagi K, Suzuki T, Stephens RM, Jenkins NA, Copeland NG. RTCGD: retroviral tagged cancer gene database. Nucleic Acids Res 32(Database issue):D523-7, 2004. e-Pub 2004. PMID: 14681473.
72. Warming S, Liu P, Suzuki T, Akagi K, Lindtner S, Pavlakis GN, Jenkins NA, Copeland NG. Evi3, a common retroviral integration site in murine B-cell lymphoma, encodes an EBFAZ-related Krüppel-like zinc finger protein. Blood 101(5):1934-40, 2003. e-Pub 2003. PMID: 12393497.
73. Suzuki T, Shen H, Akagi K, Morse HC, Malley JD, Naiman DQ, Jenkins NA, Copeland NG. New genes involved in cancer identified by retroviral tagging. Nat Genet 32(1):166-74, 2002. e-Pub 2002. PMID: 12185365.
74. Akagi K, Kyun Park E, Mood K, Daar IO. Docking protein SNT1 is a critical mediator of fibroblast growth factor signaling during Xenopus embryonic development. Dev Dyn 223(2):216-28, 2002. e-Pub 2002. PMID: 11836786.

Invited Articles

1. Akagi K, Li J, Symer DE. How do mammalian transposons induce genetic variation? A conceptual framework: the age, structure, allele frequency, and genome context of transposable elements may define their wide-ranging biological impacts. Bioessays 35(4):397-407, 2013. e-Pub 2013. PMID: 23319453.

Other Articles

1. Symer DE, Akagi K, Geiger HM, Song Y, Li G, Emde AK, Xiao W, Jiang B, Corvelo A, Toussaint NC, Li J, Agrawal A, Ozer E, El-Naggar AK, Du Z, Shewale JB, Stache-Crain B, Zucker M, Robine N, Coombes KR, Gillison ML Diverse tumorigenic consequences of human papillomavirus integration in primary oropharyngeal cancers. Genome Res 32(1):55-70, 2022. PMID: 34903527.

Book Chapters

1. Akagi K, Ming Y, Toayaei J, Stephens RM. Bioinformatics of High-throughput Insertional Mutagenesis. In: Insertional Mutagenesis Strategies in Cancer Genetics. Springer, 2010.