cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.11744250
title: Predicted protein-coding genes of M. enterolobii (genome V1, INRA/JKI)

description: Fasta file of the predicted protein-coding genes in the genome of Meloidogyne enteolobii.Gene predictions were done by Eugene-EP<br>
DOI: 10.6084/m9.figshare.11744238.v1
title: GFF3 of the EUGENE gene prediction of M. enterolobii (genome V1, INRA/JKI)

description: GFF3 file of the gene prediction in the genome of Meloidogyne enterolobii.The gene prediction has been done with EUGENE-EP<br>
DOI: 10.6084/m9.figshare.11744250.v1
title: Predicted protein-coding genes of M. enterolobii (genome V1, INRA/JKI)

description: Fasta file of the predicted protein-coding genes in the genome of Meloidogyne enteolobii.Gene predictions were done by Eugene-EP<br>
DOI: 10.6084/m9.figshare.11744235
title: Genetics and power and speed in elite youth soccer

description: We investigated the association of multiple single nucleotide polymorphisms (SNPs) with athlete status and power/speed performance in elite male youth soccer players (ESP) and control participants (CON) at different stages of maturation.
DOI: 10.6084/m9.figshare.11744235.v2
title: Genetics and power and speed in elite youth soccer

description: We investigated the association of multiple single nucleotide polymorphisms (SNPs) with athlete status and power/speed performance in elite male youth soccer players (ESP) and control participants (CON) at different stages of maturation. ESP (n=535; aged 8-23 years) and CON (n=151; aged 9-26 years) were genotyped for 10 SNPs and grouped according to years from/to predicted peak-height-velocity (PHV), i.e. pre- or post-PHV, to determine maturation status. Participants performed bilateral vertical countermovement jumps, bilateral horizontal-forward countermovement jumps, 20m sprints and modified 505-agility tests. Compared to CON, pre-PHV ESP demonstrated a higher <i>ACTN3 </i>(rs1815739)<i> </i>X-allele frequency distribution, while post-PHV ESP revealed a higher frequency distribution of the <i>PPARA </i>(rs4253778) C-allele, <i>AGT </i>(rs699) GG genotype<i> </i>and <i>NOS3 </i>(rs2070744) T-allele. <i>BDNF </i>(rs6265)<i> </i>CC, <i>COL5A1 </i>(rs12722) CC and <i>NOS3 </i>TT homozygotes sprinted quicker than A-allele carriers, CT heterozygotes and CC homozygotes, respectively. <i>COL2A1 </i>(rs2070739)<i> </i>CC and <i>AMPD1 </i>(rs17602729) GG homozygotes sprinted faster than their respective minor allele carrier counterparts in CON and pre-PHV ESP, respectively. <i>BDNF </i>CC homozygotes jumped further than T-allele carriers, while ESP<i> COL5A1</i><i> </i>CC homozygotes jumped higher than TT homozygotes. To conclude, we have shown for the first time that pre- and post-PHV ESP have distinct genetic profiles, with pre-PHV ESP more suited for endurance, and post-PHV ESP for power and speed (the latter phenotypes being crucial attributes for post-PHV ESP). We have also demonstrated that power, acceleration and sprint performance were associated with five SNPs, both individually and in combination, possibly by influencing muscle size and neuromuscular activation.
DOI: 10.6084/m9.figshare.11744235.v1
title: Genetics and power and speed in elite youth soccer

description: We investigated the association of multiple single nucleotide polymorphisms (SNPs) with athlete status and power/speed performance in elite male youth soccer players (ESP) and control participants (CON) at different stages of maturation. ESP (n=535; aged 8-23 years) and CON (n=151; aged 9-26 years) were genotyped for 10 SNPs and grouped according to years from/to predicted peak-height-velocity (PHV), i.e. pre- or post-PHV, to determine maturation status. Participants performed bilateral vertical countermovement jumps, bilateral horizontal-forward countermovement jumps, 20m sprints and modified 505-agility tests. Compared to CON, pre-PHV ESP demonstrated a higher <i>ACTN3 </i>(rs1815739)<i> </i>X-allele frequency distribution, while post-PHV ESP revealed a higher frequency distribution of the <i>PPARA </i>(rs4253778) C-allele, <i>AGT </i>(rs699) GG genotype<i> </i>and <i>NOS3 </i>(rs2070744) T-allele. <i>BDNF </i>(rs6265)<i> </i>CC, <i>COL5A1 </i>(rs12722) CC and <i>NOS3 </i>TT homozygotes sprinted quicker than A-allele carriers, CT heterozygotes and CC homozygotes, respectively. <i>COL2A1 </i>(rs2070739)<i> </i>CC and <i>AMPD1 </i>(rs17602729) GG homozygotes sprinted faster than their respective minor allele carrier counterparts in CON and pre-PHV ESP, respectively. <i>BDNF </i>CC homozygotes jumped further than T-allele carriers, while ESP<i> COL5A1</i><i> </i>CC homozygotes jumped higher than TT homozygotes. To conclude, we have shown for the first time that pre- and post-PHV ESP have distinct genetic profiles, with pre-PHV ESP more suited for endurance, and post-PHV ESP for power and speed (the latter phenotypes being crucial attributes for post-PHV ESP). We have also demonstrated that power, acceleration and sprint performance were associated with five SNPs, both individually and in combination, possibly by influencing muscle size and neuromuscular activation.
DOI: 10.6084/m9.figshare.11744214
title: Predicted messenger RNAs of M. enterolobii (genome V1, INRA/JKI)

description: Fasta sequences of the predicted messenger RNA (mRNA) in the genome of M. enterolobii.The annotation was done using Eugene-EP<br>
DOI: 10.6084/m9.figshare.11744214.v1
title: Predicted messenger RNAs of M. enterolobii (genome V1, INRA/JKI)

description: Fasta sequences of the predicted messenger RNA (mRNA) in the genome of M. enterolobii.The annotation was done using Eugene-EP<br>
DOI: 10.6084/m9.figshare.11744178
title: Predicted non coding RNAs (ncRNA) of M. enterolobii (genome V1, INRA/JKI)

description: Fasta sequences of the predicted ncRNA in the genome of M. enterolobii, from Eugene-EP annotation.<br>
DOI: 10.6084/m9.figshare.11744178.v1
title: Predicted non coding RNAs (ncRNA) of M. enterolobii (genome V1, INRA/JKI)

description: Fasta sequences of the predicted ncRNA in the genome of M. enterolobii, from Eugene-EP annotation.<br>
DOI: 10.6084/m9.figshare.11743965
title: Metadata record for: Hydraulic, wash-off and sediment transport experiments in a full-scale urban drainage physical model

description: This dataset contains key characteristics about the data described in the Data Descriptor Hydraulic, wash-off and sediment transport experiments in a full-scale urban drainage physical model. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format <br> <br> Versioning Note:Version 2 was generated when the metadata format was updated from JSON to JSON-LD. This was an automatic process that changed only the format, not the contents, of the metadata.<br>
DOI: 10.6084/m9.figshare.11743965.v2
title: Metadata record for: Hydraulic, wash-off and sediment transport experiments in a full-scale urban drainage physical model

description: This dataset contains key characteristics about the data described in the Data Descriptor Hydraulic, wash-off and sediment transport experiments in a full-scale urban drainage physical model. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format <br> <br> Versioning Note:Version 2 was generated when the metadata format was updated from JSON to JSON-LD. This was an automatic process that changed only the format, not the contents, of the metadata.<br>
DOI: 10.6084/m9.figshare.11743959
title: A reassessment of the genus <i>Groeberia</i> Patterson, 1952 (Mammalia, Metatheria): functional and phylogenetic implications

description: With two recognized species, the extinct (late Eocene) <i>Groeberia</i> is periodically at the centre of systematic disputes. On the basis of its best-preserved specimen, we describe in detail the dental and functional morphology of the masticatory apparatus of <i>Groeberia minoprioi.</i> A review of its dental anatomy indicates that <i>Groeberia</i> has a tribosphenic molar pattern which confirms its therian affinities. Its dental formula of I2/1; C1/1; P3/1; M4/4 is compatible with the usual metatherian set of three premolars and four molars in the upper dentition, and with the common ‘pseudodiprotodont’ lower postcanine formula of one premolar (p3) and four molars. A cladistic analysis resulted in the inclusion of <i>Groeberia</i> among australidelphian metatherians, clustering with vombatiform diprotodontians in the strict consensus tree; however, these affinities require further testing. The functional morphology of the masticatory apparatus suggests distinct incisive and chewing phases. The incisive stroke was followed by a power stroke with a combination of proal and ectental motion of the jaw. Integrating the results of masticatory movements, occlusal tooth wear, infraorbital foramen size, and body mass estimations (90.2 g for <i>G. pattersoni</i> and 216.3 g for <i>G. minoprioi</i>), we suggest an omnivorous diet with a preference for plant material, like that characterizing living potoroids.
DOI: 10.6084/m9.figshare.11743965.v1
title: Metadata record for: Hydraulic, wash-off and sediment transport experiments in a full-scale urban drainage physical model

description: This dataset contains key characteristics about the data described in the Data Descriptor Hydraulic, wash-off and sediment transport experiments in a full-scale urban drainage physical model. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format <br> <br> <br>
DOI: 10.6084/m9.figshare.11743959.v1
title: A reassessment of the genus <i>Groeberia</i> Patterson, 1952 (Mammalia, Metatheria): functional and phylogenetic implications

description: With two recognized species, the extinct (late Eocene) <i>Groeberia</i> is periodically at the centre of systematic disputes. On the basis of its best-preserved specimen, we describe in detail the dental and functional morphology of the masticatory apparatus of <i>Groeberia minoprioi.</i> A review of its dental anatomy indicates that <i>Groeberia</i> has a tribosphenic molar pattern which confirms its therian affinities. Its dental formula of I2/1; C1/1; P3/1; M4/4 is compatible with the usual metatherian set of three premolars and four molars in the upper dentition, and with the common ‘pseudodiprotodont’ lower postcanine formula of one premolar (p3) and four molars. A cladistic analysis resulted in the inclusion of <i>Groeberia</i> among australidelphian metatherians, clustering with vombatiform diprotodontians in the strict consensus tree; however, these affinities require further testing. The functional morphology of the masticatory apparatus suggests distinct incisive and chewing phases. The incisive stroke was followed by a power stroke with a combination of proal and ectental motion of the jaw. Integrating the results of masticatory movements, occlusal tooth wear, infraorbital foramen size, and body mass estimations (90.2 g for <i>G. pattersoni</i> and 216.3 g for <i>G. minoprioi</i>), we suggest an omnivorous diet with a preference for plant material, like that characterizing living potoroids.
DOI: 10.6084/m9.figshare.11743893
title: Supplementary Material for: How to Best Detect Portal Vein Tumor Thrombosis in Patients with Hepatocellular Carcinoma Meeting the Milan Criteria: Gadoxetic Acid-Enhanced MRI versus Contrast-Enhanced CT

description: <b><i>Introduction:</i></b> The detection of portal vein tumor thrombosis (PVTT) in patients with hepatocellular carcinoma (HCC) meeting the Milan criteria is of critical importance as PVTT is known to be a contraindication to transplantation and an indicator of a dismal prognosis. <b><i>Objective:</i></b> To determine which modality may best detect PVTT, we compared the diagnostic performance of gadoxetic acid-enhanced MRI (GA-MRI) and contrast-enhanced CT (CECT) in HCC patients meeting the Milan criteria. <b><i>Methods:</i></b> We retrospectively enrolled 310 patients with HCCs meeting the Milan criteria who underwent both GA-MRI and CECT between June 2007 and May 2017. Among them, 44 patients were demonstrated to have PVTT while 266 patients had no PVTT. Two radiologists then assessed GA-MRI and CECT images for the presence of PVTT on a 5-point scale as well as vessel expansion, continuity with tumors, and enhancement on both modalities, as well as T2 hyperintensity and diffusion restriction on GA-MRI. The McNemar test was used to compare sensitivity and specificity of GA-MRI and CECT for the detection of PVTT, and Fisher’s exact test was used to compare their imaging features. <b><i>Results:</i></b> GA-MRI showed higher sensitivity values than CECT in detecting PVTT (reviewer 1, 93.2% [41/44] vs. 77.3% [34/44]; reviewer 2, 88.6% [39/44] vs. 70.5% [31/44]) (both <i>p</i> = 0.039). Specificity of GA-MRI and CECT demonstrated no difference (reviewer 1, 95.5% [254/266] vs. 95.1% [253/266]; reviewer 2, 97.0% [258/266] vs. 97.4% [259/266]) (both <i>p</i> &gt; 0.999). Continuity with tumors and enhancement were more frequently observed on GA-MRI than on CECT (<i>p</i> &lt; 0.050, both reviewers). <b><i>Conclusion:</i></b> GA-MRI detected PVTT more often than CECT in HCC patients meeting the Milan criteria and better depicted PVTT in continuity with tumors and those showing enhancement than CECT.
DOI: 10.6084/m9.figshare.11743905
title: Supplementary Material for: Can Eating Disorder Treatment also Alleviate Psychiatric Comorbidity? Matched Correspondence Analysis

description: Medicine
DOI: 10.6084/m9.figshare.11743851
title: Supplementary Material for: Systematic Review of Recurrence Rate after Hemithyroidectomy for Low-Risk Well-Differentiated Thyroid Cancer

description: <b><i>Background:</i></b> Surgical extent in the management of well-differentiated thyroid cancer (DTC) remains a recurrent subject of debate. This is especially relevant in low-risk DTC of 1–4 cm, which represent the majority of new thyroid cancer diagnoses. With trends towards treatment de-escalation and recent guidelines from the American Thyroid Association and British Thyroid Association endorsing hemithyroidectomy (HT) alone for low-risk DTC of 1–4 cm, we sought to systematically appraise the literature to examine recurrence rate outcomes after HT in this low-risk group. <b><i>Summary:</i></b> Searching PubMed, Cochrane Library, and Ovid MEDLINE, we conducted a systematic review to assess the survival and recurrence rate data presented in all published studies that had a cohort of patients treated with HT for the treatment of DTC. Pooled 10-year survival and recurrence rates, odds ratios, and 95% confidence intervals were calculated for meta-analysis. We identified 31 studies (with a total of 228,746 patients (HT: 36,129, total thyroidectomy, TT: 192,617), which had published recurrence and/or survival data for patients having had HT for DTC. We discovered a pooled recurrence rate of 9.0% for HT, which is significantly higher than in previously published reports. Further, this rate is maintained when examining patients within low-risk cohorts established with recognised risk classifications. We also discovered that of those patients who develop recurrent disease, 48% recur outside the central neck. <b><i>Key Messages:</i></b> Our study provides a comprehensive systematic review of evidence aimed primarily at defining the recurrence rate in DTC after HT, and more specifically within the low-risk subgroup. We describe pooled recurrence and 10-year survival rates from a larger, broader, and more contemporary patient population than has been previously reported. Our findings indicate that there is a small but significantly higher recurrence rate after HT than TT, but the evidence base is heterogenous and subject to confounding factors and would ultimately benefit from prospective randomised trials to overcome these deficiencies.
DOI: 10.6084/m9.figshare.11743836
title: Mapping of event identifiers to event names

description: Mapping of event identifiers to event names.<br>If you use this code or the plots generated from it, please cite/mention the following papers:Pappalardo, L., Cintia, P., Rossi, A. et al. A public data set of spatio-temporal match events in soccer competitions. Sci Data 6, 236 (2019) doi:10.1038/s41597-019-0247-7, https://www.nature.com/articles/s41597-019-0247-7Pappalardo, L., Cintia, P., Ferragina, P., Massucco, E., Pedreschi, D., Giannotti, F. (2019) PlayeRank: Data-driven Performance Evaluation and Player Ranking in Soccer via a Machine Learning Approach. ACM Transactions on Intelligent Systems and Technologies 10(5) Article 59, DOI: https://doi.org/10.1145/3343172, https://dl.acm.org/citation.cfm?id=3343172and the data collection on figshare:Pappalardo, Luca; Massucco, Emanuele (2019): Soccer match event dataset. figshare. Collection. https://doi.org/10.6084/m9.figshare.c.4415000
DOI: 10.6084/m9.figshare.11743818
title: Mapping of tag identifiers to tag names

description: Mapping of tag identifiers to tag names. <br>If you use this code or the plots generated from it, please cite/mention the following papers:Pappalardo, L., Cintia, P., Rossi, A. et al. A public data set of spatio-temporal match events in soccer competitions. Sci Data 6, 236 (2019) doi:10.1038/s41597-019-0247-7, https://www.nature.com/articles/s41597-019-0247-7Pappalardo, L., Cintia, P., Ferragina, P., Massucco, E., Pedreschi, D., Giannotti, F. (2019) PlayeRank: Data-driven Performance Evaluation and Player Ranking in Soccer via a Machine Learning Approach. ACM Transactions on Intelligent Systems and Technologies 10(5) Article 59, DOI: https://doi.org/10.1145/3343172, https://dl.acm.org/citation.cfm?id=3343172and the data collection on figshare:Pappalardo, Luca; Massucco, Emanuele (2019): Soccer match event dataset. figshare. Collection. https://doi.org/10.6084/m9.figshare.c.4415000
DOI: 10.6084/m9.figshare.11743815
title: Supplementary Material for: Cytoskeleton Protein Filamin A Is Required for Efficient Somatostatin Receptor Type 2 Internalization and Recycling through Rab5 and Rab4 Sorting Endosomes in Tumor Somatotroph Cells

description: The high expression of somatostatin receptor 2 (SST<sub>2</sub>) in growth hormone (GH)-secreting tumors represents the rationale for the clinical use of somatostatin analogs (SSAs) in acromegaly. Recently, the cytoskeletal protein Filamin A (FLNA) has emerged as key modulator of the responsiveness of GH-secreting pituitary tumors to SSAs by regulating SST<sub>2</sub> signaling and expression. The aim of this study was to explore FLNA involvement in SST<sub>2</sub> intracellular trafficking in tumor somatotroph cells. By biotinylation assay, we found that FLNA silencing abolished octreotide-mediated SST<sub>2</sub> internalization in rat GH3 cell line (28.0 ± 2.7 vs. 4 ± 4.3% SST<sub>2</sub> internalization, control versus FLNA small interfering RNAs (siRNA) cells, respectively, <i>p</i> &lt; 0.001) and human GH-secreting primary cultured cells (70.3 ± 21.1 vs. 24 ± 19.2% SST<sub>2</sub> internalization, control versus FLNA siRNA cells, respectively, <i>p</i> &lt; 0.05). In addition, confocal imaging revealed impaired SST<sub>2</sub> recycling to the plasma membrane in FLNA silenced GH3 cells. Coimmunoprecipitation and immunofluorescence experiments showed that FLNA, as well as β-arrestin2, is timely dependent recruited to octreotide-stimulated SST<sub>2</sub> receptors both in rat and human tumor somatotroph cells. Although FLNA expression knock down did not prevent the formation of β-arrestin2-SST<sub>2</sub> complex in GH3 cells, it significantly impaired efficient SST<sub>2</sub> loading into cytosolic vesicles positive for the early endocytic and recycling markers Rab5 and 4, respectively (33.7 ± 8.9% down to 25.9 ± 6.9%, <i>p</i> &lt; 0.05, and 28.4 ± 7.4% down to 17.6 ± 5.7%, <i>p</i> &lt; 0.01, for SST<sub>2</sub>-Rab5 and SST<sub>2</sub>-Rab4 colocalization, respectively, in control versus FLNA siRNA cells). Altogether these data support an important role for FLNA in the mediation of octreotide-induced SST<sub>2</sub> trafficking in GH-secreting pituitary tumor cells through Rab5 and 4 sorting endosomes.
DOI: 10.6084/m9.figshare.11743758
title: Nesting Distances and Elevations for Quantifying the impacts of future sea level rise on nesting sea turtles in the southeastern USA

description: <b>Methods</b>We obtained nesting locations directly from each National Seashore. Nest locations were recorded by trained volunteers and National Park Service biologists through daily, early morning surveys of all beaches. Nesting female sea turtles leave conspicuous marks in the sand that can be used to determine the species and location of a nest if eggs are deposited. We made use of all nest locality data for the years in which Seashores used handheld GPS units for recording precise latitude and longitude (Canaveral National Seashore (CANA): 2013–2016, Cumberland Island National Seashore (CUIS): 2003–2017, Cape Lookout National Seashore (CALO): 2001–2015, Cape Hatteras National Seashore (CAHA): 2005–2016). We quantified the shortest distance between each nest site and high water line using the Near tool in ArcGIS (version 10.4). We used the mean high water line vector, retrieved from NOAA or USGS, for the year closest to the time when each nest was recorded (see Table 2 in publication for years and sources). Based on the angle between nest point and shoreline, we were able to determine which nests were east of the high water line (below the high water mark) and recorded these as negative values. We analyzed the cape areas within CALO and CAHA separately, because cape areas tend to accrue more sand, have wider beaches, and have more year-to-year high water line movement and sediment availability. We based the delineation for a “cape” area on a rectangle encompassing the area where the shoreline forms a distinctly concave shape as the directional orientation changes sharply from the roughly linear orientation of the rest of the island. CANA and CUIS do not have cape areas, and so the beach was analyzed as one for these two Seashores. We analyzed the current elevational distribution of sea turtle nests by extracting digital elevation values for nest sites from USGS digital elevation model (Caffrey et al. 2018).<b>File attributes</b>All data are in meters, park names are NPS abbreviations, two species included: loggerhead sea turtle (Cc), green sea turtle (Cm)<b></b>
DOI: 10.6084/m9.figshare.11743755
title: Supplementary Material for: Comparing Patient Survival of Home Hemodialysis and Peritoneal Dialysis Patients

description: <b><i>Background:</i></b> It is not clear whether peritoneal dialysis (PD) and home hemodialysis (HHD) have similar outcomes, and little is known about how mortality associated with HHD versus PD differs according to the duration of dialysis. <b><i>Methods:</i></b> We examined a national cohort of incident end-stage renal disease patients that was comprised of 1,993 and 16,514 patients transitioning to HHD and PD, respectively, from 2007 to 2011. The HHD patients were matched with PD patients using propensity score (PS). Demographics, comorbidities, duration of dialysis, and body mass index were adjusted for in logistic regression models using PS matching. We matched 1,915 HHD patients with 1,915 PD patients based on the PS. The patients were categorized by their vintage (duration of dialysis) at the time of the transition to HHD or PD (&lt;3, 3 to &lt;12, and ≥12 months). <b><i>Results:</i></b> In the matched cohort, 237 and 359 deaths occurred in the HHD and PD patients, respectively (cumulative incidence 9.6 vs. 12.9/100 patient-years, <i>p</i> &lt; 0.001). PD patients who transitioned within 12 months of starting dialysis had similar mortality risks, while PD patients who transitioned &gt;12 months after starting dialysis had an 83% higher risk for mortality (hazard ratio 1.83; 95% CI 1.33–2.52). <b><i>Conclusions:</i></b> Whereas there was no meaningful survival difference in the first 12 months between HHD and PD, patients who transitioned to PD after 12 months of dialysis had worse survival than their HHD counterparts. Additional studies are warranted to investigate clinical implications of these differences.