Back to basics: Supporting digital humanities and community collaboration using the core strength of the academic library

© Emerald Publishing Limited 2018. Published by Emerald Publishing Limited. Licensed re-use rights only. "Conditions of deposit – for journal articles and book chapters As a signatory of the Voluntary STM Sharing Principles, Emerald supports sharing research via affiliated Scholarly Collaboration Networks (SCNs) and other non-commercial research collaboration groups. If you have received direct funding with a mandate that stipulates your work must be made open access but funding is not available to pay an Article Processing Charge (APC), upon official publication, you may deposit the AAM of your journal article or book chapter into a subject or institutional repository and your funder's research catalogue, free from embargo. To deposit your AAM, you will need to include the DOI back to the Version of Record within www.emeraldinsight.com, and all of the relevant metadata (for journal articles: article title, journal name, volume, issue etc, for Book chapters: chapter title, book title, volume, issue etc.)."Peer ReviewedPurpose: To describe how academic libraries can support digital humanities (DH) research by leveraging established library values and strengths to provide support for preservation and access and physical and digital spaces for researchers and communities, specifically focused on cultural heritage collections. Design/methodology/approach: The experiences of the authors in collaborating with DH scholars and community organizations is discussed with references to the literature. The paper suggests how research libraries can use existing expertise and infrastructure to support the development of digital cultural heritage collections and DH research. Findings: Developing working collaborations with DH researchers and community organizations is a productive way to engage in impactful cultural heritage digital projects. It can aid resource allocation decisions to support active research, strategic goals, community needs and the development and preservation of unique, locally relevant collections. Libraries do not need to radically transform themselves to do this work, they have established strengths that can be effective in meeting the challenges of DH research. Practical implications: Academic libraries should strategically direct the work they already excel at to support DH research and work with scholars and communities to build collections and infrastructure to support these initiatives. Originality/value: The paper recommends practical approaches, supported by literature and local examples, that could be taken when building DH and community-engaged cultural heritage projects

Community Engaged Digital Initiatives: Building Academic Library Services and Infrastructure with Faculty and Community Collaborators

Community collaborations have become key drivers for the development of our library’s digital initiatives (DI) program. While collaborative partnerships can complicate the process of getting DI work completed, they can also positively contribute to decision making around digitization projects, metadata use, user interface (UI) design, and infrastructure development. This presentation outlines possibilities for iteratively developing digital infrastructure and service offerings to support community engaged research and discusses key issues to consider when developing such a program. We will describe how we have adapted DI systems to support a range of projects from photography collections to oral histories, to locally created open educational resources (OER). The roles for community groups, other galleries, libraries, archives, and museums (GLAMs), disciplinary faculty, and students will be explored and we will describe how their contributions strengthen our DI program

ADJUSTING POPULATION ESTIMATES FOR GENOTYPING ERROR IN NON-INVASIVE DNA-BASED MARK-RECAPTURE EXPERIMENTS

DNA from non-invasive sources is increasingly being used as molecular tags for markrecapture population estimation. These sources, however, provide small quantities of often contaminated DNA, which can lead to genotyping errors that will bias the population estimate. We describe a novel approach, called Genotyping Uncertainty Added Variance Adjustment (GUAVA), to address this problem. GUAVA incorporates an explicit model of genotyping error to generate a distribution of complete-information capture histories that is used to estimate the population size. This approach both reduces the genotyping-error bias and incorporates the additional uncertainty due to genotyping error into the variance of the estimate. We demonstrate this approach via simulated mark-recapture data with a range of genetic information, population sizes, sample sizes, and genotyping error-rates. The bias, variance, and coverage of the GUAVA estimates are shown to be superior to those of other available methods used to analyze this type of data. Because GUAVA assumes each sample is genotyped only once per locus, it also has the potential to save a great deal of time and money collecting consensus molecular information

Introduction to Series and Parallel Circuits

This lesson begins with an introduction on electricity and how it is formed at the molecular level. It then lets learners explore and define a circuit. This introduction is followed by an exploration where learners develop series and parallel circuits using LED lights and motors. Learners then consider what constitutes a series and parallel circuit, open and closed circuit, and a short circuit. The lesson concludes by having learners consider advantages, limitations, and instructional uses of various electronics kits (e.g., Snap Circuits, littleBits, LilyPad, paper circuits, conductive dough) based on their ability to display circuit paths

Groundtruthing next-gen sequencing for microbial ecology-biases and errors in community structure estimates from PCR amplicon pyrosequencing

Analysis of microbial communities by high-throughput pyrosequencing of SSU rRNA gene PCR amplicons has transformed microbial ecology research and led to the observation that many communities contain a diverse assortment of rare taxa-a phenomenon termed the Rare Biosphere. Multiple studies have investigated the effect of pyrosequencing read quality on operational taxonomic unit (OTU) richness for contrived communities, yet there is limited information on the fidelity of community structure estimates obtained through this approach. Given that PCR biases are widely recognized, and further unknown biases may arise from the sequencing process itself, a priori assumptions about the neutrality of the data generation process are at best unvalidated. Furthermore, post-sequencing quality control algorithms have not been explicitly evaluated for the accuracy of recovered representative sequences and its impact on downstream analyses, reducing useful discussion on pyrosequencing reads to their diversity and abundances. Here we report on community structures and sequences recovered for in vitro-simulated communities consisting of twenty 16S rRNA gene clones tiered at known proportions. PCR amplicon libraries of the V3-V4 and V6 hypervariable regions from the in vitro-simulated communities were sequenced using the Roche 454 GS FLX Titanium platform. Commonly used quality control protocols resulted in the formation of OTUs with >1% abundance composed entirely of erroneous sequences, while over-aggressive clustering approaches obfuscated real, expected OTUs. The pyrosequencing process itself did not appear to impose significant biases on overall community structure estimates, although the detection limit for rare taxa may be affected by PCR amplicon size and quality control approach employed. Meanwhile, PCR biases associated with the initial amplicon generation may impose greater distortions in the observed community structure

Calibration of colloid probe cantilevers using the dynamic viscous response of a confined liquid

A method is described to determine the spring constant of colloid probe cantilevers used in force measurements with the atomic force microscope. An oscillatory drive applied to the substrate is coupled by viscous interactions to the colloid probe. The dynamic response of the probe, which is unaffected by static interactions, is then used to determine the spring constant of the cantilever. Thus an accurate calibration of the spring constant may be performed simultaneously with a normal colloidal probe force measurementin situ.S.N. and S.B. acknowledge the support of the Center for Multiphase Processes, a Special Research Center of the Australian Research Council. V.C. acknowledges support from the Australian Research Council for the provision of a Postdoctoral Fellowship

Diffuse flow environments within basalt- and sediment-based hydrothermal vent ecosystems harbor specialized microbial communities

Hydrothermal vents differ both in surface input and subsurface geochemistry. The effects of these differences on their microbial communities are not clear. Here, we investigated both alpha and beta diversity of diffuse flow-associated microbial communities emanating from vents at a basalt-based hydrothermal system along the East Pacific Rise (EPR) and a sediment-based hydrothermal system, Guaymas Basin. Both Bacteria and Archaea were targeted using high throughput 16S rRNA gene pyrosequencing analyses. A unique aspect of this study was the use of a universal set of 16S rRNA gene primers to characterize total and diffuse flow-specific microbial communities from varied deep-sea hydrothermal environments. Both surrounding seawater and diffuse flow water samples contained large numbers of Marine Group I (MGI) Thaumarchaea and Gammaproteobacteria taxa previously observed in deep-sea systems. However, these taxa were geographically distinct and segregated according to type of spreading center. Diffuse flow microbial community profiles were highly differentiated. In particular, EPR dominant diffuse flow taxa were most closely associated with chemolithoautotrophs, and off axis water was dominated by heterotrophic-related taxa, whereas the opposite was true for Guaymas Basin. The diversity and richness of diffuse flow-specific microbial communities were strongly correlated to the relative abundance of Epsilonproteobacteria, proximity to macrofauna, and hydrothermal system type. Archaeal diversity was higher than or equivalent to bacterial diversity in about one third of the samples. Most diffuse flow-specific communities were dominated by OTUs associated with Epsilonproteobacteria, but many of the Guaymas Basin diffuse flow samples were dominated by either OTUs within the Planctomycetes or hyperthermophilic Archaea. This study emphasizes the unique microbial communities associated with geochemically and geographically distinct hydrothermal diffuse flow environments

The Unspace Case: Developing a Maker Movement in a Multipurpose, Flexible Space, Library Setting

This paper presents the ongoing design, development, and implementation of a K-16 maker movement centered around a joint public school/university library whose minimal dedicated space has expanded opportunities for public participation, partnerships, and shared resources. As the library sought to circulate STEM resources for K-9 teachers and students in 2011, University instructors were seeking opportunities for preservice teachers to interact meaningfully with authentic, technology-rich environments. These separate endeavors coalesced over time to form a robust community of various school, university, and public stakeholders focused on mathematics and science learning. Because the space was not bound to a single physical location, proponents were able to leverage various resources, mobile tools, and settings to explore and apply STEM knowledge, construct products, and attract new and returning users. This design case articulates how the maker movement provides curricular programming while maintaining a playful atmosphere that encourages personal exploration regardless of age and ability

Causality in Time-Neutral Cosmologies

Gell-Mann and Hartle (GMH) have recently considered time-neutral cosmological models in which the initial and final conditions are independently specified, and several authors have investigated experimental tests of such models. We point out here that GMH time-neutral models can allow superluminal signalling, in the sense that it can be possible for observers in those cosmologies, by detecting and exploiting regularities in the final state, to construct devices which send and receive signals between space-like separated points. In suitable cosmologies, any single superluminal message can be transmitted with probability arbitrarily close to one by the use of redundant signals. However, the outcome probabilities of quantum measurements generally depend on precisely which past {\it and future} measurements take place. As the transmission of any signal relies on quantum measurements, its transmission probability is similarly context-dependent. As a result, the standard superluminal signalling paradoxes do not apply. Despite their unusual features, the models are internally consistent. These results illustrate an interesting conceptual point. The standard view of Minkowski causality is not an absolutely indispensable part of the mathematical formalism of relativistic quantum theory. It is contingent on the empirical observation that naturally occurring ensembles can be naturally pre-selected but not post-selected.Comment: 5 pages, RevTeX. Published version -- minor typos correcte