Ikegami Lab
Publications

Publications

Selected Publications

Secchia, S; Beilinson, V; Chen, X; Gucwa, M; Denson, LA; Miraldi, ER; Weirauch, MT; Ikegami, K. Starvation activates ECM-remodeling gene transcription and putative enhancers in fibroblasts despite inducing quiescence. Cell reports. 2025; 44(7):115896.

En, A; Bogireddi, H; Thomas, B; Stutzman, AV; Ikegami, S; Laforest, B; Almakki, O; Pytel, P; Moskowitz, IP; Ikegami, K. Pervasive nuclear envelope ruptures precede ECM signaling and disease onset without activating cGAS-STING in Lamin-cardiomyopathy mice. Cell reports. 2024; 43(6):114284.

Steimle, JD; Kim, C; Rowton, M; Nadadur, RD; Wang, Z; Stocker, M; Hoffmann, AD; Hanson, E; Kweon, J; Sinha, T; Choi, K; Black, BL; Cunningham, JM; Moskowitz, IP; Ikegami, K. ETV2 primes hematoendothelial gene enhancers prior to hematoendothelial fate commitment. Cell reports. 2023; 42(6):112665.

Rowton, M; Perez-Cervantes, C; Hur, S; Jacobs-Li, J; Lu, E; Deng, N; Guzzetta, A; Hoffmann, AD; Stocker, M; Steimle, JD; Basu, A; Ikegami, K; Pott, S; Moskowitz, IP. Hedgehog signaling activates a mammalian heterochronic gene regulatory network controlling differentiation timing across lineages. Developmental Cell. 2022; 57(18):2181-2203.e9.

Rankin, SA; Steimle, JD; Yang, XH; Rydeen, AB; Agarwal, K; Chaturvedi, P; Ikegami, K; Herriges, MJ; Moskowitz, IP; Zorn, AM. Tbx5 drives Aldh1a2 expression to regulate a RA-Hedgehog-Wnt gene regulatory network coordinating cardiopulmonary development. eLife. 2021; 10.

Liu, SY; Ikegami, K. Nuclear lamin phosphorylation: an emerging role in gene regulation and pathogenesis of laminopathies. Nucleus. 2020; 11(1):299-314.

Ikegami, K; Secchia, S; Almakki, O; Lieb, JD; Moskowitz, IP. Phosphorylated Lamin A/C in the Nuclear Interior Binds Active Enhancers Associated with Abnormal Transcription in Progeria. Developmental Cell. 2020; 52(6):699-713.e11.

Berkseth, M; Ikegami, K; Arur, S; Lieb, JD; Zarkower, D. TRA-1 ChIP-seq reveals regulators of sexual differentiation and multilevel feedback in nematode sex determination. Proceedings of the National Academy of Sciences of the United States of America. 2013; 110(40):16033-16038.

Ikegami, K; Lieb, JD. Integral nuclear pore proteins bind to Pol III-transcribed genes and are required for Pol III transcript processing in C. elegans. Molecular Cell. 2013; 51(6):840-849.

Liu, T; Rechtsteiner, A; Egelhofer, TA; Vielle, A; Latorre, I; Cheung, M-S; Ercan, S; Ikegami, K; Jensen, M; Kolasinska-Zwierz, P; Lieb, JD; Ahringer, J; Strome, S; Liu, XS. Broad chromosomal domains of histone modification patterns in C. elegans. Genome Research. 2011; 21(2):227-236.

Gerstein, MB; Lu, ZJ; Van Nostrand, EL; Cheng, C; Arshinoff, BI; Liu, T; Yip, KY; Robilotto, R; Rechtsteiner, A; Ikegami, K; Snyder, M; Stein, L; Lieb, JD; Waterston, RH. Integrative analysis of the Caenorhabditis elegans genome by the modENCODE project. Science. 2010; 330(6012):1775-1787.

Ikegami, K; Egelhofer, TA; Strome, S; Lieb, JD. Caenorhabditis elegans chromosome arms are anchored to the nuclear membrane via discontinuous association with LEM-2. Genome Biology. 2010; 11(12):R120.

Ikegami, K; Iwatani, M; Suzuki, M; Tachibana, M; Shinkai, Y; Tanaka, S; Greally, JM; Yagi, S; Hattori, N; Shiota, K. Genome-wide and locus-specific DNA hypomethylation in G9a deficient mouse embryonic stem cells. Genes to Cells. 2007; 12(1):1-11.

Secchia, S; Beilinson, V; Chen, X; Gucwa, M; Denson, LA; Miraldi, ER; Weirauch, MT; Ikegami, K. Starvation activates ECM-remodeling gene transcription and putative enhancers in fibroblasts despite inducing quiescence. Cell reports. 2025; 44(7):115896.

En, A; Bogireddi, H; Thomas, B; Stutzman, AV; Ikegami, S; Laforest, B; Almakki, O; Pytel, P; Moskowitz, IP; Ikegami, K. Pervasive nuclear envelope ruptures precede ECM signaling and disease onset without activating cGAS-STING in Lamin-cardiomyopathy mice. Cell reports. 2024; 43(6):114284.

Broman, MT; Nadadur, RD; Perez-Cervantes, C; Burnicka-Turek, O; Lazarevic, S; Gams, A; Laforest, B; Steimle, JD; Iddir, S; Wang, Z; Weber, CR; Mcnally, EM; Svensson, EC; Moskowitz, IP. A Genomic Link From Heart Failure to Atrial Fibrillation Risk: FOG2 Modulates a TBX5/GATA4-Dependent Atrial Gene Regulatory Network. Circulation. 2024; 149(15):1205-1230.

Steimle, JD; Kim, C; Rowton, M; Nadadur, RD; Wang, Z; Stocker, M; Hoffmann, AD; Hanson, E; Kweon, J; Sinha, T; Choi, K; Black, BL; Cunningham, JM; Moskowitz, IP; Ikegami, K. ETV2 primes hematoendothelial gene enhancers prior to hematoendothelial fate commitment. Cell reports. 2023; 42(6):112665.

Rowton, M; Perez-Cervantes, C; Hur, S; Jacobs-Li, J; Lu, E; Deng, N; Guzzetta, A; Hoffmann, AD; Stocker, M; Steimle, JD; Basu, A; Ikegami, K; Pott, S; Moskowitz, IP. Hedgehog signaling activates a mammalian heterochronic gene regulatory network controlling differentiation timing across lineages. Developmental Cell. 2022; 57(18):2181-2203.e9.

Sinha, T; Lammerts Van Bueren, K; Dickel, DE; Zlatanova, I; Thomas, R; Lizama, CO; Xu, S-M; Zovein, AC; Ikegami, K; Moskowitz, IP; Pollard, KS; Pennacchio, LA; Black, BL. Differential Etv2 threshold requirement for endothelial and erythropoietic development. Cell reports. 2022; 39(9):110881.

Rankin, SA; Steimle, JD; Yang, XH; Rydeen, AB; Agarwal, K; Chaturvedi, P; Ikegami, K; Herriges, MJ; Moskowitz, IP; Zorn, AM. Tbx5 drives Aldh1a2 expression to regulate a RA-Hedgehog-Wnt gene regulatory network coordinating cardiopulmonary development. eLife. 2021; 10.

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