cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.26191034.v1
title: Puerto Rican Oriole Song and Rate Data

description: Our understanding of elaborate signaling behaviors, such as bird song, has been hindered by historical biases towards male animals. Bird song has been shown to serve important functions like defending territories or attracting mates in both males and females, and singing in both sexes is likely the ancestral trait for songbirds. Female song is strongly associated with year-round territory defense, especially in the tropics. However, more studies of both male and female song are needed to better understand the selection pressures acting on this elaborate signal trait. The common ancestor of the New World orioles (<i>Icterus</i>) was likely a nonmigratory tropical species, with both males and females singing and defending year-round territories. The Puerto Rican Oriole (<i>Icterus portoricensis) </i>has these natural history characteristics, but little is known about how each sex uses song in this understudied Caribbean endemic. We found that while male and female songs were significantly different acoustically, they were indistinguishable in the field, and showed no sex-specific pattern in syllable usage. Males sang at higher rates than females during the dawn chorus, but females sang frequently during the day. Song is likely evolving as a unified trait in this species, reflecting the characteristics of the common ancestor, but may serve different functions for each sex. In the future, playback studies and rate observations throughout the full day and throughout the year will provide additional insight into how males and females of this tropical songbird may be using their songs.
DOI: 10.6084/m9.figshare.28512458.v1
title: ijms-3484719-supplementary

description: Supplementary material to the the manucript: "SYNE1 gene novel variant is associated with myocardial infarction in young people with a family history of premature atherosclerosis"
DOI: 10.6084/m9.figshare.12814295.v2
title: Multinomial Logistic Regression of increase use of bike in the next 12 months in Puerto Madryn – Analysis factor: Social Agreement

description: Table with Multinomial Logistic Regression of increase use of bike in the next 12 months (dependent) with social agreement (factors). In the experiment, the dependent variable was chosen to be the potential increment in the use of bike in the next 12 months and the factors were the cycling social approval of different membership groups.<br><br>The goal of multinomial logistic regression is to construct a model that explains the relationship between the explanatory variables (namely also <i>independent</i> or <i>factors</i>) and the outcome (<i>dependent)</i>, so that the outcome of a new "experiment" can be correctly predicted for a new data point for which the explanatory variables, but not the outcome, are available. In the process, the model attempts to explain the relative effect of differing explanatory variables on the outcome.
DOI: 10.6084/m9.figshare.14965764.v1
title: Millennial resolution late Miocene northern China precipitation record spanning astronomical analogue interval to the future

description: Frequency-dependent magnetica susceptibility/hard isothermal remanent magnetuzation, quantitative summer mean precipitation and paleomagnetic data from the Huaitoutala section.
DOI: 10.6084/m9.figshare.25853311.v1
title: Supplementary Material for: O80:H2-associated hemolytic uremic syndrome without hemorrhagic colitis: A case report.

description: Introduction: Hemolytic uremic syndrome (HUS) is characterized by progressive kidney injury accompanied by thrombotic microangiopathy (TMA), which is clinically defined as microangiopathic hemolytic anemia with thrombocytopenia and organ injury. Shiga toxin-producing Escherichia coli (STEC)-HUS is caused by infection with pathogenic E. coli strains, typically O157, O26, and O111. However, the prevalence of other types of pathogenic E. coli has been increasing, and these pathogens sometimes cause atypical clinical manifestations of STEC-HUS. 
Case Presentation: We report the case of a 3-year-old girl diagnosed with STEC-HUS associated with a rare O80:H2 stx2 serotype, characterized by an atypical clinical course. She presented with severe hemolytic anemia and mild renal dysfunction but did not have enterohemorrhagic diarrhea. The first culture test of her stool sample collected using a swab upon admission yielded no signs of STEC, leading to an initial diagnosis of atypical HUS; thus, eculizumab was administered adding to red blood cell transfusion and recombinant thrombomodulin alfa and haptoglobin. However, a subsequent culture test of her second stool sample revealed the presence of O80:H2 stx2, confirming the diagnosis of STEC-HUS. Subsequently, the patient’s condition improved, and her serum creatinine level gradually normalized over the course of 3 months.
Conclusion: Diligently diagnosis is crucial in cases lacking typical STEC-HUS symptoms. We advocate for repeated stool culture testing to ensure accurate identification and timely management of such cases.
DOI: 10.6084/m9.figshare.16782403.v1
title: nanoFTIR spectra set3

description: nanoFTIR spectra on E. coli thin sections<br>
DOI: 10.6084/m9.figshare.22561168.v1
title: Gait data in "Diagonal-couplet gaits on discontinuous supports in Japanese macaques and implications for the adaptive significance of the diagonal-sequence, diagonal-couplet gait of primates"

description: This gait dataset was analyzed in a scientific paper in "Diagonal-couplet gaits on discontinuous supports in Japanese macaques and implications for the adaptive significance of the diagonal-sequence, diagonal-couplet gait of primates."
DOI: 10.6084/m9.figshare.28075478.v1
title: Supplementary Material for: The forearm's subcutaneous venous network to accelerate maturation of native arteriovenous fistula – a case report

description: Introduction: A common complication of arteriovenous fistula (AVF) is thrombosis in the venous segment, which can impair vascular access unless successful thrombectomy is performed.
Case presentation: In this manuscript, we describe the case of a diabetic patient who had primary AVF in snuff-box with subsequent superficialization of the medial vein of the forearm. Unfortunately, this section of the vein was occluded, although the fistula was patent through the cephalic vein (CV). Due to insufficient flow, this vascular access was unsuitable for hemodialysis. Using a vein from the subcutaneous venous network (SVN), additional AVF was performed. Our goal was to accelerate maturation by doubling arteriovenous flow, which then increased the size of the cephalic vein in the arm. After maturation, a second superficialization was performed on the arm, which allowed for successful cannulation. 
Conclusion: SNV should be considered to improve the function of the primary fistula, making it suitable for cannulation even in complicated cases.
DOI: 10.6084/m9.figshare.12762107.v1
title: Supplementary Data and Codes for manuscript entitled "Vortex phase matching as a strategy for schooling in robots and in fish"

description: -power_cost_RobotifFish: All power cost data for the robotic fish<br>-average_power_cost_RobotifFish: Data of average power cost of robotic fish<br>-src_RoboticFish.zip: Codes for the robotic fish data<br>-DicInfo_Speedy_AllData_OnlyD.pkl: all real fish data. Open with python pickle.<br>-src_RealFish.zip: Python code for analyzing real fish data
DOI: 10.6084/m9.figshare.24046959.v1
title: INTERVIEW PROTOCOL

description: This document contains the questions that oriented the interview to the English student-teachers.
DOI: 10.6084/m9.figshare.27226995.v1
title: qtdata.csv

description: Data of daily prices of the selected countries’ respective stock exchanges (India: NIFTY 50; Brazil: BOVESPA; Argentina: MERVAL; Indonesia: IDX Composite; South Africa: JSE; Saudi Arabia: Tadawul, and Taiwan: TSEC), has been collected. The data has been taken from Investing.com. Daily returns for every index are computed for a ten-year period, from 2014 to 2024, following the collection and cleaning of the data. The returns were computed using the log of each index's daily closing prices.
DOI: 10.6084/m9.figshare.6151196.v4
title: Bill measurements of hummingbirds in the ecological network database

description: Here you will find the bill measurements of 161 hummingbird species. This is the set of species present in the network database that describes the interactions between these hummingbirds and their nectar resources (Dalsgaard et al. 2011, Martin-Gonzalez et al. 2015, Maruyama et al. 2018, Sonne et al. in press). Detailed information about the measurements can be found at the enclosed documents.<br>Further, the values for bill curvature (angle measurement) for both Topaza pyra and Trochilus polytmus were corrected in version 4 of the spreadsheet.
DOI: 10.6084/m9.figshare.22227205.v1
title: Dataset for the global change effects on microbial necromass content in soil

description: The impacts of global changes (nutrient addition, warming, elevated atmospheric carbon dioxide , and drought) on microbial necromass are poorly understood despite its critical role in the cycling and sequestration of soil carbon (C) and nutrients. Here, we conducted a meta-analysis to reveal general patterns of these global change effects on microbial necromass in soils.
DOI: 10.6084/m9.figshare.28324295.v1
title: 20250201_starrydata2

description: All data on Starrydata2, a database of experimental properties in the field of inorganic materials
DOI: 10.6084/m9.figshare.20487651.v1
title: All Life raw data version 2

description: This data uploaded provides the raw data which was analyzed to be reported in the form of All Life paper.
DOI: 10.6084/m9.figshare.25555860.v3
title: 137 individual keratinocytes genotyped from human skin

description: We performed DNA and RNA sequencing of 137 colonies of normal human keratinocytes. To accompany our manuscript, we include summaries of the 137 keratinocyte clones from this study. Each page of the pdf corresponds to an individual keratinocyte clone and is structured similarly as follows:Panel A shows tissue and cellular images, where available, alongside information describing clone size, cell morphology, and anatomic location of the donor tissue.Panel B shows the variant allele fraction of raw calls relative to their validation status. Variant allele fractions indicate how we inferred the mutational status of variants outside of the expressed and phase-able portions of the genome. Variants were either validated as somatic mutations or assumed to be amplification artifacts (i.e. invalidated) based on their patterns in the DNA and RNA sequencing data. Note that variants that were validated as somatic mutations were more likely to have VAFs around 1 or 0.5, consistent with a true heterozygous variant. Pathogenic mutations are highlighted in red, while potentially pathogenic mutations are highlighted in orange. Panel C shows copy number alterations called from DNA and RNA sequencing data (red = gain; blue = loss) alongside any identified regions of allelic dropout (blue = mono-allelic dropout; black = bi-allelic dropout). The fraction of each clone with allelic dropout is indicated. As expected, deletions coincided with mono-allelic dropout, and thus we also report the portion of the genome with allelic dropout “excluding deletions” – this is an indicator of our sensitivity to detect mutations.Panel D, where available, depicts phylogenetically related cells, which include the number of similar mutations, unique mutations and the proportion of these mutations that are UV and non-UV.
DOI: 10.6084/m9.figshare.25853455.v1
title: EucFACE meteorological forcing data over 2012-2019

description: This is the meteorological forcing data for EucFACE over 2012-2019 period.
DOI: 10.6084/m9.figshare.19754665.v1
title: Supplement-2 = Madrona_Marsh_Preserve Invertebrates taxa table version-2 Fiesler-2016.xls

description: Supplementary dataset 2 for: Emile Fiesler and Tracy Drake. 2016. "Macro-invertebrate Biodiversity of a Coastal Prairie with Vernal Pool Habitat" Biodiversity Data Journal, Volume 4, Number e6732 (27 April, 2016). doi: 10.3897/BDJ.4.e6732 Open access: http://bdj.pensoft.net/articles.php?id=6732 <br> <strong>Abstract</strong> The California Coastal Prairie has the highest biodiversity of North America's grasslands. It also has the highest percentage of urbanization. The most urbanized part of the California Coastal Prairie is the southernmost area, located in Los Angeles County. This southernmost region, known as the Los Angeles Coastal Prairie, was historically dotted with vernal pools, and has a unique biodiverse composition. More than 99.5% of its estimated original 95 km2 (23,475 acres), as well as almost all vernal pool complexes, have been lost to urbanization. The Madrona Marsh Preserve, in Torrance, California, safeguards approximately 18 hectares (44 acres) of Los Angeles Coastal Prairie and includes a complex of vernal pools. Its aquatic biodiversity had been studied, predominantly to genus level, but its terrestrial macro-invertebrates were virtually unknown, aside from butterfly, dragonfly, and damselfly observations. In order to better understand the biodiversity at the Madrona Marsh Preserve, a minimally-invasive macro-invertebrate inventory was conducted. The results of this inventory, with 689 invertebrate organisms recorded, covering 8 phyla, 13 classes, 39 orders, and 222 families, are presented in this document. <br>
DOI: 10.6084/m9.figshare.24289456.v1
title: A Causal Graph Attention model insensitive to Missing data

description: <b>A missing data-tolerant spatiotemporal prediction approach considering geospatial heterogeneity</b>
DOI: 10.6084/m9.figshare.21815019.v1
title: Supplementary Material for: Laparoscopic versus open approach for Siewert-type II/III adenocarcinoma of the esophagogastric junction: A systematic review and meta-analysis

description: Introduction Due to the specific location, the potential advantages of laparoscopic gastrectomy (LG) compared with open gastrectomy (OG) for Siewert II/III adenocarcinoma of the esophagogastric junction (AEG) remain uncertain. The current study aimed to compare the short- and long-term outcomes of LG versus OG in treating Siewert type II/III adenocarcinoma. Methods We searched PubMed, Embase, Web of Science, Medline (hosted by Ovid), and the Cochrane Library for publications, till July 2022 and then used the Revman5.3 software for statistical analysis. Results Ten publications from 10 medical centres were included, with 1516 cases from the LG group and 1219 from the OG group. Meta-analysis results showed that the LG group was superior to the OG group in intraoperative blood loss, hospital stay, lymph nodes retrieved, time to ambulation, time to first flatus, time to diet, 5-year overall survival, and 5-year disease-free survival. There was no significant difference between the two groups in operative time, overall complications, proximal margin, distal margin, pulmonary infection, anastomotic leakage, mortality, ileus, or absolute infection. Conclusions Compared with OG, LG is associated with better surgical and long-term outcomes in Siewert type II/III AEG. LG is a safe and feasible option for treating Siewert type II/III AEG. However, studies with large sample sizes, long follow-up periods, and rigorous designs are needed for verification.
DOI: 10.6084/m9.figshare.12578447.v1
title: JVASP-65373 to JVASP-66256

description: JVASP-DFT input/output files
DOI: 10.6084/m9.figshare.16611553.v1
title: Aged BM sorts data Figure 1

description: Aged BM sorts data Figure 1<br>Caspase 3/7 and DAPI negative CD34+ cells were gated in order to sort CD34+ and CD34- BM<br>
DOI: 10.6084/m9.figshare.27144528.v1
title: The corpus of 80 rubrics for assessing interpreting

description: In the project, we conducted a systematic review to search for and inventorize rubrics used to assess the quality of interpreting.
DOI: 10.6084/m9.figshare.21557808.v1
title: Supplementary Material for: IRF1 Is Required for MDA5 (IFIH1) Induction by IFN-α, LPS, and poly(I:C) in Murine Macrophages

description: Melanoma differentiation-associated protein 5 (MDA5) induces type I interferons (IFNs) after the recognition of viral RNA. In addition, gain-of-function mutations in the interferon induced with helicase C domain 1 (<i>IFIH1</i>) gene, which encodes MDA5, lead to type I interferonopathies. Here, we show that <i>Mda5</i> is highly expressed in murine macrophages and is regulated by pro-inflammatory stimuli such as the cytokines IFN-α and IFN-γ, the TLR ligand LPS, and a mimic of dsRNA, poly(I:C). <i>Mda5</i> induction is mediated through the production of reactive oxygen species. The induction by IFN-α or LPS occurs at the transcriptional level since the <i>Mda5</i> mRNA half-life before and after induction is very stable. Interestingly, STAT1 is required for <i>Mda5</i> induction by IFN-α, LPS, or poly(I:C). The time course of induction of at least 3 h and the need for protein synthesis indicate that <i>Mda5</i> requires an intermediate protein for transcription. In transient transfection experiments, we found that a 105-bp fragment of this gene, between −1153 and −1258 bp relative to the transcription start site, is required for transcription. In this specific region, we observed a sequence containing an IRF-binding motif, which, when mutated, abolishes the induction of <i>Mda5</i>. This sequence is strongly conserved in the <i>IFIH1</i> promoters of eutherian mammals and in other distant species. Kinetic experiments, chromatin immunoprecipitation assays, and gene-silencing experiments revealed that IRF1 is required for induction of <i>Mda5</i> expression.
DOI: 10.6084/m9.figshare.884542.v1
title: Euler angles and rotation matrices

description: These two IDL routines can be used to transform Euler angles to a rotation matrix, and vice-versa (see individual files for more details). Please refer to Gagné et al. 2014 (see link) when using these routines.
DOI: 10.6084/m9.figshare.5548537.v1
title: Cluster 1 trees

description: Maximum likelihood trees for cluster 1. Accompanies Figure 5.
DOI: 10.6084/m9.figshare.7101395.v1
title: Coexistence of optic pit and coloboma of iris, lens, and choroid: a case report

description: ABSTRACT A 42-year-old woman was admitted to our clinic with a complaint of glare in both eyes. Biomicroscopic examination of both the eyes revealed iris and lens colobomas in the inferior quadrant. Fundus examination of the right eye revealed an oval and gray inferotemporal optic pit and two choroid colobomas in the inferior quadrant. In the left eye, two choroid colobomas were detected that were inferior to the optic nerve head. Furthermore, a 21-year-old man presented to our clinic for a routine ophthalmologic examination. Bilateral biomicroscopic examination was normal. Fundus examination of the left eye revealed an oval and gray inferotemporal optic pit and a choroid coloboma that was inferior to the optic nerve head. Here we describe optic pits co-occurring with iris, lens, and choroidal colobomas. On the basis of these cases, a defect in the closure of the embryonic fissure is the most plausible etiology of the optic pit.
DOI: 10.6084/m9.figshare.26131873.v1
title: China’s crop-specific embodied GHG emission inventory

description: This study constructed a high-resolution China's provincial crop-specific embodied GHG emission inventory for years 2007, 2010, 2012, 2015, and 2017. The inventory quantifies embodied GHG emissions per unit yield and per unit area for 28 staple crops across 30 Chinese provinces, providing valuable insights into the status and structure of emissions across diverse crops and regions. This dataset offers essential information for formulating targeted and effective emission mitigation strategies for crop farming in China, ultimately contributing to the nation's carbon neutrality goals.
DOI: 10.6084/m9.figshare.5125183.v1
title: Supplementary Material for: Thymosin α<sub>1</sub> Activates Complement Receptor-Mediated Phagocytosis in Human Monocyte-Derived Macrophages

description: Thymosin α<sub>1</sub> (Tα1) is a naturally occurring thymic peptide used worldwide in clinical trials for the treatment of infectious diseases and cancer. The immunomodulatory activity of Tα1 on innate immunity effector cells has been extensively described, but its mechanism of action is not completely understood. We report that Tα1-exposed human monocyte-derived macrophages (MDMs) assume the typical activated morphology also exhibited by lipopolysaccharide-activated MDMs, but show a comparatively higher ability of internalizing fluorescent beads and zymosan particles. Tα1 exposure also promptly and dramatically stimulates MDM phagocytosis and killing of <i>Aspergillus niger</i> conidia starting as soon as 30 min after challenge. The effect is dose dependent and early coupled to low transcription of the proinflammatory cytokines tumor necrosis factor α and interleukin-6 and unmodified Toll-like receptor expression. The Tα1-stimulated phagocytosis is strictly dependent on the integrity of the microtubule network and protein kinase C activity and occurs by a variation in the classic zipper model, with recruitment of vinculin and actin at the phagosome exhibiting a punctate distribution. These findings indicate that, in human mature MDMs, Tα1 implements pathogen internalization and killing via the stimulation of the complement receptor-mediated phagocytosis. Our observations document that Tα1 is an early and potent activator of innate immunity and reinforce the concept of its pleiotropy.
DOI: 10.6084/m9.figshare.7654109.v1
title: Additional file 1: of Genome-wide Association Study of a Panel of Vietnamese Rice Landraces Reveals New QTLs for Tolerance to Water Deficit During the Vegetative Phase

description: Table S1. List of the 190 accessions used in the experiment. Table S2. Experiment map. Table S3. Standard evaluation score (SES) of drought sensitivity and recovery at vegetative stage (IRRI, 2002). Table S4. Abbreviations and full name of traits monitored in this study. Table S5. Descriptive statistics of the full panel for selected traits. RWC_T0, relative water content before drought treatment; RWC_T1 to RWC_T4, relative water content after 1 to 4 weeks of drought stress; RWC_S1 to RWC_S4, slope of relative water content after 1 to 4 weeks of drought stress; Score1 to Score4, drought sensitivity score after 1 to 4 weeks of drought stress; Recovery, recovery ability; RCGR, relative crop growth rate. Table S6. Correlation matrix between examined traits in the full panel computed by Pearson method (below the diagonal). Probabilities above the diagonal (in bold, significant at P
DOI: 10.6084/m9.figshare.19626672.v1
title: SoMo.ml-EU Layer 1

description: SoMo.ml-EU provides high-resolution (0.1°) daily soil moisture data generated from machine learning trained with in-situ measurements. Soil moisture data are available at three different depths (0-10 cm, 10-30 cm, 30-50 cm) for Europe over the period 2003-2020. Data in NetCDF.
DOI: 10.6084/m9.figshare.9117092.v3
title: secondary_structures_of_eukaryotic_group_II_introns_rfam_set(yadd)

description: secondary structures of eukaryotic group II introns rfam set (yadd)