cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.11728878.v1
title: The bioinformatics wealth of nations

description: Analysis of literature performance metrics for the field of bioinformatics, across countries (up to 31-Dec-2019).<br>Data supplement for the manuscript "The bioinformatics wealth of nations" by Anastasia Chasapi, Vasilis J. Promponas, Christos A. Ouzounis (bioinformatics/btaa132 Bioinformatics: 36, 2963) (2020).<br><br>Legends: Table S1 <br> List of countries and territories (column A) with their output in terms of publications (B), citations (C), citations/publication (D) and the H-index (E) for bioinformatics (WoS query: 'all fields'). Reported by sorting values in column E. <br> Table S2 <br> List of 40 top-producer countries (A) for bioinformatics, with 7 indices: - four primary indices: publications (B, and rank: C), citations (D, and rank: E), citations/ publication (F, and rank: G), H-index (H, and rank: I) - rank of countries with top 1% highly cited publications (J) - two population (K, in thousand inhabitants) normalized indices: publications per million (L=1000*B/K, and rank: M) H-index per million (N=1000*H/K, and rank: O) <br>
DOI: 10.6084/m9.figshare.12123705.v1
title: Supplementary Material for: Nonsurgical Treatments for Extramammary Paget Disease: A Systematic Review and Meta-Analysis

description: <b><i>Introduction:</i></b> Surgery is commonly regarded as the mainstay of treatment of extramammary Paget disease (EMPD)<b><i>;</i></b> however, nonsurgical approaches have gained popularity in recent years. <b><i>Objectives:</i></b> To review the published evidence for the efficacy and safety of nonsurgical modes of therapy for EMPD. <b><i>Methods:</i></b> A systematic review and meta-analysis of nonsurgical EMPD treatments was performed. The primary outcome was complete response (CR); secondary outcomes were clinical regression by ≥50%, adverse events, and recurrence rate. <b><i>Results:</i></b> The systematic review included 43 observational studies (341 patients; 7 prospective cohort studies, 19 retrospective cohort studies, and 17 cases series) evaluating 5 treatment modalities. Imiquimod (13 studies, 110 patients) administered at variable doses ranging from daily to twice weekly for 2–56 weeks demonstrated CR of 54% (95% CI, 40–67%; <i>I</i><sup>2</sup> = 37%) and had a satisfactory safety profile. In 14 heterogeneous studies (122 patients) evaluating photodynamic therapy (PDT), only 36% (95% CI, 22–53%; <i>I</i><sup>2</sup> = 52%) of patients achieved CR. Radiotherapy (12 studies, 67 patients) showed CR of 97%, but was associated with local and systemic side effects. Ablative lasers and topical fluorouracil and calcipotriene lacked adequate evidence of efficacy. <b><i>Conclusions:</i></b> Imiquimod and radiotherapy are the most appropriate nonsurgical modalities for EMPD treatment given their good efficacy and safety profile. PDT has limited efficacy but may be appropriate in selected clinical settings.
DOI: 10.6084/m9.figshare.19146611.v2
title: Long-term ice phenology records for 78 lakes in the Northern Hemisphere

description: Lake ice is an important resource supporting water quality, local biodiversity, arctic transportation, and regional economies. Long-term surveys of lake ice collected in situ are the gold standard for monitoring in environmental science., Here, we present ice phenology records for 78 lakes in the Northern Hemisphere spanning up to 578 years. These surveys include 12 different countries across North America and Eurasia collected by researchers, community scientists, priests, and digital observations. This database includes information about ice phenology (ice-on dates, ice-off dates, ice cover duration), lake characteristics (e.g., size, location, names), and meta-data about each data source (e.g., how the data was collected). Our intention is that this database may be used to understand factors driving lake ice patterns and the biological or socio-economic consequences.
DOI: 10.6084/m9.figshare.4629703.v1
title: Data for figure 3A of main text

description: See caption of figure 3 in main text
DOI: 10.6084/m9.figshare.28541624.v1
title: SPSS Data File & Analysis Output

description: Previous research has demonstrated a positive link between job characteristics, such as social support, feedback, and autonomy, and employee productivity and creativity. However, the dynamics of these relationships in non-traditional work environments, like remote work, are less understood. With the significant rise in individuals working from home following the COVID-19 pandemic, understanding these dynamics has become crucial for organisations. This study investigated how social support, feedback, and autonomy influence productivity and creativity among remote workers. We hypothesised that higher levels of these job characteristics would lead to enhanced task performance, contextual performance and creativity and reduced counterproductive work behaviours. It used a survey methodology to collect data via an online questionnaire, which utilised pre-existing measures. The study sample comprised 115 participants. Multiple regression analyses revealed mixed findings. Concerning task and contextual performance, while autonomy did predict these variables, social support and feedback did not. However, regarding counterproductive work behaviour and creativity, none of the job characteristics were significant predictors. These results highlight the unique challenges of remote work and suggest that the factors influencing productivity and creativity in traditional settings may not directly translate to remote environments. The study discusses these findings in light of methodological considerations and suggestions for future research.
DOI: 10.6084/m9.figshare.3078262.v1
title: Social Competition Task

description: There were two monkeys sitting around a table. ECoG data and eye tracking data were recorded from one monkey. Motion data were captured from both monkeys and experimenter. For each trial, one food reward was placed on the table. If one monkey was dominant to the other, he could take the reward without hesitation. But, if he was submissive, he could not take the reward because of social suppression. ECoG data were obtained from one monkey under different hierarchycal conditions by pairing with multiple monkeys.<br>ECoG data were sampled at 1KHz. Motion data and eye tracking data were sampled at 120Hz. Start and stop point of all data were synchronized.<br><b>Data format</b>This dataset contains two matlab files (7.3 format) (kuma_social.mat, george_social.mat). Kuma and George are monkey's names (see a our web site http://neurotycho.org/spatial-map-ecog-array-task)<br>Each matlab data contains three type of data.1. ECoG_dataIt is ECoG data. It shows all ECoG data in this task via 3-dimensional array data format (trials, time(ms), channels)."trials" indicates index of trial in this experiment. Its label is represented in "condition_index"."time(ms)" indicates when the value was occured in each trial. It is determined with reference when food show period is started and contains ECoG data during -3,000ms and +3,000ms from time of start at food show period in each trial."channels" indicates index of ECoG channel. Location of each ECoG chanel is here (http://neurotycho.org/spatial-map-ecog-array-task.)<br>2. condition_indexIt indicates label of each trial. Each trail is labeld by task condition and monkey behavior. It contains sevral vector and each vector represents each condition and contains index of trial.The task condition contains two types of labels (social condition and which hand the monkey used to eat a food)."social condition" is consist of three conditons (hierarchy, conflict and location)."hierarchy" means hierarchy of paired monkey which is higher (H) or lower (L) than the ECoG recorded mokney."conflict" means task condition which is under conflict (C) or no conflict (NC)."location" means location of food presenter (human) which is left (l) or right (r) side.For example, HNCr means paired monkey was stronger than ECoG recorded monkey, under no conflict condition and food presenter was on right side from the ECoG recorded monkey. LC meand paired monkey was weaker than ECoG recorded monkey, under conflict condition and food presenter was left or right side from the ECoG recorded monkey.<br>3. day_sizeIt indicates how many trials on each day in the data. We experimented sevral days (Kuma is two, George is three).In Geroge case, index of first day experiment is [1:day_size[1]], index of second day experiment is [day_size[1]+1:day_size[2]] and index of third day experiment is [day_size[2]:end]
DOI: 10.6084/m9.figshare.7098224.v1
title: Supplementary Material for: Tumour Expression of Histone Deacetylases in Uveal Melanoma

description: <b><i>Purpose:</i></b> To determine the expression of histone deacetylase enzymes in uveal melanoma tumour cells. <b><i>Procedures:</i></b> This is an observational immunohistochemical study of 16 formalin-fixed, paraffin-embedded eyes enucleated for uveal melanoma between January 2001 and March 2002. Haematoxylin and eosin paraffin sections were reviewed for histopathological parameters according to the American Joint Committee on Cancer 7th edition. Sections were then immunohistochemically stained for histone deacetylases 1, 2, 3, 4 and 6 and sirtuin 2 using an automated Leica Bond II platform and Fast Red chromogen, then digitally scanned using Aperio software before assessment of staining. <b><i>Results:</i></b> Nuclear expression of histone deacetylases 1, 2, 3, 4 and 6 and of sirtuin 2 was confirmed in uveal melanoma tumour cells. In addition, the tumour cells showed cytoplasmic expression of histone deacetylases 4 and 6 and sirtuin 2. Nuclear and cytoplasmic immunostaining was also seen in intraocular tissues uninvolved by the tumour. <b><i>Conclusion:</i></b> Uveal melanoma tumour cells express histone deacetylases 1, 2, 3, 4 and 6 and sirtuin 2, confirming potential tissue targets for histone deacetylase inhibitors.
DOI: 10.6084/m9.figshare.19578901.v2
title: Synthetic Abdominal PCG Signals and Extracted Fetal PCG Signals

description: This dataset consists of synthetic abdominal PCG signals. The signals are perturbed differently by four types of interference (maternal sounds, movement artifacts, Gaussian noise, and ambient noise) and eleven combinations of these disturbances are created. Also stored are extracted fetal PCGs using the Savitzky-Golay filter, finite impulse response filter, adaptive wavelet transform, maximal overlap discrete wavelet transform, variational mode decomposition, empirical mode decomposition, ensemble empirical mode decomposition, and complete ensemble empirical mode decomposition with adaptive noise. The data are stored in .mat format.
DOI: 10.17632/wkd3jmm7mf
title: Trust and peer review

description: Survey data in SPSS and Excel for the Trust and Peer Review survey. This was a global online survey of 3133 active researchers.
DOI: 10.6084/m9.figshare.29068037.v2
title: <b>Geographic Entropy and Knowledge Graph</b>

description: Spatio-temporal prediction (STP) is a fundamental research area in Geographic Information Science (GIS), offering estimations of unobserved phenomena across space and time. STP models are extensively applied to address geographic challenges such as weather forecasting and hazard warnings. Despite accuracy gains from data-driven AI technologies, current STP research often neglects the contributions of geospatial effects, which have inspired the development of GIS-style STP models, including dependence learning from the spatial proximity effect, regional learning from the spatial heterogeneity effect, and transfer learning from the geographic similarity effect. This study seeks to determine whether these geospatial effects enhance STP performance and how they can be leveraged to optimize GIS-style model design. We develop a predictability framework using geographic entropy (GE) for the former question and a knowledge graph KG for the latter. Specifically, GE comprises three entropy methods to evaluate changes in predictability under the influence of three geospatial effects. These results are organized using KG to provide knowledge services that optimize the design of three GIS-style models. Experiments using a real-world dataset consisting of five human activities demonstrate the effectiveness of our framework. Specifically, our framework quantifies gains or reductions in predictability under geospatial effects and depicts their influence structure via KG.
DOI: 10.17632/yzzfp97m92
title: L2 lexical decision data

description: The dataset is used to evaluate the predictive power of different English frequency norms on L2 lexical processing data, which were drawn from the data of an L2 English lexical decision task (Chen et al., 2018) conducted among a group of L2 English learners in China. The dataset presented here includes the L2 mean RT and accuracy data for the 370-word stimuli in Chen et al. (2018), their length (including the number of letters, number of syllables), neighboorhood density scores (OLD), the raw corpus frequencies (KF, CELEX, BNC, COCA, ANC, SUBTLEX-UK, SUBTLEX-US, HAL, USENET, WORLDLEX, WORLDLEX-blog, WORLDLEX-Twitter, WORLDLEX-news, GoogleBooks-AmE, GoogleBooks-BrE), as well as the corresponding Zipf values (see van Heuven et al., 2014), and the subjective frequency ratings collected from L2 English learners in China.
DOI: 10.6084/m9.figshare.13373003.v3
title: 2016台风及暴雨相关的微博数据

description: 该数据包括了2016年6月-12月期间在微博中出现的与台风、暴雨相关的数据。具体说明如下：<br>数据清单如下：<br>（1）2016台风及暴雨相关的微博数据.zip<br>解压后为csv格式，共1个文件。本数据来源于2016年6月-12月期间在微博爬取的与台风、暴雨相关的数据，包含本文实验中使用的各字段信息，及实验模型的分类结果。<br>（2）数据字段.txtTxt文本文件，是对文件（1）中各个数据字段的含义解释。具体包含：<br>text 微博文本；mood 微博情绪, 0为愤怒，1为厌恶，2为高兴，3为悲伤，4为恐惧，-1为无情绪；is_spam 不使用；created_at 创建时间；user_id 用户id；user_city 城市；user_province 省份；user_location 用户位置；user_verified 是否认证用户, 1为认证；forward_source 转发来源；mentioned_users 提到的用户；predict_label 有效性预测标签， 1为有效的与自然灾害相关的数据。<br>（3）分类器标注数据<br>分类器标注数据_台风.csv，分类器标注数据_暴雨.csv为构建分类器的人工标注数据集，分为台风数据集和暴雨数据集。<br>（4）聚类结果打标数据<br>聚类结果打标_登陆前.csv，聚类结果打标_登陆后.csv是根据文本聚类结果对不同微博进行聚类，并对不同类簇对象分别标号。台风登陆前与登陆后分别聚类。<br>（5）图表支撑数据明细<br>图表名称 支撑数据 备注表1，表2 分类器标注数据_暴雨，分类器标注数据_台风 构建分类器并计算图2 2016台风及暴雨相关的微博数据.zip 根据“有效性预测标签”判断是否过滤图3 2016台风及暴雨相关的微博数据.zip 根据“创建时间”及“转发来源”统计表3，表4 聚类结果打标_登陆前，聚类结果打标_登陆后 登陆前后数据聚类结果表5，表6 聚类结果打标_登陆前，聚类结果打标_登陆后 登陆前后关键词结果图5 聚类结果打标_登陆前，聚类结果打标_登陆后 不同类簇发布时间差异图6 聚类结果打标_登陆前，聚类结果打标_登陆后 不同类簇情绪差异表7，表8 聚类结果打标_登陆前，聚类结果打标_登陆后 不同类簇转发来源差异表9 2016台风及暴雨相关的微博数据.zip 根据“用户Id”和“转发来源”构建网络，并统计信息图7 2016台风及暴雨相关的微博数据.zip 根据“用户Id”和“转发来源”构建网络，并统计信息图8 2016台风及暴雨相关的微博数据.zip 根据“创建时间”“用户Id”和“转发来源”分别构建不同时间对应的网络，并分别统计对应信息图9 2016台风及暴雨相关的微博数据.zip 根据“用户Id”和“转发来源”构建网络，随机抽取节点进行可视化
DOI: 10.6084/m9.figshare.1517608.v1
title: speed.pypy.org database dump

description: A database dump of the http://speed.pypy.org data, made on August 23, 2015.
DOI: 10.6084/m9.figshare.22736696.v1
title: Live body mass of solitary bees in the Sierra de Cazorla region (Jaén province, Spain) over the period 1990-2023

description: This dataset contains live body mass data for 1,704 individuals, 137 species, 27 genera and 6 families of wild solitary bees (Hymenoptera, Apoidea) sampled in the Sierra de Cazorla región (Jaén province, southeastern Spain) over the period 1990-2023. Sampling site, and the geographical coordinates and elevation for each sampled bee, are also included.
DOI: 10.6084/m9.figshare.24615420.v1
title: 14386 SNP dataset across 288 spinach lines for GWAS of oxalate content in spinach

description: Spinach SNP dataset for genome-wide association study and genomic prediction of oxalate content in spinach
DOI: 10.6084/m9.figshare.29043455.v1
title: Interview Transcript.pdf

description: Organizational change is an unavoidable aspect of today’s business environment, especially within the manufacturing sector, which must constantly adjust to evolving market conditions and technological progress. Strong leadership is essential in conveying change to employees, facilitating seamless transitions, and reducing resistance. This research explores how leadership communication strategies are implemented during organizational change within the Sales Division of a manufacturing firm. Adopting a qualitative case study method, the study draws on in-depth interviews with both managerial staff and employees. The findings highlight that the success of organizational change is largely influenced by three main elements: transparent communication, clear and visionary leadership, and proactive employee involvement. The study underscores the vital role of open and persuasive leadership communication in supporting employees’ adaptation to organizational transformation.
DOI: 10.6084/m9.figshare.5924647.v2
title: Lexical decision data

description: Participants’ responses to each item in the lexical decision task. Columns are: trial_id (unique identifier), exp_id, trial_order, spelling (presented stimuli), lexicality (word or non-word), rt (reaction time in milliseconds), accuracy (0 or 1).
DOI: 10.6084/m9.figshare.7929380.v1
title: gVCF_HG03925

description: 1000 Genomes gVCF mapped to hs37d5 for HG03925. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.6084/m9.figshare.8156495.v1
title: SNAPP files for Adelie and Chinstrap penguins

description: Output files (.log and .trees) for the SNAPP analyses.<br>Adelie penguin is AP and Chinstrap penguin is CP.
DOI: 10.17632/kwv5jdkmg6
title: Supplementary Figure for the study `TNFpromotes Warburg effect in GCA`

description: Supplementary Figure for the study `TNFpromotes Warburg effect in GCA`

Supplemental Figure 1. Body weight at 10 weeks old and 20 weeks old in Control group, HFD+pH4BS group and HFD+pH4BS+CL group. 
Supplemental Figure 2. Cross-sectional hematoxylin-eosin staining of the tumors in Gan mice.
 (Upper) Representative cross-sectional images of the tumors in Control group-mice (Ctrl), pH4BS group-mice, HFD group-mice and HFD+pH4BS group-mice, (Lower) Tumor height of the Gan mice
Supplemental Figure 3. Representative photos of the F4/80 expression in tumor in immunohistochemical studies. 
Immunostaining for a macrophage marker F4/80 (brown) in tumor in Gan mice,
(A. Control group, B. pH4BS group, C. HFD group, D. HFD+pH4BS group, E. HFD+pH4BS+CL group). F. The numbers of F4/80-positive cells (/HPF) in the tumor.
Supplemental Figure 4A. GSEA profile of Gan mice (HFD+pH4BS group vs. Control group)
 4B. Enrichment plot of reactive oxygen species pathway and its downstream genes
Supplemental Figure 5. Predicted metabolic pathways in gut microbiome of pH4BS group (upper) and HFD group (lower) compared to Control group. The results of effect size (log fold change) and Bonferroni adjusted 95% confidence intervals using ANCOM-BC were shown. Positively and negatively changed pathways are indicated in pale red and pale blue bars, respectively. 
Supplemental Figure 6. Representative images of the liver in Control group, HFD+pH4BS group and HFD+pH4BS+CL group. A. Hematoxylin-eosin staining, Iba-staining, B. Numbers of Infiltrating Iba-positive cells in the liver tissue, C. Western blot analysis of liver tissue for Iba1 and GAPDH. 
Supplemental Figure 7. Difference in microbial phenotype between HFD+pH4BS group-mice and HFD+pH4BS+CL group-mice. A. Relative abundance of microbial taxa at class level. Stacked bar plots (left) and the relative abundance of Clostridia (right) are shown. B. Box plots of Firmicutes/Bacteroidetes (F/B) ratio. 
Supplemental Figure 8. Representative images of western blot analysis (right) and lactic acid production (left) in MKN7 cells treated with E. coli LPS
Supplemental Figure 9. Mucosal Barrier damage of the ileum of Gan mice and Nrf2-KO Gan mice. A. Representative images of the hematoxylin-eosin staining and ZO-1 immunostaining of the ileal mucosa and the liver of the Gan mice treated with HFD+pH4BS (left) and the Nrf2-KO-Gan mice treated with HFD+pH4BS (right). B. Representative images of western blot analyses for the ZO-1 expression in the ileal mucosa and the LPS and TLR4 expressions in the liver.
DOI: 10.17632/rk2t2cts2n
title: Data for: Inelastic processes in low-energy iron--hydrogen collisions

description: Rate coefficients in cm^3/s for inelastic Fe + H and Fe^+ + H^- collisions for temperatures from T = 1000 K to T = 10000 K.
DOI: 10.6084/m9.figshare.9765227.v1
title: raw_data_PloS.xlsx

description: Raw data of sleep measures, microbial diversity and immune system markers. Study examined sleep, microbiome composition and immune system.
DOI: 10.6084/m9.figshare.28179983.v1
title: microbial effects on drag in suspended sediment.zip

description: We investigate the fine-scale morphologies of microbially-colonized sediment particles and the drag acting on these structures when the aggregates are suspended and transported in water.
DOI: 10.6084/m9.figshare.5018774.v1
title: Using AmgX to Accelerate PETSc-Based CFD Codes

description: [This file set supplements the presentation by Pi-Yueh Chuang at 2016 GPU Technology Conference, on Thu. April 7th: see session S6355.]<br>Please cite as:<br>Chuang, Pi-Yueh; Barba, Lorena A. (2017): Using AmgX to Accelerate PETSc-Based CFD Codes. figshare.https://doi.org/10.6084/m9.figshare.5018774.v1<br>The file set includes a Jupyter notebook that reports how we accelerated our PETSc-based CFD solver, PetIBM, with multi-GPU capability enabled through AmgX library. PETSc, developed by Argonne National Laboratory, is a toolkit for parallel scientific computing. AmgX is an NVIDIA library providing multigrid preconditioners and Krylov linear solvers. It features the capability of multi-GPU computing through MPI. We developed AmgXWrapper to couple PETSc and AmgX, so that we can easily integrate AmgX into PetIBM with less than 10 lines of code modification.<br>The links in references are:* Video record of GTC 2016 presentation* Rendered version of the notebook viewed on nbviewer* GitHub repository of AmgXWrapper* GitHub repository of PetIBM<br>
DOI: 10.6084/m9.figshare.19145414.v1
title: Supplementary Material for: Medicinal Cannabis for the Treatment of Chronic Refractory Pain: An Investigation of the Adverse Event Profile and Health-Related Quality of Life Impact of an Oral Formulation

description: <b><i>Introduction:</i></b> Medicinal cannabis is prescribed in Australia for patients with chronic refractory pain conditions. However, measures of safety and effectiveness of different cannabinoids are lacking. We designed an observational study to capture effectiveness, adverse events (AEs), and health-related quality of life (HRQoL) measures in patients prescribed an oral medicinal cannabis formulation at Cannabis Access Clinics through the Cannabis Access Clinics Observational study (CACOS). <b><i>Objectives:</i></b> We aimed to evaluate effectiveness, reported AEs, and change in patient-reported outcomes in individuals prescribed a cannabinoid oil formulation for management of chronic pain. <b><i>Methods:</i></b> A cross-sectional analysis was conducted on patients prescribed an oil formulation of Δ9-tetrahydrocannabinol and cannabidiol for pain symptoms of at least 3-month duration. Clinician-reported AEs were organized by system, organ, class, and frequency. Analysis of patient-reported responses to a questionnaire was conducted using published minimal clinically important differences to determine meaningful change in HRQoL over time. <b><i>Results:</i></b> More than half (<i>n</i> = 91/151, 60.3%) of the participants experienced at least one AE during the observation period (mean 133 ± 116 days). No serious AEs were reported. Patient-reported pain impact scores were significantly reduced across the cohort (<i>p</i> = 0.034), and pain intensity scores verged on significance (<i>p</i> = 0.053). The majority of patients saw meaningful improvements in sleep (49.3%) and fatigue (35.6%). <b><i>Conclusion:</i></b> This analysis presents real-world data collected as part of standard of care. More than one-third of patients benefited from oral medicinal cannabis, which is impactful given the refractory nature of their pain. Amelioration of the impact of pain confirms continued prescribing of this formulation and validates our observational methodology as a tool to determine the therapeutic potency of medicinal cannabinoids.