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Featured submissions

November 2019

October 2019

  • We celebrated International Open Access Week, October 21-27, by playing "The Game of Open Access" with library colleagues. Visit http://www.openaccessweek.org to learn about other international open access initiatives around the 2019 theme "Open for Whom? Equity in Open Knowledge"
  • Have you heard about the UA Libraries' Open Access Investment Fund? The fund supports initiatives and projects that advance open access. It also supports institutional memberships with specific publishers; UA authors benefit from discounts on article processing charges.
  • The UA Campus Repository has achieved the milestone of making more than 70,000 items publically available. The 70,000th item added to the repository was Bernice Ackerman's Characteristics of Summer Radar Echoes in Arizona, 1956, from the Institute of Atmospheric Physics Scientific Report series.
  • The UA Faculty Publications collection now contains more than 6,000 articles contributed by faculty and researchers under the UA Open Access Policy passed by the UA Faculty Senate.


  • Exploring multimedia, mobile learning, and place-based learning in linguacultural education

    Culture, as the fifth language skill, enables learners to develop into multilingually and multiculturally aware global citizens. The traditional Chinese architecture is as old as Chinese civilization. The wisdom, stories, and cultural elements behind traditional Chinese construction is a valued aspect of Chinese culture. This article introduces a LiveCode based mobile application featuring a virtual tour of two traditional Chinese architecture sites Nan Yuan and Humble Administrator's Garden. The application is designed by the author for advanced Chinese learners for an immersive linguacultural learning experience. Built-in tools, rollover hints, authentic multimedia resources and useful links of the application effectively integrate culture with language learning. Pedagogical applications, pilot outcomes, implications, and future directions of mobile learning and place-based learning in Chinese linguacultural education are also addressed in this paper.
  • PaCTS 1.0: A Crowdsourced Reporting Standard for Paleoclimate Data

    Thirumalai, K.; Univ Arizona, Dept Geosci (AMER GEOPHYSICAL UNION, 2019)
    The progress of science is tied to the standardization of measurements, instruments, and data. This is especially true in the Big Data age, where analyzing large data volumes critically hinges on the data being standardized. Accordingly, the lack of community-sanctioned data standards in paleoclimatology has largely precluded the benefits of Big Data advances in the field. Building upon recent efforts to standardize the format and terminology of paleoclimate data, this article describes the Paleoclimate Community reporTing Standard (PaCTS), a crowdsourced reporting standard for such data. PaCTS captures which information should be included when reporting paleoclimate data, with the goal of maximizing the reuse value of paleoclimate data sets, particularly for synthesis work and comparison to climate model simulations. Initiated by the LinkedEarth project, the process to elicit a reporting standard involved an international workshop in 2016, various forms of digital community engagement over the next few years, and grassroots working groups. Participants in this process identified important properties across paleoclimate archives, in addition to the reporting of uncertainties and chronologies; they also identified archive-specific properties and distinguished reporting standards for new versus legacy data sets. This work shows that at least 135 respondents overwhelmingly support a drastic increase in the amount of metadata accompanying paleoclimate data sets. Since such goals are at odds with present practices, we discuss a transparent path toward implementing or revising these recommendations in the near future, using both bottom-up and top-down approaches.
  • Identification of Actionable Fusions as an Anti-EGFR Resistance Mechanism Using a Circulating Tumor DNA Assay

    Clifton, Katherine; Rich, Thereasa A.; Parseghian, Christine; Raymond, Victoria M.; Dasari, Arvind; Pereira, Allan Andresson Lima; Willis, Jason; Loree, Jonathan M.; Bauer, Todd M.; Chae, Young Kwang; et al. (AMER SOC CLINICAL ONCOLOGY, 2019-10-03)
    PURPOSE: Gene fusions are established oncogenic drivers and emerging therapeutic targets in advanced colorectal cancer. This study aimed to detail the frequencies and clinicopathological features of gene fusions in colorectal cancer using a circulating tumor DNA assay. METHODS: Circulating tumor DNA samples in patients with advanced colorectal cancer were analyzed at 4,581 unique time points using a validated plasma-based multigene assay that includes assessment of fusions in FGFR2, FGFR3, RET, ALK, NTRK1, and ROS1. Associations between fusions and clinicopathological features were measured using Fisher's exact test. Relative frequencies of genomic alterations were compared between fusion-present and fusion-absent cases using an unpaired t test. RESULTS: Forty-four unique fusions were identified in 40 (1.1%) of the 3,808 patients with circulating tumor DNA detected: RET(n = 6; 36% of all fusions detected), FGFR3 (n = 2; 27%), ALK(n = 10, 23%), NTRK1 (n = 3; 7%), ROS1 (n = 2; 5%), and FGFR2 (n = 1; 2%). Relative to nonfusion variants detected, fusions were more likely to be subclonal (odds ratio, 8.2; 95% CI, 2.94 to 23.00; P < .001). Mutations associated with a previously reported anti-epidermal growth factor receptor (anti-EGFR) therapy resistance signature (subclonal RAS and EGFR mutations) were found with fusions in FGFR3 (10 of 12 patients), RET(nine of 16 patients), and ALK(seven of 10 patients). For the 27 patients with available clinical histories, 21 (78%) had EGFR monoclonal antibody treatment before fusion detection. CONCLUSION: Diverse and potentially actionable fusions can be detected using a circulating tumor DNA assay in patients with advanced colorectal cancer. Distribution of coexisting subclonal mutations in EGFR, KRAS, and NRAS in a subset of the patients with fusion-present colorectal cancer suggests that these fusions may arise as a novel mechanism of resistance to anti-EGFR therapies in patients with metastatic colorectal cancer.
  • Khayyam, Omar: v. English Translations of the “Rubaiyat”

    O'Malley, Austin; Univ Arizona, Sch Middle Eastern & North African Studies (Brill, 2019)
  • Excited-state effects in nucleon structure on the lattice using hybrid interpolators

    Green, Jeremy R.; Engelhardt, Michael; Hasan, Nesreen; Krieg, Stefan; Meinel, Stefan; Negele, John W.; Pochinsky, Andrew V.; Syritsyn, Sergey N.; Univ Arizona, Dept Phys (AMER PHYSICAL SOC, 2019-10-24)
    It would be very useful to find a way of reducing excited-state effects in lattice QCD calculations of nucleon structure that has a low computational cost. We explore the use of hybrid interpolators, which contain a nontrivial gluonic excitation, in a variational basis together with the standard interpolator with tuned smearing width. Using the clover discretization of the field strength tensor, a calculation using a fixed linear combination of standard and hybrid interpolators can be done using the same number of quark propagators as a standard calculation, making this a cost-effective option. We find that such an interpolator, optimized by solving a generalized eigenvalue problem, reduces excited-state contributions in two-point correlators. However, the effect in three-point correlators, which are needed for computing nucleon matrix elements, is mixed: for some matrix elements such as the tensor charge, excited-state effects are suppressed, whereas for others such as the axial charge, they are enhanced. The results illustrate that the variational method is not guaranteed to reduce the net contribution from excited states except in its asymptotic regime, and suggest that it may be important to use a large basis of interpolators capable of isolating all of the relevant low-lying states.

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