cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.1184/r1/5441842.v1
title: The large-scale organization of shape processing in the ventral and dorsal pathways: Subject 160921101036_Experiment 2

description: 160921101036 nii files. Part of a dataset from the paper entitled : The large-scale organization of shape processing in the ventral and dorsal pathways by Freud, Culham, Plaut and Behrmann. See - https://doi.org/10.1184/R1/c.3889873.v1. For each participant 8 functional runs and one anatomical run are included. <br>Abstract:Although shape perception is considered a function of the ventral visual pathway, evidence suggests that the dorsal pathway also derives shape-based representations. In two psychophysics and neuroimaging experiments, we characterized the response properties, topographical organization and perceptual relevance of these representations. In both pathways, shape sensitivity increased from early visual cortex to extrastriate cortex but then decreased in anterior regions. Moreover, the lateral aspect of the ventral pathway and posterior regions of the dorsal pathway were sensitive to the availability of fundamental shape properties, even for unrecognizable images. This apparent representational similarity between the posterior-dorsal and lateral-ventral regions was corroborated by a multivariate analysis. Finally, as with ventral pathway, the activation profile of posterior dorsal regions was correlated with recognition performance, suggesting a possible contribution to perception. These findings challenge a strict functional dichotomy between the pathways and suggest a more distributed model of shape processing.
DOI: 10.1184/r1/5441839.v1
title: The large-scale organization of shape processing in the ventral and dorsal pathways: Subject 160920121024_Experiment 2

description: 160920121024 nii files. Part of a dataset from the paper entitled : The large-scale organization of shape processing in the ventral and dorsal pathways by Freud, Culham, Plaut and Behrmann. See - https://doi.org/10.1184/R1/c.3889873.v1. For each participant 8 functional runs and one anatomical run are included. Abstract:Although shape perception is considered a function of the ventral visual pathway, evidence suggests that the dorsal pathway also derives shape-based representations. In two psychophysics and neuroimaging experiments, we characterized the response properties, topographical organization and perceptual relevance of these representations. In both pathways, shape sensitivity increased from early visual cortex to extrastriate cortex but then decreased in anterior regions. Moreover, the lateral aspect of the ventral pathway and posterior regions of the dorsal pathway were sensitive to the availability of fundamental shape properties, even for unrecognizable images. This apparent representational similarity between the posterior-dorsal and lateral-ventral regions was corroborated by a multivariate analysis. Finally, as with ventral pathway, the activation profile of posterior dorsal regions was correlated with recognition performance, suggesting a possible contribution to perception. These findings challenge a strict functional dichotomy between the pathways and suggest a more distributed model of shape processing.
DOI: 10.6084/m9.figshare.5441608
title: The spread of agriculture in eastern Asia - Supplementary tables

description: Millets and rice were important for the demographic history of China. This review draws on current archaeobotanical evidence for rice and millets across China, Korea, eastern Russia, Taiwan, Mainland southeast Asia, and Japan, taking a critical approach to dating evidence, evidence for cultivation, and morphological domestication. There is no evidence to suggest that millets and rice were domesticated simultaneously within a single region. Instead, 5 regions of north China are candidates for independent early cultivation of millets that led to domestication, and 3 regions of the Yangtze basin are candidates for separate rice domestication trajectories. The integration of rice and millet into a single agricultural system took place ca. 4000bc, and after this the spread of agricultural systems and population growth are in evidence. The most striking evidence for agricultural dispersal and population growth took place between 3000 and 2500bc, which has implications for major language dispersals.
DOI: 10.6084/m9.figshare.5441608.v1
title: The spread of agriculture in eastern Asia - Supplementary tables

description: Millets and rice were important for the demographic history of China. This review draws on current archaeobotanical evidence for rice and millets across China, Korea, eastern Russia, Taiwan, Mainland southeast Asia, and Japan, taking a critical approach to dating evidence, evidence for cultivation, and morphological domestication. There is no evidence to suggest that millets and rice were domesticated simultaneously within a single region. Instead, 5 regions of north China are candidates for independent early cultivation of millets that led to domestication, and 3 regions of the Yangtze basin are candidates for separate rice domestication trajectories. The integration of rice and millet into a single agricultural system took place ca. 4000bc, and after this the spread of agricultural systems and population growth are in evidence. The most striking evidence for agricultural dispersal and population growth took place between 3000 and 2500bc, which has implications for major language dispersals.
DOI: 10.6084/m9.figshare.5441605
title: S5 from Evolution in temperature-dependent phytoplankton traits revealed from a sediment archive: Do reaction norms tell the whole story?

description: Experimental Data of Exp.1.2 (6-16°C)
DOI: 10.6084/m9.figshare.5441599
title: S6 from Evolution in temperature-dependent phytoplankton traits revealed from a sediment archive: Do reaction norms tell the whole story?

description: Experimental Data of Exp. 2 (Life Cycle)
DOI: 10.6084/m9.figshare.5441602
title: S4 from Evolution in temperature-dependent phytoplankton traits revealed from a sediment archive: Do reaction norms tell the whole story?

description: Experimental Data of Exp.1.1 (0-10°C)
DOI: 10.6084/m9.figshare.5441605.v1
title: S5 from Evolution in temperature-dependent phytoplankton traits revealed from a sediment archive: Do reaction norms tell the whole story?

description: Experimental Data of Exp.1.2 (6-16°C)
DOI: 10.6084/m9.figshare.5441599.v1
title: S6 from Evolution in temperature-dependent phytoplankton traits revealed from a sediment archive: Do reaction norms tell the whole story?

description: Experimental Data of Exp. 2 (Life Cycle)
DOI: 10.6084/m9.figshare.5441602.v1
title: S4 from Evolution in temperature-dependent phytoplankton traits revealed from a sediment archive: Do reaction norms tell the whole story?

description: Experimental Data of Exp.1.1 (0-10°C)
DOI: 10.6084/m9.figshare.5441560
title: peak gene OX10

description: the peak gene of TsNAC1 in OX10
DOI: 10.6084/m9.figshare.5441560.v1
title: peak gene OX10

description: the peak gene of TsNAC1 in OX10
DOI: 10.6084/m9.figshare.5441536
title: Evaluating Proposals of Language Genealogical Relationship: The Beck-Wichmann-Brown (BWB) System (Online Appendices A-C)

description: In an endeavor to objectify and provide uniformity to the comparative method of historical linguistics, this study describes the Beck-Wichmann-Brown (BWB) system for evaluating lexical sets assembled as evidence for proposals of language genealogical relationship. The approach quantitatively assesses the degree of support that collections of comparative sets provide for proposals, with regard to whether or not observed lexical similarity exceeds coincidental expectation. BWB is illustrated through application to an assemblage of 51 comparative sets compiled by Pache (2016) for the affiliation of Pumé and Chocoan languages of South America. This study presents and ranks BWB quantitative results for 65 language comparisons (of global distribution) and proposes a framework for interpreting ranked findings. Evaluations for the 65 comparisons are compared with those provided by three online classifications of the world’s languages.
DOI: 10.6084/m9.figshare.5441539
title: peak gene OX7

description: The candidate target genes of TsNAC1 in OX7 lines
DOI: 10.6084/m9.figshare.5441542
title: Jensen_Costa_Phospholipid_flipping_involves_a_central_cavity_in_P4_ATPases

description: The fileset includes:- a structural model for the plant flippase ALA10 as a pdb file, with a PC headgroup docked into a central cavity- Original flow cytometry data for all datasets used in Figures 2-6 of the manuscript. Each figure has been assigned a folder with the name of the figure the folder refers to. Inside each folder, subfolders with each individual experiment are included. A word file explains the content of each subfolder, including plasmids used for transformation and lipid tested. - Original TLC plate scans used in Figure 2. These can be found in the folder corresponding to Figure 2.
DOI: 10.6084/m9.figshare.5441542.v1
title: Jensen_Costa_Phospholipid_flipping_involves_a_central_cavity_in_P4_ATPases

description: The fileset includes:- a structural model for the plant flippase ALA10 as a pdb file, with a PC headgroup docked into a central cavity- Original flow cytometry data for all datasets used in Figures 2-6 of the manuscript. Each figure has been assigned a folder with the name of the figure the folder refers to. Inside each folder, subfolders with each individual experiment are included. A word file explains the content of each subfolder, including plasmids used for transformation and lipid tested. - Original TLC plate scans used in Figure 2. These can be found in the folder corresponding to Figure 2.
DOI: 10.6084/m9.figshare.5441530
title: Supplementary Material for: Detection of the Peanut Allergens Ara h 2 and Ara h 6 in Human Breast Milk: Development of 2 Sensitive and Specific Sandwich ELISA Assays

description: <b><i>Background:</i></b> Little is known about breast milk as a vehicle for tolerance development or sensitization to peanuts very early in life. Thus, well-characterized and highly sensitive detection systems for the reliable determination of peanut allergens in breast milk are mandatory. <b><i>Methods:</i></b> For the quantification of the marker allergens Ara h 2 and Ara h 6 in the low nanogram per milliliter range in breast milk samples of a German cohort, sensitive and highly specific sandwich ELISAs were optimized and validated. <b><i>Results:</i></b> The Ara h 2 ELISA revealed a limit of detection (LOD) of 1.3 ng Ara h 2/mL and a quantification range of 2.3-250 ng/mL, the Ara h 6 ELISA showed an LOD of 0.7 ng/mL and a working range of 1.1-14.4 ng/mL. The assays showed no relevant cross-reactivity against other potentially cross-reactive legume, seed, and tree nut extracts (&lt;0.01%, except for Ara h 1 in the Ara h 2 ELISA &lt;0.1%). Ara h 2 was detectable in breast milk samples from 14/40 (35%) of the participants in concentrations from 2.3 to 184 ng/mL, Ara h 6 appeared in 9/40 (22.5%) of the lactating mothers between 1.1 and 9.7 ng/mL, and 1 highly positive sample with 79 ng/mL. Both allergens appeared at the same time points, but Ara h 6 in lower concentrations than Ara h 2. <b><i>Conclusions:</i></b> Sensitive and specific diagnostic tools for the determination of Ara h 2 and Ara h 6 in human breast milk were established. The kinetics of secreted Ara h 2 and Ara h 6 seem to be similar but with a difference in concentration. Follow-up investigations on their tolerogenic or sensitizing properties in breast milk become now accessible.
DOI: 10.6084/m9.figshare.5441536.v1
title: Evaluating Proposals of Language Genealogical Relationship: The Beck-Wichmann-Brown (BWB) System (Online Appendices A-C)

description: In an endeavor to objectify and provide uniformity to the comparative method of historical linguistics, this study describes the Beck-Wichmann-Brown (BWB) system for evaluating lexical sets assembled as evidence for proposals of language genealogical relationship. The approach quantitatively assesses the degree of support that collections of comparative sets provide for proposals, with regard to whether or not observed lexical similarity exceeds coincidental expectation. BWB is illustrated through application to an assemblage of 51 comparative sets compiled by Pache (2016) for the affiliation of Pumé and Chocoan languages of South America. This study presents and ranks BWB quantitative results for 65 language comparisons (of global distribution) and proposes a framework for interpreting ranked findings. Evaluations for the 65 comparisons are compared with those provided by three online classifications of the world’s languages.
DOI: 10.6084/m9.figshare.5441524
title: Differences in Social Rank and Political Affiliation Encourage Paranoid Attributions

description: Data files and R code to reproduce analyses<br>
DOI: 10.6084/m9.figshare.5441524.v1
title: Differences in Social Rank and Political Affiliation Encourage Paranoid Attributions

description: Data files and R code to reproduce analyses<br>
DOI: 10.6084/m9.figshare.5441365
title: C++ GPU implementation of the Boolean matrix factorization algorithm C-Salt

description: The dataset comprises of the C++ GPU implementation of the Boolean matrix factorization algorithm C-Salt. The ReadMe file which is included describes how the implementation can be set up and used. <br>Two of the files, the IJulia notebooks with filenames CSaltEvalRealWorld.ipynb and CSaltGenerateSynthData.ipynb can be used to generate synthetic data as proposed in the paper, and to evaluate the quality measurements for results on the submitted text data.<br><br>The data includes two IPython (IPYNB) notebook files, 6 tab separated value (.tsv) files, two .hpp files and two .cu files. The IPYNB files can be exported to .HTML, .PDF, reStructuredText, and LaTeX formats. .TSV files can be opened using open source text editors. .HPP is a header format used by C++, and .cu are associated with the NVIDIA CUDA Toolkit.<br>Abstract:Given labelled data represented by a binary matrix, we consider the task to derive a Boolean matrix factorization which identifies commonalities and specifications among the classes. While existing works focus on rank-one factorizations which are either specific or common to the classes, we derive class-specific alterations from common factorizations as well. Therewith, we broaden the applicability of our new method to datasets whose class-dependencies have a more complex structure. On the basis of synthetic and real-world datasets, we show on the one hand that our method is able to alter structure which corresponds to our model assumption, and on the other hand that our model assumption is justified in real-world application. Our method is parameter-free.<br>
DOI: 10.6084/m9.figshare.5441251
title: p10_sd5_withMA_withMV_all.dta

description: See title<br>
DOI: 10.6084/m9.figshare.5441251.v1
title: p10_sd5_withMA_withMV_all.dta

description: See title<br>
DOI: 10.6084/m9.figshare.5441062
title: Supplementary Material for: Proposta de um Core Set Abreviado de Avaliação da Funcionalidade em Cuidados Pós-Agudos Geriátricos

description: <i>Objetivo:</i> Desenvolver um Core Set Geriátrico Abreviado para avaliação/intervenção da funcionalidade, em cuidados de reabilitação de contexto pós-agudo. <i>Materiais e Métodos:</i> Desenvolveu-se um estudo observacional do tipo analítico e longitudinal, que permitisse conhecer os domínios e as variáveis com maior valor preditivo e discriminativo relativamente à evolução da funcionalidade das condições de saúde observadas. Para a constituição da amostra consideraram-se os indivíduos com 65 ou mais anos, internados em unidades de Convalescença e Média Duração da Rede Nacional de Cuidados Continuados Integrados da região do Algarve. <i>Resultados:</i> A amostra foi constituída por 451 indivíduos, com uma média de idade 79,5 ± 7,5 anos, dos quais 62,1% eram mulheres. As condições de saúde com frequências mais elevadas como causa de admissão na Rede foram as fraturas da extremidade superior do fémur e os acidentes vasculares encefálicos que no seu conjunto equivaleram a 73,6% dos casos. Das 21 variáveis independentes que integraram os modelos explicativos da funcionalidade foi possível organizar uma listagem de 28 categorias: 5 Funções, 16 Atividades/Participação e 7 Fatores Ambientais.<i> Conclusões:</i> A presente proposta de Core Set Geriátrico Abreviado para os cuidados de reabilitação de contexto pós-agudo tem um enfoque sobretudo no componente Atividades/Participação, enquanto componente que materializa de forma concreta a interação do indivíduo com o meio e a sua vida real. A funcionalidade deve ser considerada uma variável incontornável da Saúde Pública pelo facto de permitir reproduzir as deficiências e limitações dos indivíduos, mas igualmente facilitar a alocação estruturada de equipamentos, serviços e sistemas, promotores da sua participação.
DOI: 10.6084/m9.figshare.5441062.v1
title: Supplementary Material for: Proposta de um Core Set Abreviado de Avaliação da Funcionalidade em Cuidados Pós-Agudos Geriátricos

description: <i>Objetivo:</i> Desenvolver um Core Set Geriátrico Abreviado para avaliação/intervenção da funcionalidade, em cuidados de reabilitação de contexto pós-agudo. <i>Materiais e Métodos:</i> Desenvolveu-se um estudo observacional do tipo analítico e longitudinal, que permitisse conhecer os domínios e as variáveis com maior valor preditivo e discriminativo relativamente à evolução da funcionalidade das condições de saúde observadas. Para a constituição da amostra consideraram-se os indivíduos com 65 ou mais anos, internados em unidades de Convalescença e Média Duração da Rede Nacional de Cuidados Continuados Integrados da região do Algarve. <i>Resultados:</i> A amostra foi constituída por 451 indivíduos, com uma média de idade 79,5 ± 7,5 anos, dos quais 62,1% eram mulheres. As condições de saúde com frequências mais elevadas como causa de admissão na Rede foram as fraturas da extremidade superior do fémur e os acidentes vasculares encefálicos que no seu conjunto equivaleram a 73,6% dos casos. Das 21 variáveis independentes que integraram os modelos explicativos da funcionalidade foi possível organizar uma listagem de 28 categorias: 5 Funções, 16 Atividades/Participação e 7 Fatores Ambientais.<i> Conclusões:</i> A presente proposta de Core Set Geriátrico Abreviado para os cuidados de reabilitação de contexto pós-agudo tem um enfoque sobretudo no componente Atividades/Participação, enquanto componente que materializa de forma concreta a interação do indivíduo com o meio e a sua vida real. A funcionalidade deve ser considerada uma variável incontornável da Saúde Pública pelo facto de permitir reproduzir as deficiências e limitações dos indivíduos, mas igualmente facilitar a alocação estruturada de equipamentos, serviços e sistemas, promotores da sua participação.
DOI: 10.6084/m9.figshare.5441020
title: Extracellular DNA and lipoteichoic acids interact with exopolysaccharides in the extracellular matrix of <i>Streptococcus mutans</i> biofilms

description: <i>Streptococcus mutans</i>-derived exopolysaccharides are virulence determinants in the matrix of biofilms that cause caries. Extracellular DNA (eDNA) and lipoteichoic acid (LTA) are found in cariogenic biofilms, but their functions are unclear. Therefore, strains of <i>S. mutans</i> carrying single deletions that would modulate matrix components were used: eDNA – ∆<i>lytS</i> and ∆<i>lytT</i>; LTA – ∆<i>dltA</i> and ∆<i>dltD</i>; and insoluble exopolysaccharide – Δ<i>gtfB</i>. Single-species (parental strain <i>S. mutans</i> UA159 or individual mutant strains) and mixed-species (UA159 or mutant strain, <i>Actinomyces naeslundii</i> and <i>Streptococcus gordonii</i>) biofilms were evaluated. Distinct amounts of matrix components were detected, depending on the inactivated gene. eDNA was found to be cooperative with exopolysaccharide in early phases, while LTA played a larger role in the later phases of biofilm development. The architecture of mutant strains biofilms was distinct (<i>vs</i> UA159), demonstrating that eDNA and LTA influence exopolysaccharide distribution and microcolony organization. Thus, eDNA and LTA may shape exopolysaccharide structure, affecting strategies for controlling pathogenic biofilms.
DOI: 10.6084/m9.figshare.5441017
title: A quality assessment of the soil water index by the propagation of ASCAT soil moisture error estimates through an exponential filter

description: Soil moisture data from remote-sensing measurements are used extensively and error characterization is critical in assessing their utility for specific applications. In hydrological monitoring and forecast applications, an estimate of the root-zone soil moisture is often required, and the exponential filter constitutes a common approach to obtaining a soil water index (SWI), i.e. the profile soil moisture from the remotely-sensed surface states. Advanced Scatterometer (ASCAT) surface soil moisture (SSM) time series include error estimates as ancillary data, however their effects are rarely considered in SWI computations. In this study, we introduced a simple error propagation scheme in parallel to exponential filter computation, aimed at estimating a SWI noise, which implicitly takes into account both errors and availability of the input SSM data actually used for each single SWI estimation. Integrating a control on SWI noise within quality check procedures was analysed by comparing <i>in situ</i> measurements available at different depths, up to 60 cm, for the period 2007–2014 in 10 stations located in Italy. The capacity of ASCAT-derived SWI to capture the same processes observed in the root-zone by <i>in situ</i> sensors, was evaluated by computing standard statistics (the correlation coefficient <i>r</i> and the root mean square difference [RMSD]) for different ‘a priori’ data masking procedures on SSM data, based on several indicators (processing flag, orbit direction, SSM noise) available for the ASCAT product. The effects of using the information contained in SSM noise and in the proposed SWI noise were also investigated. Removing data according to ‘a posteriori’ control on SWI noise rather than a priori masking SSM data, with the exponential filter <i>T</i> value and the percentage of removed data being equal, was found to generally improve the statistics of the resulting SWI time series. In addition, evaluating <i>T</i> on the SWI time series screened according to the SWI noise, outperforms other approaches analysed in almost every test case.
DOI: 10.6084/m9.figshare.5441014
title: Supplementary Material for: Cerebellar Infarction: Unusual Manifestation with Facial Palsy, Focal Seizures, and Secondary Generalization

description: <i>Background:</i> Cerebellar infarction is exceedingly rare in neonates, usually occurring after traumatic birth. Lifelong sequelae can result from cerebellar damage with disorders of motor function, ataxia, and also cognitive dysfunction. <i>Objectives/Methods:</i> We report the clinical presentation of a preterm triplet infant delivered by elective cesarean who showed peripheral facial palsy immediately after birth. <i>Results:</i> Tonic seizures with high-voltage discharges over the contralateral cerebral hemisphere and secondary generalization were successfully treated with phenobarbital. Transnuchal ultrasound through the foramen magnum and subsequent MRI examinations revealed infarction of the left cerebellar hemisphere. <i>Conclusions:</i> In newborn infants, acute cerebellar stroke may have direct epileptogenic potential.