Publications
Export 61 results:
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In Press. Genotypic recognition and spatial responses by rice roots. Proceedings of the National Academy of Sciences USA.
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In Press. 3D phenotyping and quantitative trait locus mapping identify core regions of the rice genome controlling root architecture. Proceedings of the National Academy of Sciences USA.
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In Press. A Guide to Sensitivity Analysis of Quantitative Models of Gene Expression Dynamics. Methods.
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In Press. Mechanisms of Multi-strain Coexistence in Host-Phage Systems with Nested Infection Networks. Journal of Theoretical Biology.
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In Press. Multi-scale structure and geographic drivers of cross-infection within marine bacteria and phages. ISME J. Download: cof_sv_jsw_ismej_inpress.pdf (1.91 MB)
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In Press. Phage-bacteria infection networks. Trends in Microbiology. Download: jsw_etal_tim2013.pdf (672.76 KB)
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2013. Distinguishing between indirect and direct modes of transmission using epidemiological time series. American Naturalist. 181:E43-E52. Download: mhc_jsw_amnat2013.pdf (541.38 KB)
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2013. CRISPR-Cas Systems to Probe Ecological Diversity and Host–Viral Interactions. CRISPR-Cas Systems. 9:221-250.
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2013. Critical cell wall hole size for lysis in Gram-positive bacteria. Journal of the Royal Society Interface. 10:20120892.
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2012. Scaling and structure of dicotyledonous leaf venation networks. Ecology Letters. 15:87-95. Download: cap_sw_jsw_ecolett2012.pdf (970.09 KB)
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2012. Functional biogeography of ocean microbes: dimension reduction of metagenomic data identifies biological patterns across scales. PLoS One. 7:e43866. Download: xj_etal_plosone2012.pdf (597.63 KB)
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2012. Ocean Viruses and Their Dynamical Effects on Microbial Communities and Biogeochemical Cycles. F1000 Biology Reports. 4:17.
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2012. Hierarchical ordering of reticular networks. PLoS One. 7(6):e36715. Download: ym_he_cap_jsw_plosone2012.pdf (518.83 KB)
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2012. A neutral theory of genome evolution and the frequency distribution of genes. BMC Genomics. 13:196. Download: bh_jsw_bmc2012.pdf (381.93 KB)
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2012. Allometric covariation: a hallmark behavior of plants and leaves. New Phytologist. 192(4):882-889.
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2012. Multi-scale Model of CRISPR-induced Coevolutionary Dynamics: Diversification at the Interface of Lamarck and Darwin. Evolution. 66(7):2015-2029. Download: lmc_nh_my_rw_jsw_evol2012.pdf (599.61 KB)
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2012. A non-negative matrix factorization framework for identifying modular patterns in metagenomic profile data. Journal of Mathematical Biology. 64:697-711. Download: xj_jsw_jd_jmb2012.pdf (707.15 KB)
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2012. Repeatability and contingency in the evolution of a key innovation in phage Lambda. Science. 335:428-432.
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2012. GiA Roots: Software for the High Throughput Analysis of Plant Root System Architecture. BMC Plant Biology. 12:116.
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2012. Testing the metabolic theory of ecology. Ecology Letters.
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2011. Genomic fluidity: an integrative view of gene diversity within microbial populations. BMC Genomics. 12:32.
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2011. To lyse or not to lyse: transient-mediated stochastic fate determination in cells infected by bacteriophages. PLoS Computational Biology. 7:e1002006.
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2011. Analysing threshold effects in the sexual dynamics of cyclically parthenogenetic rotifer populations. Hydrobiologia. 662:121-130. Abstract
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2011. LEAF GUI: segmenting and analyzing the structure of leaf veins and areoles. Plant Physiology. 155:236-245. Download: cap_etal_plantphys2011.pdf (1.26 MB)
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2011. Statistical structure of host-phage interactions. Proceedings of the National Academy of Sciences. 108:E288-E297. Download: cof_etal_jsw_pnas2011.pdf (1.08 MB)
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2011. Dynamics of nutrient uptake strategies: Lessons from the tortoise and the hare. Theoretical Ecology. 4:163-177. Download: 2011_Menge_etal_THEE.pdf (855.62 KB)
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2010. Quantifying enzymatic lysis: estimating the combined effects of chemistry, physiology, and physics. Physical Biology. 7:046002. Abstract
Download: gjm_dcn_jsw_physbio2010.pdf (575.13 KB)
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2010. The metabolic theory of ecology: prospects and challenges for plant biology. New Phytologist. 188:696-710. Abstract
Download: cap_jfg_apa_jsw_kjn_np2010.pdf (1.06 MB)
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2010. Fluctuation domains in adaptive evolution. Theoretical Population Biology. 77:6-13. Abstract
Download: cb_jd_jsw_tpb2010.pdf (2.84 MB)
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2010. Imaging and analysis platform for automatic phenotyping and trait ranking of plant root systems. Plant Physiology. 152:1148-1157. Abstract
Download: aip_os_etal_jsw_pnb_2010.pdf (1.22 MB)
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2010. Bifurcation analysis of gene regulatory circuits subject to copy number variation. SIAM Journal on Applied Dynamical Systems. 9:799-826. Download: ym_jsw_siam2010.pdf (508.71 KB)
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2010. A discrepancy between Michaelis-Menten based nutrient uptake model predictions and nitrogen to phosphorus stoichiometry in the surface ocean. Limnology and Oceanography. 55:997-1008. Abstract
Download: fb_dm_jsw_lando2010.pdf (878.25 KB)
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2010. An integrative approach to understanding microbial diversity: from intracellular mechanisms to community structure. Ecology Letters. 13:1073-1084. Download: ig_jsw_etal_2010.pdf (397.89 KB)
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2010. Zero-sum allocational strategies determine the allometry of specific leaf area. American Journal of Botany. 97 Abstract
Download: Price and Weitz AJB 2010.pdf (979.61 KB)
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2009. Dangerous nutrients: evolution of phytoplankton resource uptake subject to virus attack.. Journal of Theoretical Biology. 257:104–115. Abstract
Download: dm_jsw_jtb_2009.pdf (418.44 KB)
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2009. Dynamics of indirectly transmitted infectious diseases with immunological threshold. Bulletin of Mathematical Biology. 71:845-862. Abstract
Download: rij_hw_hw_jsw_2009.pdf (418.07 KB)
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2009. Bacterivorous grazers facilitate organic matter decomposition: a stoichiometric modeling approach. FEMS Microbiology Ecology. 69:170-179. Abstract
Download: hw_lj_jsw2009.pdf (342.51 KB)
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2009. Evaluating scaling models in biology using hierarchical Bayesian approaches. Ecology Letters. 12:641-651. Abstract
Download: cap_ko_ew_jsw_ecolett2009.pdf (866.9 KB)
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2009. Unsupervised statistical clustering of environmental shotgun sequences. BMC Bioinformatics. 10:316. Abstract
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2008. Collective decision making in bacterial viruses. Biophysical Journal. 95:2673-2680. Abstract
Download: jsw_ym_rij_eov_biophysj2008.pdf (186.43 KB)
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2008. Small-scale copy number variation and large-scale changes in gene expression. Proceedings of the National Academy of Sciences USA. 105:16659-16664. Abstract
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2008. Alternative stable states in host-phage dynamics. Theoretical Ecology. 1:DOI10.1007/s12080-007-0001-1. Abstract
Download: jsw_jd_thee2008.pdf (285.13 KB)
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2008. Evolutionary ecology of bacterial viruses. 3:171-178. Abstract
Download: jsw_microbe2008.pdf (373.31 KB)
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2007. A neutral metapopulation model of biodiversity in river networks. Journal of Theoretical Biology. 245:351-363. Abstract
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2007. The evolution of dispersal in reserve networks. American Naturalist. 170:59-78. Abstract
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2007. Evolution, interactions, and biological networks. PLoS Biology. 5:10-12. Abstract
Download: jsw_pnb_nsw_plos2007.pdf (150.97 KB)
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2006. Phage in the time of cholera. Lancet Infectious Diseases. 6:257-258. Abstract
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2006. Size and scaling of predator-prey dynamics. Ecology Letters. 9:548-557. Abstract
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2006. Ontogenetically stable hydraulic design in woody plants. Functional Ecology. 20:191-199. Abstract
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2006. Biodiversity loss and ecological network structure.. Ecological Networks: Linking Structure to Dynamics in Food Webs. Abstract
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2005. Coevolutionary arms races between bacteria and bacteriophage. Proceedings of the National Academy of Sciences of the United States of America. 102:9535-9540. Abstract
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2005. A null model of morphospace occupation. American Naturalist. 166:E1-E13. Abstract
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2004. Dynamics of a contact process with ontogeny. Physical Review E. 70 Abstract
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2003. Scale-dependence of resource-biodiversity relationships. Journal of Theoretical Biology. 225:205-214. Abstract
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2003. Packing-limited growth of irregular objects. Physical Review E. 67 Abstract
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2002. Packing-limited growth. Physical Review E. 65 Abstract
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2001. Re-examination of the ‘{’’}3/4-law{’’} of metabolism. Journal of Theoretical Biology. 209:9-27. Abstract
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2001. Explaining mortality rate plateaus. Proceedings of the National Academy of Sciences of the United States of America. 98:15383-15386. Abstract
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1997. An algorithm-independent definition of damage spreading - Application to directed percolation. Journal of Statistical Physics. 88:617-636. Abstract
Download: hh_jsw_ed_97.pdf (989.9 KB)
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1997. An Algorithm-Independent Definition of Damage Spreading - Application to Directed Percolation. J. Stat. Phys. 88 Abstract
Download: hh_jsw_ed_97.pdf (989.9 KB)
