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2022
Nollmann M, Bennabi I, Götz M, Gregor T. The Impact of Space and Time on the Functional Output of the Genome. Cold Spring Harb Perspect Biol. 2022 ;14(4).
Ravindran PT, McFann S, Thornton RH, Toettcher JE. A synthetic gene circuit for imaging-free detection of signaling pulses. Cell Syst. 2022 ;13(2):131-142.e13.
2021
Lim B, Levine MS. Enhancer-promoter communication: hubs or loops?. Curr Opin Genet Dev. 2021 ;67:5-9.
Park CY, Zhou J, Wong AK, Chen KM, Theesfeld CL, Darnell RB, et al. Genome-wide landscape of RNA-binding protein target site dysregulation reveals a major impact on psychiatric disorder risk. Nat Genet. 2021 ;53(2):166-173.
Hussmann JA, Ling J, Ravisankar P, Yan J, Cirincione A, Xu A, et al. Mapping the genetic landscape of DNA double-strand break repair. Cell. 2021 ;184(22):5653-5669.e25.
Seo KW, Kleiner RE. Mechanisms of epitranscriptomic gene regulation. Biopolymers. 2021 ;112(1):e23403.
Cofer EM, Raimundo J, Tadych A, Yamazaki Y, Wong AK, Theesfeld CL, et al. Modeling transcriptional regulation of model species with deep learning. Genome Res. 2021 ;31(6):1097-1105.
Covington BC, Xu F, Seyedsayamdost MR. A Natural Product Chemist's Guide to Unlocking Silent Biosynthetic Gene Clusters. Annu Rev Biochem. 2021 ;90:763-788.
Zhao EM, Lalwani MA, Chen J-M, Orillac P, Toettcher JE, Avalos JL. Optogenetic Amplification Circuits for Light-Induced Metabolic Control. ACS Synth Biol. 2021 ;10(5):1143-1154.
Moore RS, Kaletsky R, Lesnik C, Cota V, Blackman E, Parsons LR, et al. The role of the Cer1 transposon in horizontal transfer of transgenerational memory. Cell. 2021 ;184(18):4697-4712.e18.
Ruf-Zamojski F, Zhang Z, Zamojski M, Smith GR, Mendelev N, Liu H, et al. Single nucleus multi-omics regulatory landscape of the murine pituitary. Nat Commun. 2021 ;12(1):2677.
Bauer M, Petkova MD, Gregor T, Wieschaus EF, Bialek W. Trading bits in the readout from a genetic network. Proc Natl Acad Sci U S A. 2021 ;118(46).
2020
Alfaro-Aco R, Thawani A, Petry S. Biochemical reconstitution of branching microtubule nucleation. Elife. 2020 ;9.
Replogle JM, Norman TM, Xu A, Hussmann JA, Chen J, J Cogan Z, et al. Combinatorial single-cell CRISPR screens by direct guide RNA capture and targeted sequencing. Nat Biotechnol. 2020 ;38(8):954-961.
Zhao S, Jang C, Liu J, Uehara K, Gilbert M, Izzo L, et al. Dietary fructose feeds hepatic lipogenesis via microbiota-derived acetate. Nature. 2020 ;579(7800):586-591.
Ravindran PT, Wilson MZ, Jena SG, Toettcher JE. Engineering combinatorial and dynamic decoders using synthetic immediate-early genes. Commun Biol. 2020 ;3(1):436.
Guan D, Xiong Y, Trinh TMinh, Xiao Y, Hu W, Jiang C, et al. The hepatocyte clock and feeding control chronophysiology of multiple liver cell types. Science. 2020 ;369(6509):1388-1394.
Kyrchanova O, Maksimenko O, Ibragimov A, Sokolov V, Postika N, Lukyanova M, et al. The insulator functions of the polydactyl C2H2 zinc finger protein CTCF: Necessity versus sufficiency. Sci Adv. 2020 ;6(13):eaaz3152.
Wei M-T, Chang Y-C, Shimobayashi SF, Shin Y, Strom AR, Brangwynne CP. Nucleated transcriptional condensates amplify gene expression. Nat Cell Biol. 2020 ;22(10):1187-1196.
Heimbucher T, Hog J, Gupta P, Murphy CT. PQM-1 controls hypoxic survival via regulation of lipid metabolism. Nat Commun. 2020 ;11(1):4627.
Seo KW, Kleiner RE. YTHDF2 Recognition of N-Methyladenosine (mA)-Modified RNA Is Associated with Transcript Destabilization. ACS Chem Biol. 2020 ;15(1):132-139.
2019
Kyrchanova O, Sabirov M, Mogila V, Kurbidaeva A, Postika N, Maksimenko O, et al. Complete reconstitution of bypass and blocking functions in a minimal artificial insulator from complex. Proc Natl Acad Sci U S A. 2019 ;116(27):13462-13467.
Gaska JM, Parsons L, Balev M, Cirincione A, Wang W, Schwartz RE, et al. Conservation of cell-intrinsic immune responses in diverse nonhuman primate species. Life Sci Alliance. 2019 ;2(5).
Mesev EV, LeDesma RA, Ploss A. Decoding type I and III interferon signalling during viral infection. Nat Microbiol. 2019 ;4(6):914-924.
Farrelly LA, Thompson RE, Zhao S, Lepack AE, Lyu Y, Bhanu NV, et al. Histone serotonylation is a permissive modification that enhances TFIID binding to H3K4me3. Nature. 2019 ;567(7749):535-539.