cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Parasophronica strandiella Breuning 1940
Creators: name: Barševskis, Arvīds
name: Barševska, Zeltīte
name: Vanaga, Anarina
name: Borodina, Olga
name: Roze, Liāna
name: Pilace, Sanda
name: Mantilla, Leslae Kay Cataytay
Publisher: name: Zenodo
Year: 2021
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Coleoptera
Cerambycidae
Parasophronica
Parasophronica strandiella

description: 38. Parasophronica strandiella Breuning, 1940
Philippines: Negros isl., Central Visayas, Don Salvodor Benedicto, 08.2020 (1, local collector leg.); Panay isl., Antique, 06.2018 (1, local collector leg.).
This species is was described from Sumatra Island, Indonesia by Breuning (1940). It was also recorded from Java Island, Indonesia (Makihara et al 2002). New species for the fauna of Philippines.
description: Published as part of Barševskis, Arvīds, Barševska, Zeltīte, Vanaga, Anarina, Borodina, Olga, Roze, Liāna, Pilace, Sanda & Mantilla, Leslae Kay Cataytay, 2021, To the knowledge of long-horned beetles (Coleoptera: Cerambycidae) of the Oriental Region (with new synonymy). Part 4, pp. 229-247 in Baltic Journal of Coleopterology 21 (2) on page 238, DOI: 10.5281/zenodo.10905476
Parectatosia valida Breuning 1940
Creators: name: Barševskis, Arvīds
name: Barševska, Zeltīte
name: Vanaga, Anarina
name: Borodina, Olga
name: Roze, Liāna
name: Pilace, Sanda
name: Mantilla, Leslae Kay Cataytay
Publisher: name: Zenodo
Year: 2021
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Coleoptera
Cerambycidae
Parectatosia
Parectatosia valida

description: 39. Parectatosia valida Breuning, 1940
Vietnam: Lung Cu, Ha Giang, 04.2019 (1, local collector leg.); Laos: Mt. Phu Phan, 2080 m alt., 05.2017 (1, local collector leg.).
description: Published as part of Barševskis, Arvīds, Barševska, Zeltīte, Vanaga, Anarina, Borodina, Olga, Roze, Liāna, Pilace, Sanda & Mantilla, Leslae Kay Cataytay, 2021, To the knowledge of long-horned beetles (Coleoptera: Cerambycidae) of the Oriental Region (with new synonymy). Part 4, pp. 229-247 in Baltic Journal of Coleopterology 21 (2) on page 238, DOI: 10.5281/zenodo.10905476
Philicus trifasciatus Aurivillius 1927
Creators: name: Barševskis, Arvīds
name: Barševska, Zeltīte
name: Vanaga, Anarina
name: Borodina, Olga
name: Roze, Liāna
name: Pilace, Sanda
name: Mantilla, Leslae Kay Cataytay
Publisher: name: Zenodo
Year: 2021
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Coleoptera
Cerambycidae
Philicus
Philicus trifasciatus

description: 40. Philicus trifasciatus Aurivillius, 1927
Philippines: Mindanao isl., Surigao del Sur, San Luis, 05.2018 (1, local collector leg.), 07.2018 (1, local collector leg.).
This species was described by Aurivillius (1927) from Surigao. This species was later included to “Catalogue des Lamiaires du Monde” by Breuning (1963). This is the first faunistic data for this species after the original description.
description: Published as part of Barševskis, Arvīds, Barševska, Zeltīte, Vanaga, Anarina, Borodina, Olga, Roze, Liāna, Pilace, Sanda & Mantilla, Leslae Kay Cataytay, 2021, To the knowledge of long-horned beetles (Coleoptera: Cerambycidae) of the Oriental Region (with new synonymy). Part 4, pp. 229-247 in Baltic Journal of Coleopterology 21 (2) on page 238, DOI: 10.5281/zenodo.10905476
Topological materials
Creators: name: Liu, Jianpeng
Publisher: name: No Publisher Supplied
Year: 2015

description: In this thesis, we study the properties of topological materials using   theoretical techniques such as first-principles calculations and tight-binding models.   In the first part of the thesis, we deal with the phase transitions in 3D topological insulators.   We first study the topological phase transitions in In- and Sb-doped Bi2Se3, where distinct  behaviors are found.   In the In-doped case, we find that the In 5s orbitals destroy the topological phase at low impurity compositions,   and the phase transition  is better described by a local percolation scenario. On the other hand,  the Sb-doped Bi2Se3 is well described by a "linear-gap-closure" picture, where the phase transition  is dominated by the gradual decrease of the effective spin-orbital coupling.  We also discuss  the Weyl semimetals emerging from noncentrosymmetric  topological insulators.  We first clarify the previous theory, and prove that an intermediate Weyl semimetal must   show up through the phase transition from a 3D topological to normal insulator. Then we  propose LaBi1−xSbxTe3, LuBi1−xSbxTe3 and pressurized BiTeI as possible candidates  of Weyl semimetals.     The second part of the thesis is focused on method development.   We first propose a quantitative definition  for the band inversions driven by spin-orbit coupling in insulators, known as the ``spin-orbit spillage". The  spin-orbit spillage has been applied to various topological systems, which turns out to be a useful  tool for the identification of topological characters in band theory. In the last chapter  of the thesis, we develop a new method for calculating the   Chern-Simons orbital magnetoelectric coupling in 3D insulators. The contributions from the gauge discontinuity  and the "vortex loops" are taken into account in our method.  The former is expressed  as a 2D integral over a k plane across which the gauge of the occupied Bloch  functions become discontinuous, while the latter is expressed as the Berry phases around  1D "vortex loops" lying in the gauge-discontinuity plane. Our method is successfully applied  to the Fu-Kane-Mele model with the breaking of time-reversal symmetry.
Endocytic recycling and regulation of the early-to-recycling endosome transition
Creators: name: Liu, Ou
Publisher: name: No Publisher Supplied
Year: 2015

description: Endocytic recycling is the process by which cells return internalized cargos and receptors back to plasma membrane. Efficient recycling of cargos requires ordered transport of cargos from early endosome to recycling endosome. This is mainly achieved through the coordination of small GTPase RAB-5 and RAB-10. The small GTPase RAB-5 is a master regulator of cargo sorting at the early endosome and RAB-10 is a key resident of the recycling endosome. Countercurrent cascades of GEFs and GAPs for Rab proteins have been proposed to mediate Rab conversion, a process in which early acting Rabs are inactivated by later acting Rabs. Here we demonstrate that a downstream Rab protein, RAB-10, binds to and recruits a RAB-5 GAP, TBC-2, onto endosomes to inactivate the upstream Rab, RAB-5. This process is critical for proper relay of cargos from RAB-5 controlled early endosomes to RAB-10 regulated recycling endosomes. Lack of TBC-2 disrupted RAB-5/RAB-10 interaction and caused accumulation of recycling cargo hTAC-GFP in a malfunctioned hybrid early-recycling endosome compartment. Furthermore, our study showed that this cargo transition process from early to recycling endosome also requires the concerted effort by a BAR-domain protein AMPH-1, which acts as a binding partner and a contributor to the recruitment of TBC-2 on endosomes. In addition, the  C. elegans  Rac1 homolog CED-10 can also bind and recruit it to endosomes. Taken together, our worked showed that RAB-10, AMPH-1 and CED-10 act in a concerted manner and recruits TBC-2 to inactivate RAB-5. These interactions are essential for early-to-recycling endosome transition and endocytic recycling.     We further demonstrated here that RAB-10, recruits CNT-1, the C. elegans homolog of mammalian ACAP1 and ACAP2 (Arf6 GTPase-activating proteins) to inactivate ARF-6 and downregulate endosomal PI(4,5)P2, a key phosphoinositide in membrane traffic.
Miopieris talboti
Creators: name: Jong, Rienk De
Publisher: name: Zenodo
Year: 2017
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Lepidoptera
Pieridae
Miopieris
Miopieris talboti

description: talboti. Miopieris talboti Zeuner, 1942
Pieridae.
Germany, Baden-Würtemberg, Esslingen, Randecker Maar; Burdigalian, early Miocene.
Depository: BMNH (holotype).
Published figures: Murata (1998: Fig. 38); Zeuner (1942: Fig. 1).
This specimen is poorly preserved. Of the radial branches of the forewing only the basal parts of R1, R2 and the common stem of R3, R4 and R5, assuming the latter two are present, are visible; M2 originates from the upper angle of the cell, M1 is apparently stalked on the common stem of R3, R4 and R5; probably one R branch lost as commonly found when M1 is stalked on R, but the relevant part of the wing missing. The distad trajectory of M1 along the common stem of R3-5 is found throughout the Pieridae, but also occurs in a number of Lycaenidae and in the nymphalid genus Microtia. The light colour and dark spots at end of cell and between M3 and CuA1, and CuA1 and CuA2, agree with Pieridae, and not with other butterflies with a distally translocated M1. The condition of the fossil is too poor to allow further statements. However, Zeuner (1942) saw a similarity with Pontia callidice Hübner and Tatochile macrodice Staudinger. Perhaps on the basis of Zeuner’s remark, Braby et al. (2006) considered the “ Pontia group (possibly Pontia)” the closest relative of the fossil and used it accordingly as a calibration point.
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 40, DOI: 10.5281/zenodo.583183
Intrinsic and synaptic membrane responses of murine spiral ganglion neurons
Creators: name: Liu, Wenke
Publisher: name: No Publisher Supplied
Year: 2015

description: As the first neuronal element in the auditory pathway, spiral ganglion neurons are responsible for the initial signal encoding of complex sound information. Experiments presented in this dissertation explore the physiological basis of coding capacity in the murine postnatal spiral ganglion using electrophysiological and immunocytochemical techniques. Three separate and complete studies are presented. First, heterogeneity within each tonotopic region of the ganglion was characterized by the distribution patterns of calretinin and calbindin, two widely used markers for neuronal subpopulations (Liu and Davis, 2014). Second, the developmental establishment of diverse firing patterns in the spiral ganglion was investigated in embryonic cochlear epithelial cells in which neurogenic transcription factors were overexpressed (Nishimura et al., 2014). Finally, recordings made from acute cochlear whole-mounts preparations were made to assess the diverse intrinsic firing features in comparison to invading action potentials and passively-propagated synaptic potentials (Liu and Davis, in preparation). Results from these studies suggest that the physiological heterogeneity within the spiral ganglion may contribute to a population code essential for conveying the rich content of auditory information.
Additional file 2: Table S2. of Biological networks in Parkinsonâ  s disease: an insight into the epigenetic mechanisms associated with this disease
Creators: name: Paulami Chatterjee
name: Debjani Roy
name: Bhattacharyya, Malay
name: Sanghamitra Bandyopadhyay
Publisher: name: Figshare
Year: 2017
Subjects: subject: 29999 Physical Sciences not elsewhere classified
subject: FOS: Physical sciences
subject: Medicine
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: 69999 Biological Sciences not elsewhere classified
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: 19999 Mathematical Sciences not elsewhere classified
subject: FOS: Mathematics
subject: Cancer
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Computational Biology

description: Topological properties of the hub genes obtained from the turquoise module. (DOCX 11Â kb)
Pithomictus emandibularis
Creators: name: Barševskis, Arvīds
name: Barševska, Zeltīte
name: Vanaga, Anarina
name: Borodina, Olga
name: Roze, Liāna
name: Pilace, Sanda
name: Mantilla, Leslae Kay Cataytay
Publisher: name: Zenodo
Year: 2021
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Coleoptera
Cerambycidae
Pithomictus
Pithomictus emandibularis

description: 41. Pithomictus emandibularis (Heller, 1924)
(Fig. 9)
Philippines: Mindanao isl., Agusan del Sur, Borbon, 02.2019 (2, local collector leg.); Mindanao isl., Compostela Valley, New Albay, 03.2017 (1, local collector leg.); Mindanao isl., Davao del Sur, Kapatagan, 04.2017 (1, local collector leg.); Mindanao isl., Davao Oriental, Governor Generoso, 11.2017 (1, local collector leg.); Mindanao isl., Zamboanga del Norte, Gutalac, 09.2014 (1, local collector leg.); Mindanao isl., Agusan, Rosario, 10. 2018 (1, local collector leg.); Panay isl., Antique, 09.2017 (1, local collector leg.).
description: Published as part of Barševskis, Arvīds, Barševska, Zeltīte, Vanaga, Anarina, Borodina, Olga, Roze, Liāna, Pilace, Sanda & Mantilla, Leslae Kay Cataytay, 2021, To the knowledge of long-horned beetles (Coleoptera: Cerambycidae) of the Oriental Region (with new synonymy). Part 4, pp. 229-247 in Baltic Journal of Coleopterology 21 (2) on page 238, DOI: 10.5281/zenodo.10905476
Flexible, implantable, micro-electrode probes with an ultrafast degrading polymer coating as a temporary insertion aid for long term neuronal signal aquisition
Creators: name: Lo, Meng-Chen
Publisher: name: No Publisher Supplied
Year: 2015

description: Brain computer interfaces (BCI) establish communication between the brain and external devices by recording and decoding neural signals and using the signals to drive the devices. Implanted neural microprobes are one means of recording these signals. Despite the short term feasibility of currently available neural prosthetic devices, most of these devices suffer from long term gliosis. In order to address this challenge, it is hypothesized that smaller, more flexible probes that match the mechanical properties of brain tissue could allow better long term integration with neural tissue.     The goal of this work is to investigate and understand different device design parameters (e.g., size and material) that might affect brain tissue responses of a long term chronic intracortical neural probe. The miniaturized probe is coated with an ultrafast degrading Tyrosine-derived polycarbonate (E5005(2K)). The polymer is mechanically stiff, which allows it to act as a temporary insertion aid for the probes to penetrate tissue, yet has been designed to degrade within several hours, leaving the flexible probes in place for high fidelity recording.    First, a fabrication process was developed incorporating both probe fabrication and polymer coating procedures. The probes were characterized to ensure consistent quality. Second, the probes were evaluated using an in-vivo rat model to assess glial tissue response via immunohistochemistry. Finally, the microfabrication process was expanded to electrically functionalize the probes via metallization, to create electrodes for signal recording.     In vivo animal study suggested that both polymer coating and probe sizes play roles in glial scar formation. The larger polymer coating devices introduced more severe glial scar response despite polymer degradation within a few hours post device implantation, which might result from the more severe insertion mechanical trauma. The experimental results also confirmed our hypothesis that the smaller probe/polymer coating devices performed better with minimal glial response compared to the larger probe/polymer coating devices in both short/long terms. Finally, we demonstrated the probe’s recording feasibility using in vitro models, and showed that the electrode remained intact during polymer coating and degradation for the proper device operation.     In conclusion, the flexible microprobe with an ultrafast degrading polymer coating as an insertion aid demonstrates promising results to address challenges in electrode-cell interface. Future work will evaluate the electrical recording performance of the miniaturized probe to confirm consistent signal quality while attenuating tissue reaction for prolonged device operation.
Additional file 4: Figure S3. of Extracellular vesicle-packaged miRNA release after short-term exposure to particulate matter is associated with increased coagulation
Creators: name: Pergoli, Laura
name: Cantone, Laura
name: Favero, Chiara
name: Angelici, Laura
name: Iodice, Simona
name: Pinatel, Eva
name: Hoxha, Mirjam
name: Dioni, Laura
name: Letizia, Marilena
name: Albetti, Benedetta
name: Tarantini, Letizia
name: Rota, Federica
name: Bertazzi, Pier
name: Tirelli, Amedea
name: Dolo, Vincenza
name: Cattaneo, Andrea
name: Vigna, Luisella
name: Battaglia, Cristina
name: Carugno, Michele
name: Bonzini, Matteo
name: Pesatori, Angela
name: Bollati, Valentina
Publisher: name: Figshare
Year: 2017
Subjects: subject: Biochemistry
subject: Space Science
subject: Cell Biology
subject: Molecular Biology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Developmental Biology
subject: Hematology
subject: Virology

description: Descriptive analysis of PM10 concentrations registered on different days from recruitment. (PDF 405Â kb)
The structure of BPS spectra
Creators: name: Longhi, Pietro
Publisher: name: No Publisher Supplied
Year: 2015

description: In this thesis we develop and apply novel techniques for analyzing BPS spectra of supersymmetric quantum field theories of class S.  By a combination of wall-crossing, spectral networks and quiver methods we explore the BPS spectra of higher rank four-dimensional N = 2 super Yang-Mills, uncovering surprising new phenomena. Focusing on the SU(3) case, we prove the existence of wild BPS spectra in field theory, featuring BPS states of higher spin whose degeneracies grow exponentially with the energy. The occurrence of wild BPS states is surprising because it appears to be in tension with physical expectations on the behavior of the entropy as a function of the energy scale. The solution to this puzzle comes from realizing that the size of wild BPS states grows rapidly with their mass, and carefully analyzing the volume-dependence of the entropy of BPS states. We also find some interesting structures underlying wild BPS spectra, such as a Regge-like relation between the maximal spin of a BPS multiplet and the square of its mass, and the existence of a universal asymptotic distribution of spin-j irreps within a multiplet of given charge.  We also extend the spectral networks construction by introducing a refinement in the topological classification of 2d-4d BPS states, and identifying their spin with a topological invariant known as the “writhe of soliton paths”. A careful analysis of the 2d-4d wall-crossing behavior of this refined data reveals that it is described by motivic Kontsevich-Soibelman transformations, controlled by the Protected Spin Character, a protected deformation of the BPS index encoding the spin of BPS states. Our construction opens the way for the systematic study of refined BPS spectra in class S theories. We apply it to several examples, including ones featuring wild BPS spectra, where we find an interesting relation between spectral networks and certain functional equations.  For class S theories of A1 type, we derive an alternative technique for computing generating functions of 2d-4d BPS spectra, based on the topological data of an ideal triangulation of the Riemann surface defining the theory. We provide a set of building blocks and corresponding rules, from which the 2d-4d spectra of a vast class of theories can be algorithmically recovered.  Finally, we present previously unpublished exact results on the BPS spectrum of the SU(2) N = 2∗ theory, and briefly comment on its wall crossing.
Investigation of physical and electrochemical properties of tantalum-doped beta niobium phosphate as an electrode for lithium batteries
Creators: name: Lu, Matthew Yunching
Publisher: name: No Publisher Supplied
Year: 2015

description: Phosphate intercalation materials are an integral chemistry for secondary lithium-ion batteries. The demand for energy storage technologies with higher energy and power densities is ever increasing, indicating a necessity for the development of new battery chemistries. The robust nature of phosphate groups is a strong platform for the development of new lithium-ion battery chemistries. From here, β-NbPO5 is realized as a positive electrode material for lithium batteries. With an operating voltage circa 2V, β-NbPO5 has the potential to be either the positive or negative electrode. In this thesis, the electrochemical stability of β-NbPO5 is improved using two different methods of altering the voltage window and utilizing a Ta5+ ionic substitution to form β-TaxNb1-xPO5. Preliminary electrochemistry of the end member β-TaPO5 is reported for the first time. The flat voltage profile, excellent reversibility, and low polarization make β-TaxNb1-xPO5 a good candidate for a model reference electrode material.
Ammonia toxicity in bacteria and its implications for treatment of and resource recovery from highly nitrogenous organic wastes
Creators: name: Luther, Amanda Kay
Publisher: name: No Publisher Supplied
Year: 2015

description: Treatment of highly nitrogenous organic wastes (HNOWs) by anaerobic digestion (AD) results in the release of ammonia that can become inhibitory to methanogenesis as total ammonia nitrogen (TAN) concentration increases above 0.2 M (~3 g N L-1). This inhibition reduces potential energy recovery (as biogas) from AD systems. Toxicity/inhibition has been attributed specifically to the un-ionized species of ammonia (NH3), which increases with increasing pH and temperature. Protein degrading, amino acid fermenting bacteria play a key role in AD—liberating ammonia, and providing precursors (H2, CO2, and fatty acids) to downstream processes. The amino acid fermenting bacterium Peptostreptococcus russellii exhibits rapid growth on proteins, peptides, and amino acids, and can tolerate TAN concentrations up to 0.4 M at pH 8.5. Differential expression analysis of the P. russellii transcriptome comparing ammonia stressed (0.29 M NH4+, 74 mM NH3) and sodium stressed (0.05 M sodium chloride) growth against unstressed growth, revealed a unique transcriptional response under ammonia stress, with 680 putative genes significantly, differentially, and uniquely expressed under ammonia stress. Specifically, exposure to high ammonia resulted in downregulation of major amino acid fermentation pathways, a shift in the energy conservation systems utilized by this bacterium, and the upregulation of a pathway for glycogen synthesis. Anaerobic digestion of HNOWs produces abundant ammonia that can be recovered as a resource. Electrochemical membrane electrolysis systems show promise for resource recovery from mixed wastewaters, permitting selective recovery of NH4+ as a high purity chemical. Here we demonstrated high rates of ammonia recovery from concentrated urine using an electrochemical cell (EC). EC processing of real urine sustained high flux of NH4+ at 275 ± 5 g N m-2 d-1 over ten days of operation, with a current efficiency of 55 ± 1% and an electrical cost of 13 kWh kg-1 N transferred.
Development of amine functionalizations involving azomethine ylides
Creators: name: Ma, Longle
Publisher: name: No Publisher Supplied
Year: 2015

description: Functionalization of amines is a very important research area in organic chemistry because functionalized amines are important building blocks in many biologically active compounds and pharmaceuticals.  Outlined within this dissertation are our efforts toward the development of redox-neutral amine functionalizations involving azomethine ylides.  The redox-neutral approach avoids unnecessary manipulations on the oxidation state of a targeted molecular structure.  Therefore it has many advantages over conventional methods in which metal catalysts, oxidants or other additives are required.  We discovered the isomerization of the iminium ion via the intermediacy of azomethine ylides.  We took advantage of this unique reactivity and successfully developed the redox-neutral cyanation of amines and intramolecular Mannich reactions.  This redox-neutral Mannich reaction was further applied to the syntheses of natural product thalicatricavine and its unnatural epimer.  Furthermore, we have conducted mechanistic studies of the redox-neutral aromatization of amines and provided experimental evidence for several important intermediates proposed for this transformation.  The synthetic utilities of some of the intermediates were explored.  Lastly, a novel intermolecular hydride transfer triggered functionalization of amines was also investigated.
Skin barrier function assessed quantitatively and noninvasively with multimodal microscopy and spectroscopy methods
Creators: name: Mack, Mary Catherine
Publisher: name: No Publisher Supplied
Year: 2015

description: The skin barrier is responsible for regulating water loss and preventing penetration of exogenous substances into the body. Traditional measurement techniques rely on invasive sampling through biopsy or the measurement of macroscopic parameters.  Non-invasive skin measurement methodologies which probe skin biology and biophysics are therefore needed to expand our understanding of disease and non-disease states and to establish methods for assessing therapies targeted towards skin barrier.      The goal of this work is to identify quantitative physiological and functional parameters of skin barrier suitable for non-invasive measurement, and establish the usefulness of these parameters to monitor barrier quality through in-vivo proof-of-principle studies utilizing models of controlled barrier disruption. Specifically, we investigate changes in endpoints related to epidermal morphology and endpoints related to composition and molecular order of stratum corneum (SC) lipids.  Through controlled disruption of skin barrier function and measurement of morphological and compositional parameters by non-invasive microscopy and spectroscopy techniques, the contribution of these parameters to skin barrier function may be quantified.      To evaluate the morphological contribution to skin barrier function, we utilize a tape stripping methodology to partially remove the SC.  We observe that in addition to the expected increase in water loss resulting from altering the diffusion gradient across the SC, morphological changes are induced in the viable epidermis immediately after tape stripping and continue to evolve in the days following the tape stripping barrier insult.  Thus, monitoring the cell size and epidermal layer thickness may provide insight into the immediate and longer term responses of the skin, including lamellar body degranulation, proliferation, and differentiation.  We also probed the contribution of the composition and organization of the SC barrier lipids to overall skin barrier function.  In vivo infrared spectroscopy and fluorescence microscopy were used to demonstrate the impact of disordering SC lipids and link the molecular interaction of exogenous agents with SC lipids to the resulting changes in barrier function.  Through this work, methodologies were developed utilizing non-invasive multimodal microscopy and spectroscopy techniques to quantify skin properties at the molecular and cellular level and to relate these endpoints to the overall skin barrier function.
Weathering the storm
Creators: name: Merdjanoff, Alexis Ann
Publisher: name: No Publisher Supplied
Year: 2015

description: This dissertation uses the Gulf Coast Child and Family Health (G-CAFH) Study to examine the long-term mental health patterns of individuals highly affected by Hurricane Katrina, and establish trajectories of mental health recovery.   To do so, I use a multidimensional perspective to identify the mechanisms that illustrate why mental health recovery is often an unequal process for disaster survivors.  I examine sociodemographic, household, and social frameworks to tell a comprehensive story of mental health recovery and how it is connected to mobility.  In the first analysis, I consider how mobility rates differ depending on various social characteristics, and how such relationships can reproduce and reinforce inequalities during the recovery process.  These analyses also consider how different rates of mobility are associated with the likelihood of vulnerable populations experiencing mental health distress.  Results demonstrate that disasters often work to sustain inequalities that existed prior to the event and that mental health distress is tied to high rates of mobility.  In the second analysis, I consider how the addition or subtraction of household members can affect an adult respondent’s mental health and how household instability might mitigate or exacerbate the negative mental health effects of disasters.   Results from these analyses suggest that respondents experienced high rates of mobility coupled with household instability in the four years following Katrina.  Somewhat surprisingly, there is a significant negative effect on mental health for living in a household that expanded but not for when a household contracted.  In the third and final analysis, I examine the relationship between perceived social support and mental health using different types and levels of social support.  Results suggest that emotional support—rather than instrumental—provides the greatest positive influence on mental health over the course of recovery.  Most importantly, these findings suggest that perceived social support mediates the effect of mobility on mental health distress.  Lastly, I conclude with a discussion about mental health trajectories following disasters and argue that mental health recovery patterns can be categorized in three ways, including resilient mental health, stalled mental health, and downward mental health.
Prolibythea vagabunda
Creators: name: Jong, Rienk De
Publisher: name: Zenodo
Year: 2017
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Lepidoptera
Edelfalter
Prolibythea
Prolibythea vagabunda

description: vagabunda. Prolibythea vagabunda Scudder, 1889
Nymphalidae, Libytheinae (based on similarity rather than on apomorphy).
USA, Colorado, Teller County, Florissant; late Priabonian, late Eocene.
Depository: MCZH (holotype, no. 16353).
Published figures Scudder (1889: Pl. LIII Figs. 4 –9); Emmel et al. (1992: Fig. 1 /43); Murata (1998: Figs 44, 45); Kawahara (2013: Fig. 63).
The rather poorly preserved specimen shares at least one apomorphic character with Nymphalidae, tricarinate antennae. The very long palps are shared with the Libytheinae, but are also found in some other nymphalids (see above under Barbarothea florissanti). The relatively broad abdomen suggests a female, also indicated by the foreleg bearing complete tarsal claws. The latter is a plesiomorphic character, but in the Nymphalidae found only in Libytheinae, a feature in agreement with palpal characters. As far as visible the venation shows plesiomorphic characters, with a radial vein formula 1, 2, 3+(4+5), but large segments of the veins cannot be made out. Hindwing costa apically extended as in recent Libythea celtis (Fuessly). Apomorphic character states unique for the Libytheinae are not visible in the fossil, so its assignment to the Libytheinae, in agreement with Emmel et al. (1992), must be based on similarity only. Scudder emphasized that the fossil is more similar to Old World than to New World Libytheinae. Kawahara (2009, 2013) discussed the fossil at length. On the basis of a phylogenetic analysis of all taxa of Libytheinae, fossil and recent, he placed the fossil in the extant genus Libytheana, together with another fossil from the same fossil bed, Barbarothea florissanti (= Oligodonta florissantensis) (see comments under these names.). The difference between Libytheana vagabunda and L. florissanti is that in the latter the forewing apex is less strongly falcate. Indeed, the relatively strong falcation in L. vagabunda is not an observation, but Scudder's reconstruction, indicated by a dashed line. The insects were fossilized ca 34 Ma in a lake environment. The area has been suitable for fossilization of butterflies for a long period, a million to several million years (Smith et al. 2008). Consequently, Libytheana vagabunda and L. florissanti may have fossilized at times separated long enough for differences to evolve, possibly even at species level.
L. vagabunda as well as L. florissanti were used as calibration point for the molecular clock of the Nymphalidae by Wahlberg et al. (2009), the first also employed by Misof et al. (2014) in their paper on insect evolution for calibrating Macrolepidoptera. See also the section on Fossils and calibrating the molecular clock.
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 41, DOI: 10.5281/zenodo.583183
Ireland’s Higher Education Technical Infrastructure. A review of current context, with implications for teaching and learning enhancement
Creators: name: :: National Forum For The Enhancement Of Teaching And Learning In Higher Education
Publisher: name: Figshare
Year: 2017
Subjects: subject: 130103 Higher Education
subject: FOS: Educational sciences

description: Ireland’s Higher Education Technical InfrastructureA review of current context, with implications for teachingand learning enhancement
Additional file 1: of Sharing fishersÂ´ ethnoecological knowledge of the European pilchard (Sardina pilchardus) in the westernmost fishing community in Europe
Creators: name: Braga, Heitor
name: Pardal, Miguel
name: Azeiteiro, Ulisses
Publisher: name: Figshare
Year: 2017
Subjects: subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: FOS: Biological sciences
subject: Inorganic Chemistry
subject: FOS: Chemical sciences
subject: Science Policy

description: Statement of Informed Consent (IC) and agreement to participate in the research. (DOCX 16 kb)
Additional file 1: Additional Tables S1 and S2. of Genome build information is an essential part of genomic track files
Creators: name: Chakravarthi Kanduri
name: Domanska, Diana
name: Hovig, Eivind
name: Sandve, Geir
Publisher: name: Figshare
Year: 2017
Subjects: subject: Space Science
subject: Genetics
subject: FOS: Biological sciences
subject: Evolutionary Biology
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: Marine Biology

description: (PDF 79 kb)
Sphigmothorax tricinctus Gressitt 1951
Creators: name: Barševskis, Arvīds
name: Barševska, Zeltīte
name: Vanaga, Anarina
name: Borodina, Olga
name: Roze, Liāna
name: Pilace, Sanda
name: Mantilla, Leslae Kay Cataytay
Publisher: name: Zenodo
Year: 2021
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Coleoptera
Cerambycidae
Sphigmothorax
Sphigmothorax tricinctus

description: 42. Sphigmothorax tricinctus Gressitt, 1951
Vietnam: Ha Giang, 05.2020 (1, local collector leg.).
description: Published as part of Barševskis, Arvīds, Barševska, Zeltīte, Vanaga, Anarina, Borodina, Olga, Roze, Liāna, Pilace, Sanda & Mantilla, Leslae Kay Cataytay, 2021, To the knowledge of long-horned beetles (Coleoptera: Cerambycidae) of the Oriental Region (with new synonymy). Part 4, pp. 229-247 in Baltic Journal of Coleopterology 21 (2) on page 238, DOI: 10.5281/zenodo.10905476
Knowledge from knowledge
Creators: name: Martins Borges, Rodrigo
Publisher: name: No Publisher Supplied
Year: 2015

description: Under what conditions do we have inferential knowledge? I propose and defend the following principle: S knows that p via inference only if S knows all the premises essentially involved in her inference in support of p - “KFK” for short. Even though KFK is at least tacitly endorsed by many figures in the history of philosophy, from Aristotle through Descartes, and Kant to Bertrand Russell – and, more recently, by David Armstrong – KFK has fallen into disfavor among epistemologists over the past fifty years. In response to Edmund Gettier’s legendary paper, many have proposed views according to which one’s reasoning is a source of knowledge even if one fails to know some or all premises essentially involved in one's reasoning, while others have given up offering a theory of inferential knowledge and have focused on reasoning as a source of justified belief instead. Unfortunately, these accounts that deal with inferential knowledge are problematic; they cannot, for example, fully explain our common practice of evaluating negatively inferences with unknown premises. They also seem to rely on an overly narrow understanding of the so-called “Gettier Problem”. This dissertation aims at updating the approach to reasoning that was popular before Gettier by building on the framework of Timothy Williamson's “knowledge-first” epistemology. The aim is to carefully elaborate the view that reasoning yields knowledge only if all the premises essentially involved are also known.
High-throughput FPGA QC-LDPC decoder architecture for 5G wireless
Creators: name: Mhaske, Swapnil
Publisher: name: No Publisher Supplied
Year: 2015

description: Wireless data traffic is expected to increase by a 1000 fold by the year 2020 with more than 50 billion devices connected to these wireless networks with peak data rates upto 10 Gb/s. The next generation of wireless cellular technology (being collectively termed as 5G) is slated to operate in the mm-wave (30-300GHz) spectrum which comes with challenges such as, reliance on line of sight (LOS) communication, short range of communication, increased shadowing and, rapid fading in time. This will necessitate additional signal processing techniques such as large antenna arrays and beamsteering which will further reduce the processing budget available to the channel coding system. In an effort ort to design and develop a channel coding solution suitable to such systems, in this thesis we propose strategies to achieve a high-throughput FPGA-based decoder architecture for a QC-LDPC code based on circulant-1 identity matrix construction. We present a novel representation of the parity-check matrix (PCM) providing a multifold throughput gain. Splitting of the node processing algorithm enables us to achieve pipelining of blocks and hence layers. By partitioning the PCM into not only layers but superlayers, we derive an upper bound on the pipelining depth with respect to the size of the superlayer for the compact representation. To validate the architecture, a decoder for the IEEE 802.11n (2012) QC-LDPC is implemented on the Xilinx Kintex-7 FPGA with the help of the FPGA IP compiler available in the NI LabVIEW Communication System Design Suite (CSDS). It off ers an automated and systematic compilation flow. An optimized hardware implementation from the decoder algorithm was generated in approximately 3 minutes, achieving an overall throughput of 608Mb/s (at 260MHz). With little or no modi fications, the proposed decoder architecture caters to a wide range of circulant-1 identity matrix construction based QC-LDPC codes widely accepted in several communication and data storage standards.
Use of traditional and metagenomic methods to study fungal diversity in dogwood and switchgrass.
Creators: name: Miller, Stephen J.
Publisher: name: No Publisher Supplied
Year: 2015

description: Fungi are the second largest kingdom of eukaryotic life, composed of diverse and ecologically important organisms with pivotal roles and functions, such as decomposers, pathogens, and mutualistic symbionts. Fungal endophyte studies have increased rapidly over the past decade, using traditional culturing or by utilizing Next Generation Sequencing (NGS) to recover fastidious or rare taxa. Despite increasing interest in fungal endophytes, there is still an enormous amount of ecological diversity that remains poorly understood. In this dissertation, I explore the fungal endophyte biodiversity associated within two plant hosts (Cornus L. species) and (Panicum virgatum L.), create a NGS pipeline, facilitating comparison between traditional culturing method and culture-independent metagenomic method.    The diversity and functions of fungal endophytes inhabiting leaves of woody plants in the temperate region are not well understood.  I explored the fungal biodiversity in native Cornus species of North American and Japan using traditional culturing techniques.  Samples were collected from regions with similar climate and comparison of fungi was done using two years of collection data.   To evaluate the use of metagenomic analysis in assessing fungal diversity from enviromental samples, I first developed a pipeline to analyze Illumina metagenomic data for fungi. I created a mock fungal community in triplicate and ran it on an Illumina MiSeq. I also compared the results from Illumina metagenomic analysis with those from culture methods for switchgrass root samples. I found the developed pipeline yielded high reproducibility among the three mock communities and a high correlation with the traditional culture method for the environmental samples. These results suggest that the developed pipeline is suitable for fungal metagenomic analysis and can capture more diversity than the culture-based methods.  However, there still are software limitations and problems in taxonomy that need further improvement.
Topics in model averaging & toxicity models in combination  therapy
Creators: name: Mitra, Priyam
Publisher: name: No Publisher Supplied
Year: 2015

description: In this dissertation we work on two problems. In the first problem we propose a general framework for frequentist model averaging and explore its applications. In the second problem, we propose an adaptive design using a copula model that helps us analyze data from drug combination therapy. It is shown later that these new methods are more efficient than the existing methods.    Model selection methods often ignore the uncertainty introduced in the selection process and there always remains the possibility that the selected model can possibly be a wrong one. A model averaging approach addresses this issue by combining estimators for a set of candidate models so that it incorporates the underlying model uncertainty.   In Chapter 2 we establish a general frequentist model averaging framework that greatly broadens the scope of the existing methodologies under the frequentist model averaging development. We propose a set of weights to combine the individual estimators so that the asymptotic mean squared error of the model average estimator is minimized.   Results from simulations and real data analysis show the benefits of the proposed approach over traditional model selection approaches as well as existing model averaging methods.     The early phase clinical studies in drug development are focused on the toxicity and sometimes efficacy of a new treatment or a new combination of treatments.   Often the aim is to identify a maximum tolerated dose (MTD), which is the maximum dose combination level that does not cause an unacceptable toxicity.   In Chapter 3, we explore the combination of two treatments using a copula model. We combine the individual toxicity profiles of the treatments to develop the combination model framework. The theoretic framework is further extended to a combination of more than two treatments and combination of ordinal toxicity measures. A case study based on a combination oncology trial is presented to demonstrate the proposed dose finding strategy for combination therapy.
Additional file 2: of Sharing fishersÂ´ ethnoecological knowledge of the European pilchard (Sardina pilchardus) in the westernmost fishing community in Europe
Creators: name: Braga, Heitor
name: Pardal, Miguel
name: Azeiteiro, Ulisses
Publisher: name: Figshare
Year: 2017
Subjects: subject: Molecular Biology
subject: Ecology
subject: FOS: Biological sciences
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: Inorganic Chemistry
subject: FOS: Chemical sciences
subject: Science Policy

description: Script of interview. (DOCX 14 kb)
Vanessa vetula
Creators: name: Jong, Rienk De
Publisher: name: Zenodo
Year: 2017
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Lepidoptera
Nymphalidae
Vanessa
Vanessa vetula

description: vetula. Vanessa vetula von Heyden, 1859
Incertae sedis.
Germany, Rheinland-Pfalz, Siebengebirge, Rott; Chattian, late Oligocene.
Depository: BMNH (holotype, but not found).
Published figures: von Heyden (1859: Pl. 1 Fig. 10); Scudder (1875: Pl. III Figs 12, 16, as Thanatites juvenalis).
The original description and figure of this specimen was reproduced by Scudder (1875), who corrected previous mistakes and compared the fossil to the hesperiid Thanaos juvenalis (Fabricius) (Pyrginae; now in Erynnis). Because of supposed similarities, Scudder (1875) erected the genus Thanatites for the fossil. There is, however, very little to support this opinion. As remarked by Scudder (1875: 65), the fossil "…is excessively obscure at the present time, and no fossil object I have ever studied has proved so difficult to decipher as this." The venation is too obscure to be helpful. The only character that could point to Hesperiidae is the presence of a costal fold, an apomorphy of part of the Hesperiidae. However, it is not mentioned in the original description, and only casually so by Scudder. Moreover, it is not shown in the figure. Scudder's assumption that the nearest living allies occur in tropical America is pure speculation, especially since it is not even certain that the fossil belongs to the Hesperiidae. There are no indications either, that the fossil belongs to the Nymphalidae, as supposed by von Heyden (1859). Kirby (1871) placed it in the recent genus Araschnia, apparently following von Heyden who compared it to Vanessa levana Linnaeus, now in Araschnia). Unless the specimen can be found and studied in greater detail, it is inconsequential for understanding either the timing or relationships of butterflies. Kozlov (1988) listed the fossil as “ Thanaites vetulinus (Heyden)”.
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 41, DOI: 10.5281/zenodo.583183