cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.23739114.v3
title: <strong>Clinical profile of brain abscesses: Ten year retrospective single-center study</strong>

description: This data file contains 18 cases of brain abscess diagnosed and treated over the course of ten years.
DOI: 10.6084/m9.figshare.28573382.v1
title: Food Insecurity Experience Prevalence and its Associated Factors among Internally Displaced Populations in Northwest Myanmar; A Secondary Data Analysis

description: The original data set is mainly for situational analysis and needs assessment of the conflict-affected population in Sagaing and Northwest Myanmar conducted by Show Your Empathy in 2024. The research and technical focal granted the approval for reanalyzing the data for exploring the food insecurity prevalence and its associated factors with an intention of advocacy for a long-term nutrition security approach for the conflict-affected population.
DOI: 10.6084/m9.figshare.28659983.v1
title: CR98.33 digital model and image set

description: CR98.33 pes print<i>Pteraichnus </i>isp. Cazals Formation, La Plage aux Ptérosauresearly Tithonian, Upper Jurassic
DOI: 10.6084/m9.figshare.7676147.v1
title: Compative genomic of O. mykiss and S. salar for resistance to Sea lice

description: The data is the phenotype and genotype data of the Salmo salar population used in the study "Comparative genomic analysis in Atlantic salmon (<i>Salmo salar</i>) and rainbow trout (<i>Oncorhynchus mykiss)</i>reveals candidate genes associated with resistance to sea lice (<i>Caligus rogercresseyi</i>)"<b></b>
DOI: 10.17632/xwc4vhmbts
title: Phonological Prediction Data

description: The eye-tracking technique and printed-word version of the visual world paradigm were used to examine whether the phonological forms of incoming words would be predicted during speech comprehension. Participants were instructed to listen to Mandarin Chinese spoken sentences while looking at two single-character printed words on the screen, with one being the critical word and the other being an unrelated distractor word. Each of the spoken sentences includes a highly predictable target word. The phonological relationship between the predictable target word and the critical word was systematically manipulated. Four types of the printed critical words were included: predicted Target Word itself, Homophone Competitor (sharing the same pronunciation “consonant-vowel-lexical tone” with the target word), Tonal Competitor (only sharing the same lexical tone with the target word), or an Unrelated Word. One group of participants were required to perform a “word judgment” task (whether the spoken sentence mentions any of the words in the visual scene) in experiment 1a (exp1a_evs.rar), while another group of participants were required to perform a “pronunciation judgment” task (whether the spoken sentence mentions any of the pronunciation of the words in the visual scene) in experiment 1b (exp1b_evs.rar).
In order to explore the underlying mechanism of phonological preactivation, particularly whether the phonological information is preactivated automatically or strategically, the third group of participants were required to perform “word judgment” task (exp2_task1_evs.rar) in one block and “pronunciation judgment” task (exp2_task2_evs.rar) in another block. The order of the task was counterbalanced across participants. In addition, only two types the critical words were included: phonological competitors and unrelated words.
DOI: 10.6084/m9.figshare.15035712.v2
title: Data Ti-6Al-4V (2).csv

description: Processed data of melt pool measurements of Ti-6Al-4V for the manuscript 'Methodology and experimental Validation of analytical Melt Pool Models for Laser Powder Bed Fusion'
DOI: 10.6084/m9.figshare.19232793.v1
title: Data for Stiller et al. Phylogenomic analysis of Syngnathidae reveals novel relationships, origins of endemic diversity and variable diversification rates

description: Data accompanying "Phylogenomic analysis of Syngnathidae reveals novel relationships, origins of endemic diversity and variable diversification rates" in BMC Biology.<br>This repository contains data and scripts accompanying the manuscript "Phylogenomic analysis of Syngnathidae reveals novel relationships, origins of endemic diversity and variable diversification rates" in BMC Biology<br><br>For questions, please contact josefin.stiller@bio.ku.dk.<br>The following files or gtar compressed collections of files are available:<b><br></b><b>Additional_file_2.tsv</b>Table of sampling data for all included specimens.<br><b>assembly.conf</b> Contains the configuration file used by PHYLUCE to build assemblies.<br><b>1_assemblies.gtar</b> Contains the assemblies for all samples generated by SPADES (directory spades-assemblies/contigs/) and ABYSS (directory abyss-assemblies/) and the chosen best assemblies (directory best/contigs/).<br><b>2_238taxa_concatenation.gtar</b> Contains the concatenated matrices for the 238 taxa dataset and IQTREE log files and intermediate files and the tree file.<br><b>3_238taxa_gene_trees_ASTRAL.gtar</b> Contains the alignments, IQTREE log files gene trees intermediate files and the tree files for the individual gene trees for the 238 taxa dataset. Also contains input and output files from ASTRAL-III analysis.<br><b>4_361taxa_concatenation.gtar</b> Contains the concatenated matrices for the 361 taxa dataset and IQTREE log files and intermediate files and the tree file.<br><b>5_361taxa_gene_trees_ASTRAL.gtar</b> Contains the alignments, IQTREE log files gene trees intermediate files and the tree files for the individual gene trees for the 361 taxa dataset. Also contains input and output files from ASTRAL-III analysis.<br><b>6_beast_analyses.gtar</b> Contains BEAST2 run files for the calibration analyses inclduing xml infiles, log and trees files from the runs.<br><b>7_barcodes_blast.gtar</b><br>Contains COI barcodes from BOLD used to blastn against the assemblies (directory best/contigs/ of 1_assemblies.gtar) to assist in species identification and delimitation. Output files are given in directory blast_hits/ as tab delimited text files, which are in blast's output format 6. Not all samples are represented because not all resulted in blast hits against the COI barcodes.<br><b>8_phylogenetic_diversity_endemism.gtar</b>Contains the presence absence matrix and the tables of calculated phylogenetic diversity and phylogenetic endemism.<br><b>9_BioGeoBEARS_biogeographic_reconstructions.gtar</b>Input files, R scripts, output files and plots for ancestral biogeographic range reconstruction and Bayesian Stochastic Mapping (BSM) of Syngnathiformes.<br><b>10_Diversification_rates.gtar</b>Input files, commands, output files for diversification rate analyses of - ClaDS run in Julia- Episodic Birth Death model run in RevBayes.<br><br>
DOI: 10.6084/m9.figshare.21913170.v1
title: Phylogenomic tree of Rhizobiales bacteria

description: Supplementary file associated with Tagirdzhanova et al. 2023. A global survey of lichen symbionts from metagenomes <br> Maximum likelihood phylogenetic tree of Rhizobiales. The tree includes published genomes of Rhizobiales and Rhizobiales MAGs derived from lichen metagenomes (indicated in red). We generated the alignment of 120 marker genes using GTDB-Tk, and calculated the tree using IQ-TREE. Includes two files: 1. rhizobiales.contree: treefile in Newick format 2. rhizobiales_annotated_tree.svg: annotated tree showing the taxonomic assignments of the genomes and presence/absence of genes related to nitrogen fixing and C1 metabolism
DOI: 10.6084/m9.figshare.12231026.v1
title: Beck Anxiety Inventory Questionnaire (Responses).xlsx

description: The data provided here is the results of a survey conducted among a group of Sri Lankan's. The questionnaire included the questions from the Beck Anxiety Inventory, and they were asked to mention the level of anxiety that they thought they had, and their actual score was later calculated and displayed on the sheet as well. These are all anonymous responses.
DOI: 10.6084/m9.figshare.28595594.v3
title: SUPPLEMENTARY MATERIALS_Examining the effectiveness of prostatic hyperplasia education.pdf

description: This file contains the supplementary materials for Examining the effectiveness of prostatic hyperplasia education on the level of participant’s knowledge and awareness . It includes additional data, management options for PH, and methodological details, pretest-posttest questions that support the main findings of the study. The content is provided without author names to ensure anonymity during the peer review process.
DOI: 10.6084/m9.figshare.6941096.v1
title: thesaurus.txt

description: This file contains the thesaurus used for author-name disambiguation.<br>
DOI: 10.6084/m9.figshare.14222486.v1
title: AU Dataset for Visuo-Haptic Object Recognition for Robots

description: This directory contains the data, object list, thimble's 3D design and the technical report (Bonner2021AU.pdf) describing object exploration procedures, experimental set, folder structure, etc.<br><br><b>Citing this dataset:</b><br>Bonner, L. E. R., Buhl, D. D., Kristensen, K., & Navarro-Guerrero, N. (2021). AU Dataset for Visuo-Haptic Object Recognition for Robots. figshare. https://doi.org/10.6084/m9.figshare.14222486<br><br><b>Related References:</b><br>Toprak, S., Navarro-Guerrero, N., & Wermter, S. (2018). Evaluating Integration Strategies for Visuo-Haptic Object Recognition. Cognitive Computation, 10(3), 408–425. https://doi.org/10.1007/s12559-017-9536-7.<br><br><b>Contact:</b><br>For more information, please get in touch with Nicolás Navarro-Guerrero.
DOI: 10.6084/m9.figshare.14839479.v1
title: Data from: More milkweed in farmlands containing small, annual crop fields and many hedgerows

description: See Martin et al. (2021, Agriculture, Ecosystems and Environment 319: 107567, https://doi.org/10.1016/j.agee.2021.107567) for full description of methods.<br>Abstract: Milkweed has declined substantially, with over 80% declines in some agricultural regions. This threatens monarch butterfly (<i>Danaus plexippus</i>) persistence, because monarch larvae feed solely on milkweed. Thus conservation actions are needed to enhance the availability of milkweed, particularly in agricultural landscapes. Conservation actions to date have largely focused on reducing intensive agricultural practices, mainly use of herbicides. However, research suggests that landscape-scale alteration of the cropped portion of an agricultural landscape (the "farmland"), for example, to reduce crop field sizes, can benefit herbaceous plants such as milkweed. Here we collected data on milkweed occurrence and cover in agricultural landscapes in Ontario, Canada, capturing variability in milkweed from field edge to interior by sampling in the interior and along the edges of 68 crop fields. We used these data to evaluate the relative effects of farming practices within the sampled field (e.g. herbicide, fertilizer use) on milkweed versus the effects of mean field size, crop diversity, hedgerow cover, and the proportion of farmland in annual crops in the surrounding landscape. Additionally, we evaluated the effects of these variables on the cover of other herbaceous plants, to identify which—if any—could benefit milkweed without increasing overall weed cover. We found more milkweed at sites surrounded by landscapes with smaller crop fields, lower crop diversity, and higher cover of annual crops. Milkweed was more likely to occur at sites surrounded by landscapes with more hedgerows. These landscape-scale effects on milkweed were often larger than those of within-field farming practices. Importantly, we found that most variables had opposite effects on milkweed relative to other plants. Thus, altering the landscape to benefit milkweed does not imply an increase in weed cover.<br>
DOI: 10.6084/m9.figshare.28517530.v1
title: Tables S1-9 from Transcriptional meta-analysis and immune cell profiles reveals altered neutrophil dynamics in chronic atrial fibrillation

description: See legends appended.
DOI: 10.17632/6grh8x4hgt
title: LAVA 1.0: A general-purpose python toolkit for calculation of material properties with LAMMPS and VASP

description: We introduce LAVA, a general-purpose python toolkit to provide user-friendly and high throughput calculations for material properties using both LAMMPS and VASP. It contains a set of classes as well as pre-processing and post-processing functions to prepare, execute and extract information from LAMMPS/VASP simulations. An overview of the program structure is provided. The current version contains modules to calculate elastic and mechanical properties such as lattice constant, cohesive energy, cold curve, elastic constants, bulk and shear modulus, volume conserving/non-conserving deformation path, vacancy/interstitial formation energy, surface energy, stacking fault energy, melting point, radial distribution function, and thermal expansion. These functionalities are demonstrated for different interatomic potentials and DFT calculations in Al.
DOI: 10.6084/m9.figshare.22775117.v1
title: Dataset and model code

description: ① environmental data measured by 197 meteorological stations in the Yangtze River Economic Belt; ② Collected samples of the existence of Erigeron Annuus from the Botanical Museum; ③ Model prediction code used.
DOI: 10.6084/m9.figshare.25405435.v1
title: Elsafty_RBCs_Slide_3

description: Each one of (Elsafty_RBCs_Slide_1-25) contains the field images/patches of a specific slide/patient. The names of the patches start with the respective slide/patient number, followed by the unique patch/field number. There is a total of 47,363 patches with 1076x535 pixels size from the 25 slides/patients, the counts of patches per slide/patient are as follows: 1690, 1709, 2697, 2400, 1905, 1803, 2964, 3049, 2464, 2080, 1894, 1852, 2590, 2263, 3328, 983, 1066, 935, 1131, 1237, 1874, 1393, 1277, 1199, and 1580.
DOI: 10.6084/m9.figshare.3560946.v1
title: Appendix A. Estimating calendar days and degree days to spawning employing the autumnal equinox as the onset of temperature dependency in gonadal maturation.

description: Estimating calendar days and degree days to spawning employing the autumnal equinox as the onset of temperature dependency in gonadal maturation.
DOI: 10.6084/m9.figshare.c.3606539_d2.v1
title: Additional file 2 of Combining location-and-scale batch effect adjustment with data cleaning by latent factor adjustment

description: This folder contains all necessary R-Code to reproduce and evaluate the real-data analyses and simulations, as well as Rda-files enabling fast evaluation of the corresponding results. (ZIP 2406 kb)
DOI: 10.17632/ft5w4hznjv
title: Earthquake data files

description: Seismic dataset of the Seven Deep earthquakes
DOI: 10.17632/nb8sbx7f69
title: Solid Phase Condensates RNASeq and HiC

description: This repository contains raw imaging files and analysis code associated with the following study:

Solid phase transitions as a solution to the genome folding paradox


Joan Pulupa1,2, *, Natalie G. McArthur3, *, Olga Stathi2, Miao Wang1, 2, Marianna Zazhytska1, 2, Isabella D. Pirozzolo4, Ahana Nayar5, Lawrence Shapiro1, 2, and Stavros Lomvardas1, 2, & 

1 Department of Biochemistry and Molecular Biophysics, Vagelos College of Physicians and Surgeons, New York, NY 10032, USA

2 Mortimer B. Zuckerman Mind, Brain, and Behavior Institute, Columbia University, New York, NY 10027, USA

3 Department of Biological Sciences, Columbia University, New York, NY 10027, USA

4 Medical Scientist Training Program, Vagelos College of Physicians and Surgeons, New York, NY 10032, USA

5 Barnard College, New York, NY, 10025, USA

* These two authors contributed equally to this work 

& Corresponding author
 
Abstract 
Ultra long-range genomic contacts, which emerge as prominent components of neuronal genome architecture1-3, constitute a biochemical enigma. This is because regulatory DNA elements make selective and stable contacts with DNA sequences located hundreds of Kbs away, instead of interacting with proximal sequences occupied by the same exact transcription factors (TFs)1,4. This is exemplified in olfactory sensory neurons (OSNs), where only a fraction of Lhx2/Ebf1/Ldb1-bound sites interact with each other, converging into highly selective multi-chromosomal enhancer hubs5. To obtain biochemical insight to this process, we assembled OR enhancer hubs in vitro with recombinant proteins and enhancer DNA. Cell-free enhancer hub reconstitution revealed that OR enhancers form nucleoprotein condensates with unusual, solid-like characteristics. Assembly of these solid condensates is orchestrated by specific DNA motifs enriched in OR enhancers, which likely impose distinct homotypic properties to their resident Lhx2/Ebf1/Ldb1 complexes. Single molecule tracking and pulse/chase experiments in vivo confirm that Lhx2 and Ebf1 assemble OR transcription-competent condensates with solid properties in OSN nuclei, under physiological protein concentrations. Thus, DNA sequence-influenced homophilic nucleoprotein interactions generate new types of biomolecular condensates, which may provide a generalizable explanation for the stability and specificity of long-range genomic contacts across cell types.
DOI: 10.17632/s72swtyf4t
title: Data for: Factor Decomposition of China’s Industrial Electricity Consumption Using Structural Decomposition Analysis
DOI: 10.6084/m9.figshare.12098592.v1
title: Raw data and initial results for "A wealth of genotype-specific proteoforms fine-tunes hemoglobin scavenging by haptoglobin"

description: This dataset contains raw mass photometry, intact mass MS, top-down MS, and native MS data, as well as some intial results, including processed mass photometry data and deconvoluted lists from intact mass MS. These data were used to make figures and to draw conclusions in "A wealth of genotype-specific proteoforms fine-tunes hemoglobin scavenging by haptoglobin".
DOI: 10.6084/m9.figshare.14587572.v1
title: 8k MBTI Dataset From Personality Cafe

description: This csv dataset originated from https://www.kaggle.com/datasnaek/mbti-type<br><b>Content</b>This dataset contains over 8600 rows of data, on each row is a person’s:Type (This persons 4 letter MBTI code/type)A section of each of the last 50 things they have posted (Each entry separated by "|||" (3 pipe characters))<b>Acknowledgement</b>This data was collected through the PersonalityCafe forum, as it provides a large selection of people and their MBTI personality type, as well as what they have written.
DOI: 10.6084/m9.figshare.14960100.v2
title: Panel Data for studying the impact of groundwater depletion on agricultural production in India

description: Panel Data for studying the impact of groundwater depletion on agricultural production in India in https://iopscience.iop.org/article/10.1088/1748-9326/ac10de/meta
DOI: 10.6084/m9.figshare.24770238.v1
title: Classified & regression data set

description: In areas where livestock is bred, there is a demand for accurate, real-time, and stable monitoring of ammonia concentration in the breeding environment. Existing electronic nose systems, however, struggle with slow response times and limited detection accuracy. This paper introduces a novel solution: an active pumping ammonia detection system using artificial olfaction based on a biomimetic chamber. We analyzed the biomimetic chamber’s structure and the sensor array's surface airflow to determine the system’s sensing units. The system employs an electronic nose to detect ammonia and ethanol gases in a circulating airflow within a closed box. The captured signals underwent processing, followed by the application of classification and regression models for data prediction. Our results suggest that this system, leveraging the biomimetic chamber, offers rapid gas detection response times. Incorporating a backpropagation (BP) neural network algorithm, it realizes high classification prediction accuracy, with a determination coefficient R² value of 0.99 for single-output regression and over 0.98 for multi-output regression predictions. These outcomes demonstrate the system’s effectiveness in accurately detecting ammonia emitted during livestock fermentation, meeting the ammonia detection requirements of breeding farms.
DOI: 10.6084/m9.figshare.3527909.v1
title: Appendix B. A list of macroinvertebrates recorded classified into taxa with short generation time (&lt;1 yr) and long generation time (&gt;1 yr).

description: A list of macroinvertebrates recorded classified into taxa with short generation time (&lt;1 yr) and long generation time (&gt;1 yr).
DOI: 10.6084/m9.figshare.1200152.v1
title: Systematic review of the use of statistics in restoration ecology of arid areas.

description: Datasheet for a systematic review of the use of statistics in restoration ecology of arid areas. The purpose of this review was to examine the use of statistics in restoration ecology. 369 papers were found using the search terms restor* AND desert in ISI Web of Science. After papers that did not address restoration or were not conducted in arid environment 114 papers remained. These papers were examined and data conserning the use of statistics were extracted. This was examined to assess the use of statistics in the field as well as determine if there were any gaps in statistical analysis.
DOI: 10.6084/m9.figshare.12420818.v1
title: Supplementary Fig.5.xlsx

description: Supplementary Fig.5.xlsx
DOI: 10.6084/m9.figshare.21210983.v1
title: titanic.zip

description: titanic dataset
DOI: 10.6084/m9.figshare.23607768.v1
title: patient43.rar

description: A Patient with fundus images that taken by Ret-cam.
DOI: 10.6084/m9.figshare.29028260.v1
title: Recent taxonomic discoveries suggest a host-symbiont co-migration of Russula subsect.Castanopsidum with Fagaceae in the Americas: alignments and tree files

description: Three members of ectomycorrhizal fungi belonging to <i>Russula</i> subsection <i>Castanopsidum</i> are described from neotropical montane forests dominated by species of <i>Fagaceae</i> in Panama and Colombia. <i>Russula esperanzae</i> sp. nov. from Colombia differs in the field from other members of the subsection by slender longitudinally striated red stipes as well as characteristics of spores and basidia. <i>Russula atroamethystina </i>subsp. <i>atroamethystina,</i> originally described from Costa Rica, is reported for the first time from Panama. Closely related and morphologically similar Colombian collections are described as <i>R. atroamethystina </i>subsp. <i>guacahayoensis</i> subsp. nov. and differ from the typical subspecies by longer hymenial cystidia as well as molecular sequence data. The distribution of this newly described subspecies is restricted to <i>Fagaceae</i> forests east of the Isthmus of Panama. This suggests an allopatric diversification, likely driven by the absence of <i>Fagaceae</i> in the tropical lowland forest of the Darién Gap. <i>Russula esperanzae</i> is exclusively associated with <i>Trigonobalanus excelsa</i>, a tree species of <i>Fagaceae </i>endemic to Colombia. The role of its association with this tree in the evolutionary history of the species is discussed. Based on molecular timing, species of the subsection <i>Castanopsidum</i> started to evolve approximately 15.1 million years ago (mya) and display an amphi-pacific disjunct distribution with an Asian clade that split from the American clade around 11 mya.