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Selected publications
1. Ushiki A, Zhang Y, Xiong C, Zhao J, Georgakopoulos-Soares I, Kane L, Jamieson K, Bamshad MJ, Nickerson DA, University of Washington Center for Mendelian Genomics, Shen Y, Lettice LA, Silveira-Lucas EL, Petit F, Ahituv N.
‘Deletion of CTCF sites in the SHH locus alters enhancer-promoter interactions and leads to acheiropodia.’
Nature Communications 2021 Apr 16; 12(1):2282. PMID: 33863876.
*Featured in the Nature Communications Editors’ Highlights webpage
2. Ushiki A*, Sheng R*, Zhang Y, Zhao J, Nobuhara M, Murray E, Ruan X, Rios JJ, Wise CA, Ahituv N.
‘Deletion of Pax1 scoliosis-associated regulatory elements leads to a female-biased tail abnormality’
Cell Reports 2024 (*Co-first author) PMID: 38461417
3. Yu H*, Khanshour AM*, Ushiki A*, Li XY, Otomo N, Koike Y, Einarsdottir E, Fan Y, Antunes L, Kidane Y, Sheng R, Zhang Y, Pei J, Grishin N, Evers B, Cheung JPY, Herring JA, Song YQ, Gurnett CA, Gerdhem P, Ikegawa JS, Rios JJ, Weiss S, Ahituv N, Wise CA. ‘Association of genetic variation in COL11A1 with adolescent idiopathic scoliosis’
eLife 2024 (*Co-first author) PMID: 38277211
4. Ushiki A, Matsuzaki H, Fukamizu A, Tanimoto K.
‘Homeostatic Response of Mouse Renin Gene Transcription in a Hypertensive Environment Is Mediated by a Novel 5′ Enhancer.’
Molecular and Cellular Biology 2018 04 01; 38(7). PMID: 29358217
5. Ushiki A, Matsuzaki H, Ishida J, Fukamizu A, Tanimoto K.
‘Long-Range Control of Renin Gene Expression in Tsukuba Hypertensive Mice.’
PLoS One 2016; 11(11):e0166974. PMID: 27861631.
6. Matsuzaki H, Okamura E, Takahashi T, Ushiki A, Nakamura T, Nakano T, Hata K, Fukamizu A, Tanimoto K.
‘De novo DNA methylation through the 5′-segment of the H19 ICR maintains its imprint during early embryogenesis.’
Development 2015 Nov 15; 142(22):3833-44. PMID: 26417043
Preprints
7. Nguyen HP, Ushiki A, Sheng R, Biellak C, An K, Choquet H, Hoffman T, Gray R, Ahituv N.
‘ADGRG6 promotes adipogenesis and is involved in gender-specific fat distribution.’
bioRxiv https://doi.org/10.1101/2022.06.24.497411
8. Nguyen HP, Chan CS, Cintron DL, Sheng R, Harshman L, Nobuhara M, Ushiki A, Biellak C, An K, Gordon GM, Mifsud F, Blake A, Huang EJ, Hemberg M, Vaisse C, Ahituv N.
‘Integrative single-cell characterization of hypothalamus sex-differential and obesity-associated genes and regulatory elements.’
bioRxiv https://doi.org/10.1101/2022.11.06.515311
9. Nguyen HP, An K, Ito Y, Kharbikar B, Sheng R, Paredes B, Murray E, Pham K, Bruck M, Biellak C, Ushiki A, Lynce F, Dillon DA, Magbanua MJM, Huppert LA, Hammerlindl H, Esserman L, Desai TA, Rosenbluth JM, Ahituv N ‘Implantation of engineered adipocytes that outcompete tumors for resources suppresses cancer progression and development’
bioRxiv https://www.biorxiv.org/content/10.1101/2023.03.28.534564v1
Publications
10. Makki N, Zhao J, Liu Z, Eckalbar WL, Ushiki A, Khanshour AM, Wu J, Rios J, Gray RS, Wise CA, Ahituv N.
‘Genomic characterization of the adolescent idiopathic scoliosis-associated transcriptome and regulome.’
Human Molecular Genetics 2021 01 21; 29(22):3606-3615. PMID: 33179741.
11. Wise CA, Sepich D, Ushiki A, Khanshour AM, Kidane YH, Makki N, Gurnett CA, Gray RS, Rios JJ, Ahituv N, Solnica-Krezel L. ‘The cartilage matrisome in adolescent idiopathic scoliosis.’
Bone Research 2020 Mar 09; 8(1):13. PMID: 32195011.
12. Matsuzaki H, Kuramochi D, Okamura E, Hirakawa K, Ushiki A, Tanimoto K.
‘Recapitulation of gametic DNA methylation and its post-fertilization maintenance with reassembled DNA elements at the mouse Igf2/H19 locus.’
Epigenetics & Chromatin. 2020 01 14; 13(1):2. PMID: 31937365.
13. Tanimoto K, Matsuzaki H, Okamura E, Ushiki A, Fukamizu A, Engel JD.
‘Transvection-like interchromosomal interaction is not observed at the transcriptional level when tested in the Rosa26 locus in mouse.’
PLoS One. 2019; 14(2):e0203099. PMID: 30763343.
14. Matsuzaki H, Okamura E, Kuramochi D, Ushiki A, Hirakawa K, Fukamizu A, Tanimoto K.
‘Synthetic DNA fragments bearing ICR cis elements become differentially methylated and recapitulate genomic imprinting in transgenic mice.’
Epigenetics & Chromatin. 2018 06 29; 11(1):36. PMID: 29958543.
15. Tanimoto K, Kanafusa S, Ushiki A, Matsuzaki H, Ishida J, Sugiyama F, Fukamizu A.
‘A mouse renin distal enhancer is essential for blood pressure homeostasis in BAC-rescued renin-null mutant mice.’
Journal of Receptors and Signal Transduction 2014 Oct; 34(5):401-9. PMID: 24734888.