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Models, Genetic

  • 1.
    Seyboldt R, Lavoie J, Henry A, Vanaret J, Petkova M, Gregor T, François P. Latent space of a small genetic network: Geometry of dynamics and information. Proc Natl Acad Sci U S A. 2022;119(26):e2113651119. PMCID: PMC9245618
    Reference Link
  • 1.
    Parkhitko A, Wang L, Filine E, Jouandin P, Leshchiner D, Binari R, Asara J, Rabinowitz J, Perrimon N. A genetic model of methionine restriction extends health- and lifespan. Proc Natl Acad Sci U S A. 2021;118(40). PMCID: PMC8501845
    Reference Link
  • 1.
    Wong A, Sealfon R, Theesfeld C, Troyanskaya O. Decoding disease: from genomes to networks to phenotypes. Nat Rev Genet. 2021;22(12):774–790. PMCID: 6786975
    Reference Link
  • 1.
    Ruf-Zamojski F, Zhang Z, Zamojski M, Smith G, Mendelev N, Liu H, Nudelman G, Moriwaki M, Pincas H, Castanon R, Nair V, Seenarine N, Amper M, Zhou X, Ongaro L, Toufaily C, Schang G, Nery J, Bartlett A, Aldridge A, Jain N, Childs G, Troyanskaya O, Ecker J, Turgeon J, Welt C, Bernard D, Sealfon S. Single nucleus multi-omics regulatory landscape of the murine pituitary. Nat Commun. 2021;12(1):2677. PMCID: PMC8113460
    Reference Link
  • 1.
    Shidlovskii Y, Bylino O, Shaposhnikov A, Kachaev Z, Lebedeva L, Kolesnik V, Amendola D, De Simone G, Formicola N, Schedl P, Digilio F, Giordano E. Subunits of the PBAP Chromatin Remodeler Are Capable of Mediating Enhancer-Driven Transcription in . Int J Mol Sci. 2021;22(6). PMCID: PMC7999800
    Reference Link
  • 1.
    Ochoa A, Storey J. Estimating FST and kinship for arbitrary population structures. PLoS Genet. 2021;17(1):e1009241. PMCID: PMC7846127
    Reference Link
  • 1.
    Cabreros I, Storey J. A Likelihood-Free Estimator of Population Structure Bridging Admixture Models and Principal Components Analysis. Genetics. 2019;212(4):1009–1029. PMCID: PMC6707457
    Reference Link
  • 1.
    Postika N, Metzler M, Affolter M, Müller M, Schedl P, Georgiev P, Kyrchanova O. Boundaries mediate long-distance interactions between enhancers and promoters in the Drosophila Bithorax complex. PLoS Genet. 2018;14(12):e1007702. PMCID: PMC6306242
    Reference Link
  • 1.
    Petkova M, Tkačik G, Bialek W, Wieschaus E, Gregor T. Optimal Decoding of Cellular Identities in a Genetic Network. Cell. 2019;176(4):844–855.e15. PMCID: PMC6526179
    Reference Link
  • 1.
    Zhou J, Theesfeld C, Yao K, Chen K, Wong A, Troyanskaya O. Deep learning sequence-based ab initio prediction of variant effects on expression and disease risk. Nat Genet. 2018;50(8):1171–1179. PMCID: PMC6094955
    Reference Link
  • 1.
    Adamson B, Smogorzewska A, Sigoillot F, King R, Elledge S. A genome-wide homologous recombination screen identifies the RNA-binding protein RBMX as a component of the DNA-damage response. Nat Cell Biol. 2012;14(3):318–28. PMCID: PMC3290715
    Reference Link
  • 1.
    Wilson M, Ravindran P, Lim W, Toettcher J. Tracing Information Flow from Erk to Target Gene Induction Reveals Mechanisms of Dynamic and Combinatorial Control. Mol Cell. 2017;67(5):757–769.e5. PMCID: PMC5591080
    Reference Link
  • 1.
    Tanaka H, Stone H, Nelson D. Spatial gene drives and pushed genetic waves. Proc Natl Acad Sci U S A. 2017;114(32):8452–8457. PMCID: PMC5559037
    Reference Link
  • 1.
    Kyrchanova O, Mogila V, Wolle D, Deshpande G, Parshikov A, Cleard F, Karch F, Schedl P, Georgiev P. Functional Dissection of the Blocking and Bypass Activities of the Fab-8 Boundary in the Drosophila Bithorax Complex. PLoS Genet. 2016;12(7):e1006188. PMCID: PMC4948906
    Reference Link
  • 1.
    Snir S, vonHoldt B, Pellegrini M. A Statistical Framework to Identify Deviation from Time Linearity in Epigenetic Aging. PLoS Comput Biol. 2016;12(11):e1005183. PMCID: PMC5106012
    Reference Link
  • 1.
    Elyashiv E, Sattath S, Hu T, Strutsovsky A, McVicker G, Andolfatto P, Coop G, Sella G. A Genomic Map of the Effects of Linked Selection in Drosophila. PLoS Genet. 2016;12(8):e1006130. PMCID: PMC4990265
    Reference Link
  • 1.
    Zhou J, Troyanskaya O. Predicting effects of noncoding variants with deep learning-based sequence model. Nat Methods. 2015;12(10):931–4. PMCID: PMC4768299
    Reference Link
  • 1.
    Song M, Hao W, Storey J. Testing for genetic associations in arbitrarily structured populations. Nat Genet. 2015;47(5):550–4. PMCID: PMC4464830
    Reference Link
  • 1.
    Tkačik G, Dubuis J, Petkova M, Gregor T. Positional information, positional error, and readout precision in morphogenesis: a mathematical framework. Genetics. 2015;199(1):39–59. PMCID: PMC4286692
    Reference Link
  • 1.
    Schumer M, Cui R, Rosenthal G, Andolfatto P. Reproductive isolation of hybrid populations driven by genetic incompatibilities. PLoS Genet. 2015;11(3):e1005041. PMCID: PMC4359097
    Reference Link
  • 1.
    Webb C, Zakian V. Telomerase RNA stem terminus element affects template boundary element function, telomere sequence, and shelterin binding. Proc Natl Acad Sci U S A. 2015;112(36):11312–7. PMCID: PMC4568702
    Reference Link
  • 1.
    Schneidman E, Still S, Berry M, Bialek W. Network information and connected correlations. Phys Rev Lett. 2003;91(23):238701. PMID: 14683220
    Reference Link
  • 1.
    Bassler B, Wright M, Silverman M. Sequence and function of LuxO, a negative regulator of luminescence in Vibrio harveyi. Mol Microbiol. 1994;12(3):403–12. PMID: 8065259
    Reference Link
  • 1.
    Even-Tov E, Bendori S, Valastyan J, Ke X, Pollak S, Bareia T, Ben-Zion I, Bassler B, Eldar A. Social Evolution Selects for Redundancy in Bacterial Quorum Sensing. PLoS Biol. 2016;14(2):e1002386. PMCID: PMC4771773
    Reference Link

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