cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.19959359.v1
title: Minimally invasive treatment of vesicourethral leak after laparoscopic radical prostatectomy

description: ABSTRACT Objective: to describe our experience with a minimally invasive approach for persistent vesicourethral anastomotic leak (PVAL) after Laparoscopic Radical Prostatectomy (LRP). Methods: from 2004 to 2011, two surgeons performed LRP in 620 patients. Ten patients had PVAL, with initially indicated conservative treatment, to no avail. These patients underwent a minimally invasive operation, consisting of an endoscopically insertion of two ureteral catheters to direct urine flow, fixed to a new urethral catheter. We maintained the ureteral catheters for seven days on average to complete resolution of urine leakage. The urethral catheter was removed after three weeks of surgery. Results: the correction of urine leakage occurred within a range of one to three days, in all ten patients, without complications. There were no stenosis of the bladder neck and urinary incontinence on long-term follow-up. Conclusion: the study showed that PVAL after laparoscopic radical prostatectomy can be treated endoscopically with safety and excellent results.
DOI: 10.6084/m9.figshare.10063058.v1
title: Dataset on antibiotic effects on host metabolism in type 1 diabetic mice

description: Disturbance of the gut microbiota has been associated with type 1 diabetes (T1D), but the effect of gut dysbiosis on cognitive function in T1D and its potential mechanism remain unknown. In this study, we treated streptozotocin-induced diabetic mice with vancomycin (Vanc) to disturb the gut microbiota and metabolic phenotype. In order to examine the gut microbial changes, we used a 16S rRNA gene sequencing approach to analyze the gut microbiome in caecum contents of normal control (CON), type 1 diabetic (T1D), and vancomycin-treated type 1 diabetic (T1DV) mice at 3, 7 and 11 weeks. Additionally, to study antibiotic effect on host metabolism, a <sup>1</sup>H NMR-based metabolomics approach was applied to analyze metabolic changes in caecum contents, feces, caecum tissues, colonic tissues, serum, and hippocampus. To establish a causal link between the gut microbiota and host metabolism, we next transferred fecal material from healthy donor mice (COND) to T1DV recipients for 14 days.
DOI: 10.6084/m9.figshare.16627345.v1
title: Supplementary Material for: Dilated Optic Nerve Sheath Diameter Predicts Poor Outcome in Acute Spontaneous Intracerebral Hemorrhage

description: <b><i>Background and Purpose:</i></b> Optic nerve sheath diameter (ONSD) enlargement occurs in patients with intracerebral hemorrhage (ICH). However, the relationship between ONSD and prognosis of ICH is uncertain. This study aimed to investigate the predictive value of ONSD on poor outcome of patients with acute spontaneous ICH. <b><i>Methods:</i></b> We studied 529 consecutive patients with acute spontaneous ICH who underwent initial CT within 6 h of symptom onset between October 2016 and February 2019. The ONSDs were measured 3 mm behind the eyeball on initial CT images. Poor outcome was defined as having a Glasgow Outcome Scale (GOS) score of 1–3, and favorable outcome was defined as having a GOS score of 4–5 at discharge. <b><i>Results:</i></b> The ONSD of the poor outcome group was significantly greater than that of the favorable outcome group (5.87 ± 0.86 vs. 5.21 ± 0.69 mm, <i>p</i> &lt; 0.001). ONSD was related to hematoma volume (<i>r</i> = 0.475, <i>p</i> &lt; 0.001). Adjusting other meaningful predictors, ONSD (OR: 2.83; 95% CI: 1.94–4.15) was associated with poor functional outcome by multivariable logistic regression analysis. Receiver operating characteristic curve showed that the ONSD improved the accuracy of ultraearly hematoma growth in the prediction of poor outcome (AUC: 0.790 vs. 0.755, <i>p</i> = 0.016). The multivariable logistic regression model with all the meaningful predictors showed a better predictive performance than the model without ONSD (AUC: 0.862 vs. 0.831, <i>p</i> = 0.001). <b><i>Conclusions:</i></b> The dilated ONSD measured on initial CT indicated elevated intracranial pressure and poor outcome, so appropriate intervention should be taken in time.
DOI: 10.6084/m9.figshare.28786715.v1
title: Microfabrication of Hydrogels Based on Femtosecond Laser Three-Dimensional Ablation

description: Hydrogels are widely used in biome dical applications such as drug delivery and tissue engineering. Micro-manufacturing of hydrogels can open new opportunities. Methods such as photolithography and soft lithography rely on masks for hydrogel shaping, while extrusion and inkjet printing are limited in their ability to achieve high-precision. On the other hand, femtosecond laser direct writing (FLDW) technology enables programmable construction of arbitrary microscopic patterns. Previous works of FLDW mainly focus on two-photon induced polymerization for 3D manufacturing. This study aims to exploit high-energy lasers to induce bond cleavage in polymers, achieving 3D subtractive processing of hydrogels. A resolution 900 nm was achieved. Moreover, the resulting patterned channels exhibit multicolor fluorescence, introducing a novel design concept that is significant for the development of diverse functionalized hydrogels
DOI: 10.6084/m9.figshare.5902390.v1
title: ICE-based Refinement Type Discovery for Higher-Order Functional Programs

description: This dataset contains the code and benchmarks needed to replicate the experimental results presented in the TACAS 2016 paper "ICE-based Refinement Type Discovery for Higher-Order Functional Programs".<br>The verification of higher-order functional programs is a challenging problem, the existing approaches to which are hampered by the need for predicates describing loops and components behave in order for verification to be possible. Here, a novel approach intended to overcome these requirements by combining the existing refinement types approach with the invariant discovery framework ICE is presented.<br>This novel implementation consists of two parts. First, a front end written in OCaml, named RType (https://github.com/hopv/r_type), that generates Horn clauses from programs written in a subset of OCaml (as described in section 2 of the accompanying paper). Second, a Horn clause solver written in Rust, named HoIce (https://github.com/hopv/hoice), that implements the modified ICE framework presented in the accompanying paper.<br>The novel implementation as well as the benchmarks and scripts needed to reproduce its evaluation are presented here. Further details on those benchmarks and instructions on running them can be found in the <b>README</b> file.
DOI: 10.6084/m9.figshare.24888504.v1
title: Supplementary Material for: Cytomorphological assessment in aspirates of ductal carcinoma-in-situ – correlations with histopathologic grade, architectural pattern, and invasion

description: Introduction
Fine-needle aspiration biopsy (FNAB) of the breast is an effective and widely adopted diagnostic technique. Histopathologic grading of ductal carcinoma-in-situ (DCIS) has prognostic significance. In this current study, FNAB of DCIS were reviewed to identify parameters that predict grading, histopathologic architecture, and presence of invasion in DCIS. 

Methods
Aspirates from histopathology-proven cases of DCIS were retrieved and reviewed for cytomorphologic parameters including cellularity, composition, epithelial fragment architecture cellular/nuclear features.

Results
In total 104 aspirates were reviewed. Cytopathologic cellular features – large nuclear size (p = 0.005), prominent nucleoli (p = 0.011), increased nuclear membrane irregularity (p = 0.043), high variation in nuclear size (p = 0.025), and presence of apoptotic figures in epithelial structures (p &lt; 0.001); and background debris (p = 0.033) correlated with a high-grade diagnosis. Cytoplasmic vacuolation (p = 0.034) was seen exclusively in non-high-grade aspirates. Epithelial fragment architecture did not correlate with grading. A predominance (≥ 50%) of solid aggregates and papillary fragments on FNAB correlated with histopathologically solid (p = 0.039, p = 0.005) and papillary (p = 0.029, &lt; p = 0.001) patterns. No parameter showed correlation with invasion. 

Conclusion
FNAB is effective in predicting DCIS grading. Epithelial fragment architecture assessment is limited to papillary or solid-types, and FNAB cannot predict focal invasion in DCIS.
DOI: 10.6084/m9.figshare.24559066.v1
title: Antimicrobial resistance

description: Antimicrobial resistance genetic determinants present in all isolates used in the workshop. AMR screening was performed using abricate against the CARD database.
DOI: 10.6084/m9.figshare.26288080.v2
title: NatureCommunications_source_data_071224.xlsx

description: Cash transfer policies have been widely discussed as mechanisms to curb intergenerational transmission of socioeconomic disadvantage. In this paper, we take advantage of a large casino-funded family transfer program introduced in an American Indian community to generate difference-in-difference estimates of the link between children’s cash transfer exposure and third grade math and reading test scores of their offspring.
DOI: 10.6084/m9.figshare.8058854.v1
title: Dataset 2.2: Human amino-acids raw data

description: Supplementary Dataset from the work "Rules of amino acid composition by which disordered regions adjust to high expression".<br>This table contains amino-acid level information of human proteins.<br><br>
DOI: 10.6084/m9.figshare.6400838.v1
title: Supplementary Material for: Corticolimbic Connectivity Mediates the Relationship between Adverse Childhood Experiences and Symptom Severity in Borderline Personality Disorder

description: The interaction between biological and environmental factors (especially adverse childhood experiences, ACEs) plays a crucial role in the development and maintenance of borderline personality disorder (BPD). These factors act influencing BPD core features such as pervasive instability in affect regulation, impulse control, social cognition, and interpersonal relationships. In line with this perspective, abnormalities in social cognition and related neurobiological underpinnings could mediate the relationship between ACEs and psychopathological manifestations in adulthood. In a sample of 14 females, functional connectivity (FC) analyses were performed modeling the interaction between ACEs and corticolimbic dysregulation during emotional processing and its relationship with BPD symptom severity. ACEs were associated with a dampening of the negative FC between (1) the right amygdala (Amy) and right dorsolateral prefrontal cortex (DLPFC) and between (2) the left Amy and bilateral DLPFC, right precuneus, left cerebellum and left dorsomedial prefrontal cortex during emotional processing. The connectivity between right Amy and DLPFC mediates the relationship between childhood adversities and BPD symptomatology. Furthermore, the negative FC between Amy and DLPFC, postcentral gyrus, the vermis of cerebellum and precuneus was also associated with BPD symptom severity, with a weaker negative coupling between Amy and these regions being related to a worse BPD psychopathology. Our results confirm the role of ACEs in contributing to social cognition impairments in BPD and related symptomatology from a neurobiological perspective.
DOI: 10.6084/m9.figshare.22640041.v1
title: snp44k.11047.csv

description: The SNP marker data of 44k rice analyzed in this study.
DOI: 10.6084/m9.figshare.28806041.v3
title: MATLAB code for topology optimization with cost constraints and result data under different weight factors

description: MATLAB code for topology optimization with cost constraints and result data under different weight factors
DOI: 10.6084/m9.figshare.24971802.v2
title: Supplementary Material for: Clinical and Molecular Characterization of Mucopolysaccharidosis Type 3A and 3B in a Turkish Series

description: Introduction: Sanfilippo syndrome or mucopolysaccharidosis type 3 (MPS-3) is a rare condition and its epidemiological data are still not defined. MPS-3 is linked to a deficiency in enzymes involved in heparan sulfate degradation. This biomolecule is neurotoxic and its accumulation underlies the severe central nervous system degeneration observed in this disease.
Methods: Here, we describe 15 Turkish patients with MPS-3A or MPS-3B subtypes. Clinical data upon the diagnosis and during the follow-up as well as molecular characterization are reported. 
Results: Two and ten distinct variants were identified in SGSH and NAGLU gene sequences, respectively. Six variants (NAGLU NM_000263.3:c.532-?_c.764+?del, NAGLU NM_000263.3: c.509G&gt;T, NAGLU NM_000263.3: c.700C&gt;G, NAGLU NM_000263.3:c.507_516 del, NAGLU NM dises_000263.3: c.1354 G&gt;A, NAGLU NM_000263.3: c.200T&gt;C) have been previously published and 6 are novel (SGSH NM_000199.4: c.80T&gt;G, SGSH NM_000199.4: c.7_16del, NAGLU NM_000263.3: c.224_235del, NAGLU NM_000263.3: c.904G&gt;T, NAGLU NM_000263.3: c.626C&gt;T, NAGLU NM_000263.3: c.1241A&gt;G). SGSH NM_000199.4:c.7_16del variation might be caused by a founder effect.
Conclusion: Due to the high rate of consanguinity in Turkey, the incidence of Sanfilippo Syndrome might be higher compared to other populations worldwide. Our results contribute to the characterization of rare diseases in Turkey and to improve our knowledge of the clinical, molecular and epidemiological aspects of MPS-3 disease.
DOI: 10.6084/m9.figshare.28792235.v1
title: SARS-CoV-2

description: SARS-CoV-2 Dataset of scRNA-seq measurements from viral infected cells, including leiden cluster annotation from the original study, and spliced and unspliced reads estimated with velocyto.Please cite the original publication: https://doi.org/10.1038/s41467-023-41788-4
DOI: 10.17632/bn6n2639xh.1
title: Dataset for 3D radio (RSSI) map under urban scenario (1.25kmX1.25km)

description: The radio map, radio environment map (REM), or RSSI map, can visualize the information of invisible electromagnetic spectrum, and is vital for monitoring, management, and security of spectrum
resources in cognitive radio (CR) networks. It is useful for the abnormal spectral activity detection,
radiation source localization, spectrum resource management, etc.

The performance of different 3D REM construction methods should be compared based on the data under realistic scenarios. However, 3D RSSI data collecting by a spectrum sensing system is quite different and high costing. Moreover, it's unrepeatable and uncontrolable. So we obtained the RSSI by the RT-based calculation method under urban scenario . It includes two datasets as
1) dynamic scenario (radiation sources are moving for 300 seconds): Collecting data at the height of 2m and 80m
2) static scenario (radiation sources are fixed) : Collecting data at the height of 2m, 10m, 20m, 30m, 40m, 50m, 80m.

The dataset has been applied and validated in the following references.
[1]. J. Wang, Q. Zhu, Z. Lin, J. Chen, G. Ding, Q. Wu, G. Gu, Q. Gao. “Sparse Bayesian Learning-Based Hierarchical Construction for 3D Radio Environment Maps Incorporating Channel Shadowing,” IEEE Transactions on Wireless Communications, early access, 2024, doi: 10.1109/TWC.2024.3416447.
[2]. Y. Zhao, Q. Zhu, Z. Lin, L. Guo, Q. Wu, J. Wang, W. Zhong. “Temporal prediction for spectrum environment maps with moving radiation sources,” IET Communications, vol. 17, no. 5, pp. 538–548, 2023.
[3]. Q. Gao, Q. Zhu, Z. Lin, Y. Zhao, J. Wang, W. Zhong, Y. Huang, Q. Wu. “Spatial Sensor Layout Optimization for Radio Environment Map Construction,” 2024 IEEE Globecom Workshops, 2024, for publication

More details and instrucitons can be found in the guidemanual.pdf.
DOI: 10.17632/bn6n2639xh.2
title: RT-based dataset for 3D radio map under dynamic built-up scenario (1.25kmX1.25km)

description: The radio map, spectrum environment map (SEM), or RSSI map, can visualize the information of invisible electromagnetic spectrum, and is vital for monitoring, management, and security of spectrum
resources in cognitive radio (CR) networks. It is useful for the abnormal spectral activity detection,
radiation source localization, spectrum resource management, etc.

The performance of different 3D SEM construction methods should be compared based on the data under realistic scenarios. However, 3D RSSI data collecting by a spectrum sensing system is quite different and high costing. Moreover, it's unrepeatable and uncontrolable. So we obtained the RSSI by the RT-based calculation method under urban scenario . It includes two datasets as
1) dynamic scenario (radiation sources are moving for 600 seconds): Collecting data at the height of 2m, 25m, 50m and 80m.
2) static scenario (radiation sources are fixed) : Collecting data at the height of 2m, 10m, 20m, 30m, 40m, 50m, 80m.

The dataset has been applied and validated in the following references.
[1]. J. Wang, Q. Zhu, Z. Lin, Q. Wu, Y. Huang, X. Cai, et al., “Sparse Bayesian Learning-Based 3D Radio Environment Map Construction—Sampling Optimization, Scenario-Dependent Dictionary Construction and Sparse Recovery,” IEEE Transactions on Cognitive Communications and Networking, vol.10, pp.80-93, Feb. 2024. 
[2]. J. Wang, Q. Zhu, Z. Lin, J. Chen, G. Ding, Q. Wu, G. Gu, Q. Gao, "Sparse Bayesian Learning-Based Hierarchical Construction for 3D Radio Environment Maps Incorporating Channel Shadowing," IEEE Transactions on Wireless Communications, vol.23, no.10, pp.14560-14574, Oct. 2024. 
[3]. Q. Gao, Q. Zhu, Z. Lin et al., "Time-variant radio map reconstruction with optimized distributed sensors in dynamic spectrum environments,", IEEE Internet of Things Journal, early access, Feb. 2025, doi: 10.1109/JIOT.2025.3545542.
[4]. Y. Zhao, Q. Zhu, Z. Lin, L. Guo, Q. Wu, J. Wang, W. Zhong. “Temporal prediction for spectrum environment maps with moving radiation sources,” IET Communications, vol. 17, no. 5, pp. 538–548, 2023.

More details and instrucitons can be found in the guidemanual.pdf.
DOI: 10.6084/m9.figshare.13273166.v1
title: Supplementary Material for: Skin Cancer Development in Solid Organ Transplant Recipients in Switzerland (Swiss Transplant Cohort Study)

description: <b><i>Importance:</i></b> Skin cancer, in particular squamous cell carcinoma, is the most frequent malignancy among solid organ transplant recipients with a higher incidence compared to the general population. <b><i>Objective:</i></b> To determine the skin cancer incidence in organ transplant recipients in Switzerland and to assess the impact of immunosuppressants and other risk factors. <b><i>Design:</i></b> Prospective cohort study of solid organ transplant recipients in Switzerland enrolled in the Swiss Transplant Cohort Study from 2008 to 2013. <b><i>Participants:</i></b> 2,192 solid organ transplant recipients. <b><i>Materials and Methods:</i></b> Occurrence of first and subsequent squamous cell carcinoma, basal cell carcinoma, melanoma and other skin cancers after transplantation extracted from the Swiss Transplant Cohort Study database and validated by medical record review. Incidence rates were calculated for skin cancer overall and subgroups. The effect of risk factors on the occurrence of first skin cancer and recurrent skin cancer was calculated by the Cox proportional hazard model. <b><i>Results:</i></b> In 2,192 organ transplant recipients, 136 (6.2%) developed 335 cases of skin cancer during a median follow-up of 32.4 months, with squamous cell carcinoma as the most frequent one. 79.4% of skin cancer patients were male. Risk factors for first and recurrent skin cancer were age at transplantation, male sex, skin cancer before transplantation and previous transplantation. For a first skin cancer, the number of immunosuppressive drugs was a risk factor as well. <b><i>Conclusions and Relevance:</i></b> Skin cancer following solid organ transplantation in Switzerland is greatly increased with risk factors: age at transplantation, male sex, skin cancer before transplantation, previous transplantation and number of immunosuppressive drugs.
DOI: 10.6084/m9.figshare.25204142.v1
title: Questionnaires - Barriers to PAC in Burkina Faso, Kenya and Nigeria

description: These are the tools that were used to collect data for the the analysis conducted in this paper.
DOI: 10.17632/bn6n2639xh.3
title: RT-based dataset (V2.0) for 3D radio map under dynamic built-up scenario (1.25kmX1.25km)

description: The radio map, spectrum environment map (SEM), or RSSI map, can visualize the information of invisible electromagnetic spectrum, and is vital for monitoring, management, and security of spectrum
resources in cognitive radio (CR) networks. It is useful for the abnormal spectral activity detection,
radiation source localization, spectrum resource management, etc.

The performance of different 3D SEM construction methods should be compared based on the data under realistic scenarios. However, 3D RSSI data collecting by a spectrum sensing system is quite different and high costing. Moreover, it's unrepeatable and uncontrolable. So we obtained the RSSI by the RT-based calculation method under urban scenario . It includes two datasets as
1) dynamic scenario (radiation sources are moving for 600 seconds): Collecting data at the height of 2m, 25m, 50m and 80m.
2) static scenario (radiation sources are fixed) : Collecting data at the height of 2m, 10m, 20m, 30m, 40m, 50m, 80m.

The dataset has been applied and validated in the following references.
[1]. J. Wang, Q. Zhu, Z. Lin, Q. Wu, Y. Huang, X. Cai, et al., “Sparse Bayesian Learning-Based 3D Radio Environment Map Construction—Sampling Optimization, Scenario-Dependent Dictionary Construction and Sparse Recovery,” IEEE Transactions on Cognitive Communications and Networking, vol.10, pp.80-93, Feb. 2024. 
[2]. J. Wang, Q. Zhu, Z. Lin, J. Chen, G. Ding, Q. Wu, G. Gu, Q. Gao, "Sparse Bayesian Learning-Based Hierarchical Construction for 3D Radio Environment Maps Incorporating Channel Shadowing," IEEE Transactions on Wireless Communications, vol.23, no.10, pp.14560-14574, Oct. 2024. 
[3]. Q. Gao, Q. Zhu, Z. Lin et al., "Time-variant radio map reconstruction with optimized distributed sensors in dynamic spectrum environments,", IEEE Internet of Things Journal, early access, Feb. 2025, doi: 10.1109/JIOT.2025.3545542.
[4]. Y. Zhao, Q. Zhu, Z. Lin, L. Guo, Q. Wu, J. Wang, W. Zhong. “Temporal prediction for spectrum environment maps with moving radiation sources,” IET Communications, vol. 17, no. 5, pp. 538–548, 2023.

More details and instrucitons can be found in the guidemanual.pdf.
DOI: 10.6084/m9.figshare.14786055.v1
title: UKB_telomere_gwas_summarystats.tsv.gz

description: Codd, Veryan, et al. "Polygenic basis and biomedical consequences of telomere length variation." medRxiv (2021). <b>Column header</b> <b>Description</b> <b>variant_id</b> The identifier of the variant : rsID or genome coordinate i.e. rs7329174 or 1:1235_C_G <b>p_value</b> The p-value of the variant/trait association <b>chromosome</b> The chromosome that the variant is located on <b>base_pair_location</b> The base pair location of the variant <b>effect_allele</b> The effect allele of the variant <b>other_allele</b> The non-effect allele <b>effect_allele_frequency</b> Frequency of the effect allele <b>beta</b> The beta of the variant/trait association <b>standard_error</b> The standard error of the beta Analysis was restricted to variants with MAF ≥ 0.1% and INFO score ≥ 0.3, and was conducted using BOLT-LMM, adjusting for age, gender, array, and the first 10PCs.
DOI: 10.6084/m9.figshare.12136185.v1
title: Mazumdaer A et al study indian population data

description: Muzumder A et al study on SARS-CoV-2 epidemic in India, excel sheet containing indian population data<br>
DOI: 10.6084/m9.figshare.16871881.v1
title: Covid_News.json

description: Track and monitor Covid-19 related news from the world.