cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5133001.v1
title: Data and code to reproduce analyses from "Experimental evidence of a pathogen invasion threshold"

description: This repository contains code (in the form of an R markdown document--`Dallas2017.Rmd`) and data (`expData.csv`) from <br>&gt; Dallas, Krkosek, and Drake 2017 "Experimental evidence of a pathogen invasion threshold"<br><br>
DOI: 10.6084/m9.figshare.5132920
title: Model-Based Risk Assessment and Public Health Analysis to Prevent Lyme Disease

description: Funding has been provided through a grant to the State University of New York at Binghamton from the Howard Hughes Medical Institute through the Precollege and Undergraduate Science Education Program, the Binghamton University Foundation and Harpur College Undergraduate Awards for Research and Creative Work and the 2013 Binghamton University Undergraduate Research Center Summer Scholars and Artists Program.
DOI: 10.6084/m9.figshare.5132923.v1
title: Thirty years of density functional theory in computational chemistry: an overview and extensive assessment of 200 density functionals

description: In the past 30 years, Kohn–Sham density functional theory has emerged as the most popular electronic structure method in computational chemistry. To assess the ever-increasing number of approximate exchange-correlation functionals, this review benchmarks a total of 200 density functionals on a molecular database (MGCDB84) of nearly 5000 data points. The database employed, provided as Supplemental Data, is comprised of 84 data-sets and contains non-covalent interactions, isomerisation energies, thermochemistry, and barrier heights. In addition, the evolution of non-empirical and semi-empirical density functional design is reviewed, and guidelines are provided for the proper and effective use of density functionals. The most promising functional considered is ωB97M-V, a range-separated hybrid meta-GGA with VV10 nonlocal correlation, designed using a combinatorial approach. From the local GGAs, B97-D3, revPBE-D3, and BLYP-D3 are recommended, while from the local meta-GGAs, B97M-rV is the leading choice, followed by MS1-D3 and M06-L-D3. The best hybrid GGAs are ωB97X-V, ωB97X-D3, and ωB97X-D, while useful hybrid meta-GGAs (besides ωB97M-V) include ωM05-D, M06-2X-D3, and MN15. Ultimately, today's state-of-the-art functionals are close to achieving the level of accuracy desired for a broad range of chemical applications, and the principal remaining limitations are associated with systems that exhibit significant self-interaction/delocalisation errors and/or strong correlation effects.
DOI: 10.6084/m9.figshare.5132908
title: Arsenophonus and Sodalis replacements shape evolution of symbiosis in louse flies - supplemental information

description: Supplemental data to manuscript: <i>Arsenophonus</i> and <i>Sodalis</i> replacements shape evolution of symbiosis in louse flies. Here we provide our matrices in fasta file format which were analysed in this work and genomic data of four symbiotic bacteria which were used for our phylogenetic analyses.
DOI: 10.6084/m9.figshare.5132908.v2
title: Arsenophonus and Sodalis replacements shape evolution of symbiosis in louse flies - supplemental information

description: Supplemental data to manuscript: <i>Arsenophonus</i> and <i>Sodalis</i> replacements shape evolution of symbiosis in louse flies. Here we provide our matrices in fasta file format which were analysed in this work and genomic data of four symbiotic bacteria which were used for our phylogenetic analyses.
DOI: 10.6084/m9.figshare.5132908.v1
title: Arsenophonus and Sodalis replacements shape evolution of symbiosis in louse flies - supplemental information

description: Supplemental data to manuscript: <i>Arsenophonus</i> and <i>Sodalis</i> replacements shape evolution of symbiosis in louse flies. Here we provide our matrices in fasta file format which were analysed in this work.
DOI: 10.6084/m9.figshare.5132920.v3
title: Model-Based Risk Assessment and Public Health Analysis to Prevent Lyme Disease

description: Funding has been provided through a grant to the State University of New York at Binghamton from the Howard Hughes Medical Institute through the Precollege and Undergraduate Science Education Program, the Binghamton University Foundation and Harpur College Undergraduate Awards for Research and Creative Work and the 2013 Binghamton University Undergraduate Research Center Summer Scholars and Artists Program.
DOI: 10.6084/m9.figshare.5132920.v2
title: Model-Based Risk Assessment and Public Health Analysis to Prevent Lyme Disease

description: Funding has been provided through a grant to the State University of New York at Binghamton from the Howard Hughes Medical Institute through the Precollege and Undergraduate Science Education Program, the Binghamton University Foundation and Harpur College Undergraduate Awards for Research and Creative Work and the 2013 Binghamton University Undergraduate Research Center Summer Scholars and Artists Program.
DOI: 10.6084/m9.figshare.5132644
title: Skull and postcranium of the bystrowianid <i>Bystrowiella schumanni</i> from the Middle Triassic of Germany, and the position of chroniosuchians within Tetrapoda

description: Chroniosuchians form a mainly terrestrial or semi-terrestrial clade of Permian and Triassic crocodile- or varanid-like tetrapods, usually considered stem amniotes, but with disputed affinities within that grade. Two groups can be distinguished, the chroniosuchids and bystrowianids. Whereas the chroniosuchid skull and postcranium are well known, our knowledge of bystrowianids is restricted mainly to isolated vertebrae and osteoderms. The Middle Triassic bystrowianid <i>Bystrowiella schumanni</i> from south-western Germany was identified as the first taxon of this clade outside Russia and China, based on the morphology of its vertebrae and osteoderms. Here we expand on a full description of cranial and postcranial remains from this taxon, based on a partially articulated specimen and further isolated material. The material comprises large parts of the dermal skull roof, the pectoral girdle, ribs and limbs, and sheds light on many anatomical regions formerly unknown in bystrowianids. Among the autapomorphic features of <i>Bystrowiella</i> are the premaxilla with an edentulous crest lateral to the choana, the premaxillary teeth with conspicuous size differences, the jugal with an extremely long, narrow anterior process, and the enlarged postparietals and tabulars forming facets for articulation with the anteriormost osteoderm. As in chroniosuchids, the pre- and postfrontal are not in contact, but unlike in chroniosuchids, the internarial fontanelle and the antorbital fenestra are absent. In the amniote-like postcranium, the interclavicle is slender and has a conspicuous parasternal process, the humerus is waisted and bears a short supinator process, and the long, curved trunk ribs have widely separated rib heads and a slender shaft without blades or processes. Phylogenetic analysis, particularly based on numerous new postcranial features, supports the monophyly of chroniosuchians, even when the constituent synapomorphies (osteoderm and vertebral characters) are excluded from the matrix. Chroniosuchians nest at the base of the amniote stem, forming an unresolved polytomy with <i>Silvanerpeton</i>, embolomeres and more advanced stem amniotes.
DOI: 10.6084/m9.figshare.5132644.v1
title: Skull and postcranium of the bystrowianid <i>Bystrowiella schumanni</i> from the Middle Triassic of Germany, and the position of chroniosuchians within Tetrapoda

description: Chroniosuchians form a mainly terrestrial or semi-terrestrial clade of Permian and Triassic crocodile- or varanid-like tetrapods, usually considered stem amniotes, but with disputed affinities within that grade. Two groups can be distinguished, the chroniosuchids and bystrowianids. Whereas the chroniosuchid skull and postcranium are well known, our knowledge of bystrowianids is restricted mainly to isolated vertebrae and osteoderms. The Middle Triassic bystrowianid <i>Bystrowiella schumanni</i> from south-western Germany was identified as the first taxon of this clade outside Russia and China, based on the morphology of its vertebrae and osteoderms. Here we expand on a full description of cranial and postcranial remains from this taxon, based on a partially articulated specimen and further isolated material. The material comprises large parts of the dermal skull roof, the pectoral girdle, ribs and limbs, and sheds light on many anatomical regions formerly unknown in bystrowianids. Among the autapomorphic features of <i>Bystrowiella</i> are the premaxilla with an edentulous crest lateral to the choana, the premaxillary teeth with conspicuous size differences, the jugal with an extremely long, narrow anterior process, and the enlarged postparietals and tabulars forming facets for articulation with the anteriormost osteoderm. As in chroniosuchids, the pre- and postfrontal are not in contact, but unlike in chroniosuchids, the internarial fontanelle and the antorbital fenestra are absent. In the amniote-like postcranium, the interclavicle is slender and has a conspicuous parasternal process, the humerus is waisted and bears a short supinator process, and the long, curved trunk ribs have widely separated rib heads and a slender shaft without blades or processes. Phylogenetic analysis, particularly based on numerous new postcranial features, supports the monophyly of chroniosuchians, even when the constituent synapomorphies (osteoderm and vertebral characters) are excluded from the matrix. Chroniosuchians nest at the base of the amniote stem, forming an unresolved polytomy with <i>Silvanerpeton</i>, embolomeres and more advanced stem amniotes.
DOI: 10.6084/m9.figshare.5132647.v2
title: Brain-to-Brain interaction at a distance: a global or differential relationship?

description: EEG, GW6 max correlation individual data and GW6 Matlab code related to the paper "<b>Brain-to-Brain interaction at a distance: a global or differential relationship?"</b>
DOI: 10.6084/m9.figshare.5132647.v3
title: Brain-to-Brain interaction at a distance: a global or differential relationship?

description: EEG, GW6 max correlation individual data and GW6 Matlab code related to the paper "<b>Brain-to-Brain interaction at a distance: a global or differential relationship?"</b>
DOI: 10.6084/m9.figshare.5132449
title: ASTRAL analysis of complete dataset

description: Files related to the ASTRAL analysis of the complete dataset.<br>
DOI: 10.6084/m9.figshare.5132647.v4
title: Brain-to-Brain interaction at a distance: a global or differential relationship?

description: EEG, GW6 max correlation individual data related to the paper "<b>Brain-to-Brain interaction at a distance: a global or differential relationship?"</b>
DOI: 10.6084/m9.figshare.5132443
title: ML analysis of MARE-reduced dataset

description: Files related to the ML analysis of the MARE-reduced dataset.<br>
DOI: 10.6084/m9.figshare.5132449.v1
title: ASTRAL analysis of complete dataset

description: Files related to the ASTRAL analysis of the complete dataset.<br>
DOI: 10.6084/m9.figshare.5132431
title: ML analysis of complete dataset

description: Files related to the ML analysis of the complete dataset.<br>
DOI: 10.6084/m9.figshare.5132443.v2
title: ML analysis of MARE-reduced dataset

description: Files related to the ML analysis of the MARE-reduced dataset.<br>
DOI: 10.6084/m9.figshare.5132647.v5
title: Brain-to-Brain interaction at a distance: a global or differential relationship?

description: EEG, GW6 max correlation individual data related to the paper "<b>Brain-to-Brain interaction at a distance: a global or differential relationship?"</b>
DOI: 10.6084/m9.figshare.5132398
title: Bathyberthella antarctica transcriptome

description: Trinity assembled transcriptome of Bathyberthella antarctica (Bathyberthella_antarctica-PS96_526R.fa), cds inferred using TransDecoder (Bathyberthella_antarctica-PS96_526R.fa.transdecoder.cds), and amino acid sequence inferred using TransDecoder (Bathyberthella_antarctica-PS96_526R.fa.transdecoder.pep).<br>
DOI: 10.6084/m9.figshare.5132398.v1
title: Bathyberthella antarctica transcriptome

description: Trinity assembled transcriptome of Bathyberthella antarctica (Bathyberthella_antarctica-PS96_526R.fa), cds inferred using TransDecoder (Bathyberthella_antarctica-PS96_526R.fa.transdecoder.cds), and amino acid sequence inferred using TransDecoder (Bathyberthella_antarctica-PS96_526R.fa.transdecoder.pep).<br>
DOI: 10.6084/m9.figshare.5132443.v1
title: Analysis of MARE-reduced dataset

description: Files related to the ML analysis of the MARE-reduced dataset.<br>
DOI: 10.6084/m9.figshare.5132341
title: Supplementary Material for: Investigation of an Immediate Effect of Bright Light on Oxygen Consumption, Heart Rate, Cortisol, and α-Amylase in Seasonal Affective Disorder Subjects and Healthy Controls

description: <b><i>Background:</i></b> Body (fat) mass has been shown to decrease following bright light treatment for overweight women, irrespective of their seasonal (light) dependence. It is not known if this is due to an (immediate) increase of metabolism. <b><i>Methods:</i></b> Ten women with seasonal affective disorder (SAD) and 10 non-SAD women matched by age, body mass index, and menopausal status participated in a laboratory study in the morning, twice within 1-5 days. During one session, bright light (4,300 lx) was presented for 30 min, and during the other session, red light (250 lx “placebo”) was used. After an initial 15 min of sitting quietly in an experimental chamber, 10-min measurements were done before, at the end, and 15 min after light exposure; the subjects remained seated for 80 min in total. The measurements included 5-min oxyspirography (oxygen consumption, carbon dioxide emission, and heart rate), saliva sampling for the estimation of cortisol and α-amylase concentrations, and self-rating of mood, energy, and sleepiness. <b><i>Results:</i></b> There was no light-specific effect on the measured variables, except that sleepiness was reduced more with bright light than with red light in the combined group. α-Amylase values were lower in the SAD patients than in the non-SAD controls. <b><i>Conclusions:</i></b> Morning artificial bright light, in comparison with dim red light, had no immediate effect on metabolism and resting sympathetic tone, though subjective sleepiness decreased more with bright light. SAD patients have low salivary α-amylase levels, indicating lower sympathetic tone.
DOI: 10.6084/m9.figshare.5132362
title: New draft item

description: <br>Collection data for specimens illustrated in Liston AD, Heibo E, Prous M, Vardal H, Nyman T & Vikberg V. 2017. North European gall-inducing Euura sawflies (Hymenoptera, Tenthredinidae, Nematinae). Zootaxa 4032(1): 001-115<b>.<br></b>
DOI: 10.6084/m9.figshare.5132431.v2
title: ML analysis of complete dataset

description: Files related to the ML analysis of the complete dataset.<br>
DOI: 10.6084/m9.figshare.5132647.v6
title: Brain-to-Brain interaction at a distance: a global or differential relationship?

description: EEG, GW6 max correlation individual data related to the paper "<b>Brain-to-Brain interaction at a distance: a global or differential relationship?"</b>
DOI: 10.6084/m9.figshare.5132362.v1
title: New draft item

description: <br>Collection data for specimens illustrated in Liston AD, Heibo E, Prous M, Vardal H, Nyman T & Vikberg V. 2017. North European gall-inducing Euura sawflies (Hymenoptera, Tenthredinidae, Nematinae). Zootaxa 4032(1): 001-115<b>.<br></b>
DOI: 10.6084/m9.figshare.5132431.v1
title: Analysis of complete dataset

description: Files related to the ML analysis of the complete dataset.<br>
DOI: 10.6084/m9.figshare.5132296
title: Supplementary Material for: Recovery of Food Intake after Gastrectomy for Gastric Cancer: Based on a Large-Scale Gastric Cancer Cohort

description: <b><i>Background:</i></b> This study was aimed at evaluating the food intake and nutritional status of patients who underwent gastrectomy for gastric cancer based on a large-scale gastric cancer cohort. <b><i>Methods:</i></b> An observational prospective cohort study for gastric cancer has been conducted since 2010. From the cohort data, we selected the data for patients who completed at least 2 days of 3-day diet diaries and who underwent subtotal gastrectomy (STG) or total gastrectomy (TG). As a control group, patients who underwent endoscopic submucosal dissection were also included. The collected diet data were converted to macro- and micronutrients using computerized software, and the nutrient intakes were compared. <b><i>Results:</i></b> Among 6,556 patients who participated in the cohort study from 2011 to 2016, 1,289 patients who completed at least 2 days of 3-day diet diaries were included in this study. During the postoperative 3-month period, body weight was significantly decreased in the and TG groups. However, there was no difference in nutrient intake among the 3 groups except vitamin D and calcium intake. Similar results were observed during the postoperative 12 months period. <b><i>Conclusions:</i></b> Postoperative body weight loss and anemia might originate from altered absorptive function and metabolic change after gastrectomy rather than decreased nutrient intake.
DOI: 10.6084/m9.figshare.5132647.v7
title: Brain-to-Brain interaction at a distance: a global or differential relationship?

description: EEG, GW6 max correlation individual data related to the paper "<b>Brain-to-Brain interaction at a distance: a global or differential relationship?"</b><b><br></b><b>MatLab syntax and Extended data related to the paper "EEG correlation at a distance: a re-analysis of two studies using a machine learning approach"<br></b>
DOI: 10.6084/m9.figshare.5132233
title: L-Asparaginase for newly diagnosed extra-nodal NK/T-cell lymphoma: systematic review and meta-analysis

description: <b>Objectives:</b> The aim of this review was to compare the efficacy of asparaginase (ASP)-containing vs ASP-absent regimens in the first-line treatment of ENKTL patients. <b>Methods:</b> The PRISMA protocol was used to search PubMed and Embase for both controlled and uncontrolled studies of ASP or alternative chemotherapy (CT) for newly diagnosed ENKTL, published in English by March 2017. The regimens were compared to calculate relative risk (RR) with 95% confidence interval (CI) of the overall response rate (ORR), complete response (CR) or partial response (PR). <b>Results:</b> Out of 38 studies included, eight were controlled trials, with the pooled RR of ORR in stage I-II 1.54 (95% CI 1.34–1.77); stage I-IV 1.34 (95% CI 1.09–1.64). In stage III-IV CT combined with radiotherapy (RT), RR of ORR was 2.30 (95% CI 1.66–3.18). ASP was also superior in achieving CR. When all single arms combined, RR of ORR after CT with ASP was 1.52 (95% CI 1.38–1.67) in stage I-II (15 studies); 1.44 (95% CI 1.32–1.57) in all stages (29 studies); 1.31 (95% CI 1.24–1.38) and 1.66 (95% CI 1.18–2.34) in stages I-II and III-IV combined with RT, correspondingly. <b>Conclusions:</b> ASP-based CT significantly improved ORR and CR in patients with newly diagnosed both early-stage and advanced-stage ENKTL.
DOI: 10.6084/m9.figshare.5132257
title: Synergy or interference of a H9N2 avian influenza virus with a velogenic Newcastle disease virus in chickens is dose dependent

description: Field observations indicate that the impact of velogenic Newcastle disease virus (vNDV) is more severe in countries with concomitant circulation of low pathogenicity avian influenza virus, as is the case in the Middle East, in particular in Israel, where H9N2 and NDV are endemic. In our study, we evaluated how the exposure of chickens to an H9N2 challenge either favours or interferes with a subsequent vNDV infection and its transmission to sentinels. For this purpose, single vNDV and sequential H9/NDV challenges were performed with increasing doses of vNDV (10<sup>1</sup>–10<sup>6</sup> EID<sub>50</sub>). The H9N2 challenge made birds more susceptible to the vNDV, lowering the minimum dose required to cause an infection, exacerbating the clinical outcome, while delaying the onset of the disease and time of death. Interestingly, the presence and degree of these seemingly contrasting effects were dose-dependent and not mutually exclusive.
DOI: 10.6084/m9.figshare.5132224
title: GO annotation of Paeonia rockii and Paeonia ostii

description: GO annotation of Paeonia rockii and Paeonia ostii
DOI: 10.6084/m9.figshare.5132224.v1
title: GO annotation of Paeonia rockii and Paeonia ostii

description: GO annotation of Paeonia rockii and Paeonia ostii
DOI: 10.6084/m9.figshare.5132257.v1
title: Synergy or interference of a H9N2 avian influenza virus with a velogenic Newcastle disease virus in chickens is dose dependent

description: Field observations indicate that the impact of velogenic Newcastle disease virus (vNDV) is more severe in countries with concomitant circulation of low pathogenicity avian influenza virus, as is the case in the Middle East, in particular in Israel, where H9N2 and NDV are endemic. In our study, we evaluated how the exposure of chickens to an H9N2 challenge either favours or interferes with a subsequent vNDV infection and its transmission to sentinels. For this purpose, single vNDV and sequential H9/NDV challenges were performed with increasing doses of vNDV (10<sup>1</sup>–10<sup>6</sup> EID<sub>50</sub>). The H9N2 challenge made birds more susceptible to the vNDV, lowering the minimum dose required to cause an infection, exacerbating the clinical outcome, while delaying the onset of the disease and time of death. Interestingly, the presence and degree of these seemingly contrasting effects were dose-dependent and not mutually exclusive.
DOI: 10.6084/m9.figshare.5132233.v1
title: L-Asparaginase for newly diagnosed extra-nodal NK/T-cell lymphoma: systematic review and meta-analysis

description: <b>Objectives:</b> The aim of this review was to compare the efficacy of asparaginase (ASP)-containing vs ASP-absent regimens in the first-line treatment of ENKTL patients. <b>Methods:</b> The PRISMA protocol was used to search PubMed and Embase for both controlled and uncontrolled studies of ASP or alternative chemotherapy (CT) for newly diagnosed ENKTL, published in English by March 2017. The regimens were compared to calculate relative risk (RR) with 95% confidence interval (CI) of the overall response rate (ORR), complete response (CR) or partial response (PR). <b>Results:</b> Out of 38 studies included, eight were controlled trials, with the pooled RR of ORR in stage I-II 1.54 (95% CI 1.34–1.77); stage I-IV 1.34 (95% CI 1.09–1.64). In stage III-IV CT combined with radiotherapy (RT), RR of ORR was 2.30 (95% CI 1.66–3.18). ASP was also superior in achieving CR. When all single arms combined, RR of ORR after CT with ASP was 1.52 (95% CI 1.38–1.67) in stage I-II (15 studies); 1.44 (95% CI 1.32–1.57) in all stages (29 studies); 1.31 (95% CI 1.24–1.38) and 1.66 (95% CI 1.18–2.34) in stages I-II and III-IV combined with RT, correspondingly. <b>Conclusions:</b> ASP-based CT significantly improved ORR and CR in patients with newly diagnosed both early-stage and advanced-stage ENKTL.
DOI: 10.6084/m9.figshare.5132170
title: Undergraduate Mathematics Learner Corpus

description: This is a 667807 word learner corpus consisting of 79 final-year undergraduate mathematics dissertations contributed by students at 17 UK universities.<br>For further details, see https://dspace.lboro.ac.uk/2134/23388
DOI: 10.6084/m9.figshare.5132212
title: Predicting e-bike users’ intention to run the red light :An application and extension of the theory of planned behavior.xlsx

description: This research aims to examine the psychological motivation of e-bike users’ RLR behaviors. A survey questionnaire was designed employing the construct of theory of planned behavior (TPB). This is the data.