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Simpson (Ed.)Gene duplication is a fundamental evolutionary mechanism that contributes to biological complexity and diversity [6]. Traditionally, research has focused on the duplication of gene sequences [23]. However, evidence suggests that the duplication of regulatory elements may also play a significant role in the evolution of genomic functions [8, 21]. In this work the evolution of regulatory relationships belonging to gene-specific-substructures in a GRN are modeled. In the model, a network grows from an initial configuration by repeatedly choosing a random gene to duplicate. The likelihood that the regulatory relationships associated with the selected gene are retained through duplication is determined by a vector of probabilities. That is to say that each gene family has its own probability of retaining regulatory relationships. Occurrences of gene-family-specific substructures are counted under the gene duplication model. In this work gene-family-specific substructures are referred to as subnetwork motifs. These subnetwork motifs are motivated by network motifs which are patterns of interconnections that recur more often in a specialized network than in a random network [15]. Subnetwork motifs differ from network motifs in the way that subnetwork motifs are instances of gene-family-specific substructures while network motifs are isomorphic substructures. These subnetwork motifs are counted under Full and Partial Duplication, which differ in the way in which regulation relationships are inherited. Full duplication occurs when all regulatory links are inherited at each duplication step, and Partial Duplication occurs when regulation inheritance varies at each duplication step. Note that Full Duplication is just a special case of Partial Duplication. Moments for the number of occurrences of subnetwork motifs are determined in each model. In the end, the results presented offer a method for discovering gene-family-specific substructures that are significant in a GRN under gene duplication.more » « lessFree, publicly-accessible full text available December 31, 2026
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Simpson, P. (Ed.)http://dx.doi.org/10.25607/OBP-1903 The goal of the sixth Ocean Best Practices System workshop (OBPS VI) was to guide the development of best practices and operating practices, to promote their documentation, and to share them widely using the OBPS. The workshop featured two plenaries held in two time zones each and 19 theme sessions held over two weeks. These theme sessions were planned and held by separate communities of practice in ocean science, engineering, and technology. The workshop attracted the attention of a total of 1152 registrants from around the world, with some 600 people attending across time zones in the theme sessions and the plenaries. The workshop allowed the different communities of practice to focus on the creation, documentation and use of best practices working with members of the OBPS Steering Group. It drew on the experience of OBPS User Groups and stakeholders and provided an opportunity to gather feedback on how the system should evolve to better fulfil each community’s vision.more » « less
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Overall, Nickola C; Simpson, Jeffry A; Lavner, Justin A (Ed.)Attachment theory is a dominant theoretical framework guiding research on close relationships across the lifespan. Research on the role of attachment in family relationships, in particular, has been highly generative, resulting in a large empirical base spanning over five decades. In this chapter, we review evidence from the attachment literature addressing key questions in family relationships research including the developmental origins, legacy, and stability of children’s early relationships with parents. Evidence from meta-analytic and large-sample research reviewed in this chapter generally provides support for the key tenets of attachment theory as they pertain to early parent-child attachment relationships. However, throughout the chapter, we note important gaps in the current empirical base and offer suggestions for future research. In addition, we discuss how greater connection between different perspectives and approaches to studying close relationships can advance understanding of the role of attachment in family, as well as romantic, relationships.more » « less
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Simpson, Isla; Waugh, Darryn (Ed.)Abstract Surface air temperatures in the southeastern United States that did not change from the climatological mean from 1900 to 2000 have increased since the year 2000. Analyzed herein are factors modulating the surface air temperatures in the region for a 20-yr period (2000–19) using space- and surface-based observations, and output from a reanalysis model. The 20-yr period is segregated into two decades, 2000–09 and 2010–19, corresponding to different tropospheric chemical regimes. Changes in seasonal and decadal averages are examined. The later decade experienced higher average surface air temperatures with significant warming during summer and fall seasons. Decadal and seasonal averages of cloud properties, column water vapor, rain rates, and top-of-atmosphere outgoing longwave radiation did not exhibit statistically significant differences between the two decades. The region experienced strong warm and moist advection during the winter months and very weak advection during the summer months. The later decade exhibited higher low-level moisture advection during the winter months than the earlier decade with insignificant changes in the temperature advection between the two decades. The later decade had significantly lower aerosol dry and liquid water mass during all seasons, along with lower aerosol optical depth, higher single scattering albedo, and lower top-of-the-atmosphere outgoing shortwave radiation during cloud-free conditions in the summer season. Collectively, these results suggest that changes in the aerosol direct radiative forcing are responsible for warming during summer months that experience weak advection and highlight seasonal differences in the temperature controlling mechanisms in the region.more » « less
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Simpson, Garth J.; Cheng, Ji-Xin; Min, Wei (Ed.)
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Simpson, Garth J.; Cheng, Ji-Xin; Min, Wei (Ed.)
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Simpson, Garth J.; Cheng, Ji-Xin; Min, Wei (Ed.)
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