cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17632/hh46ymyxkk.1
title: CRISPR amplicon sequencing of human TAP1 gene of CRISPR/Cas9-edited mono-allelic HLA class I-expressing cell lines

description: TAP-deficient monoallelic HLA class I-expressing cell lines were generated by sequential transduction of the HLA-null human B cell line 721.221 with lentiviral expression constructs encoding (i) Cas9 protein linked to blasticidin resistance gene via a self-cleaving P2A peptide, (ii) 18 distinct HLA class I alleles that provided &gt;99% global coverage (A*0101, A*0201, A*0301, A*2402, B*0702, B*0801, B*1402, B*1501, B*2705, B*3501, B*3901, B*4001, B*4402, B*5201, B*5701, B*5801, B*8101 and Cw*0701) under puromycin resistance linked via an internal ribosome entry sequence (IRES), and (iii) a single guide RNA (sgRNA) directed towards human TAP1 under neomycin/G418 resistance linked via an IRES. Successful CRISPR/Cas9 editing of the TAP1 gene was confirmed by amplicon sequencing of genomic DNA for each mono-allelic cell line. Amplicon sequencing was carried out by the MGH DNA Sequencing Core Facility.
DOI: 10.17632/wjxr6hw4df.1
title: Myosin 10 Regulates Invasion, Mitosis, and Metabolic Signaling in Glioblastoma

description: Phospho Antibody Array
DOI: 10.6084/m9.figshare.13159721
title: Supplementary Material for: Outcome and Safety of Unplanned-Start Peritoneal Dialysis according to Break-In Periods: A Systematic Review and Meta-Analysis

description: <b><i>Introduction:</i></b> The best timing of peritoneal dialysis (PD) initiation after catheter implantation is still controversial. It is necessary to explore whether there exists a waiting period to minimize the risk of complications. <b><i>Methods:</i></b> A systematic review and meta-analysis were searched in multiple electronic databases published from inception to February 29, 2020, to identify cohort studies for evaluating the outcome and safety of unplanned-start PD (&lt;14 days after catheter insertion). Risks of bias across studies were evaluated using Newcastle-Ottawa Quality Assessment Scale. <b><i>Results:</i></b> Fourteen cohort studies with a total of 2,401 patients were enrolled. We found that early-start PD was associated with higher prevalence of leaks (RR: 2.67, 95% CI, 1.55–4.61) and omental wrap (RR: 3.28, 95% CI, 1.14–9.39). Furthermore, patients of unplanned-start PD in APD group have higher risk of leaks, while those in CAPD group have a higher risk of leaks, omental wrap, and catheter malposition. In shorter break-in period (BI) group, the risk of suffering from catheter obstruction and malposition was higher for patients who started dialysis within 7 days after the surgery than for patients within 7–14 days. No significant differences were found in peritonitis (RR: 1.00; 95% CI, 0.78–1.27) and exit-site infections (RR: 1.12; 95% CI, 0.72–1.75). However, shorter BI was associated with higher risk of mortality and transition to hemodialysis (HD) while worsen early technical survival, with pooled RR of 2.14 (95% CI, 1.52–3.02), 1.42 (95% CI, 1.09–1.85) and 0.95 (95% CI, 0.92–0.99), respectively. <b><i>Conclusions:</i></b> Evidence suggests that patients receiving unplanned-start PD may have higher risks of mechanical complications, transition to HD, and even mortality rate while worsening early technical survival, which may not be associated with infectious complications. Rigorous studies are required to be performed.
DOI: 10.6084/m9.figshare.13159721.v1
title: Supplementary Material for: Outcome and Safety of Unplanned-Start Peritoneal Dialysis according to Break-In Periods: A Systematic Review and Meta-Analysis

description: <b><i>Introduction:</i></b> The best timing of peritoneal dialysis (PD) initiation after catheter implantation is still controversial. It is necessary to explore whether there exists a waiting period to minimize the risk of complications. <b><i>Methods:</i></b> A systematic review and meta-analysis were searched in multiple electronic databases published from inception to February 29, 2020, to identify cohort studies for evaluating the outcome and safety of unplanned-start PD (&lt;14 days after catheter insertion). Risks of bias across studies were evaluated using Newcastle-Ottawa Quality Assessment Scale. <b><i>Results:</i></b> Fourteen cohort studies with a total of 2,401 patients were enrolled. We found that early-start PD was associated with higher prevalence of leaks (RR: 2.67, 95% CI, 1.55–4.61) and omental wrap (RR: 3.28, 95% CI, 1.14–9.39). Furthermore, patients of unplanned-start PD in APD group have higher risk of leaks, while those in CAPD group have a higher risk of leaks, omental wrap, and catheter malposition. In shorter break-in period (BI) group, the risk of suffering from catheter obstruction and malposition was higher for patients who started dialysis within 7 days after the surgery than for patients within 7–14 days. No significant differences were found in peritonitis (RR: 1.00; 95% CI, 0.78–1.27) and exit-site infections (RR: 1.12; 95% CI, 0.72–1.75). However, shorter BI was associated with higher risk of mortality and transition to hemodialysis (HD) while worsen early technical survival, with pooled RR of 2.14 (95% CI, 1.52–3.02), 1.42 (95% CI, 1.09–1.85) and 0.95 (95% CI, 0.92–0.99), respectively. <b><i>Conclusions:</i></b> Evidence suggests that patients receiving unplanned-start PD may have higher risks of mechanical complications, transition to HD, and even mortality rate while worsening early technical survival, which may not be associated with infectious complications. Rigorous studies are required to be performed.
DOI: 10.17632/27369v78sv.2
title: Transformation of the phyllomanganate vernadite to tectomanganates with small tunnel sizes: Favorable geochemical conditions and fate of associated Co

description: Dataset for the Ms "Transformation of the phyllomanganate vernadite to tectomanganates with small tunnel sizes: Favorable geochemical conditions and fate of associated Co" Dataset contains: - Chemical compositions - XAS data at Mn and Co K-edges - XRD data - Chemical analyses upon nitric acid treatment
DOI: 10.17632/3hrg9tpsx9.1
title: Childhood Cancer Cluster Simulation

description: : Incidence of newly diagnosed childhood cancer (140/1,000,000 children under 15 years) and nephroblastoma (7/1,000,000) was simulated. Clusters of defined size (1 to 50) were randomly assembled on the district level in Germany. Each cluster was simulated with different relative risk levels (1 to 100). For each combination 2000 iterations were done. Simulated data was then analyzed by three local clustering tests: Besag-Newell method, spatial scan statistic and Bayesian Besag-York-Mollié with Integrated Nested Laplace Approximation approach. The operating characteristics (sensitivity, specificity, predictive values, power and correct classification) of all three methods were systematically described.
DOI: 10.17632/vdvxptxyfj.1
title: California Clean Vehicle Rebate Program Application and Consumer Survey Data: Data used in a 2020 analysis of "EV Converts"
DOI: 10.17632/44mgzgwtcw.1
title: Data for: Parameters Influence on the Water Quality of Rivers: A Modelling Based in Complex Network Theory

description: This data set refers to collections and laboratory analyses of Jaguari and Atibaia Rivers water samples, carried out from 2006 to 2017, by a research team. The collections took place at strategic points on the rivers, in a densely populated and industrialized place, therefore of great economic importance for the country. This data was created containing information from the evaluations of thirteen monitoring parameters: pH, dissolved oxygen, biochemical oxygen demand, total nitrogen, total phosphorus, turbidity, Escherichia coli quantity, total solids, temperature, chemical oxygen demand, electrical conductivity, chlorides, and precipitation. This data was used to study the influence of the parameters, handled to monitoring and classification of the rivers water quality, for the analysis of environmental impacts in these two important water resources in the interior of São Paulo State, based on the Complex Networks theory. The relationships among sampled parameters were analyzed applying Spearman correlations. The developed model sought to identify the most impacting variables on river pollution during the mentioned period, supported by the water quality index of the São Paulo State Environmental Company (CETESB). According to results, electrical conductivity and chlorides are the most influential network parameters in rivers pollution. Besides the correlation among parameters is greater when more polluted the rivers are.
DOI: 10.17632/jys6pdx3p3.2
title: Managing group work: the impact of peer assessment on student engagement

description: This dataset is used for the paper titled: Managing group work: the impact of peer assessment on student engagement. This paper investigates whether students’ involvement in peer assessment affects their learning engagement. The study used a mixed-method approach based on qualitative responses and regression analysis from a survey of 165 first-year undergraduates in a UK university. Findings suggest that students perception of the fairness of the assessment process, their personal experience and their contribution to the group task are associated with their engagement with the group assessment. The study contributes to the literature by focusing on the assessment of the entire learning journey within a group rather than the final group output. In particular, the study highlights the significant contributions of peer assessment in managing student engagement in modules and/or assessments for large cohorts.
DOI: 10.17632/85z443zw27.1
title: Analysis of Hidradenitis Suppurativa Hospitalizations: A Report From The National Inpatient Sample Database_ Supplemental Table

description: Supplemental table of used ICD-10 codes
DOI: 10.6084/m9.figshare.13159718
title: Supplementary Material for: Association between Dialysis Modality and Infectious Diseases: Peritoneal Dialysis versus Hemodialysis

description: <b><i>Introduction:</i></b> For dialysis patients with end-stage kidney disease, infectious diseases (IDs) are the most common causes of hospitalization and death. However, the association between dialysis modality and IDs remains unclear. We aimed to determine the association between the dialysis modality and IDs. <b><i>Methods:</i></b> This retrospective observational cohort study compared the emergency hospitalization and mortality for IDs between peritoneal dialysis (PD) and hemodialysis (HD) patients. After propensity score matching, the risk factors were evaluated by the Cox proportional hazard regression models. <b><i>Results:</i></b> A total of 260 patients were compared – 130 of 135 PD and 130 of 706 HD patients. When the modality-specific ID (PD-catheter ID/peritonitis- and vascular access-related ID) was excluded, no significant differences in emergency hospitalization and mortality rates for overall IDs were observed between the PD and HD groups. Serum ferritin (HR, 2.17; CI, 1.06–4.43; <i>p</i> = 0.03) and Charlson Comorbidity Index (CCI) (HR, 1.24; CI, 1.01–1.52; <i>p</i> = 0.04) were significant predictors of emergency hospitalization for IDs, whereas age (HR, 1.12; CI, 1.05–1.19; <i>p</i> &lt; 0.001), male (HR, 3.38; CI, 1.01–11.3; <i>p</i> = 0.048), serum alkaline phosphatase (ALP) (HR, 6.87; CI, 2.18–21.7; <i>p</i> = 0.001), C-reactive protein (CRP) (HR, 10.7; CI, 3.55–32.1; <i>p</i> &lt; 0.001), and CCI (HR, 1.79; CI, 1.27–2.52; <i>p</i> &lt; 0.001) were significant predictors of ID mortality. When modality-specific ID was included, the emergency hospitalization rate for overall IDs was higher in the PD groups, and PD was a significant predictor of emergency hospitalization for IDs, whereas no significant difference in mortality rate for overall IDs was found between the PD and HD groups. <b><i>Conclusions:</i></b> ID events were not associated with dialysis modality when modality-specific ID was excluded, whereas the risk of modality-specific IDs was higher in PD than HD. Serum ferritin and ALP as well as age, male sex, CRP, and CCI were the risk factors for ID events.
DOI: 10.17632/x5pkzsprmh.1
title: SRE

description: SLeep Relate Epilepsy
DOI: 10.17632/rybgtbbhs9.4
title: Dataset for MEdit4CEP-SP: a model-driven solution to improve decision-making through user-friendly management and real-time processing of heterogeneous data streams

description: In this dataset we collect the Event Processing Language (EPL) patterns used in this work, as well as some screenshots of the proposed system, MEdit4CEP-SP. EPL &gt; pattern.epl contains all the patterns for the situations described on the paper (AnomalyReadingErrors, AnomalyWaterLeaks and AnomalyUnusualConsumption). Screenshots &gt; reading-errors-pattern.png shows the graphical model, in the editor, of the pattern AnomalyReadingErrors described on the paper. Screenshots &gt; water-leaks-pattern.png shows the graphical model, in the editor, of the pattern AnomalyWaterLeaks described on the paper. Screenshots &gt; unusual-consumption-pattern.png shows the graphical model, in the editor, of the pattern AnomalyUnusualConsumption described on the paper. Screenshots &gt; pattern-changes-alert.png shows the alert that the editor triggers when an existing pattern has been updated. Screenshots &gt; pattern-remove-backup.png shows the dialog to select the folder where the removed existing pattern is going to be exported.
DOI: 10.17632/btv6yrdbmv.2
title: Data for: Improved accuracy in OCT diagnosis of rare retinal disease using few-shot learning with generative adversarial networks

description: The retinal OCT images ofr rare diseases were extracted by using the Google image and Google dataset search that included English keywords including central serous chorioretinopathy (CSC), macular telangiectasia (MacTel), macular hole (MH), Stargardt disease, retinitis pigmentosa (RP). These rare diseases were selected according to a previous review article about OCT diagnosis. The images possessing rare diseases were manually classified by two board-certified ophthalmologists, and ambiguous images were removed to clarify the image domains. Additional file "Segmentation_manual.zip" offers manually segmentedOCT images for pathologic lesions.
DOI: 10.17632/7kzcgvsx2x.2
title: Wind tunnel demonstration of galloping mitigation with a purely nonlinear energy sink

description: The experimental data presented in the article M.Selwanis et al. (2020).
DOI: 10.17632/xxhcpfswf5.1
title: Possible links between methane seepages and glacial-interglacial transitions in the South China Sea

description: Here we present an example of continuous geochemical data of seep carbonates from a drill core from the South China Sea, which reveals three stages of methane seepage linked to the dissociation of biogenic methane hydrate: ~130.3 ka BP before, MIS 5 (~130.3 to 111.4 ka BP) and MIS 1 (~11.1 to 10.0 ka BP). Our results evidence that methane seepage was induced by warm seawater during deglaciations. We suspect this process to occur in other world regions and infer that cold seep activities might occur more widespread at glacial-interglacial transitions, which in turn might have accelerated global warming.
DOI: 10.17632/8z9532ps65.9
title: ACADEMIC PROCRASTINATION DATA OF STUDENTS IN MAKASSAR, INDONESIA

description: This data was obtained from an assessment that used an academic procrastination scale on 586 students in the XIII semester at Makassar, Indonesia. Students responded to statements by using a Likert-scale of 5,4,3,2,1, which represents strongly agree, agree, doubt, disagree, and strongly disagree, respectively.
DOI: 10.17632/7jr5gychkn.1
title: Mitochondrial genome 3

description: Complete mitochondrial genome of Gonodactylaceus randalli (Manning, 1978) (Stomatopoda: Gonodactylidae)
DOI: 10.17632/rvd9nbxtdr.1
title: Data for: Assessing land use and land cover change and farmers’ perceptions of deforestation and land degradation in South-West Côte d’Ivoire, West Africa

description: This file contains records on 411 surveyed people in southwestern Cote d'Ivoire. The study evaluated farmers perception of deforestation, land degradation and land use and land cover change in the peripheral zone of the Tai National Park, so-called Espace Tai
DOI: 10.6084/m9.figshare.13158479.v4
title: Reference-grade genome sequences and annotations of Gossypium rotundifolium (K2)

description: The reference-grade cotton genome assemblies and annotation of <i>Gossypium rotundifolium</i> (K<sub>2</sub>) using Oxford Nanopore sequencing technology.
DOI: 10.6084/m9.figshare.13158467.v2
title: Reference-grade genome sequence and annotation of Gossypium arboreum (A2)

description: The reference-grade cotton genome assemblies and annotation of <i>Gossypium </i><i>arboreum</i> (A<sub>2</sub>) using Oxford Nanopore sequencing technology.
DOI: 10.6084/m9.figshare.13158467.v3
title: Reference-grade genome sequence and annotation of Gossypium arboreum (A2)

description: The reference-grade cotton genome assemblies and annotation of <i>Gossypium </i><i>arboreum</i> (A<sub>2</sub>) using Oxford Nanopore sequencing technology.
DOI: 10.6084/m9.figshare.13151288
title: Late onset of Synaptotagmin 2a expression at synapses relevant to social behavior

description: Data sets used in the manuscript: Late onset of Synaptotagmin 2a expression at synapses relevant to social behavior.<br>Fig3c_Syt2a.xlsxThe density of Syt2a, Syn1/2 and Gephyrin puncta was measured in the zebrafish forebrain at 6 dpf, 14 dpf and 20 dpf<br>Fig3d_Syt2a.xlsxThe density of Syt2a puncta was measured in the zebrafish telencephalon at 12 dpf and 14 dpf.<br>3_2_intensity_data.xlsxData set used in Results 3.2 of the manuscript listing the intensity measurements of Syt2a and Syn1/2 in the zebrafish forebrain and midbrain at 6 dpf and 14 dpf.
DOI: 10.6084/m9.figshare.13151288.v2
title: Late onset of Synaptotagmin 2a expression at synapses relevant to social behavior

description: Data sets used in the manuscript: Late onset of Synaptotagmin 2a expression at synapses relevant to social behavior.<br>Fig3c_Syt2a.xlsxThe density of Syt2a, Syn1/2 and Gephyrin puncta was measured in the zebrafish forebrain at 6 dpf, 14 dpf and 20 dpf<br>Fig3d_Syt2a.xlsxThe density of Syt2a puncta was measured in the zebrafish telencephalon at 12 dpf and 14 dpf.<br>3_2_intensity_data.xlsxData set used in Results 3.2 of the manuscript listing the intensity measurements of Syt2a and Syn1/2 in the zebrafish forebrain and midbrain at 6 dpf and 14 dpf.
DOI: 10.6084/m9.figshare.13151288.v1
title: Late onset of Synaptotagmin 2a expression at synapses relevant to social behavior

description: Data sets used in the manuscript: Late onset of Synaptotagmin 2a expression at synapses relevant to social behavior.<br>Fig3c_Syt2a.xlsxThe density of Syt2a, Syn1/2 and Gephyrin puncta was measured in the zebrafish forebrain at 6 dpf, 14 dpf and 20 dpf<br>Fig3d_Syt2a.xlsxThe density of Syt2a puncta was measured in the zebrafish telencephalon at 12 dpf and 14 dpf.<br>3_2_intensity_data.xlsxData set used in Results 3.2 of the manuscript listing the intensity measurements of Syt2a and Syn1/2 in the zebrafish forebrain and midbrain at 6 dpf and 14 dpf.
DOI: 10.5281/zenodo.3960967
title: Supplemtary Data 2 - Panga ya Saidi Averaged Spectra for Zooarchaeology by Mass Spectrometry Analysis (ZooMS)

description: Averaged ZooMS spectra from Iron Age deposits at Panga ya Saidi, Kenya 2020.
DOI: 10.5281/zenodo.3960966
title: Supplemtary Data 2 - Panga ya Saidi Averaged Spectra for Zooarchaeology by Mass Spectrometry Analysis (ZooMS)

description: Averaged ZooMS spectra from Iron Age deposits at Panga ya Saidi, Kenya 2020.
DOI: 10.21227/6wp4-9m22
title: 3D-FLARE DB: Two subjects

description: "The friction ridge pattern is a 3D structure which, in its natural state, is not deformed by contact with a surface''. Building upon this rather trivial observation, the present work constitutes a first solid step towards a paradigm shift in fingerprint recognition from its very foundations. We explore and evaluate the feasibility to move from current technology operating on 2D images of elastically deformed impressions of the ridge pattern, to a new generation of systems based on full-3D models of the natural nondeformed ridge pattern itself. There are already a small number of previous studies that have already started scratching the surface of 3D fingerprint recognition and that should not go overlooked. However, the vast majority of these few successful approaches published so far, are based on the reconstruction of fingerprints from multiple 2D images acquired with different lighting conditions (photometric stereo 3D reconstruction) or acquired from different angles (stereo vision 3D reconstruction). Such reconstruction methods lead in general to 2D fingerprints wrapped over the overall volume of the finger. These volumetric fingerprints have shown some promising performance, but still miss the real depth information of the ridge pattern, which, in the best case scenario, is coarsely estimated during the error-prone reconstruction process. In the present work we take one step further, directly acquiring for the first time in a consistent and repeatable manner, full-3D fingerprint models stored as point-clouds, where each point is defined by its [x; y; z] coordinates. This way, the 3D data is directly measured by the sensor, with no post-processing reconstruction stage required. The complete recognition system developed represents as well an alternative to traditional technology based on minutiae detection. It shows that image-based processing algorithms and descriptors can be successfully applied to the new full-3D data, reaching very competitive results and confirming the high distinctiveness of the model.
DOI: 10.21227/rcfd-6q25
title: 3D-FLARE DB: Two subjects

description: "The friction ridge pattern is a 3D structure which, in its natural state, is not deformed by contact with a surface''. Building upon this rather trivial observation, the present work constitutes a first solid step towards a paradigm shift in fingerprint recognition from its very foundations. We explore and evaluate the feasibility to move from current technology operating on 2D images of elastically deformed impressions of the ridge pattern, to a new generation of systems based on full-3D models of the natural nondeformed ridge pattern itself. There are already a small number of previous studies that have already started scratching the surface of 3D fingerprint recognition and that should not go overlooked. However, the vast majority of these few successful approaches published so far, are based on the reconstruction of fingerprints from multiple 2D images acquired with different lighting conditions (photometric stereo 3D reconstruction) or acquired from different angles (stereo vision 3D reconstruction). Such reconstruction methods lead in general to 2D fingerprints wrapped over the overall volume of the finger. These volumetric fingerprints have shown some promising performance, but still miss the real depth information of the ridge pattern, which, in the best case scenario, is coarsely estimated during the error-prone reconstruction process. In the present work we take one step further, directly acquiring for the first time in a consistent and repeatable manner, full-3D fingerprint models stored as point-clouds, where each point is defined by its [x; y; z] coordinates. This way, the 3D data is directly measured by the sensor, with no post-processing reconstruction stage required. The complete recognition system developed represents as well an alternative to traditional technology based on minutiae detection. It shows that image-based processing algorithms and descriptors can be successfully applied to the new full-3D data, reaching very competitive results and confirming the high distinctiveness of the model.
DOI: 10.6084/m9.figshare.12415643
title: RNA editing impact phylogenetic reconstruction

description: this folder included alignment and trees used for evaluation of RNA editing on mitochondrial phylogenetic reconstruction