cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Neorinella garciae
Creators: name: Jong, Rienk De
Publisher: name: Zenodo
Year: 2017
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Lepidoptera
Nymphalidae
Neorinella
Neorinella garciae

description: garciae. Neorinella garciae Martins-Neto, Kucera-Santos, de Moraes Vieira & de Campos Fragoso, 1993
Nymphalidae: Satyrinae, Elymniini.
Brazil, State of São Paulo, Taubaté Basin, Tremembé Formation; Chattian–Aquitanian, late Oligocene—early Miocene.
Depository: DGUG (holotype).
Published figures: Martins-Neto et al. (1993: Figs 2, 3, pls I, II); Murata (1998: Figs 9–11).
Partly visible forewings and hindwings and compressed body. In addition to wing shape and venation (partly visible) a paler colored band across forewings and hindwings is visible; there is an eyespot in the cell of the forewing, in R4-R5 (visible in the photo, not represented in the drawing), and in CuA1-CuA2 (?) of the forewing and, vaguely, in Cu1-Cu2 of the hindwing. The length of the forewing is 31.7 mm. No visible swollen bases of forewing veins. Most remarkable in the venation of the forewing is the common origin of M3 and Cu1 from the lower distal corner of the cell. Among extant Papilionoidea it is a unique autapomorphy of the satyrine genus Elymnias (Miller 1968). For the rest, the reconstruction of the wings (Fig. 2 in the original publication, reproduced here as Fig. 9) is hypothetical for those parts of the wings that are absent in the fossil. Moreover, in the forewing the radial branching cannot have been correctly reproduced: in Fig. 2 of the original description two radial veins branch off before the end of the cell, at which point R2 originates. One of these veins coalesces over some distance with R2 before ending on the front margin. This part of the wing is absent in the fossil.
The fossil, which has been placed in a genus of its own, is supposed (in the original publication) to be related to the extant genus Neorina (Nymphalidae, Satyrinae) as well as to the fossil genera Neorinopis (see under sepulta) and Pseudoneorina (see under coulleti). Apparently, this is based on similarity in wing shape and wing pattern. Realizing the variation in these characters for extant Neorina species as well as in related genera, these characters are unreliable indicators of relationship. A structural character like venation appears more reliable. In combination with Neorinopsis and Pseudoneorina, Neorinella has been classified, without comment, as belonging to the subtribe Lethina of the tribe Satyrini, while Neorina has been placed in the tribe Zetherini by Wahlberg & Peña (2015). This, again, must be based on wing shape and design. If we take venation as indicator of relationship, both Neorinella and Neorinopsis should be classified as Elymniini. See further the discussion under Neorinopsis sepulta.
description: Published as part of Jong, Rienk De, 2017, Fossil butterflies, calibration points and the molecular clock (Lepidoptera: Papilionoidea), pp. 1-63 in Zootaxa 4270 (1) on page 28, DOI: 10.5281/zenodo.583183
Additional file 4: of Differentiated transcriptional signatures in the maize landraces of Chiapas, Mexico
Creators: name: Kost, Matthew
name: Perales, Hugo
name: Saranga Wijeratne
name: Asela Wijeratne
name: Stockinger, Eric
name: Mercer, Kristin
Publisher: name: Figshare
Year: 2017
Subjects: subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Genetics
subject: Molecular Biology
subject: Biotechnology
subject: Ecology
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Hematology
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology
subject: Computational Biology

description: ‘Hub’ genes of interest other than transcription factors and kinases [67–85]. (DOC 82 kb)
Additional file 5: of Differentiated transcriptional signatures in the maize landraces of Chiapas, Mexico
Creators: name: Kost, Matthew
name: Perales, Hugo
name: Saranga Wijeratne
name: Asela Wijeratne
name: Stockinger, Eric
name: Mercer, Kristin
Publisher: name: Figshare
Year: 2017
Subjects: subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Biotechnology
subject: Ecology
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Inorganic Chemistry
subject: FOS: Chemical sciences
subject: Plant Biology

description: Raw, trimmed and mapped read counts for each of the 45 maize landrace RNA-seq libraries. (DOC 89Â kb)
Studies of the synthesis and depostion of Cu3BiS3 for use in phovoltaic devices
Creators: name: Epstein, Joshua A.
Publisher: name: No Publisher Supplied
Year: 2015

description: As the world’s climate continues to change, alternative energy is being adopted more and more. Solar energy is one extremely promising candidate to supplement our ever increasing energy needs. In order for it to be a viable solution, more efficient and less expensive solar panels must be made. While silicon solar panels are the current market leader their high manufacturing energy input and cost warrant looking into alternatives. Many thin film solar materials are being investigated such as CdTe, CIGS and CZTS, but all come with their own drawbacks. With a near ideal band gap, low toxicity and earth abundant elemental make up copper bismuth sulfide, Cu3BiS3, is a promising candidate for use in future photovoltaic devices. The research presented here details multiple methods to synthesize and deposit this material with an effort to keep the methods low cost, energy efficient and environmentally friendly.   Multiple low temperature solvothermal routes to synthesizing copper bismuth sulfide, CBS, have been developed¬¬. The resulting powders have been verified as pure Cu3BiS3 via XRD peak matching. The precursor reactants tested for use were copper and bismuth nitrates, acetates, chlorides and hydroxides. L-cystine, L-cysteine, thiourea and CS2 have all been tested for use as sulfur sources. Seven of these combinations produced pure CBS powders.   Two custom built benchtop reactors have been designed and fabricated with the aim of studying the possibility of a continuous flow reactor as a way to utilize these precipitation chemistries for making thin films of CBS. Heat and liquid flow simulations were performed in COMSOL multiphysics to assist in the reactor design process. The second reactor was designed to promote uniform liquid flow across the fluorine doped, tin oxide coated, FTO, glass. This reactor was also built with a temperature gradient transverse to the liquid flow so that the optimal temperature for the deposition of CBS could be evaluated. This reactor was also used to evaluate the deposition of CdS, an       n-type semiconductor often used in thin film solar panels, onto FTO glass.   CBS thin films were also prepared via electrodeposition and thermal treatment. The solution used was a mixture of copper nitrate, sodium sulfite and sodium citrate tribasic dihydrate dissolved in DI H2O and bismuth nitrate dissolved in ethylene glycol. To get the best coating it was found that the electrodeposition should be done at 1.2 V and last 5 minutes. Thermal treatment carried out in a 450°C tube furnace for 90 min in forming gas (95% N2 with 5% H2) along with sulfur vapor was proved best. No further treatment was required to obtain phase pure CBS coatings. This was verified with XRD peak analysis.  Optical absorption, microstructural, and photoconductivity data are reported for CBS materials made using the above techniques.
Additional file 4: of Differentiated transcriptional signatures in the maize landraces of Chiapas, Mexico
Creators: name: Kost, Matthew
name: Perales, Hugo
name: Saranga Wijeratne
name: Asela Wijeratne
name: Stockinger, Eric
name: Mercer, Kristin
Publisher: name: Figshare
Year: 2017
Subjects: subject: Microbiology
subject: FOS: Biological sciences
subject: Cell Biology
subject: Genetics
subject: Molecular Biology
subject: Biotechnology
subject: Ecology
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Hematology
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology
subject: Computational Biology

description: ‘Hub’ genes of interest other than transcription factors and kinases [67–85]. (DOC 82 kb)
Design, synthesis, and characterization of bioactive amphiphiles for therapeutic applications
Creators: name: Faig, Allison Marie
Publisher: name: No Publisher Supplied
Year: 2015

description: Amphiphilic molecules are comprised of hydrophobic and hydrophilic domains. These molecules possess diverse chemical structures, which govern their physicochemical and biological properties, and these properties dictate amphiphiles’ use in various applications. This dissertation focuses on the design, synthesis, and characterization of amphiphiles for biomedical applications.    Amphiphilic macromolecules (AMs), comprised of an acylated sugar backbone conjugated to a hydrophilic poly(ethylene glycol), were investigated as atherosclerosis treatments. Atherosclerosis is characterized by the accumulation and macrophage-mediated uptake of oxidized low-density lipoprotein (oxLDL). Previous studies indicate that AMs competitively inhibit oxLDL uptake through interacting with macrophage scavenger receptors, which contain hydrophobic and/or basic residues near their binding domains. Using knowledge of scavenger receptor binding domains, two AM series – termed ether- and alkyl-AMs – were designed to elucidate whether hydrogen-bonding or hydrophobic-hydrophobic interactions more significantly influenced bioactivity, respectively. Upon successful synthesis of each series, AM physicochemical and biological properties were assessed. More hydrophobic AMs, possessing longer and/or alkyl-terminated (i.e., alkyl-AMs) acyl arms, exhibited enhanced oxLDL uptake inhibition and thus improved bioactivity. These studies demonstrated that hydrophobic interactions significantly influence anti-atherosclerotic activity.    Biscationic tartaric acid-based amphiphiles were also investigated for antimicrobial applications. Cationic amphiphiles exhibit unique membrane-disrupting bactericidal mechanisms via a combination of electrostatic and hydrophobic-hydrophobic interactions. This work explored the specific impact of charge location on cationic amphiphiles’ antimicrobial and membrane activity. Two series of analogous cationic amphiphiles were synthesized, termed gemini-like and bola-like, which differed only in their charge location. After successful synthesis, antimicrobial activity was assessed and lead compounds identified. Bola-like amphiphiles exhibited preferential activity against gram-positive bacteria, while gemini-like amphiphiles were more active against gram-negative bacteria. Biophysical experiments indicated that the lead gemini-like amphiphile interacted with model membranes via electrostatic interactions, whereas the lead bola-like amphiphile relied on a combination of electrostatic and hydrophobic interactions. These studies demonstrate the significant influence of charge location on cationic amphiphile antimicrobial and membrane activity.
Additional file 1: of What do we know about the needs and challenges of health systems? A scoping review of the international literature
Creators: name: Roncarolo, Federico
name: Boivin, Antoine
name: Jean-Louis Denis
name: Rejean HĂŠbert
name: Lehoux, Pascale
Publisher: name: Figshare
Year: 2017
Subjects: subject: Medicine
subject: Sociology
subject: FOS: Sociology
subject: Cancer
subject: Science Policy
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: Computational Biology

description: Search strategy (DOCX 21 kb)
Additional file 6: of Differentiated transcriptional signatures in the maize landraces of Chiapas, Mexico
Creators: name: Kost, Matthew
name: Perales, Hugo
name: Saranga Wijeratne
name: Asela Wijeratne
name: Stockinger, Eric
name: Mercer, Kristin
Publisher: name: Figshare
Year: 2017
Subjects: subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Biotechnology
subject: Ecology
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Science Policy
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology

description: Thirty year precipitation (A) and evaporation (B) related environmental parameters of maize landrace origin. (DOC 514Â kb)
Praepapilio gracilis
Creators: name: Jong, Rienk De
Publisher: name: Zenodo
Year: 2017
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Lepidoptera
Papilionidae
Praepapilio
Praepapilio gracilis

description: gracilis. Praepapilio gracilis Durden & Rose, 1978
Papilionidae.
USA, Colorado, Ray Dome, Rio Blanco Co.; Lutetian, middle Eocene.
Depositories: private collection Hugh Rose, New Hampshire, USA (holotype, 2a); BHM (counterpart holotype, 2b).
Published figures: Durden & Rose (1978: Figs 2, 3 6C–D); Murata (1998: Fig. 3).
Similar to Praepapilio colorado, but less well preserved, large parts of the wings (e.g., the important apical part of the forewing) missing. The forewing length is smaller, estimated as 32.6 mm of which the supposed precision is noted, although the apical part of the wing is missing. Moreover, it is of more slender built than P. colorado. Possibly a female: the authors record a possible sphragis. Of the radial system of the forewing, only R1 and R2, and part of R3 visible. The area where R4 and possibly R5 should branch off, is missing. The terminal quarter or third of the hindwing is missing, such that the lobed shape depicted by Durden & Rose (1978) is speculative. For the rest of the wing, the venation is like P. colorado. Apart from size and shape, the present fossil differs from P. colorado in pattern, prompting Durden & Rose (1978) to describe it as a separate species.
Since the fossil is apparently closely related to Praepapilio colorado, and is of the same age but less well preserved, it is not important for calibration.
description: Published as part of Jong, Rienk De, 2017, Fossil butterflies, calibration points and the molecular clock (Lepidoptera: Papilionoidea), pp. 1-63 in Zootaxa 4270 (1) on page 29, DOI: 10.5281/zenodo.583183
Additional file 1: of What do we know about the needs and challenges of health systems? A scoping review of the international literature
Creators: name: Roncarolo, Federico
name: Boivin, Antoine
name: Jean-Louis Denis
name: Rejean HĂŠbert
name: Lehoux, Pascale
Publisher: name: Figshare
Year: 2017
Subjects: subject: Medicine
subject: Sociology
subject: FOS: Sociology
subject: Cancer
subject: Science Policy
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Computational Biology

description: Search strategy (DOCX 21 kb)
An unexpected journey
Creators: name: Feinberg, Jeremy Adam
Publisher: name: No Publisher Supplied
Year: 2015

description: In recent decades, anuran amphibians have suffered unprecedented declines throughout many parts of the world. In the eastern United States, one example of an enigmatic extirpation has emerged over recent decades in which leopard frogs disappeared from parts of New York City, Long Island, and surrounding mainland areas in New York and Connecticut. I conducted research into the causes of this extirpation and focused specifically on Long Island where the southern leopard frog, Rana (Lithobates) sphenocephala, was recognized to occur. This included work at two regionally extant populations outside the extirpation zone. Over time, I observed unusual differences between those two populations; at one, in southern New Jersey, frogs appeared typical for R. sphenocephala, at the other, on Staten Island, New York, frogs exhibited several atypical characteristics. Further research was needed to explore the reasons behind these differences.     Here, I present results from that research. The first stage (Chapter 1) was a molecular examination that focused on leopard frogs from Staten Island and three other regional populations later found to exhibit similar atypical characteristics. The results, supported by strong nuclear and mitochondrial phylogenetic evidence, revealed that all four populations were part of a cryptic genetic lineage that was distinct from R. sphenocephala and two other regionally similar congeners, the northern leopard frog, R. pipiens, and pickerel frog, R. palustris.     The discovery of this novel genetic lineage was followed by a subsequent study (Chapter 2) comparing bioacoustic and morphological characters between the same four congeners from chapter 1. The results revealed additional separation between the new species and its congeners and allowed us to taxonomically diagnose and describe the new species and name it formally as the Atlantic Coast leopard frog, R. kauffeldi. The new species is visually similar to R. sphenocephala and bioacoustically similar to the wood frog, R. sylvatica, which was also included in the bioacoustic analysis.     In the midst of this discovery, in October 2012, Hurricane Sandy made landfall across the same area where many known R. kauffeldi populations were located. This created cause for concern and prompted a study of the hurricane’s impact on several of the most vulnerable populations in the New York City area (Chapter 3). Rana kauffeldi survived at all study locations, suggesting that this species is capable of withstanding large-scale coastal-flooding events and rapid salinity increases.
Analysis of human Aurora C Kinase variants in oocyte meiosis
Creators: name: Fellmeth, Jessica
Publisher: name: No Publisher Supplied
Year: 2015

description: The birth of a healthy child is often a priority for couples, yet many couples will unfortunately suffer from infertility. Aneuploidy is the leading genetic abnormality that causes infertility. Aneuploidies in sperm and eggs arise from errors during chromosome segregation in meiosis. Though many of the critical players are known and mutants characterized, the regulatory components involved in directing accurate chromosome segregation are still not entirely clear. Aurora kinase C is one of the critial players in chromosomes segregation in meiosis and in this thesis, I establish the use of Aurkc-/- mouse oocytes as an effective model for studying human AURKC ex vivo. By comparing the rescue of the knockout phenotype when hAURKC and mAURKC are expressed in the oocytes, I show that hAURKC functions similarly in female meiosis as does mAURKC.  I also characterized three splice variants of hAURKC in this model after establishing their simultaneous expression in human oocytes.  The three splice variants have different abilities and stabilities in meiosis, but promote optimal chromosome segregation when expressed simultaneously during oocyte meiosis.  Finally, I used the verified model to characterize the phenotype of three sterility-associated mutations in human AURKC. I show through functional assays that the three mutations have differing abilities in meiosis, but all result in a loss of function of the AURKC-CPC, which causes meiotic arrest and polyploid gametes. This work contributes to the field of reproductive biology by providing a tractable model for studying human AURKC and for further analysis of mutants and variants.
Esoterico, erotico, esotico
Creators: name: Forlino, Marino
Publisher: name: No Publisher Supplied
Year: 2015

description: My dissertation investigates the relationship that Boccaccio’s Decameron and Basile’s less-studied Lo cunto de li cunti: overo lo trattenemiento de’ peccerille establish with the heritage of A Thousand and One Nights by focusing on a triad of motifs (esotericism, eroticism, and exoticism) through which the Arabic prose tradition is subsumed in the Italian literary tradition. Through a comparative and critical approach of these particular collections, my dissertation both highlights the importance of Italian language and literature in the contemporary academy and challenges the cultural stereotypes that continue to blur the lens through which many still approach Arabic heritage. In Chapter 1, I analyze the three collections in terms of structure and content (the cornice novellistica and the power of words) with constant references to criticism and literary theory, demonstrating how Boccaccio and Basile’s narrative frameworks emulate  the structural and thematic organization of the Arabic masterpiece. In Chapter 2, I further examine recurrent esoteric elements such as enchantment, alchemy, black magic, genies, ghosts, ogres and other fantastical creatures and explore the relationship between reale and fiabesco, two specular categories the combination of which aims at describing the extra/ordinary world of the seventeenth century. Chapter 3 is devoted to the role of love, sexuality and licentiousness in these texts as categories that provide insight into the evolving mores and transitional natures of their societies; particular attention is devoted to the many forms and different functions of similar, if not identical, sexual metaphors present in all three narrative collections, and to the phenomenology of love, the antecedents of which harken back to the Arab tradition of Ibn Sina and Ibn Hazm and the principles and ideas of which emerge in texts like the Decameron and Lo cunto de li cunti. In Chapter 4, I scrutinize the representation of the “Orient” in all three collections, arguing that even in the Arabic text itself, the Eastern setting of the tales remains only a fictive space that can be easily interchanged with a more westernized space.
A novel characterization of signal space distortion and its application to the quantification of localization algorithm error
Creators: name: Francisco, John-Austen
Publisher: name: No Publisher Supplied
Year: 2015

description: The constant reduction in cost and increase in the power of computing machinery has resulted in  an ever-increasing interest and deployment of Internet-enabled sensing systems. Such systems have  the distinctly difficult task of making use of noisy data sampled from dynamic environments. While  some natural processes may have very exact theoretical models, real actual data rarely holds to  the model, making the comparison, improvement and iterative development of sensing applications  extremely difficult. The inability to determine whether a sensing system’s error is the result of  noisy data or algorithmic miscomputation, or the prevalence and significance of signal errors in a  particular environment make the causes of the error inscrutable. In such cases strongly amortized  or very general probabilistic analysis is often used as a last resort resulting in conclusions that are  overly generic, heuristic, or strongly underdetermined. We present a systematic method that can be  used to construct a holistic synthetic error model for sensed data, the algorithms that process it and  the environment in which it is sampled. We demonstrate how this method can be applied to the  problem of laterative localization to construct deductive, analytic and evaluative mechanisms that  allow model misperception, algorithmic error and environmental character to be understood.
Aquisextana irenaei
Creators: name: Jong, Rienk De
Publisher: name: Zenodo
Year: 2017
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Lepidoptera
Lycaenidae
Aquisextana
Aquisextana irenaei

description: irenaei. Aquisextana irenaei Théobald, 1937
Lycaenidae (?).
France, Bouches-du-Rhône, Aix-en-Provence; Chattian–Aquitanian, late Oligocene–early Miocene.
Depository: IGMF (holotype, Ma 1).
Published figures: Théobald (1937: Figs 2, 3); Leestmans (1983: Fig. 19).
A fairly well preserved specimen, showing all wings (partly overlapping), head with appendices, thorax and abdomen. According to the original description, the fossil is seen from the underside. If correct, the legs are lost. The antennae thicken gradually towards the club. They are supposed to be inserted before the eyes. This is an impossible antennal inserting area and if the insect is really seen from the underside, the insertion of the antennae should not be seen at all. Eyes elongate-oval, hairy. No emargination at the base of the antennae (apomorphy of Lycaenidae) mentioned, but otherwise not visible in ventral view. Forewing, length 21 mm; radial formula 1, 2, 3+4, with R4 ending on the outer margin just below the apex. This radial formula is found in Pieridae (e.g. Eurema Hübner, [1819]) and many Lycaenidae. In most Lycaenidae R4 terminates at the apex or on the costa close to the apex, in the Pieridae and in a few Lycaenidae, such as Curetis Hübner, [1819], an Oriental genus. In the Liphyrinae, an Old-World subfamily [see Eliot 1973], mentioned by Théobald (1937), the arrangement is not comparable, there being five radial branches and R4 terminates on the outer margin. As remarked by Théobald (1937), Curetis has a heavier thorax. Moreover, Curetis has a very different wing shape, triangular, with a straight outer margin and rectangular tornus, contrasting with the more elongate wing of the fossil, possessing a convex outer margin and rounded tornus.
On the wings a number of small dark spots are visible. Because of these spots, the general appearance and the eyes, Théobald believes his fossil to be a lycaenid, which is not close enough to any recent genus for assignment. Therefore, he erected a new genus for the fossil. From the discussion above it may be clear that evidence for a lycaenid relationship is hardly more convincing than for a pierid relationship, except that the modest size and the small dark spots that point to Lycaenidae. For want of better evidence, we follow Théobald and list this fossil under the Lycaenidae.
description: Published as part of Jong, Rienk De, 2017, Fossil butterflies, calibration points and the molecular clock (Lepidoptera: Papilionoidea), pp. 1-63 in Zootaxa 4270 (1) on page 29, DOI: 10.5281/zenodo.583183
Large datasets and trichoptera phylogenetics
Creators: name: Frandsen, Paul Bryan
Publisher: name: No Publisher Supplied
Year: 2015

description: Large datasets in phylogenetics—those with a large number of taxa, e.g. DNA barcode data sets, and those with a large amount of sequence data per taxon, e.g. data sets generated from high throughput sequencing—pose both exciting possibilities and interesting analytical problems. The analysis of both types of large datasets is explored in this dissertation. First, the use of DNA barcodes in phylogenetics is investigated via the generation of phylogenetic trees for known monophyletic clades. Barcodes are found to be useful in shallow scale phylogenetic analyses when given a well-supported scaffold on which to place them. One of the analytical challenges posed by large phylogenetic datasets is the selection of appropriate partitioned models of molecular evolution. The most commonly used model partitioning strategies can fail to characterize the true variation of the evolutionary process and this effect can be exacerbated when applied to large datasets. A new, scalable algorithm for the automatic selection of partitioned models of molecular evolution is proposed with an eye toward reducing systematic error in phylogenomics. The new algorithm is tested on a range of empirical datasets and found to provide a better fit of the model to the data as measured by information theoretic metrics like AICc. Indeed, the algorithm is found to perform particularly well when applied to a phylogenomic dataset consisting of ultra-conserved elements (UCEs). Finally, the phylogeny of Phryganeidae is estimated using a large dataset generated using targeted enrichment and high throughput sequencing. Trees generated from different modeling strategies give incongruent, but strongly supported results. The differences between the trees are examined and a new hypothesis for the relationships among the genera within Phryganeidae is posited.
MOESM1 of Effects of bacitracin methylene disalicylate and diet change on gastrointestinal integrity and endotoxin permeability in the duodenum of broiler chicken
Creators: name: Koltes, Dawn
name: Lester, Howard
name: Frost, Maurice
name: Aldridge, Douglas
name: Christensen, Karen
name: Scanes, Colin
Publisher: name: Figshare
Year: 2017
Subjects: subject: Biochemistry
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Pharmacology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: Science Policy
subject: Plant Biology
subject: Computational Biology

description: Additional file 1: Table S1. P values for the inclusion of antibiotics in the diet for morphometric changes in duodenum. Table S2. P values for duodenal traits with body weight included in the model.
Additional file 6: of Differentiated transcriptional signatures in the maize landraces of Chiapas, Mexico
Creators: name: Kost, Matthew
name: Perales, Hugo
name: Saranga Wijeratne
name: Asela Wijeratne
name: Stockinger, Eric
name: Mercer, Kristin
Publisher: name: Figshare
Year: 2017
Subjects: subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Biotechnology
subject: Ecology
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Science Policy
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology

description: Thirty year precipitation (A) and evaporation (B) related environmental parameters of maize landrace origin. (DOC 514Â kb)
Hestina japonica
Creators: name: Jong, Rienk De
Publisher: name: Zenodo
Year: 2017
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Lepidoptera
Nymphalidae
Hestina
Hestina japonica

description: japonica. Hestina japonica (C. et R. Felder, 1862)
Nymphalidae: Apaturinae.
Japan, Tochigi Pref., Shiobara; late Pleistocene, 37,800 BP. Same locality as the fossil of Papilio (cf) maacki Ménétries, see below.
Depository: NSMT (one specimen, PA12228).
Published figures: Illustrations of the extant species can be found in many books on East Asian butterflies.
Fujiyama (1983) reported on finding of the proximal half of a left forewing of which the basal part was missing. The open forewing cell and the branching off of the median veins are quite visible, as well as white patches and streaks. Venation and wing design agree completely with those of Hestina japonica, an extant species widely distributed in Japan, Korea, China and Taiwan. If this wing fragment had been found in a spider web, nobody would have doubted its identity.
description: Published as part of Jong, Rienk De, 2017, Fossil butterflies, calibration points and the molecular clock (Lepidoptera: Papilionoidea), pp. 1-63 in Zootaxa 4270 (1) on page 30, DOI: 10.5281/zenodo.583183
Additional file 7: of Differentiated transcriptional signatures in the maize landraces of Chiapas, Mexico
Creators: name: Kost, Matthew
name: Perales, Hugo
name: Saranga Wijeratne
name: Asela Wijeratne
name: Stockinger, Eric
name: Mercer, Kristin
Publisher: name: Figshare
Year: 2017
Subjects: subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Molecular Biology
subject: Biotechnology
subject: Evolutionary Biology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Ecology
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology
subject: Computational Biology

description: Environmental variation due to landscape variation. (DOC 22Â kb)
High frequency trading, hidden orders and market quality in equities
Creators: name: Gao, Cheng
Publisher: name: No Publisher Supplied
Year: 2015

description: The first essay studies the roles of trading speed and hidden orders in limit order markets. We develop a model where liquidity suppliers differ in speed of revising their limit orders and have an option of hiding their orders. The model predicts that fast liquidity suppliers bear lower adverse selection risk and therefore submit orders with narrower bid-ask spreads.  Slow liquidity suppliers may overcome their speed disadvantage by using hidden orders. We also provide empirical results that support the model. We find that non-high frequency trading firms account for 70% of liquidity provision in hidden executions, and hidden orders have significantly narrower spreads and lower adverse selection risk than visible orders. Our theoretical model and empirical findings suggest that high frequency technology and hidden orders are substitutes in reducing adverse selection risk.    The second essay investigates market quality breakdowns in equity markets. A breakdown occurs when an order book thins to the point where extreme price movements are observed. These are frequently reversed as the market learns that nothing fundamental has occurred. The daily average breakdown frequency from 1993-2011 is 0.64%, with averages in 2010-11 below this amount. Controlling for microstructure effects, breakdowns have fallen significantly since Reg NMS. Spikes in market correlation and high frequency trading (HFT) surges make breakdowns more likely. Exchange traded funds (ETFs) break down more often than non-ETFs. Both ETFs and HFT Granger cause market correlation. Breakdowns are predictable for up to two days.    The third essay analyzes HFT activity in equities during U.S. Treasury permanent open market (POMO) purchases by the Federal Reserve. We construct a model to study HFT quote and trade behavior when private information is released. We estimate that HFT firms reduce their inside quote participation by up to 8% during POMO auctions.  HFT firms trade more aggressively, and they supply less passive liquidity to non-HFT firms. Market impact also rises during Treasury POMO. Aggressive HFT trading becomes more consistently profitable, and HFT firms earn a higher return per share. We also estimate that HFT firms earn profits of over $105 million during U.S. Treasury POMO events.
Additional file 7: of Differentiated transcriptional signatures in the maize landraces of Chiapas, Mexico
Creators: name: Kost, Matthew
name: Perales, Hugo
name: Saranga Wijeratne
name: Asela Wijeratne
name: Stockinger, Eric
name: Mercer, Kristin
Publisher: name: Figshare
Year: 2017
Subjects: subject: Medicine
subject: Microbiology
subject: FOS: Biological sciences
subject: Genetics
subject: Molecular Biology
subject: Biotechnology
subject: Evolutionary Biology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Ecology
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Plant Biology
subject: Computational Biology

description: Environmental variation due to landscape variation. (DOC 22Â kb)
Towards resiliency with micro-grids
Creators: name: Gharieh, Kaveh
Publisher: name: No Publisher Supplied
Year: 2015

description: Energy security and sustained supply of power are critical for community welfare and economic growth. In the face of the increased frequency and intensity of extreme weather conditions which can result in power grid outage, the value of micro-grids to improve the communities’ power reliability and resiliency is becoming more important. Micro-grids capability to operate in islanded mode in stressed-out conditions, dramatically decreases the economic loss of critical infrastructure in power shortage occasions. More wide-spread participation of micro-grids in the wholesale energy market in near future, makes the development of new investment models necessary. However, market and price risks in short term and long term along with risk factors’ impacts shall be taken into consideration in development of new investment models.  This work proposes a set of models and tools to address different problems associated with micro-grid assets including optimal portfolio selection, investment and financing in both community and a sample critical infrastructure (i.e. wastewater treatment plant) levels. The models account for short-term operational volatilities and long-term market uncertainties. A number of analytical methodologies and financial concepts have been adopted to develop the aforementioned models as follows.  Capital budgeting planning and portfolio optimization models with Monte Carlo stochastic scenario generation are applied to derive the optimal investment decision for a portfolio of micro-grid assets considering risk factors and multiple sources of uncertainties.   Real Option theory, Monte Carlo simulation and stochastic optimization techniques are applied to obtain optimal modularized investment decisions for hydrogen tri-generation systems in wastewater treatment facilities, considering multiple sources of uncertainty.   Public Private Partnership (PPP) financing concept coupled with investment horizon approach are applied to estimate public and private parties’ revenue shares from a community-level micro-grid project over the course of assets’ lifetime considering their optimal operation under uncertainty.
Vanessa karaganica
Creators: name: Jong, Rienk De
Publisher: name: Zenodo
Year: 2017
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Lepidoptera
Nymphalidae
Vanessa
Vanessa karaganica

description: karaganica. Vanessa karaganica Nekrutenko, 1965
Nymphalidae.
Russia, Kraj Stavropol, Stavropol, N. Caucasus; late Miocene.
Depository: PIRAS (holotype, PIN 254/2936a).
Published figures: Nekrutenko (1965: Figs. 2, 3).
Hindwing only, of which tornal quarter and dorsal border are missing. Cell open, a nymphaline apomorphy found, for instance, in the recent genera Aglais, Inachis, Nymphalis, but also in some members of other subfamilies, e.g. Apatura (Apaturinae), Neptis (Limenitidinae), etc. According to Nekrutenko, the venation is typical for Vanessa, and he compares the fossil with “ V. urticae L.” This species is now placed in Aglais; Vanessa, as currently understood (type species Papilio atalanta Linnaeus), has the hindwing cell closed. It is not clear what is typical (i.e. apomorphic) about the venation of Vanessa sensu Nekrutenko, and therefore I consider the assignment of the fossil to an extant genus unwarranted. Moreover, it lacks the apparently apomorphic character of a crenulate hindwing termen, commonly found in vanessoid genera.
The pattern of the wing (underside) is also visible in the fossil. It resembles that of A. urticae, and it is reminescent of forms of A. urticae bred at elevated temperatures. Nekrutenko (1965) concluded that this condition could be of paleogeographical importance. Similar patterns on the underside of the hindwing, however, are not only found in several nymphaline genera, but also in a number of satyrine genera. Since the pattern is clearly cryptic, parallel and convergent evolution may be expected. The little evidence taken together does not allow a further identification than Nymphalidae. The assignment of this fragmentary fossil to the extant genus Aglais by Kozlov (1988), already hinted at by Nekrutenko, lacks convincing evidence.
description: Published as part of Jong, Rienk De, 2017, Fossil butterflies, calibration points and the molecular clock (Lepidoptera: Papilionoidea), pp. 1-63 in Zootaxa 4270 (1) on page 30, DOI: 10.5281/zenodo.583183
Buccio di Ranallo and his followers
Creators: name: Gillah, Nigel A.
Publisher: name: No Publisher Supplied
Year: 2015

description: This dissertation examines a series of seven chroniclers and a diarist of L’Aquila, who wrote about local events in verse and in prose between the early fourteenth and the early sixteenth centuries. The city is located in central Italy, but was at the northern end of the kingdom of Naples (the Regno). L’Aquila’s first chronicler, Buccio di Ranallo, began by going back to the city’s foundation in 1254 and then continued to 1362. Subsequent writers carried on the narration almost continuously until Vincenzo Basilii concluded with a description of L’Aquila being subjected to a penalty of one hundred thousand ducats in 1529. Like a biography, L’Aquila’s chronicle tradition covered the city’s life from its birth to its near extinction.     I believe that the Aquilan chronicles can be compared with those in northern Italy. For a long time, however, the opposite view has been influential, though less so in recent years. This argument has held that a city in the Regno could not have civic consciousness by the very fact of it being part of  a monarchical state. Rather than focusing on the court, the Aquilan writers primarily discussed events relating to the city. Buccio’s description of L’Aquila’s origins, which had value for subsequent writers, emphasized the inhabitants’ unity and examined the qualities of their leaders. He and the later chroniclers continued this internal political theme by assessing the effectiveness of the city’s local administration and its ability to cope with threats. They described complex forms of civic leadership, showing participation in decisions variously by the commune, signori, patrons, and royal captains. The narrations after the mid-1330s also revealed that local crises arose periodically, due to factionalism and the impact of uncertainty at the national level. Finally, just as chroniclers in northern Italy sometimes looked to their cities’ overriding powers, the Aquilan authors portrayed the city negotiating its relationship with the monarchy. While they found that the relationship was usually balanced during the Angevin era, the writers could be critical of the monarchs, especially later, and even depicted the citizens having recourse to the papacy for support.
Similarity detection techniques for mobile platform artifacts
Creators: name: Gokhale, Amruta
Publisher: name: No Publisher Supplied
Year: 2015

description: There has been a tremendous increase in availability and use of mobile apps in recent years. Two dominant mobile platform providers, Apple and Google, have over 1.4 million applications (apps) each in their app markets as of May 2015. Such huge number  of available apps gives rise to problems in managing app repositories. Also, a peculiar set of challenges is faced by the large community of mobile app developers.    This dissertation describes novel solutions to two problems in the space of mobile apps. The first problem is that of fragmentation of mobile app development across multiple platforms. To accelerate the native development of same app across multiple platforms, mobile app developers need tools to better navigate across different platforms. The second problem is that of keeping app repositories free of plagiarized apps. It is in the best interest of users, developers as well as app repository owners to get rid of plagiarized apps in the app markets, which often carry malicious software with them, and thus pose a threat.     Every mobile app interacts with the platform, taking advantage of the functionalities exposed by the platform. The behavior of an app can be described at a high level in terms of its interaction with the underlying platform. By monitoring the app and collecting such interaction in the form of API method invocations, we can record its high level behavior. We use this observation to build two new systems. The first system provides assistance in cross-platform mobile app development. The second system detects plagiarized mobile apps in app repositories. The proposed techniques intercept the interactions  between mobile apps and the underlying platform and utilize the interactions to infer likely resemblances between two mobile platform APIs or between mobile apps.
Rotary actuators based on pneumatically-driven elastomeric structures
Creators: name: Gong, Xiangyu
Publisher: name: No Publisher Supplied
Year: 2015

description: This thesis describes a unique mechanism – a soft rotary actuator – based on peristaltic motion and large strain of inflatable elastomeric materials, which consists of an inflatable stator paired with a rotor. Timed inflation and deflation of the air-filled bladders in the stators enable controllable rotational speed of the rotor (~18 RPM). With two configurations (Type 1 and Type 2), this rotary actuator is capable of having either an internal rotor for winch- or join-like applications or an external rotor that can serve as a wheel. Fabrication of these actuators employs the use of 3D-printed molds and meso- scale soft lithography. Characterizations of these two types of actuators (speed, torque, and power), along with demonstrations, provide a baseline for potential applications in locomotion and transportation of payloads. A squishy, four-wheeled vehicle enabled by Type 2 actuators travels at a speed of 3.7 cm/s, negotiates irregular terrain, and endures mechanical impact from a drop 7 times its height. This class of rotary actuators extends the potential functionality of soft robotic systems by providing torque without requiring the bending or twisting of tubing that provides pneumatic power.
Paper-based acoustic transducers with tunable resonance
Creators: name: Gopinath, Sandesh
Publisher: name: No Publisher Supplied
Year: 2015

description: This thesis describes the use of metallized paper as an electrostatically-driven, tunable acoustic source.  Cutting the paper into different patterns and shapes alters the frequency response of the vibrating membranes. This work includes the experimental characterization of five patterns with distinct responses and provides qualitative simulations to verify the observed behaviors. With this unique platform, the author demonstrates a potential application – similar to barcode scanning – that identifies objects based on their acoustic signatures.  In addition, it is possible to detect changes in acoustic signatures as a result of placing slits in the membranes, which suggests the platform may be applicable to anti-tampering or security-based technologies. Changes in the measured acoustic amplitudes of vibration were as large as 50%, and for cases of intentionally patterned devices, detection of tampering and incisions in membranes resulted in changes in mechanical resonance of 12%.  Overall, this platform suggests the potential viability for a new class of smart packaging that makes use of metallized paper as an environmentally benign and low-cost material.