cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Changes in markers of stress, recovery, training load and performance during a women's Division I Field Hockey season
Creators: name: Conway, Sean P.
Publisher: name: No Publisher Supplied
Year: 2016

description: Understanding how the the health and physiology of female collegiate athlete changes in response to training is critical to optimizing performance and maintaining fitness over a long competitive season. Evaluating these changes using blood-based biomarkers along with fitness tests and training activities may help maximize outcomes and improve athlete management. PURPOSE: To evaluate changes in fitness and blood-based biomarkers over a Women’s Division I Field Hockey season. METHODS: Field hockey players (N= 23; Mage=191.09 yrs; Mht=166.053.33 cm; Mwt=64.497.39 kg; M%BF=26.146.52) were monitored for changes in biomarkers prior to the start of pre-season (T1) and at four week intervals thereafter (T2, T3, T4). Athletes arrived fasted and euhydrated prior to the first pre-season practice and 36 hours after a game for T2, T3 and T4. Blood was used to assess biomarkers correlated with stress, oxygen carrying capacity, metabolism and nutritional status. On a separate visit from T1 and T4 athletes reported for performance testing including body composition (%BF), vertical jump (VJ) and a maximal graded exercise test to (VO2max) via direct gas exchange. All players were monitored for training stress using the Polar Team2 System throughout training. Results: There was no significant (P>0.05) change in total cortisol but, significant differences (P<0.05) were found in markers associated with training induced stress. Significant differences (P<0.05) were found in all metabolic, nutritional and hematological markers over the course of the season. Fitness tests were found to be significantly correlated with changes in stress, metabolism and Kcal expenditure during the pre-season (T1 – T2). Conclusions: These results show significant changes in biomarkers and training stress over the course of a competitive field hockey season. Biomarkers were shown to significantly change throughout the season but most of this change occurred during intense pre-season training (T1-T2). Continued elevation of these markers showed athletes never truly recovered throughout the season despite significant decreases in training volume. Despite showing no significant change over the season performance markers were shown to be predictive of the pre-season response to training. Incorporating blood-based biomarkers into an established monitoring program can help coaches better evaluate team training stress and recovery.
Geology of Norvin Green State Forest, Passaic County, New Jersey, and geologic self-guided tour
Creators: name: Volkert, Richard A.
name: Stanford, Scott D.
Publisher: name: No Publisher Supplied
Year: 2013

description: The report contains a visitors' walking tour that highlights the evolution visible in the geology of Norvin Green State Forest, a forest located in a sparsely developed area of Passaic County  in northern New Jersey. The tour shows visitors where to find evidence of the evolution across several geologic eras which date back as far back as 1,000 million years ago.
Geologic history and virtual field trip of the New Jersey Highlands
Creators: name: Volkert, Rich
name: Witte, Ron
Publisher: name: No Publisher Supplied
Year: 2006

description: This is a virtual field trip through the New Jersey Highlands, an area of about 1000 square miles that includes ridges, woodlands, lakes, and waterfalls. The virtual field trip describes the geologic history of the Highlands and includes pictures and descriptions of the highlights of the region.
Dyscolus danglesi Moret 2020, sp. nov.
Creators: name: Moret, Pierre
name: Murienne, Jérôme
Publisher: name: Zenodo
Year: 2020
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Coleoptera
Carabidae
Dyscolus
Dyscolus danglesi

description: Dyscolus danglesi Moret sp. nov.
urn:lsid:zoobank.org:act: 4D9BB587-2E50-4A2F-BD6A-8C693E0C7029
Figs 17–18
Etymology
Noun in the genitive case, dedicated to Olivier Dangles, senior researcher in ecology, companion of Humboldtian adventures.
Type material
Holotype (only known specimen)
ECUADOR • ♂; Loja Province, Parque Nacional Yacuri, Waypoint 170; 4.781387º S, 79.386938º W; 2870 m a.s.l.; 4 Aug. 2016; P. Moret and S. Aguirre leg.; COI voucher PM170-01, BOLD sequence SUM190-18; MNHN.
Diagnostic description
Habitus: Fig. 17. Wingless. Body length: 12.8 mm. Body entirely black; femora and tibiae nigropiceous, tarsi and palpi reddish brown; antennomeres 1–4 nigropiceous with the base and the apex testaceous, antennomeres 5–11 reddish brown. Elytral microsculpture transverse. Head small, distinctly constricted basally; frons with two broad round depressions close to the anterior supraorbital seta; eyes convex and prominent, genae long, slightly convex; mandibles long, acutely ended. Pronotum cordiform, slightly broader than long; sides feebly arcuate apically, sinuate basally; hind angles rounded; two pairs of lateral setae. Elytra elongate-oval, base very narrow, humeri completely effaced; striae weakly impressed, subpunctate, intervals slightly convex near apex; subapical sinuation obsolete. Third elytral interval without discal setae. Last visible abdominal ventrite of the male with three pairs of setae along its apical margin. Legs slender, fourth metatarsomere with one pair of subapical dorsolateral setae, apical lobes asymmetrical with a big outer lobe and no inner lobe. Male genitalia: Fig. 18. Median lobe arcuate in its basal half, then straight (in lateral view), apex short and blunt, endophallus with seven denticles in a small, slightly sclerotized subapical structure. Female genitalia: unknown.
Comparisons
This species shares with D. caulatus Moret, 1993 the general form of the body and the absence of setae on the third interval of the elytra, but D. caulatus lacks the anterior supraorbital seta and the posterior pronotal seta, and has a conspicuous foveate elytral pattern.
Habitat
Upper montane forest on the Eastern slope of the Andes, at around 2870 m a.s.l. Collected by pyrethrin insecticide fogging on mossy branches and epiphytes, two meters above ground.
Geographic distribution
Only known from the type locality in Southern Ecuador, in Parque Nacional Yacuri. Probably microendemic.
description: Published as part of Moret, Pierre & Murienne, Jérôme, 2020, Integrative taxonomy of the genus Dyscolus (Coleoptera, Carabidae, Platynini) in Ecuadorian Andes, pp. 1-55 in European Journal of Taxonomy 646 on pages 22-23, DOI: 10.5852/ejt.2020.646, http://zenodo.org/record/3829682
Charidotis nucleata Boheman 1855
Creators: name: Sekerka, Lukáš
Publisher: name: Zenodo
Year: 2016
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Coleoptera
Chrysomelidae
Charidotis
Charidotis nucleata

description: Charidotis nucleata Boheman, 1855
Charidotis nucleata Boheman, 1855: 18 (original description).
Charidotis orbifera Boheman, 1855: 14 (original description), syn. nov.
Type localities. Charidotis nucleata: ‘Brasilia’; C. orbifera: ‘Brasilia ad flumen Amazonis’.
Type material examined. Charidotis nucleata: SYNTYPE: 1 spec., pinned, ‘ Para [w, hw, s] || Bhn. [w, p, s] || Type. [w, p, s] || NHRS-JLKB | 000021815 [w, p, cb]’ (NHRS). 1 spec., pinned, ‘ Para [w, hw, s] || Baly Coll. | 1905—54. [w, p, cb] || Charidotis | orbifera | Boh | Amazons [w, hw by Baly, cb] || Type Boh | Col Jekel [hw by Baly on underside of the preceding label]’ (BMNH).
Charidotis orbifera: HOLOTYPE: pinned, ‘Amazo | na [w, hw, s] || Jekel [w, hw, s] || Type. [w, p, s] || NHRS-JLKB | 000021818 [w, p, cb]’ (NHRS).
Remarks. BOHEMAN (1855) described C. nucleata and C. orbifera in the same publication and separated them based on colouration and size. Both taxa have a black ring on elytra, becoming brownish or reddish towards their centre. Boheman described the colouration of C. orbifera as being darker, almost black, only with a ferruginous tip of scutellum, while in C. nucleata it has a distinct brownish-red inner ring. I have studied and compared types of both taxa and could not find reasonable characters to separate the two taxa besides colouration. The shape of clypeus, ratio of antennomeres and punctation of elytra are identical and I hereby synonymize the two taxa. As both were described in the same publication I followed the Principle of the first reviser (ICZN 1999: Article 24.2) and chose C. nucleata as the valid name for this species as it appears to be always correctly applied and historic material identified in museums agrees with the type.
Distribution. Brazil: Pará (SPAETH 1936, BOROWIEC 2002) and Rio de Janeiro (FLINTE et al. 2009).
description: Published as part of Sekerka, Lukáš, 2016, Taxonomic and nomenclatural changes in Cassidinae (Coleoptera: Chrysomelidae), pp. 275-344 in Acta Entomologica Musei Nationalis Pragae 56 (1) on page 292, DOI: 10.5281/zenodo.5305725
MOESM2 of A first description of the Colombian national registry for rare diseases
Creators: name: Mateus, Heidi
name: Pérez, Ana
name: Mesa, Martha
name: Escobar, Germán
name: Jubby Gálvez
name: Montaño, José
name: Ospina, Martha
name: Laissue, Paul
Publisher: name: Figshare
Year: 2017
Subjects: subject: Biophysics
subject: Biochemistry
subject: Medicine
subject: Molecular Biology
subject: Sociology
subject: FOS: Sociology
subject: Marine Biology
subject: Computational Biology

description: Additional file 2. Additional methods include two sections: establishing a national registry and statistical analysis.
Additional file 4: Table S2. of Characterizing endophytic competence and plant growth promotion of bacterial endophytes inhabiting the seed endosphere of Rice
Creators: name: Walitang, Denver
name: Kiyoon Kim
name: Munusamy Madhaiyan
name: Kim, Young
name: Yeongyeong Kang
name: Tongmin Sa
Publisher: name: Figshare
Year: 2017
Subjects: subject: Medicine
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: Ecology
subject: 69999 Biological Sciences not elsewhere classified
subject: Developmental Biology
subject: Virology

description: Functional traits and metabolic activity associated to endophytic adaptation of bacterial endophytes in seeds of rice. (DOCX 25 kb)
Additional file 2: of scDual-Seq: mapping the gene regulatory program of Salmonella infection by host and pathogen single-cell RNA-sequencing
Creators: name: Avital, Gal
name: Roi Avraham
name: Fan, Amy
name: Hashimshony, Tamar
name: Hung, Deborah
name: Yanai, Itai
Publisher: name: Figshare
Year: 2017
Subjects: subject: Space Science
subject: Microbiology
subject: FOS: Biological sciences
subject: Molecular Biology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: Developmental Biology
subject: 110309 Infectious Diseases
subject: FOS: Health sciences
subject: 60506 Virology
subject: Computational Biology

description: Supplementary figures. This file includes four supplementary figures. (PDF 3997 kb)
An examination of the accuracy and intelligibility of consonant production by English language learners
Creators: name: Conway, Elizabeth
Publisher: name: No Publisher Supplied
Year: 2016

description: English language learners (ELLs) may find that their accents can obscure communication in English. As a result of this potential communication barrier, pronunciation classes are often offered by different community resources to promote improved English pronunciation. While the existing literature regarding ELL pronunciation instruction has investigated the effects of instruction using either a quantitative analysis of production accuracy or a qualitative assessment of ELLs’ intelligibility, the present study advances the field by employing a mixed-methods approach to investigate the effects of instruction on both production accuracy and intelligibility of ELLs.  Twenty-eight ELLs were recruited from two different oral communication courses at a community college. Their speech samples were collected at three different instructional intervals: prior to instruction, upon course completion, and six weeks after course completion. These speech samples were analyzed for production accuracy of word-initial and word-final consonants across the instructional intervals and between the two instructional cohorts, one that focused on explicit pronunciation instruction and the other on fluency-building communicative instruction.  The quantitative analyses revealed that the production accuracy of the two cohorts improved from the pre-instructional to the initial post-instructional interval; however, their accuracy destabilized at the delayed post-instructional interval. Another finding was uncovered; the participants’ intelligibility as evaluated by native and non-native English speaking raters steadily improved from the pre-instructional interval to the delayed post-instructional interval. The qualitative results revealed that six participant case studies exhibited differences in their metalinguistic awareness from pre- to post-instructional intervals which appeared to be influenced by the instructional cohort in which they were enrolled. The study also discusses how English exposure both in and outside of the classroom conditioned participants’ intelligibility and confidence in English.
Ctenocharidotis nobiliata
Creators: name: Sekerka, Lukáš
Publisher: name: Zenodo
Year: 2016
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Coleoptera
Chrysomelidae
Ctenocharidotis
Ctenocharidotis nobiliata

description: Ctenocharidotis nobiliata (Boheman, 1855)
Coptocycla nobiliata Boheman, 1855: 437 (original description).
Coptocycla Briseis Boheman, 1862: 412 (original description), syn. nov.
Type localities. Coptocycla briseis: ‘Brasilia’; Coptocycla nobiliata: ‘Brasilia’.
Type material examined. Coptocycla briseis: HOLOTYPE: pinned, ‘Type [w, p, s, c, rf] || Brazil [hw] | Baly Coll. | 1905—54. [w, p, cb] || Coptocycla | Briseis | Boh | Brazil [w, hw by Baly, cb] || Coll | Fry | Named by | Boheman | Type 126 [hw by Baly on underside of preceding label] ’ (BMNH).
Coptocycla nobiliata: HOLOTYPE: pinned, ‘ Rio Jan [w, p, s] || F. Sahlb. [w, p, cb] || Type. [w, p, s] || NHRS-JLKB | 000022074 [w, p, cb]’ (NHRS).
Remarks. BOHEMAN (1855) explicitly described Coptocycla nobiliata from a single specimen. I also assume that Coptocycla briseis was based on a single specimen according to the original description, due to its not fully sclerotized elytra and unusual colouration.
SPAETH (1926) studied a specimen compared with the type of C. briseis by G. E. Bryant and concluded that it is close to C. nobiliata, differing only in the sparser punctation of elytra. I have studied the holotype of C. briseis as well as the specimen compared by Bryant and both are teneral and not fully sclerotized. As a result, the punctation of elytra artificially appears sparser and finer than in C. nobiliata. Otherwise both taxa are identical and lead me to synonymize C. briseis with the latter species.
Distribution. Brazil: Rio de Janeiro (FLINTE et al. 2009).
description: Published as part of Sekerka, Lukáš, 2016, Taxonomic and nomenclatural changes in Cassidinae (Coleoptera: Chrysomelidae), pp. 275-344 in Acta Entomologica Musei Nationalis Pragae 56 (1) on page 293, DOI: 10.5281/zenodo.5305725
Additional file 2: of scDual-Seq: mapping the gene regulatory program of Salmonella infection by host and pathogen single-cell RNA-sequencing
Creators: name: Avital, Gal
name: Roi Avraham
name: Fan, Amy
name: Hashimshony, Tamar
name: Hung, Deborah
name: Yanai, Itai
Publisher: name: Figshare
Year: 2017
Subjects: subject: Space Science
subject: Microbiology
subject: FOS: Biological sciences
subject: Molecular Biology
subject: 59999 Environmental Sciences not elsewhere classified
subject: FOS: Earth and related environmental sciences
subject: 69999 Biological Sciences not elsewhere classified
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: Developmental Biology
subject: Infectious Diseases
subject: FOS: Health sciences
subject: Virology
subject: Computational Biology

description: Supplementary figures. This file includes four supplementary figures. (PDF 3997 kb)
An affine Weyl group interpretation of the "motivated proofs" of the Rogers-Ramanujan and Gordon-Andrews-Bressoud identities
Creators: name: Coulson, Bud B.
Publisher: name: No Publisher Supplied
Year: 2016

description: A “motivated proof” of the Rogers-Ramanujan identities was given by G.  E. Andrews and R. J. Baxter. This proof was generalized to the odd-moduli case of Gordon's  identities by J. Lepowsky and M. Zhu, and later to the even-moduli case of the Andrew-Bressoud  identities by S. Kanade, Lepowsky, M. C. Russell and A. Sills. We present a reinterpretation of  these proofs, with new motivation coming from the affine Weyl group of $mathfrak{sl}(2)$.
Optimal data utilization for goal-oriented learning
Creators: name: Cowan, Charles Wesley
Publisher: name: No Publisher Supplied
Year: 2016

description: We are interested in the problem of utilizing collected data to inform and direct learning towards a stated goal. In this work, a controller is presented with a finite set of actions that may be sequentially (and repeatedly) taken towards the achievement of some goal. While the outcome of any action is stochastic, the result provides information about future results of that action, and potentially others. By following a rule or control policy, the controller wishes to sequentially take actions, collect information, and utilize it towards future action decisions, in such a way as to approach the stated goal.    In the first model, at least one action is `best', and the goal is to identify and take such an action as frequently as possible. This requires learning the actions' underlying dynamics based on repeated observations of the stochastic results of those actions; this encapsulates the classic `exploration vs exploitation' dynamic, to test many actions, or to take only the action currently believed to be best. We derive asymptotic lower bounds on how effective any universally good policy can be, as a function of initial knowledge. Additionally, we define a generic control policy and conditions under which it is provably asymptotically optimal, and give a number of examples to illustrate the scope and application of the model.    In the second model, the goal is to maximize some utility of all actions taken, e.g., total expected rewards collected. Additionally, each action has an associated breaking or halting time, which if reached ends the control process. This again captures the `exploration vs exploitation' dynamic, as the controller must balance the reward of any one action against the risk of halting and loss of opportunity for future rewards. As the goal depends on the actual results achieved, there is generally no single `best' action as in the previous model. In many contexts, we derive a dynamic `action valuation' scheme that gives rise to an optimal control policy.
Predictive modeling, simulation, and optimization of laser processing techniques
Creators: name: Criales Escobar, Luis Ernesto
Publisher: name: No Publisher Supplied
Year: 2016

description: One of the most frequently evolving areas of research is the utilization of lasers for micro-manufacturing and additive manufacturing purposes. The use of laser beam as a tool for manufacturing arises from the need for flexible and rapid manufacturing at a low-to-mid cost. Laser micro-machining provides an advantage over mechanical micro-machining due to the faster production times of large batch sizes and the high costs associated with specific tools. Laser based additive manufacturing enables processing of powder metals for direct and rapid fabrication of products. Therefore, laser processing can be viewed as a fast, flexible, and cost-effective approach compared to traditional manufacturing processes.   Two types of laser processing techniques are studied: laser ablation of polymers for micro-channel fabrication and selective laser melting of metal powders. Initially, a feasibility study for laser-based micro-channel fabrication of poly(dimethylsiloxane) (PDMS) via experimentation is presented. In particular, the effectiveness of utilizing a nanosecond-pulsed laser as the energy source for laser ablation is studied. The results are analyzed statistically and a relationship between process parameters and micro-channel dimensions is established. Additionally, a process model is introduced for predicting channel depth. Model outputs are compared and analyzed to experimental results. The second part of this research focuses on a physics-based FEM approach for predicting the temperature profile and melt pool geometry in selective laser melting (SLM) of metal powders. Temperature profiles are calculated for a moving laser heat source to understand the temperature rise due to heating during SLM. Based on the predicted temperature distributions, melt pool geometry, i.e. the locations at which melting of the powder material occurs, is determined. Simulation results are compared against data obtained from experimental Inconel 625 test coupons fabricated at the National Institute for Standards & Technology via response surface methodology techniques. The main goal of this research is to develop a comprehensive predictive model with which the effect of powder material properties and laser process parameters on the built quality and integrity of SLM-produced parts can be better understood. By optimizing process parameters, SLM as an additive manufacturing technique is not only possible, but also practical and reproducible.
Private collections in public spaces
Creators: name: Crosmer, Katherine M.
Publisher: name: No Publisher Supplied
Year: 2016

description: For many indigenous groups, sensitive materials including human remains, funerary objects and sacred objects retain a profound importance to living communities. In part due to private collection practices of the twentieth century, many culturally-sensitive objects—sometimes unknowingly—have become part of museum collections worldwide. While many descendent communities have or will seek repatriation of such materials, the display and care of sensitive objects while in custody of museums is a major concern. This thesis seeks to provide curatorial and collections management recommendations that address both traditional indigenous beliefs and modern curation standards as they pertain to the identification, display, storage and handling of culturally-sensitive objects found in privately-amassed collections.  The research conducted for this study involved an inventory review of the Chappell Collection located at the BLM Anasazi Heritage Center in Dolores, Colorado. As a collection receiving federal funding from the United States, culturally-sensitive funerary objects applicable under the Native American Graves Protection and Repatriation Act (NAGPRA) comprise approximately one-third of the entire Chappell Collection. Although the curation management guidelines provided within this thesis are specific to the Chappell Collection, this case study seeks to provide a framework for other institutions to not only identify sensitive objects within formerly private collections, but also work with indigenous groups to develop new curation standards and exhibit content with respect to extant cultures.
Exestastica ignobilis
Creators: name: Sekerka, Lukáš
Publisher: name: Zenodo
Year: 2016
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Coleoptera
Chrysomelidae
Exestastica
Exestastica ignobilis

description: Exestastica ignobilis (Boheman, 1854)
Chelymorpha ignobilis Boheman, 1854: 21 (original description).
Hybosa indecens Boheman, 1855: 3 (original description), syn. nov.
Type localities. Chelymorpha ignobilis: ‘Brasilia’; Hybosa indecens: ‘Brasilia’.
Type material examined. Hybosa indecens: HOLOTYPE: ♀, pinned: ‘ Brasil. [w, p, s] || Bhn. [w, p, s] || Type. [w, p, s] || NHRS-JLKB | 000022206 [w, p, cb]’ (NHRS).
Remarks. BOHEMAN (1854) described Chelymorpha ignobilis from ZMHB material. SPAETH (1909a) proposed for this species the genus Exestastica Spaeth, 1909, however, pointed that the specimen he used for description did not fully agree with the original description of C. ignobilis but with additional specimens identified as that species in various collections. BOROWIEC (1999a) synonymized Hybosa margineguttata Wagener, 1877 with E. ignobilis but he was not able to locate the type of the latter in the ZMHB collection. During my stay in ZMHB I was also unable to trace the type of E. ignobilis and I thus follow Spaethʼs concept of the species. I studied the holotype of Hybosa indecens and found that it is conspecific with E. ignobilis and I therefore synonymize both species.
Distribution. Brazil: Espirito Santo (SPAETH 1909) and Rio de Janeiro (BOROWIEC 1996).
description: Published as part of Sekerka, Lukáš, 2016, Taxonomic and nomenclatural changes in Cassidinae (Coleoptera: Chrysomelidae), pp. 275-344 in Acta Entomologica Musei Nationalis Pragae 56 (1) on pages 293-294, DOI: 10.5281/zenodo.5305725
First passage times and relaxation times of unfolded proteins and the funnel model of protein folding
Creators: name: Dai, Wei
Publisher: name: No Publisher Supplied
Year: 2016

description: Protein folding has been a challenging puzzle for decades but it is still not fully understood. One important way to gain insights of the mechanism is to study how kinetics in the unfolded state affects protein folding. The answer to this fundamental issue hinges on the time scale to equilibrate the unfolded state and the energy landscape of the unfolded state. We construct Markov state models (MSMs) of several mini-proteins to study the kinetics of their unfolded state ensemble and find that the folding kinetics are two-state even though there are multiple folding pathways with nonuniform barriers, which are the direct consequences of rapid mixing within the unfolded state. Also, we introduce a time integral of a proper correlation function, namely relaxation time, to characterize the time scale of equilibration within the unfolded state. However, the mean first passage times (MFPTs) between different regions of the unfolded state are observed to be orders of magnitude longer than the folding time. This seeming paradox is solved by the derivation of a simple relation that shows the mean first passage time to any state is equal to the relaxation time of that state divided by its equilibrium population. This simple relation explains why MFPTs among unfolded states can be very long but the energy landscape can still be smooth (minimally frustrated). As a matter of fact, when the folding kinetics is two-state, all of the unfolded state relaxation times are faster than the folding time. This result supports the well-established funnel-like energy landscape picture and resolves an apparent contradiction between this model and the recently proposed kinetic hub model of protein folding. Markov state model is a powerful tool but we seek for alternative ways of studying kinetics when MSM does not work very well. For example, diffusion maps of dimensionality reduction and discrete transition-based reweighting analysis method, are very useful in determining a geometrical measure that preserves intrinsic dynamics and in fully utilizing enhanced sampling simulation data.
Hybrid discriminative-generative methods for human pose reconstruction from monocular imagery
Creators: name: Dilsizian, Mark
Publisher: name: No Publisher Supplied
Year: 2016

description: Estimating 3D human pose from monocular images is an important and challenging problem in computer vision with numerous applications including human-computer interaction, human activity recognition, biomechanical analysis, and security. Existing state-of-the-art methods utilize statistical learning models that are inherently limited because they require sufficient training data that does not often include uncommon pose articulations or subject proportions. In addition, these methods often return global average case results and cannot easily leverage anthropomorphic, kinematic, and other physics-based constraints. However, a prior model-based search can be computationally prohibitive due to the combinatorially large set of plausible joint combinations. We combine statistical learning-based approaches with a prior part-based model into a hybrid constrained optimization that leverages strengths of both approaches. The method guarantees a plausible human pose while also resolving local ambiguities among body parts. Qualitative evaluation of the proposed methods on human pose datasets show improvement in reconstruction accuracy compared to current state-of-the-art methods.
Additional file 1: Table S1. of Treatment with the anti-IL-6 receptor antibody attenuates muscular dystrophy via promoting skeletal muscle regeneration in dystrophin-/utrophin-deficient mice
Creators: name: Wada, Eiji
name: Tanihata, Jun
name: Iwamura, Akira
name: ShinâIchi Takeda
name: Hayashi, Yukiko
name: Matsuda, Ryoichi
Publisher: name: Figshare
Year: 2017
Subjects: subject: Biochemistry
subject: Medicine
subject: Cell Biology
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Neuroscience
subject: Physiology
subject: Pharmacology
subject: Biotechnology
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Hematology

description: Primer sequences used for quantification of gene expression. Figure S1. A representative image of measuring axes of skeletal muscle fibers using IN Cell Analyzer 2200. A muscle fiber is first fit to a bounding ellipse. The shorter axis is automatically recognized as the minor axis and the longer is the major axis. The minor axis was used to analyze a distribution of the quadriceps muscle fiber diameter. Figure S2. Western blot analysis. The protein expression of pSTAT3, STAT3, periostin, PDGFRÎą and GAPDH in the quadriceps muscle (QF) and heart (H) of wild-type mice, and dKO mice treated with rat IgG or MR16-1. (DOCX 1617 kb)
Helocassis ramosa Sekerka 2016, comb. nov.
Creators: name: Sekerka, Lukáš
Publisher: name: Zenodo
Year: 2016
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Coleoptera
Chrysomelidae
Helocassis
Helocassis ramosa

description: Helocassis ramosa (Boheman, 1855) comb. nov.
Coptocycla ramosa Boheman, 1855: 393 (original description).
Type locality. Colombia, Tolima Department, Honda.
Type material examined. HOLOTYPE: pinned: ‘E. Coll. | Chevt. [w, p, cb] || Type [w, p, s, c, rf] || N Grena | Honda | G Goudot [g, hw by Chevrolat, s] || 66 [g, p, s] || aspidom | ramosa | Bhn | Honda [w, hw by Chevrolat, s] || 67·56 [w, p, s] || Coptocycla | ramosa, | Bohem | Type in coll. Chevr. [w, hw by Gahan, cb]’ (BMNH).
Remarks. BOHEMAN (1855) described this species presumably from a single specimen from the collection of Chevrolat. He compared it with Coptocycla clavata (Fabricius, 1798) and it was placed in the same group as other species latter transferred to the genus Helocassis Spaeth, 1952 (in HINCKS 1952). SPAETH (1937) however, placed Coptocycla ramosa in Plagiometriona Spaeth, 1899, most likely based on the primary description. I have studied its type and the species in fact belongs to Helocassis as it has a head with frontoclypeal sulci, which are absent in Plagiometriona. The species is morphologically most similar to H. crucipennis (Boheman, 1855) but differs in the base of elytra much wider than the base of pronotum, humeral angles protruding anterad, and subpentagonal body outline with straight lateral sides of elytra while H. crucipennis has oval body with weakly projecting humeral angles. The body shape is more similar to H. testudinaria (Boheman, 1855) and H. clavata, however, both have rugose surface of elytra and high postscutellar tubercle, which is very low in H. ramosa and it also has smooth surface of elytra.
BOHEMAN (1855) mentioned ‘Columbia’ as the type locality, however, the specimen bears more detailed locality data. The type locality is here specified to Honda situated in the Tolima Department of Colombia.
Distribution. Colombia: Tolima (present paper).
description: Published as part of Sekerka, Lukáš, 2016, Taxonomic and nomenclatural changes in Cassidinae (Coleoptera: Chrysomelidae), pp. 275-344 in Acta Entomologica Musei Nationalis Pragae 56 (1) on page 294, DOI: 10.5281/zenodo.5305725
Supermarket access, consumption of fresh produce, and weight status for U.S. adults
Creators: name: DiPaola, Kaitlin
Publisher: name: No Publisher Supplied
Year: 2016

description: As overweight and obesity have reached pandemic levels in the United States, the local food environment has been found to play an integral role. The relationship between supermarket access and weight status has gained traction from both Academia and government sectors, in a hope to lead Americans toward a healthier lifestyle. The objective of this thesis is to examine the impact of supermarket access, in conjunction with important individual socioeconomic and neighborhood attributes, on a) the risk of being overweight or obese in American adults; and b) the probability of meeting the federally recommended level of fruits and vegetables.    Using BRFSS survey data, The Reinvestment Fund's Limited Supermarket Access (LSA) study, as well as data from the Census, the American Community Survey, and ESRI's Consumer Expenditures Survey, I find that supermarket access does have an impact on weight status and the probability of meeting recommended levels of fruits and vegetables. In particular, when controlling for the same percentage of land classified as limited supermarket access areas, individuals living in an area with one LSA area are more likely to be overweight or obese than when compared with multiple disjointed LSA areas. From an intervention standpoint, when considering resources, it can be incredibly resource-intensive to eradicate all LSAs from neighborhoods. Perhaps though, if supermarkets are more strategically placed in neighborhoods, which may potentially provide more access to supermarkets to a greater number of individuals, and thus enhance the likelihood of meeting the recommended consumption of fruits and vegetables. On the other hand, as the number of LSAs increase, the risk of being overweight or obese also increases. Thus, decreasing the number of LSAs in a neighborhood will help to fight against the risk of overweight/obesity.
Context-dependent encoding in songbird auditory forebrain
Creators: name: Dong, Mingwen
Publisher: name: No Publisher Supplied
Year: 2016

description: Deviants are stimuli that violate the ongoing sequence or distribution of sensory events; they are potentially salient and the sensory system constantly monitors them. However, detecting a deviant is not a trivial process and requires to compare the current stimulus with prior memories or predictions. Traditionally, deviance detection has been studied in both humans and animals by presenting pure tones in a paradigm in which a rare tone stimulus (the oddball) occurs at random in a repeated sequence of a different tone (the standard). The current study seeks to more fully investigate the process and neural substrate of auditory deviance detection by using several paradigms, including both an extension of the traditional oddball approach that uses complex sounds as stimuli and also a new context paradigm. Multi-unit auditory responses to these stimuli were recorded from the auditory forebrain of awake male zebra finches. Results show that an oddball effect (larger responses to a sound when it is deviant than when it is common) can be elicited with complex stimuli like zebra finch calls (as well as with tones), and that the effect magnitude increases as common and deviant stimuli become more different acoustically. These results are consistent with a simple form of stimulus-specific adaptation that generalizes to similar sounds. However, the order in which blocks of stimuli were presented changed the size of the oddball effect, suggesting a role for a memory of stimulus patterns that persists over longer durations and across many intervening stimuli. In the new context paradigm, where deviance could be defined mathematically, the neural response to a given stimulus depended on the larger context in which it was presented, again suggesting a perceptual learning effect. These experiments advances the study of deviance detection by using neural data to identify and separate the longer term effects of stimulus familiarity and pattern from the immediate effects of presentation order and relative frequency that are studied in simple oddball paradigm.
The influence of processing parameters on piezoelectric and dielectric properties of dome-shaped PZT-epoxy actuators
Creators: name: Du, Wanlin
Publisher: name: No Publisher Supplied
Year: 2016

description: Thick film dome-shaped two-phase (lead zirconate titanate ("Pb" [〖"Zr" 〗_"x"  〖"Ti" 〗_"1-x"  ] "O" _"3"  "(0≤x≤1)" )-Epoxy) structures have been fabricated using a modified sol-gel and spin-coat deposition process.  Processing parameters and poling technique (Corona versus contact poling) were studied to elucidate their influences on piezoelectric and dielectric properties.   3 primary studies were carried out in the investigation. To study how time/speed profiles in spin-coating process influence the dielectric and piezoelectric properties of the samples, 4 different time/speed profiles built up form original profile were tested. Poling conditions, such as corona poling and contact poling were studied at the same material structure and compositions.  Different poling voltages (45kv/mm and 70kv/mm) with corona poling techniques at low volume fractions of PZT (i.e. 0.1~0.3) were studied on samples fabricated with same techniques to investigate the influences of poling voltage. The combinations of depositing technique and viscosity were studied at low volume fractions such as 0.35 volume fraction of PZT to address the uniformity issue in thickness at lower volume fractions.  The piezoelectric strain coefficient d33 for this dome structure was 9 times higher than that previously reported values for a composite PZT-epoxy dome structure of similar structure and composition. The sample morphology was examined with the aid of scanning electron microscopy (SEM) images and the material distribution was studied by energy dispersive x-ray spectroscopy (EDS). The piezoelectric strain coefficients, capacitance and effective dielectric constant increased with increasing PZT content.  Samples of all volume fractions of PZT (i.e. 0.1~0.7) that were Corona poled allowed for higher poling voltages (45 kV/mm compared to 2.5kv/mm in contact poling), and exhibited higher values of piezoelectric strain coefficients with same material composition , longitudinal piezoelectric coefficient (@110Hz), effective dielectric constant (@2kHz), and dielectric loss (@2kHz), were 11.1 pC/N, 28.7 and 0.004 respectively for the PZT volume fraction equal to 0.7.. The piezoelectric properties were examined both in terms of piezoelectric effect and converse piezoelectric effect. Piezoelectric strain coefficients and capacitance were measured @110Hz by Piezometer, and displacement of certain volume fractions of PZT were studied by Keyence interferometer. To better examine the polarization-electric field relation, P-E hysteresis loop were measured. Other dielectric properties such as conductance, resistance, and impedance spectrum verse increasing frequency were obtained by Hp impedance analyzer within the frequency range from 2kHz to 20Mhz. Investigation of composite structures such as these may lead to development of actuators with enhanced displacement and sensors with better sensitivity.
Influence of wastewater treatment plant discharges on microplastic concentrations in surface water
Creators: name: Estahbanati, Shirin
Publisher: name: No Publisher Supplied
Year: 2016

description: The abundance of microplastic particles in the marine environment is well documented, but less is known about microplastics in the freshwater environment.  Wastewater treatment plants (WWTPs) do not effectively remove microplastics allowing for their release to the freshwater environment.  To investigate concentration of microplastic in fresh water and the impact of WWTP effluent, samples were collected upstream and downstream of four major municipal WWTPs on the Raritan River, NJ.  Microplastics were categorized into three quantitative categories (500-2000 µm, 250-500 µm, 125-250 µm), and one semi-quantitative category (63-125 µm).  Then, microplastics were classified as primary (manufactured in small size) or secondary (derived from larger plastics) based on morphology.  The concentration of microplastics in the 125-250 and 250-500µm size categories significantly increased downstream of WWTP.  The smaller size classes, often not quantified in microplastic studies, were in high relative abundance across sampling sites.  While primary microplastics significantly increased downstream of WWTP, secondary microplastic was the dominant type in the quantitative size categories (66-88%).  Interestingly, no correlation between microplastic and distance downstream was observed.  These results have implications for understanding the fate and transport of microplastics in the freshwater environment.
Microctenochira jousselini
Creators: name: Sekerka, Lukáš
Publisher: name: Zenodo
Year: 2016
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Coleoptera
Chrysomelidae
Microctenochira
Microctenochira jousselini

description: Microctenochira jousselini (Boheman, 1855)
Coptocycla Jousselini Boheman, 1855: 227 (original description).
Coptocycla semifasciata Boheman, 1855: 228 (original description), syn. nov.
Type localities. Coptocycla Jousselini: ‘Nova Grenada’; Coptocycla semifasciata: ‘Columbia’.
Type material examined. Coptocycla Jousselini: SYNTYPE: pinned, ‘ Colum- | bia [w, p, s] || Mhm. [w, p, s] || Type. [w, p, s] || NHRS-JLKB | 000022321 [w, p, cb] ’ (NHRS).
Coptocycla semifasciata: HOLOTYPE: pinned, ‘Colum- | bia [w, p, cb] || Bhn. [w, p, s] || Type. [w, p, s] || Ctenochira | semifasciata | = Microctenoch. | Jousselini ab.[w, hw by Spaeth, cb] || NHRS-JLKB | 000022352 [w, p, cb]’ (NHRS).
Remarks. The description of Coptocycla semifasciata follows immediately that of Coptocycla jousselini and BOHEMAN (1855) differentiated them by elytral pattern. Both have the disc of pronotum and elytra brownish-red outside bordered by black and yellow explanate margins. Coptocycla jousselini has a yellow band running approximately in the basal third of elytra and reaching laterally the explanate margin, while in C. semifasciata the first band is shortened and laterally reaching only to the fifth row of punctures. Both taxa were transferred to Charidotis by SPAETH (1914). Subsequently, SPAETH (1926) redescribed C. jousselini and designated it as the type species of Microctenochira and after a decade he also transferred C. semifasciata to the same genus (SPAETH 1936), leaving it as valid species.
I have studied types of both taxa and I could not find any relevant morphological differences to separate them except for the colouration of elytra. Species of Microctenochira are very variable regarding dorsal colouration. I hereby synonymize the two taxa. Since both were described in the same publication I followed the Principle of the first reviser (ICZN 1999: Article 24.2) and chose M. jousselini as valid, as it was constantly and correctly applied since SPAETH (1926) and moreover it is the type species of the genus Microctenochira.
Distribution. Colombia (BOHEMAN 1855) and Trinidad (SPAETH 1926).
description: Published as part of Sekerka, Lukáš, 2016, Taxonomic and nomenclatural changes in Cassidinae (Coleoptera: Chrysomelidae), pp. 275-344 in Acta Entomologica Musei Nationalis Pragae 56 (1) on pages 294-295, DOI: 10.5281/zenodo.5305725
Microctenochira scabra
Creators: name: Sekerka, Lukáš
Publisher: name: Zenodo
Year: 2016
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Coleoptera
Chrysomelidae
Microctenochira
Microctenochira scabra

description: Microctenochira scabra (Boheman, 1855)
Coptocycla scabra Boheman, 1855: 495 (original description).
Ctenochira pumicosa [misidentification]: SPAETH (1926): 70 (redescription, key).
Type locality. ‘Brasilia’.
Type material examined. HOLOTYPE: pinned: ‘ Brasil [w, p, s] || Type. [w, p, s] || NHRS-JLKB | 000022351 [w, p, cb] ’ (NHRS).
Remarks. BOHEMAN (1855) described Coptocycla scabra presumably based on a single specimen. GEMMINGER & HAROLD (1876) transferred it to Ctenochira (= Microctenochira). SPAETH (1926) revised the genus Ctenochira but C. pumicosa was unknown to him and he did not include it in the key but pointed that it could be an immaculate specimen of M. quadrata (DeGeer, 1775) or M. aciculata (Boheman, 1855). Using SPAETHʼs (1926) key, the holotype of M. scabra falls under M. pumicosa (Boheman, 1862) and it is to replace the latter species in the key as it is transferred here to Charidotis (see further details under C. subrugosa).
The holotype of C. scabra fits well Spaethʼs definition of M. pumicosa as it has a uniformly yellow body and elytra with rather sparse punctation. Punctures are deep, foveolate but of the same colour as the elytra. Antennae are yellow with antennomere IX slightly darker than the rest. Clypeus has a shallow oval impression like many species of Microctenochira.
Distribution. Brazil (BOHEMAN 1855).
description: Published as part of Sekerka, Lukáš, 2016, Taxonomic and nomenclatural changes in Cassidinae (Coleoptera: Chrysomelidae), pp. 275-344 in Acta Entomologica Musei Nationalis Pragae 56 (1) on page 295, DOI: 10.5281/zenodo.5305725
New nonparametric approaches for multivariate and functional data analysis in outlier detection, construction of tolerance tubes, and clustering
Creators: name: Fan, Yi
Publisher: name: No Publisher Supplied
Year: 2016

description: Recent advances of powerful computing and data acquisition technologies have made large complex datasets ever-present, including high-dimensional or functional data. Most existing statistical approaches for multivariate or functional data rely on parametric assumptions such as normality. In reality, such assumptions are either difficult to justify or verify. The goal of this dissertation is to develop general nonparametric statistical approaches for outlier detection, tolerance tubes construction, and clustering for multivariate and functional data.   i) In Chapter 3, we propose a general approach named Antipodal Reflection Depth (ARD), to refine any existing function of depth (henceforth base depth) to form a class of new depth functions. ARD has the advantage over its base depth in capturing the relative magnitude of deviation from all data points to the deepest one. This desirable property is key in making ARD particularly useful in many applications. Here, we focus primarily on its utility in outlier detection.   ii) In Chapter 4, we introduce tolerance tubes, which can be viewed as generalizations of tolerance intervals/regions to functional settings. A tolerance tube ensures a specified portion of the functional dataset be contained within the tolerance limits with some level of confidence. In addition to extending the commonly accepted definitions of $beta-$content and $beta-$expectation, we introduce modifications by incorporating an exempt level $alpha$. The latter relaxes the definitions by allowing $alpha$ portion of each functional to be exempt from the requirements and is thus particularly useful to offset allowable occasional aberrations.   iii) In Chapter 5, we propose a new clustering approach named K-means on Pairwise Distance (KMPD), and show it to be effective in detecting clusters with different sizes. Moreover, KMPD has the capability of grouping anomalous sample points into a single cluster, and therefore is an effective approach for outlier detection as well.   All these approaches are completely non-parametric and data-driven, and thus can be broadly applicable. Relevant theoretical properties are investigated and justified. These approaches are also illustrated and tested using data from both simulations and a real application on a medical study of continuous glucose monitoring.