cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5492875.v3
title: Preferred Communication Channels, 2017

description: Questionnaire and anonymised raw data for the Springer Nature Preferred Communication Channels Survey carried out in 2017.
DOI: 10.6084/m9.figshare.5492761
title: Supplementary Material for: Association of Serum Bicarbonate with Bone Fractures in Hemodialysis Patients: The Mineral and Bone Disorder Outcomes Study for Japanese CKD Stage 5D Patients (MBD-5D)

description: <b><i>Background/Aims:</i></b> Bone fracture is often complicated in hemodialysis (HD) patients. Metabolic acidosis is related to bone disease and muscle wasting, but it is not known whether acid-base disturbance is associated with the risk of bone fractures. The aim of this study was to clarify the association of serum bicarbonate level with bone fracture in HD patients. <b><i>Methods:</i></b> Using a subcohort of the Mineral and Bone Disorder Outcomes Study for Japanese CKD Stage 5D Patients (MBD-5D), 890 prevalent HD patients (age: 62 years old, male: 62.8%, duration of dialysis: 8.3 years) with secondary hyperparathyroidism were studied. After measuring predialysis serum bicarbonate at a 2-day interdialytic interval, we prospectively followed them every 3 months, and examined the occurrence of any type of bone fracture or hospitalization due to fracture over a 3-year observation period. <b><i>Results:</i></b> Seventy-four bone fractures and 47 hospitalizations due to fracture were observed during the follow-up period. HD patients with serum bicarbonate &lt;20 mmol/l had a 1.93 (95% CI 1.01-3.71)-fold higher risk for all-cause fractures than those with serum bicarbonate of 20.0-21.9 mmol/l. A higher bicarbonate level (≥22 mmol/l) was also related to an increased risk of bone fracture. A restricted cubic regression spline disclosed that the higher or the lower than 21.0 mmol/l of serum bicarbonate, the greater the risk for bone fracture. <b><i>Conclusion:</i></b> Both a lower level and a higher level of predialysis bicarbonate concentration were associated with risk of bone fracture in HD patients with secondary hyperparathyroidism.
DOI: 10.6084/m9.figshare.5492761.v1
title: Supplementary Material for: Association of Serum Bicarbonate with Bone Fractures in Hemodialysis Patients: The Mineral and Bone Disorder Outcomes Study for Japanese CKD Stage 5D Patients (MBD-5D)

description: <b><i>Background/Aims:</i></b> Bone fracture is often complicated in hemodialysis (HD) patients. Metabolic acidosis is related to bone disease and muscle wasting, but it is not known whether acid-base disturbance is associated with the risk of bone fractures. The aim of this study was to clarify the association of serum bicarbonate level with bone fracture in HD patients. <b><i>Methods:</i></b> Using a subcohort of the Mineral and Bone Disorder Outcomes Study for Japanese CKD Stage 5D Patients (MBD-5D), 890 prevalent HD patients (age: 62 years old, male: 62.8%, duration of dialysis: 8.3 years) with secondary hyperparathyroidism were studied. After measuring predialysis serum bicarbonate at a 2-day interdialytic interval, we prospectively followed them every 3 months, and examined the occurrence of any type of bone fracture or hospitalization due to fracture over a 3-year observation period. <b><i>Results:</i></b> Seventy-four bone fractures and 47 hospitalizations due to fracture were observed during the follow-up period. HD patients with serum bicarbonate &lt;20 mmol/l had a 1.93 (95% CI 1.01-3.71)-fold higher risk for all-cause fractures than those with serum bicarbonate of 20.0-21.9 mmol/l. A higher bicarbonate level (≥22 mmol/l) was also related to an increased risk of bone fracture. A restricted cubic regression spline disclosed that the higher or the lower than 21.0 mmol/l of serum bicarbonate, the greater the risk for bone fracture. <b><i>Conclusion:</i></b> Both a lower level and a higher level of predialysis bicarbonate concentration were associated with risk of bone fracture in HD patients with secondary hyperparathyroidism.
DOI: 10.6084/m9.figshare.5492698
title: Sentential Negation of Abstract-Concrete Concepts: a fMRI MVPA study

description: Data and code for the MVPA analysis described in the submitted manuscript:<br><br><b>Sentential negation of abstract and concrete conceptual categories: a brain decoding MVPA study</b><b><br><br></b> Marta Ghio<sup>1,</sup><sup>*</sup>, Karolin Haegert<sup>1,</sup><sup>*</sup>, Matilde M. Vaghi<sup>2</sup>, Marco Tettamanti<sup>3</sup><sup><br></sup> <sup>1</sup>Institute for Experimental Psychology, Heinrich-Heine-University, Duesseldorf, Germany; <sup>2</sup>Department of Psychology, Behavioural and Clinical Neuroscience Institute, University of Cambridge, UK; <sup>3</sup>Division of Neuroscience, IRCCS San Raffaele Scientific Institute, I-20132 Milano, Italy. <br> <sup>*</sup>Authors with equal contribution
DOI: 10.6084/m9.figshare.5492698.v1
title: Sentential Negation of Abstract-Concrete Concepts: a fMRI MVPA study

description: Data and code for the MVPA analysis described in the submitted manuscript:<br><br><b>Sentential negation of abstract and concrete conceptual categories: a brain decoding MVPA study</b><b><br><br></b> Marta Ghio<sup>1,</sup><sup>*</sup>, Karolin Haegert<sup>1,</sup><sup>*</sup>, Matilde M. Vaghi<sup>2</sup>, Marco Tettamanti<sup>3</sup><sup><br></sup> <sup>1</sup>Institute for Experimental Psychology, Heinrich-Heine-University, Duesseldorf, Germany; <sup>2</sup>Department of Psychology, Behavioural and Clinical Neuroscience Institute, University of Cambridge, UK; <sup>3</sup>Division of Neuroscience, IRCCS San Raffaele Scientific Institute, I-20132 Milano, Italy. <br> <sup>*</sup>Authors with equal contribution
DOI: 10.6084/m9.figshare.5492698.v2
title: Sentential Negation of Abstract-Concrete Concepts: a fMRI MVPA study

description: Data and code for the MVPA analysis described in the submitted manuscript:<br><br><b>Sentential negation of abstract and concrete conceptual categories: a brain decoding MVPA study</b><b><br><br></b> Marta Ghio<sup>1,</sup><sup>*</sup>, Karolin Haegert<sup>1,</sup><sup>*</sup>, Matilde M. Vaghi<sup>2</sup>, Marco Tettamanti<sup>3</sup><sup><br></sup> <sup>1</sup>Institute for Experimental Psychology, Heinrich-Heine-University, Duesseldorf, Germany; <sup>2</sup>Department of Psychology, Behavioural and Clinical Neuroscience Institute, University of Cambridge, UK; <sup>3</sup>Division of Neuroscience, IRCCS San Raffaele Scientific Institute, I-20132 Milano, Italy. <br> <sup>*</sup>Authors with equal contribution
DOI: 10.6084/m9.figshare.5492659
title: Video4:TubeFormation

description: In this video, the self-assembly of a tube in a system of 3000 discs with κ = 0.3 and H=40 and 10,000 spheres at T=4.5, studied in Section 6.2, is illustrated. The<br>particles are coloured based on their locations in the formed tube at step of 120 millions. Particles which finally reside at the inner layer of tube are in blue and those at the outer layer are coloured in red. The particles which are not in the final configuration but appears in the growing cluster are shown in white. The particles which are present in final tube but are dissolved in the solution are shown by their short axes and the associated colour.
DOI: 10.6084/m9.figshare.5492626
title: ERG_RawData.xls

description: Raw measurements from ERG data, underlying Figure 1 and Supplementary Fig. 2
DOI: 10.6084/m9.figshare.5492620
title: Supplementary Material for: Identifying a Potential Summary Measure for Overall Caries Level in Children Examined with the International Caries Detection and Assessment System

description: <b><i>Objective:</i></b> To identify a potential summative summary measure that reflects a patient's overall caries level in children examined with the International Caries Detection and Assessment System (ICDAS). <b><i>Subjects and Methods:</i></b> Participants were 1- to 15-year-old children from Kuwait, Brazil, and Spain. Children's teeth were examined using the ICDAS. Multiple measures of central tendency and dentition-specific indices were considered as potential summative measures. The relationship between the summative measures and number of caries lesions was evaluated considering degrees of caries severity using Spearman's correlation analysis. The results were generated using the Kuwaiti sample and were cross-validated using the Brazilian and Spanish samples. <b><i>Results:</i></b> A total of 2,808 children participated in the present study. Total ICDAS score and mean ICDAS score showed a strong correlation with the number of caries lesions at different caries severity levels in primary, mixed, and permanent dentitions. The total ICDAS score of 51 buccal (B), 61B, 54 occlusal (O), 55O, 64O, 65O, 74O, 75O, 84O, and 85O surfaces in primary dentition and the total ICDAS score of 14O, 16 lingual (L), 16O, 24O, 26L, 26O, 36B, 36O, 37O, 46O, 46B, and 47O surfaces in permanent dentition or mixed dentition (if present) showed strong correlations with the number of caries lesions at different caries severity levels. <b><i>Conclusions:</i></b> Total ICDAS and mean ICDAS scores were the best summary measures of overall caries level at different dental stages. Total ICDAS scores of selectively examined 10 surfaces in primary dentition and 12 surfaces in permanent dentition can give an excellent summary measure for a patient's overall caries level with high diagnostic accuracy.
DOI: 10.6084/m9.figshare.5492611
title: Perceptual processing is not spared during the attentional blink - data from 3 experiments

description: Data from three experiments
DOI: 10.6084/m9.figshare.5492617
title: Efficacy and safety of saxagliptin in combination with insulin in Japanese patients with type 2 diabetes mellitus: a 16-week double-blind randomized controlled trial with a 36-week open-label extension

description: <b>Background</b>: We examined the efficacy and safety of saxagliptin as an add-on to insulin in Japanese patients with type 2 diabetes mellitus. <b>Research design and methods</b>: We randomized 240 patients with type 2 diabetes mellitus on insulin monotherapy to 5-mg saxagliptin or placebo as add-on therapy for a 16-week, double-blind period. All patients received 5-mg saxagliptin and insulin for an additional 36 weeks (open-label extension). Change in hemoglobin A1c (HbA1c) at Week 16 was the main endpoint. <b>Results</b>: At Week 16, the adjusted change in HbA1c from baseline increased by 0.51% with placebo and decreased by 0.40% with saxagliptin (difference −0.92% [95% confidence interval −1.07%, −0.76%; p <b>Conclusions</b>: Adding saxagliptin to ongoing insulin therapy improved glycemic control and was well tolerated in Japanese patients with type 2 diabetes.
DOI: 10.6084/m9.figshare.5492617.v2
title: Efficacy and safety of saxagliptin in combination with insulin in Japanese patients with type 2 diabetes mellitus: a 16-week double-blind randomized controlled trial with a 36-week open-label extension

description: <b>Background</b>: We examined the efficacy and safety of saxagliptin as an add-on to insulin in Japanese patients with type 2 diabetes mellitus. <b>Research design and methods</b>: We randomized 240 patients with type 2 diabetes mellitus on insulin monotherapy to 5-mg saxagliptin or placebo as add-on therapy for a 16-week, double-blind period. All patients received 5-mg saxagliptin and insulin for an additional 36 weeks (open-label extension). Change in hemoglobin A1c (HbA1c) at Week 16 was the main endpoint. <b>Results</b>: At Week 16, the adjusted change in HbA1c from baseline increased by 0.51% with placebo and decreased by 0.40% with saxagliptin (difference −0.92% [95% confidence interval −1.07%, −0.76%; p <b>Conclusions</b>: Adding saxagliptin to ongoing insulin therapy improved glycemic control and was well tolerated in Japanese patients with type 2 diabetes.
DOI: 10.6084/m9.figshare.5492527
title: Green synthesis of silver nanoparticles using transgenic <i>Nicotiana tabacum</i> callus culture expressing silicatein gene from marine sponge <i>Latrunculia oparinae</i>

description: In the present investigation, transgenic tobacco callus cultures and plants overexpressing the silicatein gene <i>LoSilA1</i> from marine sponge <i>Latrunculia oparinae</i> were obtained and their bioreduction behaviour for the synthesis of silver nanoparticles (AgNPs) was studied. Synthesized nanoparticles were characterized using UV–visible spectroscopy, Fourier transformed infrared spectroscopy (FTIR), X-ray diffraction (XRD), scanning electron microscopy (SEM), energy-dispersive X-ray spectroscopy (EDX), atomic flame electron microscopy (AFM) and nanoparticle tracking analysis (NTA). Our measurements showed that the reduction of silver nitrate produced spherical AgNPs with diameters in the range of 12–80 nm. The results of XRD analysis proved the crystal nature of the obtained AgNPs. FTIR analysis indicated that particles are reduced and stabilized in solution by the capping agent, which is likely to be proteins present in the callus extract. Interestingly, the reduction potential of <i>LoSiLA1</i>-transgenic callus line was increased three-fold compared with the empty vector-transformed calli. The synthesized AgNPs were found to exhibit strong antibacterial activity against <i>Escherichia coli</i> and <i>Agrobacterium rhizogenes</i>. The present study reports the first evidence for using genetic engineering for activation of the reduction potential of plant cells for synthesis of biocidal AgNPs.
DOI: 10.6084/m9.figshare.5492617.v1
title: Efficacy and safety of saxagliptin in combination with insulin in Japanese patients with type 2 diabetes mellitus: a 16-week double-blind randomized controlled trial with a 36-week open-label extension

description: <b>Background</b>: We examined the efficacy and safety of saxagliptin as an add-on to insulin in Japanese patients with type 2 diabetes mellitus. <b>Research design and methods</b>: We randomized 240 patients with type 2 diabetes mellitus on insulin monotherapy to 5-mg saxagliptin or placebo as add-on therapy for a 16-week, double-blind period. All patients received 5-mg saxagliptin and insulin for an additional 36 weeks (open-label extension). Change in hemoglobin A1c (HbA1c) at Week 16 was the main endpoint. <b>Results</b>: At Week 16, the adjusted change in HbA1c from baseline increased by 0.51% with placebo and decreased by 0.40% with saxagliptin (difference −0.92% [95% confidence interval −1.07%, −0.76%; p <b>Conclusions</b>: Adding saxagliptin to ongoing insulin therapy improved glycemic control and was well tolerated in Japanese patients with type 2 diabetes.
DOI: 10.6084/m9.figshare.5492527.v1
title: Green synthesis of silver nanoparticles using transgenic <i>Nicotiana tabacum</i> callus culture expressing silicatein gene from marine sponge <i>Latrunculia oparinae</i>

description: In the present investigation, transgenic tobacco callus cultures and plants overexpressing the silicatein gene <i>LoSilA1</i> from marine sponge <i>Latrunculia oparinae</i> were obtained and their bioreduction behaviour for the synthesis of silver nanoparticles (AgNPs) was studied. Synthesized nanoparticles were characterized using UV–visible spectroscopy, Fourier transformed infrared spectroscopy (FTIR), X-ray diffraction (XRD), scanning electron microscopy (SEM), energy-dispersive X-ray spectroscopy (EDX), atomic flame electron microscopy (AFM) and nanoparticle tracking analysis (NTA). Our measurements showed that the reduction of silver nitrate produced spherical AgNPs with diameters in the range of 12–80 nm. The results of XRD analysis proved the crystal nature of the obtained AgNPs. FTIR analysis indicated that particles are reduced and stabilized in solution by the capping agent, which is likely to be proteins present in the callus extract. Interestingly, the reduction potential of <i>LoSiLA1</i>-transgenic callus line was increased three-fold compared with the empty vector-transformed calli. The synthesized AgNPs were found to exhibit strong antibacterial activity against <i>Escherichia coli</i> and <i>Agrobacterium rhizogenes</i>. The present study reports the first evidence for using genetic engineering for activation of the reduction potential of plant cells for synthesis of biocidal AgNPs.
DOI: 10.6084/m9.figshare.5492512
title: De novo transcriptome of koala (Phascolarctos cinereus)

description: Fasta file of de novo transcriptome of koala (Phascolarctos cinereus)Associated GFF3 annotation<br>
DOI: 10.6084/m9.figshare.5492611.v1
title: Data

description: Data from three experiments
DOI: 10.6084/m9.figshare.5492509
title: UoN.Pci.Transcriptome.annotation.gff3

description: <b>GFF annotation of de novo transcriptome of koala (Phascolarctos cinereus)</b><br>
DOI: 10.6084/m9.figshare.5492611.v3
title: Perceptual processing is not spared during the attentional blink - data from 3 experiments

description: Data from three experiments
DOI: 10.6084/m9.figshare.5492506
title: Antibiotics exposure and risk of inflammatory bowel disease: a systematic review

description: <b>Aim:</b> The aim of this study was to critically assess all available evidence suggesting an association between antibiotic exposure and new onset of inflammatory bowel disease (IBD). <b>Materials and methods:</b> This systematic review was conducted according to the PRISMA statement and eligible studies were identified through search of PubMed, Embase and the Cochrane Library. Data on patient demographics, antibiotic exposure and confounding factors were analyzed. The Newcastle-Ottawa Scale (NOS) was used to assess the quality of eligible studies. <b>Results:</b> A total of 15 observational studies (10 case control and five cohort) including 8748 patients diagnosed with IBD were systematically reviewed. Antibiotic exposure was mostly associated with Crohn’s disease but not with ulcerative colitis. In particular, penicillin’s, cephalosporins, metronidazole and fluoroquinolones were most commonly associated with the onset of Crohn’s disease. The impact of tetracycline-family antibiotics on the pathogenesis of IBD was not clear. <b>Conclusion:</b> There may be an association between antibiotic exposure and the development of IBD; especially Crohn’s disease. Even though, clinicians should be cautious when prescribing certain antibiotic regimens to patients with a strong family history of IBD, it should be emphasized that available data are not granular enough to reach any definitive conclusions.
DOI: 10.6084/m9.figshare.5492509.v1
title: UoN.Pci.Transcriptome.annotation.gff3

description: <b>GFF annotation of de novo transcriptome of koala (Phascolarctos cinereus)</b><br>
DOI: 10.6084/m9.figshare.5492506.v1
title: Antibiotics exposure and risk of inflammatory bowel disease: a systematic review

description: <b>Aim:</b> The aim of this study was to critically assess all available evidence suggesting an association between antibiotic exposure and new onset of inflammatory bowel disease (IBD). <b>Materials and methods:</b> This systematic review was conducted according to the PRISMA statement and eligible studies were identified through search of PubMed, Embase and the Cochrane Library. Data on patient demographics, antibiotic exposure and confounding factors were analyzed. The Newcastle-Ottawa Scale (NOS) was used to assess the quality of eligible studies. <b>Results:</b> A total of 15 observational studies (10 case control and five cohort) including 8748 patients diagnosed with IBD were systematically reviewed. Antibiotic exposure was mostly associated with Crohn’s disease but not with ulcerative colitis. In particular, penicillin’s, cephalosporins, metronidazole and fluoroquinolones were most commonly associated with the onset of Crohn’s disease. The impact of tetracycline-family antibiotics on the pathogenesis of IBD was not clear. <b>Conclusion:</b> There may be an association between antibiotic exposure and the development of IBD; especially Crohn’s disease. Even though, clinicians should be cautious when prescribing certain antibiotic regimens to patients with a strong family history of IBD, it should be emphasized that available data are not granular enough to reach any definitive conclusions.
DOI: 10.6084/m9.figshare.5492611.v2
title: Perceptual processing is not spared during the attentional blink - data from 3 experiments

description: Data from three experiments
DOI: 10.6084/m9.figshare.5492512.v1
title: Fasta file of transcripts

description: Fasta file of de novo transcriptome of koala (Phascolarctos cinereus)
DOI: 10.6084/m9.figshare.5492443
title: Social media analysis during political turbulence, DATA

description: This the data necessary for reproduction of the paper titled "Social media analysis during political turbulence"<br><br>
DOI: 10.6084/m9.figshare.5492416
title: Genome-wide association analysis identifies 30 new susceptibility loci for schizophrenia

description: We conducted a genome-wide association study (GWAS) with replication in 36,180 Chinese individuals and performed further transancestry meta-analyses with data from the Psychiatry Genomics Consortium (PGC2). The summary data for meta-analyses from the published study is available in this site, as well as gwas.bio-x.cn and analysis.bio-x.cn/gwas, for download.<br><br><b><i>Data Download Agreement: </i><br><br>If you download these data, you and your immediate collaborators (“investigators”) acknowledge and agree to all of the following conditions: </b><br><br>&gt; These data are provided on an "AS-IS" basis, without warranty of any type, expressed or implied, including but not limited to any warranty as to their performance, merchantability, or fitness for any particular purpose;<br><br>&gt; Investigators will use these results for scientific research and educational use only;<br><br>&gt; Reposting or public distribution of these results files is prohibited;<br><br>&gt; Investigators certify that they are in compliance with all applicable local, state, and federal laws or regulations and institutional policies regarding human subjects and genetics research; <br><br>&gt; Investigators will cite the appropriate publication(s) in any communications or publications arising directly or indirectly from these data; <br><br>&gt; Investigators will never attempt to identify any participant. <br><br>&gt; Appropriate use of these data requires considerable attention to detail, prior experience, and technical skill. If investigators use these data, any and all consequences are entirely their responsibility.<br><br>
DOI: 10.6084/m9.figshare.5492410
title: ASR_Core.graphml

description: This figure shows the core components of automatic speech recognition.
DOI: 10.6084/m9.figshare.5492392
title: Deep Phenotyping Dataset

description: Image files and metadata associated with Namin et al 2017, Plant Methods paper from the TraitCapture project. Full project details and data at TraitCapture.org<br>Paper Reference:Deep Phenotyping: Deep Learning For Temporal Phenotype/Genotype Classification. Sarah Taghavi Namin, Mohammad Esmaeilzadeh, Mohammad Najafi, Tim B. Brown, Justin O. Borevitz. Plant Methods. 2018. 14:66 DOI: https://doi.org/10.1186/s13007-018-0333-4<br>
DOI: 10.6084/m9.figshare.5492437.v2
title: BRAIN Journal - Cognitive Medical Multiagent Systems - Figure 1. CMDS medical diagnosis system

description: Figure 1. CMDS medical diagnosis system
DOI: 10.6084/m9.figshare.5492437.v3
title: BRAIN Journal - Cognitive Medical Multiagent Systems - Figure 1. CMDS medical diagnosis system

description: Figure 1. CMDS medical diagnosis system
DOI: 10.6084/m9.figshare.5492410.v3
title: ASR_Core.graphml

description: This figure shows the core components of automatic speech recognition.
DOI: 10.6084/m9.figshare.5492410.v2
title: ASR_Core.graphml

description: This figure shows the core components of automatic speech recognition.