2021
Mosig, R.A., and Kojima, S. (2021) Timing without coding: How do long non-coding RNAs regulate circadian rhythms? Seminars in Cell and Developmental Biology S1084-9521(21)00093-8
https://pubmed.ncbi.nlm.nih.gov/34116930/
Mosig, R.A., Castaneda, A.N., Deslauriers, J.C., Frazier, L.P., He, K.L., Maghzian, N., Pokharel, A., Schrier, C.T., Zhu, L., Koike, N., Tyson, J.J., Green, C.B., Takahashi, J.S., Kojima, S. (2021) Natural antisense transcript of Period2, Per2AS, regulates the amplitude of the murine circadian clock. Genes and Development. 35: 899-913
https://pubmed.ncbi.nlm.nih.gov/34016691/
2020
Littleton, E.S., Childress, M.L., Gosting, M.L., Jackson, A.N., Kojima, S. Genome-wide correlation analysis to identify amplitude regulators of circadian transcriptome output. Scientific Reports,10:21839
https://pubmed.ncbi.nlm.nih.gov/33318596/
Unruh BA, Kojima S. (2020) The Making and Breaking of RNAs: Dynamics of Rhythmic RNA Expression in mammals. Journal of Biological Rhythms. 35 (6): 519-529
https://pubmed.ncbi.nlm.nih.gov/32965157/
Yao, X, Kojima, S., and Chen, J. (2020) Critical role of deadenylation in regulating poly(A) rhythms and circadian gene expression. PLoS Computational Biology 16(4):e1007842.
https://www.ncbi.nlm.nih.gov/pubmed/32339166
Mosig, R.A. and Kojima, S. To code or not to code? That is the question for RNA in timekeeping. Biochem (Lond) 42 (2): BIO04202005.
https://doi.org/10.1042/BIO04202005
2019
Kojima, S. and Cimini D. (2019) Aneuploidy and gene expression: Is there dosage compensation? Epigenomics. 11(16): 1827-1837.
https://www.ncbi.nlm.nih.gov/pubmed/31755744
2018
Gendreau K.L*., Unruh, B.A*., Zhou, C., and Kojima. S. (2018) Identification and Characterization of Transcripts Regulated by Circadian Alternative Polyadenylation in Mouse Liver. G3: Genes, Genomes, Genetics. 8 (11), 3539-3548.
www.ncbi.nlm.nih.gov/pubmed/30181259
Kojima, S. (2018) “徒然独立日記〜黎明編〜” Japanese Society for Chronobiology Magazine 24 (1), 59-65. (Japanese)
http://chronobiology.jp/journal/JSC2018-1-059.pdf
Battogtokh D., Kojima, S., Tyson, J.J., (2018) Modeling the interactions of sense and antisense Period transcripts in the mammalian circadian clock network. PLoS Comput. Biol., 14 (2), e1005967
www.ncbi.nlm.nih.gov/pubmed/29447160
2017
Yoo, S-H, Kojima, S., Shimomura, K., Koike, N., Buhr, E., Furukawa, T., Ko, C.H., Gloston, G., Ayoub, C., Nohara, K., Reyes, B.A., Tsuchiya, Y., Yoo, O-J., Yagita, K., Lee, C., Chen, Z., Yamazaki, S., Green, C.B., Takahashi, J.S. (2017) Period2 3′-UTR and microRNA-24 regulate circadian rhythms by repressing PERIOD2 protein accumulation. Proc. Natl. Acad. Sci. USA, 114 (42), E8855-E8864.
https://www.ncbi.nlm.nih.gov/pubmed/28973913
2015
Kojima, S., Gendreau, K.L., Sher-Chen, E.L., Gao, P., and Green, C.B. (2015) Changes in poly(A) tail length dynamics from the loss of the circadian deadenylase, Nocturnin. Sci. Rep., 5: 17059
https://www.ncbi.nlm.nih.gov/pubmed/26586468
Kojima, S., and Green, C.B. (2015) Analysis of Circadian Regulation of Poly(A)-Tail Length. Methods in Enzymology 551:387-403
www.ncbi.nlm.nih.gov/pubmed/25662466
Kojima, S., and Green, C.B. (2015) Circadian genomics reveals a role for post-transcriptional regulation in mammals. Biochemistry 54(2):124-133.
www.ncbi.nlm.nih.gov/pubmed/25303020