cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.19499231.v1
title: patches and local annotations, slide 127, zoom 248x248 um2

description: patches and local annotations: data for slide with ID of the last 3 characters of the file name: local annotations in csv format and a folder with patches at zoom level indicated at the 6th character of the file name
DOI: 10.6084/m9.figshare.14074502.v2
title: company-dataset

description: dataset
DOI: 10.6084/m9.figshare.24407743.v1
title: Source data for 'A robust and tunable Luttinger liquid in correlated edge of transition-metal second-order topological insulator Ta<sub>2</sub>Pd<sub>3</sub>Te<sub>5</sub>'.

description: Source data for 'A robust and tunable Luttinger liquid in correlated edge of transition-metal second-order topological insulator Ta<sub>2</sub>Pd<sub>3</sub>Te<sub>5</sub>'.
DOI: 10.6084/m9.figshare.28250603.v2
title: CODERData2.0.0

description: Cancer Organoid Data
DOI: 10.6084/m9.figshare.7000859.v1
title: Supplementary Material for: Genetic Evaluation of 114 Chinese Short Stature Children in the Next Generation Era: a Single Center Study

description: <b><i>Background/Aims:</i></b> The genetics of human height is a frequently studied and complex issue. However, there is limited genetic research of short stature. To uncover the subgroup of patients to have higher yield and to propose a simplified diagnostic algorithm in the next generation era. <b><i>Methods:</i></b> This study included 114 Chinese children with height SDS ≤ -2.5 and unknown etiology from 2014 to 2015. Target/whole exome sequencing (referred as NGS) and chromosomal microarray analysis (CMA) were performed on the enrolled patients sequentially to identify potential genetic etiologies. The samples solved by NGS and CMA were retrospectively studied to evaluate the clinical pathway of the patients following a standard diagnostic algorithm. <b><i>Results:</i></b> In total, a potential genetic etiology was identified in 41 (36%) patients: 38 by NGS (33.3%), two by CMA (1.8%), and an additional one by both (0.9%). There were 46 different variants in 29 genes and 2 pathogenic CNVs identified. The diagnostic yield was significantly higher in patients with facial dysmorphism or skeletal abnormalities than those without the corresponding phenotype (<i>P</i>=0.006 and <i>P</i>=0.009, respectively, Pearson’s χ<sup>2</sup> test). Retrospectively study the cohort indicate 83.3% patients eventually would be evaluated by NGS/CMA. <b><i>Conclusion:</i></b> This study confirms the utility of high-throughput molecular detection techniques for the etiological diagnosis of undiagnosed short stature and suggests that NGS could be used as a primary diagnostic strategy. Patients with facial dysmorphism and/or skeletal abnormalities are more likely to have a known genetic etiology. Moving NGS forward would simplified the diagnostic algorithm.
DOI: 10.6084/m9.figshare.11758704.v1
title: List of the V. vulnificus strains analyzed in this study

description: 总共<b> </b>分析了260 <i>株V. vulnificus</i>基因组，包括该研究中新排名的139条基因和公开发表的121个<i> </i>基因组。
DOI: 10.6084/m9.figshare.25237537.v1
title: Supplementary Material for: A case of photoimmunotherapy for nasopharyngeal carcinoma requiring emergency tracheostomy

description: Introduction: Photoimmunotherapy (PIT) is a treatment wherein intravenous cetuximab sarotarocan sodium is administered followed by laser light irradiation. This treatment exhibits a specific antitumor effect if in tumors expressing the epidermal growth factor receptor (EGFR), regardless of the carcinoma [1-3]. The current indications are unresectable, locally advanced, or locally recurrent head and neck cancer. If standard treatments, such as radiotherapy and chemotherapy, are available, they are given priority. However, a significant concern in PIT is the occurrence of airway emergencies related to pharyngeal edema. Prophylactic tracheostomy is often performed in cases of PIT involving the root of the tongue, hypopharynx, or larynx.
Case presentation: In this study, we administered transoral PIT to a patient diagnosed with radiation-induced nasopharyngeal carcinoma (squamous cell carcinoma (SCC) cT1N0M0 Stage I). Although previous case reports and our own experiences did not report airway emergencies following PIT for nasopharyngeal carcinoma, a unique case occurred in our study [4,5]. The patient experienced poor oxygenation and a decreased level of consciousness early in the morning following the laser irradiation. Nasal endoscopy revealed airway narrowing due to upper airway edema, and intubation was challenging. Consequently, we performed emergency bedside tracheostomy and the patient’s condition improved. 
Conclusion: Therefore, it is crucial to note that airway emergencies can be life-threatening and should be diligently monitored as a potential complication of PIT.
DOI: 10.6084/m9.figshare.14483250.v1
title: Relationships among behavioural regulations, physical activity, and mental health pre- and during COVID–19 UK lockdown

description: A nationwide survey was conducted during the first UK lockdown to further understanding of the degree to which motives for exercise were associated with physical activity (PA) behaviours and, in turn, how PA behaviours were associated with mental health. A cross-sectional design was employed and data were collected by use of a one-off online survey (<i>N</i> = 392; 18–85 years; <i>M</i><sub>BMI </sub>=<sub> </sub>25.48; <i>SD</i><sub>BMI </sub>= 5.05; 314 women). Exercise motives, PA, and mental health were measured by use of the Behavioural Regulations in Exercise Questionnaire-3, Brunel Lifestyle Physical Activity Questionnaire, and General Health Quesionnaire-12, respectively. Participants were also asked to specify their average step count per day, if they used a mobile device for this purpose (<i>n</i> = 190). Analyses comprised hierarchical regressions and partial correlations. Results indicated that behavioural regulations were more strongly associated with planned PA pre-lockdown, compared to during lockdown. There were no differences observed in explained variance between pre- and during lockdown for unplanned PA and steps per day. Planned and unplanned PA were significant explanatory variables for mental health both pre- and during lockdown, but sedentary behaviour was not. Partial correlations, with BMI and age partialled out, showed that steps per day were not correlated with mental health either pre- or during lockdown. The range of variables used to explain planned and unplanned PA and mental health suggest that people’s motives to exercise were tempered by lockdown. For those who routinely measured their steps per day, the step count was unrelated to their mental health scores both pre- and during lockdown. It appears that engagement in regular PA confers some minor benefits for mental health.<br>
DOI: 10.6084/m9.figshare.21655364.v2
title: Analyses of a chromosome-scale genome assembly reveal the origin and evolution of cultivated chrysanthemum

description: genome sequence and annotations
DOI: 10.6084/m9.figshare.26180803.v1
title: Perissodactyla GBP5 codon Prank alignment (for Le Corf et al. 2025)

description: Perissodactyla GBP5 codon Prank alignment (for Le Corf et al. 2025)
DOI: 10.6084/m9.figshare.27612267.v1
title: Supplementary Material for: Impact of Peritoneal Neutrophil Extracellular Traps on Peritoneal Characteristics and Technical Failure in Patients Undergoing Peritoneal Dialysis

description: Introduction: Peritoneal dialysis (PD) is an effective home therapy for end-stage kidney disease. However, continuous exposure to PD fluids with high glucose concentration and recurrent peritonitis may lead to the activation of cellular and molecular processes of peritoneal damage, including inflammation and fibrosis. In particular, recent studies have highlighted the role of neutrophils in chronic inflammation. This study explores how neutrophil extracellular traps (NETs) affect peritoneal membrane function and contribute to technical failures in PD patients.
Methods: We conducted a prospective observational study involving 250 non-infectious and 30 acute peritonitis patients. NETs were measured using nucleosome and myeloperoxidase DNA levels in PD fluids. Monocyte chemoattractant protein-1 (MCP-1) and matrix metalloproteinase-8 (MMP-8) were also measured to assess peritoneal inflammation and damage. 
Results: A significant increase in peritoneal NETs, as determined by nucleosome and myeloperoxidase DNA levels, was observed in patients with acute peritonitis compared to patients without peritonitis. Even in non-infectious samples, NET levels were widely distributed and closely correlated with levels of MCP-1 and MMP-8. Higher levels of peritoneal NETs were closely associated with increased 4-hour dialysate/peritoneal (D/P) creatinine ratio and 1-hour D/P sodium levels, indicating a higher prevalence of fast transport and limited free water transport. These factors were associated with a higher risk of technical failure. During a mean follow-up of 34 months, 39.2% (98 patients) switched from PD to hemodialysis, with higher NET levels significantly increasing the risk by 1.9 times (95% confidence interval 1.27-2.83, p=0.020).
Conclusions: This study suggests the importance of peritoneal NETs not only as markers of acute inflammation but also as significant immunological predictors of chronic peritoneal membrane inflammation and dysfunction, and as potential risk factors for technical failure.
DOI: 10.6084/m9.figshare.19447049.v1
title: Supplementary Material for: Incidence and mortality of post-polypectomy colorectal cancer in patients with low-risk adenomas: A systematic review and meta-analysis of observational studies

description: Introduction: The long-term risks of post-polypectomy colorectal cancer (CRC) incidence and mortality among patients with low-risk adenomas (LRAs) are unclear. This study aimed to perform a systematic review and meta-analysis of the risk of CRC incidence and mortality following LRAs removal. Methods: We searched the PubMed, Embase, and Cochrane library for studies that reported the risk of metachronous CRC incidence and mortality after colonoscopy. The primary outcome was the risk of CRC incidence and mortality in patients with LRAs. Random-effects models were used to calculate pooled risk ratio (RR) with 95% CI. Results: Thirteen observational studies with 1,750,305 patients (45.4% male; follow-up: 4.5-16.5 years) were included. A meta-analysis of seven studies showed a higher CRC incidence in patients with LRAs than those without adenomas [per 10,000 person-years: 5.2 vs 3.9; RR 1.25 (95% CI 1.05-1.49), I2=0%]. However, the CRC-related death was not significantly different between the two groups [RR 1.13 (95% CI 0.75-1.69), I2=0%]. When compared with the general population, the meta-analysis showed a significantly lower risk of CRC incidence in patients with LRAs [RR 0.59 (95%CI 0.45-0.77), I2=0%], and another three studies, which could not be pooled, showed a reduction in the risk of CRC-related death in the LRAs group. Conclusions: Patients with LRAs have a small but higher risk of post-polypectomy CRC incidence than patients without adenomas. The marginally higher absolute incidence seemed insufficient for more intensive surveillance colonoscopy, but the significant difference suggested different follow-up strategies between patients with LRAs and those without adenomas.
DOI: 10.6084/m9.figshare.26954623.v1
title: Supplementary Material for: Efficacy and safety of telitacicept in IgA nephropathy: A retrospective, multicenter study

description: Introduction
The efficacy of Telitacicept treatment in reducing proteinuria in patients with IgA nephropathy (IgAN) was indicated in a phase II clinical trial with small sample size. In this study, we conducted a large multicenter retrospective study to explore the efficacy and safety of Telitacicept in patients with IgAN.
Methods
This study recruited patients with IgAN from 19 sites from China who were treated with Telitacicept and had been followed up at least once or with side effect reported, since April 1, 2021 to April 1, 2023. The primary outcomes of the study were the changing in proteinuria and eGFR over time. 
Results
A cohort of 97 patients with IgAN who were treated with Telitacicept were recruited, with a median follow-up duration of 3 months. The median baseline proteinuria was 2.3 [1.3, 3.9] g/day and eGFR was 45.0 [26.8, 73.7] ml/min/1.73m2. There was a significant reduction of proteinuria at 2,4,6 months when compared with baseline (2.3 [1.5, 4.1] vs. 1.5 [0.8, 2.3] g/day; 2.3 [1.1, 3.7] vs. 1.1 [0.6, 1.9] g/day; 2.1 [1.0, 2.7] vs. 0.9 [0.5,1.7] g/day, all P values &lt; 0.01). The level of eGFR were comparable between at the baseline and 2, 4, 6 months of follow-up time (41.5 [29.7, 72.0] vs. 42.5 [28.8, 73.3] ml/min/1.73m2; 41.0 [26.8, 67.7] vs. 44.7 [31.0, 67.8] ml/min/1.73m2; 33.7 [24.0, 58.5] vs. 32.6 [27.8, 57.5] ml/min/1.73m2, all P values &gt; 0.26). Telitacicept was well tolerated in the patients.
Conclusions
This study indicates that Telitacicept alone or on top of steroids therapy can significantly and safely reduce proteinuria in patients with IgAN. The long-term kidney protection still need to be confirmed in large Phase III trial.
DOI: 10.6084/m9.figshare.1297891.v1
title: Conflict Model of Actors Network

description: We present a study of the social dynamics among cooperative and competitive actors interacting on a complex network that has a small-world topology.
DOI: 10.6084/m9.figshare.14661375.v1
title: Least weasel draft genome assembly and mtDNA dataset

description: This Dataset contains the draft <i>de novo</i> genome assembly and the mtDNA sequences of least weasel (<i>Mustela nivalis</i>) generated in the following research paper:Miranda et al (2021). <i>Museomics dissects the genetic basis for adaptive seasonal colouration in the least wease</i><i>l</i><i>. </i><b>Molecular Biology and Evolution</b>, 38(10):4388–4402. DOI:10.1093/molbev/msab177--------------------------------------Information on files:<b>1)</b> In the context of the study of the genetic basis and evolution of seasonal coat colour variation in the least weasel, we generated a draft reference genome assembly for the species based on linked-read data generated with 10X Chromium technology. The original genome files used in the analyses are provided in the files:<b>1.1) </b><i>Mnivalis-assembly-pseudohap1_primary.fasta.gz</i> - contains the original version of the primary pseudohaplotype.<b>1.2) </b><i>Mnivalis-assembly-pseudohap2_alternative.fasta.gz</i> - contains the original version of the alternative pseudohaplotype.<b>2)</b> The file <i>mtDNA_alignment_M-nivalis.fas</i> contains the sequences of mitochondrial DNA of 68 specimens assembled <i>de novo</i> from whole-genome sequencing short-reads.
DOI: 10.24385/lincoln.24325318.v1
title: Sheffield building image dataset

description: Jing Li and Nigel M. Allinson, Dimensionality Reduction-Based Building Recognition, in Proceedings of the Ninth IASTED International Conference on Visualization, Imaging and Image Processing, Cambridge (UK), July 13 – 15, 2009 This dataset consists of over 3,000 low-resolution images of forty different buildings – typically between 70 and 120 images per building. The images are taken from different viewpoints under widely different lighting conditions. They are intended to represent the quality and variety of images obtained by hand-held mobile devices for a range of weather and time-of-day conditions. Typical images are presented below.
DOI: 10.6084/m9.figshare.14167300.v1
title: Speciation of phosphorus accumulated in fertilized cropland of Aichi prefecture in Japan with different soil properties by sequential chemical extraction and P K-edge XANES

description: Fertilizer-derived P is accumulated in cropland soils and their phytoavailability is variable depending on the speciation of P, which is affected by soil properties. In this study, we aimed to clarify how soil properties affect the speciation of P accumulated in fertilized soils. Soil samples were collected from the cultivated soil layers of 137 vegetable fields in Aichi prefecture, Japan. The speciation of soil P was evaluated by Truog method, sequential extraction by acetic acid, NH<sub>4</sub>F, and NaOH (Sekiya method), P K-edge X-ray adsorption near-edge structure (XANES). Phosphorus accumulated in cropland consisted predominantly of the inorganic form. Phosphorus extracted by the Truog method and acetic acid was correlated with exchangeable Ca and total C. The XANES analysis indicated that the P species extracted by Truog and acetic acid were associated with Ca, while those extracted by acetic acid also included crystalized calcium phosphate with higher crystallinity than CaHPO<sub>4</sub>, for example, hydroxyapatite. Due to the high application of P fertilizer and manure with lime, P was accumulated as calcium phosphate except for soils with relatively high contents of oxalate extractable Al and Fe. The amounts of NH<sub>4</sub>F-extracted P were higher in soils with larger amounts of oxalate extractable Al and Fe. Based on the XANES analyses, the P species extracted by NH<sub>4</sub>F were associated with Al and Fe, which is inconsistent with the operational definition of NH<sub>4</sub>F-soluble species. The P in soils extracted by NaOH was correlated with various soil properties, especially with clay content. The P species extracted by NaOH could not be identified. Our results revealed that the important factors controlling available P associated with Ca were total C and exchangeable Ca, whereas those controlling the P extracted by NH<sub>4</sub>F were oxalate extractable Al and Fe, because this fraction of P was associated with Al and Fe.
DOI: 10.6084/m9.figshare.24964659.v1
title: <i>Chromosome-scale assembly of the wild cereal relative Elymus sibiricus</i>

description: <i>Elymus</i> species, belonging to Triticeae tribe, is a tertiary gene pool for improvement of major cereal crops. <i>Elymus sibiricus</i>, a tetraploid with StH genome, is a typical species in the genus <i>Elymus</i>, which is widely utilized as a high-quality perennial forage grass in template regions. In this study, we report the construction of a chromosome-scale reference assembly of <i>E. sibiricus</i> line Gaomu No. 1 based on PacBio HiFi reads and chromosome conformation capture. Subgenome St and H were well phased by assisting with kmer and subgenome-specific repetitive sequence. The total assembly size was 6.929 Gb with a contig N50 of 49.518 Mb. In total, 89,800 protein-coding genes were predicted. The repetitive sequences accounted for 82.49% of the genome in <i>E. sibiricus</i>. Comparative genome analysis confirmed a major species-specific 4H/6H reciprocal translocation in <i>E. sibiricus</i>. The <i>E. sibiricus</i> assembly will be much helpful to exploit genetic resource of StH species in genus <i>Elymus</i>, and provides an important tool for <i>E. sibiricus</i> domestication.
DOI: 10.6084/m9.figshare.1408707.v1
title: 9-region glaucoma

description: retinal thickness of 9-region of glaucoma for two methods
DOI: 10.6084/m9.figshare.21077200.v1
title: Terrestrial Laser Scanning (TLS) data

description: There are 4 columns of data in the dataset, the first three columns represent XYZ coordinates, and the last column is the intensity information of the point cloud
DOI: 10.6084/m9.figshare.27280755.v1
title: Semantic tACS

description: Enhancing Consolidation of Conceptual Learning via Transcranial Alternating Current Stimulation
DOI: 10.25452/figshare.plus.27327825.v1
title: iPSCORE Multiomic QTLs: Phenotype Count Matrices

description: This directory contains one sample metadata file and eight count files corresponding to the gene, ATAC-seq peak, and H3K27ac ChIP-seq peak counts from three tissues from the iPSCORE Collection; induced pluripotent stem cells (iPSCs), iPSC-derived cardiovascular progenitor cells (CVPCs), and iPSC-derived pancreatic progenitor cells (PPCs).Each file has the same format. The first column contains the identifier for the molecular element (gene or peak) and the remaining column corresponds to the phenotype (sample) identifier found in the <i>SampleMetadata</i> file. The <i>SampleMetadata</i> is identical to Supplemental Table 2 in the publication. Please see the Table legends in the linked publication for more details.The labeling convention is [tissue_phenotype_counts.txt].
DOI: 10.6084/m9.figshare.14277224.v1
title: Surveillance of the first cases of COVID-19 in Sergipe using a prospective spatiotemporal analysis: the spatial dispersion and its public health implications

description: Abstract INTRODUCTION: Coronavirus disease 2019 (COVID-19) has become a global public health emergency with lethality ranging from 1% to 5%. This study aimed to identify active high-risk transmission clusters of COVID-19 in Sergipe. METHODS: We performed a prospective space-time analysis using confirmed cases of COVID-19 during the first 7 weeks of the outbreak in Sergipe. RESULTS: The prospective space-time statistic detected "active" and emerging spatio-temporal clusters comprising six municipalities in the south-central region of the state. CONCLUSIONS: The Geographic Information System (GIS) associated with spatio-temporal scan statistics can provide timely support for surveillance and assist in decision-making.
DOI: 10.6084/m9.figshare.5445610.v2
title: Annotation of de novo assembly from Arctic charr in Lake Thingvallavatn, Iceland

description: Tab-delimited text file with detailed annotation of all the filtered transcripts in the Trinity assembly.<b>gene_id:</b> Trinity gene identification code<b>transcript_id:</b> Trinity transcript identification code<b>sprot_Top_BLASTX_hit:</b> Top blastx hit from the SwissProt database<b>TrEMBL_Top_BLASTX_hit: </b>Top blastx hit from the TrEMBL database<b>RNAMMER: </b>ribosomal RNA prediction<b>prot_id:</b> Id for protein prediction<b>prot_coords:</b> Coordinates for predicted proteins<b>sprot_Top_BLASTP_hit:</b> Top blastp hit for predicted proteins from the SwissProt database<b>TrEMBL_Top_BLASTP_hit: </b>Top blastp hit for predicted proteins from the TrEMBL database<b>Pfam: </b>Protein domain prediction from Pfam<b>SignalP:</b> Prediction of signal peptides<b>TmHMM:</b> Prediction for transmembrane domains<b>eggnog:</b> Annotation to the eggNOG database<b>gene_ontology_blast: </b>Gene ontology categories based on blast results from SwissProt and TrEMBL<b>gene_ontology_pfam:</b> Gene ontology based on Pfam protein domains<b>SSncbi_Top_BLASTN_trans: </b>Id for top blastn transcripts in NCBI Salmo salar Annotation<b>SSncbi_Top_BLASTX_trans:</b> Id for top blastx transcripts in NCBI Salmo salar Annotation<b>SSncbi_Top_BLASTN_gene_name:</b> Gene name based on top blastn hit in the NCBI Salmo salar Annotation<b>SSncbi_Top_BLASTX_gene_name:</b> Gene name based on top blastx hit in the NCBI Salmo salar Annotation<b>OM_Top_BLASTN_trans: </b>Id for top blastn transcripts in Oncorhynchus mykiss genome annotation<b>OM_Top_BLASTX_trans:</b> Id for top blastx transcripts in Oncorhynchus mykiss genome annotation<b>SalmoBase_Top_BLASTN_trans:</b> Id for top blastn transcripts in SalmoBase Salmo salar Annotation<b>SalmoBase_Top_BLASTX_trans:</b> Id for top blastx transcripts in SalmoBase Salmo salar Annotation<b>SalmoBase_Top_BLASTN_gene_name: </b>Gene name based on top blastn hit in the SalmoBase Salmo salar Annotation<b>SalmoBase_Top_BLASTX_gene_name:</b> Gene name based on top blastx hit in the SalmoBase Salmo salar Annotation
DOI: 10.6084/m9.figshare.13172825.v1
title: COVID-19 Protective Behaviours Coding Manual and Data Dictionary - Archive Datasets.pdf

description: Purpose: Data collected as part of a MSc Public Health and Health Promotion dissertation, Brunel University - “Knowledge, socio-cognitive perceptions and the practice of hand hygiene and social distancing during the COVID-19 pandemic: A cross-sectional study of UK university students”<br>Items: Coding manual/data dictionary; Complete analysis dataset; Social distancing analysis dataset
DOI: 10.6084/m9.figshare.23502387.v1
title: ARB CP RAW DATA

description: ARB CP RAW DATA