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2022
Koch MD, Black ME, Han E, Shaevitz JW, Gitai Z. distinguishes surfaces by stiffness using retraction of type IV pili. Proc Natl Acad Sci U S A. 2022 ;119(20):e2119434119.
Batut PJ, Bing XYang, Sisco Z, Raimundo J, Levo M, Levine MS. Genome organization controls transcriptional dynamics during development. Science. 2022 ;375(6580):566-570.
Levo M, Raimundo J, Bing XYang, Sisco Z, Batut PJ, Ryabichko S, et al. Transcriptional coupling of distant regulatory genes in living embryos. Nature. 2022 ;605(7911):754-760.
2021
Colonnetta MM, Lym LR, Wilkins L, Kappes G, Castro EA, Ryder PV, et al. Antagonism between and Torso receptor regulates transcriptional quiescence underlying germline/soma distinction. Elife. 2021 ;10.
Lim B, Levine MS. Enhancer-promoter communication: hubs or loops?. Curr Opin Genet Dev. 2021 ;67:5-9.
Ing-Simmons E, Vaid R, Bing XYang, Levine M, Mannervik M, Vaquerizas JM. Independence of chromatin conformation and gene regulation during Drosophila dorsoventral patterning. Nat Genet. 2021 ;53(4):487-499.
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.
Li A, Okada BK, Rosen PC, Seyedsayamdost MR. Piperacillin triggers virulence factor biosynthesis via the oxidative stress response in . Proc Natl Acad Sci U S A. 2021 ;118(26).
Treen N, Shimobayashi SF, Eeftens J, Brangwynne CP, Levine M. Properties of repression condensates in living Ciona embryos. Nat Commun. 2021 ;12(1):1561.
A Miangolarra M, Li SHsin-Jung, Joanny J-F, Wingreen NS, Castellana M. Steric interactions and out-of-equilibrium processes control the internal organization of bacteria. Proc Natl Acad Sci U S A. 2021 ;118(43).
Shidlovskii YV, Bylino OV, Shaposhnikov AV, Kachaev ZM, Lebedeva LA, Kolesnik VV, et al. Subunits of the PBAP Chromatin Remodeler Are Capable of Mediating Enhancer-Driven Transcription in . Int J Mol Sci. 2021 ;22(6).
Lemma AS, Brynildsen MP. Toxin Induction or Inhibition of Transcription or Translation Posttreatment Increases Persistence to Fluoroquinolones. mBio. 2021 ;12(4):e0198321.
2020
Ravindran PT, Wilson MZ, Jena SG, Toettcher JE. Engineering combinatorial and dynamic decoders using synthetic immediate-early genes. Commun Biol. 2020 ;3(1):436.
Richter F, Morton SU, Kim SWon, Kitaygorodsky A, Wasson LK, Chen KM, et al. Genomic analyses implicate noncoding de novo variants in congenital heart disease. Nat Genet. 2020 ;52(8):769-777.
Heimbucher T, Hog J, Gupta P, Murphy CT. PQM-1 controls hypoxic survival via regulation of lipid metabolism. Nat Commun. 2020 ;11(1):4627.
Cao WXi, Kabelitz S, Gupta M, Yeung E, Lin S, Rammelt C, et al. Precise Temporal Regulation of Post-transcriptional Repressors Is Required for an Orderly Drosophila Maternal-to-Zygotic Transition. Cell Rep. 2020 ;31(12):107783.
Chen H, Gregor T. Using RNA Tags for Multicolor Live Imaging of Chromatin Loci and Transcription in Drosophila Embryos. Methods Mol Biol. 2020 ;2166:373-384.
2019
Rath S, Prangley E, Donovan J, Demarest K, Wingreen NS, Meir Y, et al. Concerted 2-5A-Mediated mRNA Decay and Transcription Reprogram Protein Synthesis in the dsRNA Response. Mol Cell. 2019 ;75(6):1218-1228.e6.
Braffman NR, Piscotta FJ, Hauver J, Campbell EA, A Link J, Darst SA. Structural mechanism of transcription inhibition by lasso peptides microcin J25 and capistruin. Proc Natl Acad Sci U S A. 2019 ;116(4):1273-1278.
Adolfsen KJ, Chou WKang, Brynildsen MP. Transcriptional Regulation Contributes to Prioritized Detoxification of Hydrogen Peroxide over Nitric Oxide. J Bacteriol. 2019 ;201(14).
Zhou J, Park CY, Theesfeld CL, Wong AK, Yuan Y, Scheckel C, et al. Whole-genome deep-learning analysis identifies contribution of noncoding mutations to autism risk. Nat Genet. 2019 ;51(6):973-980.
2018
vonHoldt BM, Ji SS, Aardema ML, Stahler DR, Udell MAR, Sinsheimer JS. Activity of Genes with Functions in Human Williams-Beuren Syndrome Is Impacted by Mobile Element Insertions in the Gray Wolf Genome. Genome Biol Evol. 2018 ;10(6):1546-1553.
Gilbertson S, Federspiel JD, Hartenian E, Cristea IM, Glaunsinger B. Changes in mRNA abundance drive shuttling of RNA binding proteins, linking cytoplasmic RNA degradation to transcription. Elife. 2018 ;7.
Chen H, Levo M, Barinov L, Fujioka M, Jaynes JB, Gregor T. Dynamic interplay between enhancer-promoter topology and gene activity. Nat Genet. 2018 ;50(9):1296-1303.
Painter HJ, Chung NChristophe, Sebastian A, Albert I, Storey JD, Llinás M. Genome-wide real-time in vivo transcriptional dynamics during Plasmodium falciparum blood-stage development. Nat Commun. 2018 ;9(1):2656.