cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.19534854.v1
title: Preferential translation of p53 target genes

description: The transcription factor p53 exerts its tumour suppressive effect through transcriptional activation of numerous target genes controlling cell cycle arrest, apoptosis, cellular senescence and DNA repair. In addition, there is evidence that p53 influences the translation of specific mRNAs, including translational inhibition of ribosomal protein synthesis and translational activation of MDM2. A challenge in the analysis of translational control is that changes in mRNA abundance exert a kinetic (passive) effect on ribosome densities. In order to separate these passive effects from active regulation of translation efficiency in response to p53 activation, we conducted a comprehensive analysis of translational regulation by comparative analysis of mRNA levels and ribosome densities upon DNA damage induced by neocarzinostatin in wild-type and TP53<sup>−/−</sup> HCT116 colorectal carcinoma cells. Thereby, we identified a specific group of mRNAs that are preferentially translated in response to p53 activation, many of which correspond to p53 target genes including MDM2, SESN1 and CDKN1A. By subsequent polysome profile analysis of SESN1 and CDKN1A mRNA, we could demonstrate that p53-dependent translational activation relies on a combination of inducing the expression of translationally advantageous isoforms and <i>trans</i>-acting mechanisms that further enhance the translation of these mRNAs.
DOI: 10.6084/m9.figshare.25902229.v2
title: Genome assembly data for <i>L. apetalum</i>

description: Genome assembly data for L. apetalum, including the corrected assembly genomes, gene sequences, protein sequences, and gff3 file.
DOI: 10.6084/m9.figshare.27991556.v1
title: Supplementary Material for: Low-grade adenosquamous carcinoma of the breast: a case report

description: Background: Low-grade adenosquamous carcinoma (LGASC) is categorized as a metaplastic carcinoma, but differs from other types of metaplastic carcinoma in having a more favorable prognosis. Due to its rarity and unusual and inconsistent presentation, there is little information available regarding its characteristics, making correct diagnosis a challenge. 
Case presentation: We report herein the case of a 54-year-old Japanese woman who presented with a lump in her left breast. She was found to have a benign lesion which continually relapsed, necessitating repeated excisions, ultimately leading to the diagnosis of LGASC after the third excision. Guidelines for the treatment of LGASC emphasize complete tumor excision, with adjuvant therapies only considered in cases with positive lymph node metastasis. Consequently the patient underwent total mastectomy but postoperative chemotherapy was not administered, and the patient was followed up with regular observation. By 20 months postoperatively, there was no sign of recurrence.
Conclusion: LGASC has distinctive pathological features of the intimate admixture of well-developed glands and solid squamous cell nests within a fibrotic or cellular spindle stroma. It is difficult to determine preoperatively with cytology or needle biopsy because LGASC mimics benign tumors. It is typically triple-negative, but it has an indolent behavior. Adjuvant therapy after surgery is considered unnecessary for triple-negative status, but there is no clear evidence. We aimed to provide more data on the disease characteristics, presentation, and treatment outcome. Accumulation of further evidence is warranted to refine diagnostic and therapeutic strategies of LGASC.
DOI: 10.17632/b4cvrb7f8g
title: A 3D road surface topography dataset of an entire route

description: This dataset represents the 3D topography of the road surface in the entire route of 27 km long located in the UK. The first purpose of the dataset is to test numerical programs that need the road surface topography as input. The dataset is composed of 2658 text files and each representing a section of that route.
DOI: 10.17632/phrmytzyss
title: Cell Stem Cell source data

description: whole membrane westerns blots and FACs gating strategy for figures in manuscript
DOI: 10.6084/m9.figshare.23734053.v2
title: Problem set and raw data for Fig4d

description: Problem set and raw data for Fig4d
DOI: 10.6084/m9.figshare.25713261.v1
title: Global Viridian tree

description: The global Viridian tree from the preprint of "Addressing pandemic-wide systematic errors in the SARS-CoV-2 phylogeny". We provide the same tree in two formats: JSONL and .pb.
DOI: 10.6084/m9.figshare.25834200.v1
title: Additional file 1 of Mixed-method evaluation study of a targeted mass drug administration of long-acting anti-malarials among children aged 3 months to 15 years in the Bossangoa sub-prefecture, Ouham, Central African Republic, during the COVID-19 pandemic

description: Additional file 1.
DOI: 10.6084/m9.figshare.28999229.v1
title: <b>Adaptation invariant concentration discrimination in an insect olfactory system</b>

description: Neural responses evoked by a stimulus reduce upon repetition. While this adaptation allows the sensory system to attend to novel cues, does information about the recurring stimulus, particularly its intensity, get compromised? We explored this issue in the locust olfactory system. We found that locusts’ innate behavioral response to odorants varied with repetition and stimulus intensity. Counter-intuitively, the stimulus-intensity dependent differences became significant only after adaptation had set in. Adaptation altered responses of individual neurons in the antennal lobe (neural network downstream to insect antenna). These response variations to repetitions of the same stimulus were unpredictable and inconsistent across intensities. Although both adaptation and intensity decrements resulted in an overall reduction in spiking activities across neurons, these changes could be disentangled and information about stimulus intensity was robustly maintained by ensemble neural responses. In sum, these results show how information about odor intensity can be preserved in an adaptation-invariant manner. [This repository is the dataset associated with this publication]
DOI: 10.6084/m9.figshare.5263579.v1
title: Spherical projection

description: The program and code for remapping a cubemap of 6 panoramic images that are 128x128 pixels with a fov of 95 degrees. Uses visual studio 2013, c++ code and requires openCV
DOI: 10.17632/7hmrbbbv39
title: ant3d_gui

description: "The Analysis tools of three-dimensional weather radar data: ANT3D was originally developed at the National Research Institute for Earth Science and Disaster prevention (NIED) to retrieve three-dimensional precipitation and wind fields of convective storms. The source codes were written by FORTRAN. In 2013, Kagoshima University made a significant revision of ANT3D to analyze volcanic eruption clouds. The main revisions were improvements of the temporal and spatial interpolation of radar data and the estimation of advection vector which is necessary for the temporal interpolation." (From Maki and Kobori, 2020) Two programs ʹANT3D_GUIʹ and ʹCAPPI viewerʹ are available here. These programs are still under development. References Maki, M., Kobori, T., 2020. Construction of Three-Dimensional Weather Radar Data of Volcanic Eruption Clouds. MethodsX. (submitted)
DOI: 10.17632/hygb8rk5zj
title: Western blot

description: Western blot obtained from the equipment and software used for the analysis. The images obtained without modifications are shown.
DOI: 10.25452/figshare.plus.24679662.v1
title: File 26_mox files comfortable speed.

description: This data belongs to a manuscript submitted to Data in Brief, in which the content and lay-out of this data is described in detail. Data overviews (including figures and tables for age and gender groups) can be found at OSF | Normative 3D gait data of healthy subjects walking at three different speeds on an instrumented treadmill in virtual reality.A normative gait dataset of 246 healthy adults (122 men / 124 women, range in age 18-91 years, body weight 46.80-116.10 kg, height 1.53-1.97 m and BMI 18.25-35.63 kg/m<sup>2</sup>) is presented and publicly shared for three walking speed conditions.Three dimensional gait analysis was performed at the Computer Assisted Rehabilitation Environment (CAREN) at the Maastricht University Medical Centre (MUMC+). Subjects walked on the instrumented treadmill surrounded with twelve 3D cameras, three 2D cameras and a virtual environment projected on a 180° screen using the Human Body Lower Limb Model with trunk markers (HBM-II) as biomechanical model.Subjects walked at comfortable walking speed, 30% slower and 30% faster. These walking speed conditions were applied in a random sequence. Comfortable walking speed was determined using a RAMP protocol: subjects started to walk at 0.5 m/s and every second the speed was increased wit 0.01 m/s until comfortable speed was reached. The average of three repetitions was considered the comfortable speed. For each walking speed condition, 250 steps were recorded.The 3D gait data was collected using the D-flow CAREN software. Raw data were processed in Matlab (Mathworks 2016), including quality check, step determination and the exportation of data to xls. Processed data includes spatiotemporal parameters, medio-lateral (ML) and back-forward (BF) margins of stability (MoS), 3D joint angles, anterior-posterior (AP) and vertical GRFs, 3D joint moments and 3D joint power of both legs.The attached files include he raw data presented as .mox files for each adult for walking at comfortable speed. The .mox files contain subject data (e.g. gender, body mass, knee and ankle width), marker position and force plate data, kinematic data (joint angles), kinetic data (GRF, joint moment, joint power) generated by CAREN software (D-flow).The title of this file (26_mox files) corresponds to the associated manuscript (submitted to Data in Brief).
DOI: 10.6084/m9.figshare.23544482.v1
title: Effect of Cold Chain on Chicken Egg Quality in a Simulated Post Washing Processing and Consumer Storage Model

description: ABSTRACT This study assessed the effect of the cold chain on egg quality in a model simulation of post-washing processing and consumer storage. Post-washed eggs were assigned to 12 groups that simulated the conditions of temporary storage after washing (step 1; 7°C or 25°C for 1 day), transportation (step 2; 7°C or 30°C for 8 h), and selling or storage (step 3; 7°C, 25°C or 30°C for 4 weeks). The freshness and microbial characteristics of the eggs were analyzed for 4 weeks. High-temperature conditions in steps 1 or 2 resulted in reduced quality and more bacteria on eggshells, and this egg quality deterioration worsened after storage for over 2 weeks. In step 3, the quality of the eggs stored at 7°C was maintained during the entire storage, whereas the eggs stored at 25°C had lower quality and broken vitelline membranes in week 4, and the eggs stored at 30°C were spoiled. Eggs should be stored from post-washing until storage by consumers in a cold environment without interruption of temperature control to maintain quality and safety. Consumers must be aware that eggs should be stored at refrigerator temperature.
DOI: 10.17632/3rw227zxt7
title: Manufacturing Data Shared Facility - Discrete-Event Simulation

description: This data set was generated using Arena Simulation
DOI: 10.17632/kf3cwknx4d
title: Legume: A free implementation of the guided-mode expansion method for photonic crystal slabs

description: We describe legume, a free electromagnetic solver that implements the guided-mode expansion method for patterned multilayer waveguides, or photonic crystal slabs. legume has a built-in tool for automatic differentiation, which makes it suitable for the inverse design of photonic crystal structures with desired physical properties. Compared to a previous version of the method (M. Minkov et al., 2020 [12]), here we introduce several new features of the code, we discuss additional technical aspects of the method and its numerical implementation. The novel features that are treated in this paper include: (i) the separation of modes according to their mirror symmetry with respect to a vertical symmetry plane of the photonic structure, (ii) the problem of polarization mixing in coupling to far-field radiation modes, and (iii) the description of active two-dimensional layers through a suitably formulated radiation-matter coupling Hamiltonian, allowing to describe the physics of both weakly and strongly coupled exciton-photon modes, the latter leading to photonic crystal polariton eigenmodes. Detailed and direct comparisons with rigorous coupled-wave analysis simulations are used to test the accuracy of the method and the numerical efficiency of the code. These newly added features of the legume code significantly increase the prospective applications of guided-mode expansion, making it a very practical and versatile tool enabling the design of advanced photonic structures and the description of radiation-matter interaction.
DOI: 10.6084/m9.figshare.4046661.v1
title: SACP Article: Brusco, Stolze, Hoffman, & Steinley

description: These data correspond to computational results reported in the paper: "A Simulated Annealing Heuristic for Minimum Correlation Core/Periphery Partitioning of Binary Networks", which is under review at PLOS One. <br>The file description.doc is a Word file that describes all of the Fortran programs, networks, batch files, and auxiliary files used in the project.
DOI: 10.6084/m9.figshare.24455059.v1
title: Data for "<b>Functional Janus Structured Liquids and Aerogels</b>"

description: <b>Title: Raw Data for "Functional Janus Structured Liquids and Aerogels"</b><b>Description:</b>This data archive contains comprehensive raw data associated with the research paper titled "Functional Janus Structured Liquids and Aerogels," accepted for publication in Nature Communications. The dataset encompasses all the essential information presented in the main paper and its supplementary materials, along with the original scanning electron microscope (SEM) files referenced within the paper and supplementary information.
DOI: 10.6084/m9.figshare.26264603.v1
title: Supplementary Tables and Figure Source Data of Yamanaka and Adachi (2024) "Hot springs reflect the flooding of slab-derived water as a trigger of earthquakes" in <i>Communications Earth & Environment</i>

description: This is a data set necessary to interpret, replicate and build upon the methods or findings reported in the article of Yamanaka and Adachi (2024) to be published in Communications Earth & Environment. When you use this data set, please cite the original article.
DOI: 10.6084/m9.figshare.c.3288407_d3.v1
title: Occurrences location shapefile

description: Individual species occurrences represented as point shapefiles.
DOI: 10.6084/m9.figshare.28147038.v1
title: An adaptive adjustment to the R2 statistic in high-dimensional elliptical models

description: The R2 statistic and its classic adjusted version, say R*2, tend to overestimate the multiple correlation coefficient when dealing with multivariate data that exhibit heavy tails and tail dependence. This can result in an incorrect significance of correlation in high-dimensional scenarios. A new adaptive adjustment to the R2 statistic is proposed in this paper, which applies to a general population model that covers the family of elliptical distributions and an independent components model. Consistency and asymptotic normality of the new statistic are established under this general model. These findings are then applied to some fundamental inference problems in high dimensions.
DOI: 10.6084/m9.figshare.6455615.v1
title: Supplementary Material for: Dialysate Potassium and Mortality in a Prospective Hemodialysis Cohort

description: <b><i>Background:</i></b> Studies examining the association of dialysate potassium concentration and mortality in hemodialysis patients show conflicting findings. We hypothesized that low dialysate potassium concentrations are associated with higher mortality, particularly in patients with high pre-dialysis serum potassium concentrations. <b><i>Methods:</i></b> We evaluated 624 hemodialysis patients from the prospective Malnutrition, Diet, and Racial Disparities in Kidney Disease study recruited from 16 outpatient dialysis facilities over 2011–2015 who underwent protocolized collection of dialysis treatment characteristics every 6 months. We examined the association of dialysate potassium concentration, categorized as 1, 2, and 3 mEq/L, with all-cause mortality risk in the ­overall cohort, and stratified by pre-dialysis serum potassium (&lt; 5 vs. ≥5 mEq/L) using case-mix adjusted Cox models. <b><i>Results:</i></b> In baseline analyses, dialysate potassium concentrations of 1 mEq/L were associated with higher mortality, whereas concentrations of 3 mEq/L were associated with similar mortality in the overall cohort (reference: 2 mEq/L): adjusted hazard ratios (aHRs; 95% CI) 1.70 (1.01–2.88) and 0.95 (0.64–1.39), respectively. In analyses stratified by serum potassium, baseline dialysate potassium concentrations of 1 mEq/L were associated with higher mortality in patients with serum potassium ≥5 mEq/L but not in those with serum potassium &lt; 5 mEq/L: aHRs (95% CI) 2.87 (1.51–5.46) and 0.74 (0.27–2.07), respectively (<i>p</i> interaction = 0.04). These findings were robust with incremental adjustment for serum potassium, potassium-binding resins, and potassium-modifying medications. <b><i>Conclusion:</i></b> Low (1 mEq/L) dialysate potassium ­concentrations were associated with higher mortality, particularly in hemodialysis patients with high pre-dialysis serum potassium. Further studies are needed to identify therapeutic strategies that mitigate inter-dialytic serum potassium accumulation and subsequent high dialysate serum potassium gradients in this population.
DOI: 10.17632/f8yn6zvjc9
title: Data for: Adsorption of phenanthroline and its derivatives on Au (111) surface - Influence of substitution on structure and electronic properties

description: These are OUTCAR files of VASP runned optimisations that carry information of coordinates, methodology of systems discussed in the article.
DOI: 10.17632/fs7rwp7fpr
title: Global Stable Isotope Dataset for Surface Water

description: The Dataset consists of three main elements: website data (GNIR data, http://nucleus.iaea.org/wiser/explore, water isotopes website, http://wateriso.utah.edu/waterisotopes), measured data and references data. The dataset encompasses 22389 surface water sampling sites across seven continents. Since 2015, an ecohydrological observation system has been implemented in the Shiyang River Basin in the arid zone of Northwest China to systematically gather surface water stable isotope data, serving as the primary source of measured data. The improvements in isotopic data v1.1 are mainly to remove some duplicates and incorrect data.
DOI: 10.17632/pykfkn5fzr
title: DREEM Hashemite University Jordan Dataset

description: Excel Spreadsheet of results of DREEM questionnaire for Hashemite University Jordan medical students (n=183) after participation in an innovatively (learner-centered) taught course and traditionally taught course within the medical curriculum. Scoring is 0 = strongly disagree, 1 = disagree, 2 = neutral, 3 = agree, 4 = strongly agree. Negatively scored items of the questionnaire have had score adjusted (labelled adj)
DOI: 10.6084/m9.figshare.19236510.v1
title: BB_R_S_raw_snps_and_indels_2.vcf

description: The data represents the variants obtained by whole genome re-sequencing alignment of two species of <i>C. moschata, </i>Papaya ringspot virus resistance (Nigerian Local) and Papaya Ringspot virus susceptible (Butterbush).
DOI: 10.6084/m9.figshare.22225936.v1
title: Data for "Ocean fronts as decadal thermostats modulating continental warming hiatus"

description: Data from ramp-up experiments to analyze continental warming trend and decadal variability. The ramp-up experiments are CESM 1.2 experiments 28 ensembles which were imposed by CO2 forcing gradually increasing until quadrupled
DOI: 10.17632/5x23rjnt3z
title: Simpl' protocol HLPSL specification

description: This file contains HLPSL specification of authenticated key-exchange protocol called Simpl' (based solely on cryptographic one-way hash functions), which is quantum computing resistant and suitable for IoT devices. The HLPSL file can be used with AVISPA formal verification tool.
DOI: 10.17632/78r6yfbmkk
title: Survey data on government risk communication and citizen compliance during the COVID-19 pandemic in Vietnam

description: The data was collected from 467 respondent using an online survey. The survey was conducted from March 31 to April 3, 2020. The dataset includes five major groups of information: (1) socio-economic characteristics of the respondents; (2) the respondents’ self-report on the government risk communications via various information and communication channels; (3) the respondents’ understanding of COVID-19; (4) the respondents’ perception on risks from COVID-19; and (5) the respondents’ compliance with the public health safety measures during the pandemic.
DOI: 10.6084/m9.figshare.12161847.v1
title: India Energy and Emission Inventory 1996-2016

description: This dataset contains energy inventories, emission factors and emission inventories in India 1996-2016. Raw data are collected and compiled from Indian Energy Statistics 2008, 2010, 2011, 2012, 2013, 2014, 2015, 2016, 2017, 2018; Indian Petroleum & Natural Gas Statistics 2011-12, 2012-13, 2013-14, 2014-15, 2015-16, 2016-17, 2017-18; Coal Directory of India 2010-11, 2011-12, 2012-13, 2013-14, 2014-15, 2015-16, 2016-17, 2017-18; DGCI&S.
DOI: 10.6084/m9.figshare.7081076.v1
title: F-(H2O)10 minima obtained at HF and MP2 levels

description: F-(H2O)10 optimized structures, obtained at the HF/6-31G* and MP2/6-311++G** levels. Electronic energy and ZPE included in each file.
DOI: 10.17632/7w5zvr8jgp
title: Indonesia Presidential Candidate's Dataset, 2024

description: The raw data was downloaded by using Python programming with Twitter API. Data comes from the Twitter platform that discusses the issue of Indonesia's 2024 presidential candidate. There are a total of 30,000 data with each candidate breakdown as follows:
• Ganjar Pranowo: October 2022 - April 2023
• Prabowo Subianto: December 2022 - April 2023
• Anies Baswedan: January - April 2023

The data used is data before the determination of presidential candidates, but the topic of the Indonesian presidential election on social media Twitter has been widely discussed. The data obtained will be useful for future research as a comparison in determining the results of the Indonesian Presidential election when compared with data at the time of determining candidates and campaigns as well as data after being elected President (actual results)
DOI: 10.17632/49w9c494wc
title: LINF_180008500

description: Protein of unknown function - conserved; Leishmania infantum (strain JPCM5)
DOI: 10.17632/bzyhpc82vy
title: New insights into Kuroshio Current evolution since the last deglaciation based on paired organic paleothermometers from the middle Okinawa Trough

description: Data for: New insights into Kuroshio Current evolution since the last deglaciation based on paired organic paleothermometers from the middle Okinawa Trough This dataset contains the organic geochemical biomarkers, element ratios, and loss-on-ignition records of sediment core M063-05.
DOI: 10.6084/m9.figshare.11494539.v1
title: lyricalpreferences_moralfoundations_big5personality

description: This is data associated with a line of research that investigated personality traits and moral reasoning styles as precursors to media preferences.