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Publications since 2019
Publications since 2019
Gunarathna S, Nagornyuk A, Belabbaci N, Nguyen R, Ghosh B, Ganai S, Lemke T, Garry C, Saotome M, Yu M, Takada M, Wang X, and Takaku M.
Open Chromatin Guided Interpretable Machine Learning Reveals Cancer-Specific Chromatin Features in Cell-free DNA.
Communications Biology (2025). doi: 10.1038/s42003-025-08920-0
Gura K, Long T, Takaku M*, Dhasarathy A*, and Manu*.
Assay for transposase-accessible chromatin sequencing (ATAC-seq) of cancer cells in culture.
Methods in Molecular Biology (2025, in press).
*corresponding authors
Li Z, Burgos-Bravo F, Xu K, Li C, Kwan KY, Tong AB, Zelin S, Wang H, Takaku M, Li J, Shi Z, Lyumkis D, Bustamante C, and Fei J.
Phase-Separated NDF-FACT Condensates Facilitate Transcription Elongation on Chromatin.
Nature Cell Biology (2025). doi: 10.1038/s41556-025-01778-8. PMID: 41028835
Grindeland J, Yang J, Yang J, Takaku M*, Dhasarathy A*.
Divergent ERα Co-factor Landscapes in Gynecological Cancers: Implications for Disease Progression and Therapy.
Biochemistry and Cell Biology (2025). doi: 10.1139/bcb-2025-0158. PMID: 40768768
*corresponding authors
Chen Y, Takada M, Nagornyuk A, Muhan W, Yamada H, Nagashima T, Ohtsuka M, DeLuca JG, Markus S, Takaku M, and Suzuki A.
Inhibition of p38-MK2 pathway enhances the efficacy of microtubule inhibitors in breast cancer cells.
eLife (2025). doi: 10.7554/eLife.104859. PMID: 40439108
Norman RX, Chen Y, Loi J, Saotome M, Ghosh B, Recchia EE, Rosemarie Q, Lesko SL, Patel S, Sherer N, Sugden B, Takaku M, Burkard MR, Suzuki A.
One step 3D-ChromExM: robust super-resolution microscopy for nuclear structures.
Journal of Cell Biology (2025). doi: 10.1083/jcb.202407116. PMID: 39625433
Saotome M, Goodman J, Takaku M.
Capturing Chromatin Organization by ATAC-seq and MNase-seq.
Methods in Molecular Biology (2025). doi: 10.1007/978-1-0716-4322-8_12. PMID: 39745612
Saotome M, Poduval DB, Grimm SA, Nagornyuk A, Gunarathna S, Shimbo T, Wade PA*, and Takaku M*.
Genomic transcription factor binding site selection is edited by the chromatin remodeling factor CHD4.
Nucleic Acids Research (2024). doi: 10.1093/nar/gkae025. PMID: 38281186
*corresponding authors
Wilbourne J, Jia S, Fogarty A, Jiang R, Takaku M, Zhao F.
Crucial roles of the mesenchymal androgen receptor in Wolffian duct development.
Endocrinology (2024). doi: 10.1210/endocr/bqad193. PMID: 38146640
Cooper M*, Ray A*, Bhattacharya A, Dhasarathy A, Takaku M.
ATAC-seq Optimization for Cancer Epigenetics Research.
Journal of Visualized Experiments (2022). doi: 10.3791/64242
*co-first authors
Saotome M, Poduval DB, Nair R, Cooper M, Takaku M.
GATA3 truncation mutants alter EMT related gene expression via partial motif recognition in luminal breast cancer cells.
Frontiers in Genetics (2022). doi: 10.3389/fgene.2022.820532
Ansari KI, Bhan A, Saotome M, Tyagi A, De Kumar B, Chen C, Takaku M, Jandial R.
Autocrine GM-CSF signaling contributes to growth of HER2+ breast leptomeningeal carcinomatosis.
Cancer Research (2021). doi: 10.1158/0008-5472.CAN-21-0259
Saotome M, Takaku M.
Analysis of protein complexes using gel filtration chromatography.
PSSJ Archives 14, e100 (2021)
Tanaka H*, Takizawa Y*, Takaku M*, Kato D, Kumagawa Y, Grimm SA, Wade PA, Kurumizaka K.
Interaction of the pioneer transcription factor GATA3 with nucleosomes.
Nature Communications (2020) 11(1):4136. doi: 10.1038/s41467-020-17959-y
*first authors
Takaku M*, Grimm SA, Kumar BD, Bennett BD, and Wade PA*.
Cancer-specific mutation of GATA3 disrupts the transcriptional regulatory network governed by Estrogen Receptor alpha, FOXA1 and GATA3.
Nucleic Acids Research (2020) 48(9):4756-4768. doi: 10.1093/nar/gkaa179
*corresponding authors
This paper was recommended in Faculty Opinions (F1000Prime) as a significant paper.
Machida S, Depierre D, Chen HC, Thenin-Houssier S, Petitjean G, Doyen C, Takaku M, Cuvier O and Benkirane M.
Exploring histone loading on unintegrated HIV DNA reveals a dynamic nucleosome positioning between unintegrated and integrated viral genome.
Proceedings of the National Academy of Sciences USA (2020) 117(12):6822-6830. doi: 10.1073/pnas.1913754117
Weiss K, Lazar HP, Kurolap A, Martinez AF, Paperna T, Cohen L, Smeland MF, Wallen S, Solveig H, Keren B, Terhal P, Irving M, Takaku M, …, Lachlan K.
The CHD4-related syndrome: a comprehensive investigation of the clinical spectrum, genotype-phenotype correlations, and molecular basis.
Genetics in Medicine (2019). doi: 10.1038/s41436-019-0612-0
Grimm SA, Shimbo T, Takaku M, Thomas JW, Auerbach S, Bennett B, Bucher JR, Burkholder AB, Day F, Du Y, French JE, Li J, Merrick BA, Tice RR, Wang T, Xu X, Bushel P, Fargo DC, Mullikin JC, Wade PA.
DNA methylation in mice is influenced by genetics as well as sex and life experience.
Nature Communications (2019) 10(1).
Selected Earlier Publications
Selected Earlier Publications
Takaku M, Grimm SA, Roberts JD, Chrysovergis K, Bennett BD, Myers P, Perera L, Tucker CJ, Perou CM, Wade PA.
GATA3 Zinc Finger 2 mutations reprogram the breast cancer transcriptional network.
Nature Communications. 2018.
Zhang S, Takaku M, Zou L, Gu A, Chou W, Zhang G, Wu B, Kong Q, Thomas SY, Serody JS, Chen X, Xu X, Wade PA, Cook DN, Ting JP, Wan YY.
Releasing Ski–Smad4 mediated suppression is essential to license Th17 differentiation.
Nature. 2017.
Takaku M, Grimm SA, Shimbo T, Perera L, Menafra R, Stunnenberg HG, Archer TK, Machida S, Kurumizaka H, Wade PA.
GATA3-dependent cellular reprogramming requires activation-domain dependent recruitment of a chromatin remodeler.
Genome Biology. 2016.
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