cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.9162164.v1
title: Tree files (as newick and pdf files) and corresponding alignments for "Early eukaryotic origins and metazoan elaboration of MAPR family proteins"

description: "MAPR_3_protein_alignment_94aa_LG_R5_newick.txt": raw tree file in newick format based on alignment subjected to PREQUAL-filtering and Divvier-clustering. After trimming, the central conserved domain (94 amino acid residues in human PGRCM1) has been extracted and used for tree reconstruction with IQ-TREE (selected model based on ModelFinder: LG+R5). Corresponds to Figure 1 and S1. <br>"MAPR_3_protein_alignment_94aa_LG_R5.tre.pdf": tree as pdf file, colored by lineage and rooted at the NEUFC-clade <br>"MAPR_3_protein_alignment_94aa_trimal0.01.fasta": trimmed 94 aa-alignment used for tree reconstruction <br>"MAPR_3_protein_alignment_126aa_LG_R7_newick.txt": raw tree file in newick format based on 126 amino acid residue alignment after trimming, used for tree reconstruction with IQ-TREE (selected model based on ModelFinder: LG+R7) <br>"MAPR_3_protein_alignment_126aa_LG_R7.tre.pdf": tree as pdf file, colored by lineage and rooted at the NEUFC-clade <br>"MAPR_3_protein_alignment_126aa_trimal0.8.fasta": trimmed 126 aa-alignment used for tree reconstruction
DOI: 10.6084/m9.figshare.16828747.v1
title: SNV output for CYP2D6 and CYP2C19 and copy number data for CYP2D6 (adjusted where indicated) for 95 samples

description: The datasets provide the SNV output for CYP2D6 and CYP2C19 and copy number data for CYP2D6 (adjusted where indicated) for 95 samples genotyped in two batches as described in the paper Carvalho Henriques and Buchner et al. <i>Methodology for clinical genotyping of CYP2D6 and CYP2C19. Translational Psychiatry. </i><i><br></i>The material herein are provided on an “as is” basis only and without warranty or representation (whether express or implied) as to its accuracy or reliability. Anyone who uses the material assumes responsibility for the result and its use. Neither the authors nor any funders are responsible for or accepts liability for any direct or indirect loss or damages arising from or connected to the use of this information.<i></i>
DOI: 10.6084/m9.figshare.24893835.v2
title: Data for Teixido et al. 2023. Post-fire effects in the Cerrado

description: Fire is a major ecological and evolutionary factor promoting biodiversity and maintaining functioning of naturally fire-prone ecosystems. In tropical savannas, plant communities show a set of fire-adapted traits and both flowering and pollination services have the potential to rapidly regenerate after fire, but the effects of this perturbation on plant-pollinator interactions are poorly understood. We evaluated the dynamics of plant community assemblage, floral availability and composition, and pollinator activity and diversity over ten post-fire stand ages along a 14-year post-fire chronosequence in a naturally burned region in the Cerrado, a megadiverse savanna in Brazil. We expect to find a high resilience of plant-pollinator communities and a steady decline in the successional recovery as time since fire proceeds following potential woody encroachment. Along the post-fire chronosequence, vegetation was dominated by shrubs with tubular, white and nectar flowers arranged in inflorescences, while bees were the predominant pollinators. Plant assemblage and flower number showed an initial significant increase but monotonically declined after 7-9 years after fire. Accordingly, pollinator richness and abundance significantly reaching highest peaks in interim periods and a steady decline over time. In contrast, the frequency of community-wide plant life-form, flower functional traits and pollinator diversity remained unaltered over the post-fire chronosequence. We added compelling evidence of a high post-fire resilience of plant-pollinator communities in the Cerrado. Our study reinforces the assumption that fire is one of the most important selective agents driving composition and functioning in this Brazilian biome and improves our understanding in how fire-suppression policies may affect pollination.
DOI: 10.6084/m9.figshare.27917679.v1
title: Geriatric care knowledge, Attitude, and practice and associated factors in Africa dataset

description: This is a dataset used in systematic review and meta-analysis of Health care professionals’ knowledge, attitude, practice, and its associated factors toward geriatric care in Africa
DOI: 10.6084/m9.figshare.10548623.v1
title: Annex 2

description: Data set in MS Excel for Pyae Phyo Kyaw 2019 study in Yangon, Myanmar (JE survey)
DOI: 10.17632/zjptk8y3ds
title: H10_2021_2022

description: The sampled indoor teemperature for 10 households in 2021 and the original code.
DOI: 10.6084/m9.figshare.14784888.v1
title: Primate population transcriptomic data for estimating synonymous and non-synonymous diversity in 10 primate species.

description: Population transciptomic data for 10 primate species used in Brevet and Lartillot, 2021 to get estimates of synonymous and non-synonymous diversity. <br>The data are originally from Perry et al (2012), such as re-formatted, re-analysed by Romiguier et al (2014) and Figuet et al (2016). See README.txt for more information about how to run the scripts on these data.<br>Brevet M and Lartillot N 2021. Reconstructing the history of variation in effective population size along phylogenies. https://www.biorxiv.org/content/10.1101/793059v4.<br>Perry, G. H., Melsted, P., Marioni, J. C., Wang, Y., Bainer, R., Pickrell, J. K., Michelini, K., Zehr, S., Yoder, A. D. et al. 2012 Comparative RNA sequencing reveals substantial genetic variation in endangered primates. Genome Res., 22(4), 602-610.<br>Romiguier, J., Gayral, P., Ballenghien, M., Bernard, A., Cahais, V., Chenuil, A., Chiari, Y., Dernat, R., Duret, L. et al. 2014 Comparative population genomics in animals uncovers the determinants of genetic diversity. Nature, 515(7526), 261-263.<br>Figuet, E., Romiguier, J., Dutheil, J. Y. & Galtier, N. 2014 Mitochondrial DNA as a tool for reconstructing past life-history traits in mammals. J. Evol. Biol., 27(5), 899-910.<br><br>
DOI: 10.6084/m9.figshare.25809196.v1
title: Empirical-statistical downscaling of daily precipitation information in the Nordics

description: R-markdown with recipe for downscaling 24-hr precipitation statistics, focusing on the two key parameters wet-day frequency and wet-day mean precipitation. The tar-archive also includes a PDF-document with results .
DOI: 10.6084/m9.figshare.22262104.v1
title: Supplementary Material for: Clinical Guidelines for Diagnosis and Management of Peutz-Jeghers Syndrome in Children and Adults

description: Background: Peutz-Jeghers syndrome (PJS) is a rare disease characterized by the presence of hamartomatous polyposis throughout the gastrointestinal tract, except for the esophagus, along with characteristic mucocutaneous pigmentation. It is caused by germline pathogenic variants of the STK11 gene, which exhibit an autosomal dominant mode of inheritance. Some patients with PJS develop gastrointestinal lesions in childhood and require continuous medical care until adulthood, and sometimes have serious complications that significantly reduce their quality of life (QOL). Hamartomatous polyps in the small bowel may cause bleeding, intestinal obstruction, and intussusception. Novel diagnostic and therapeutic endoscopic procedures such as small-bowel capsule endoscopy (SBCE) and balloon-assisted enteroscopy (BAE) have been developed in recent years. Summary: Under these circumstances, there is growing concern about the management of PJS in Japan, and there are no practice guidelines available. To address this situation, the guideline committee was organized by the Research Group on Rare and Intractable Diseases granted by the Ministry of Health, Labour and Welfare with specialists from multiple academic societies. The present clinical guidelines explain the principles in the diagnosis and management of PJS together with four clinical questions and corresponding recommendations based on a careful review of the evidence and involved incorporating the concept of the Grading of Recommendations Assessment, Development and Evaluation system. Key Messages: Herein, we present the English version of the clinical practice guidelines of PJS to promote seamless implementation of accurate diagnosis and appropriate management of pediatric, adolescent, and adult patients with PJS.
DOI: 10.17632/d57wxwgt4w
title: A Real-World Test Distribution System with Appliance-Level Load Data for Demand Response and Transactive Energy Studies

description: [1] F. B. dos Reis, R. Tonkoski, B. Bhattarai, and T. M. Hansen, “A Real-World Test Distribution System with Appliance-Level Load Data for Demand Response and Transactive Energy Studies,” IEEE Access, 2021.

Please read the README.pdf file.

Paper abstract:
Research on demand response and transactive energy systems often require granular, appliance-level demand data. However, there is no existing test system with such appliance-level data with proper temporospatial diversity in a realistic distribution system. This paper develops a 240-node real distribution test system with appliance-level demand data for responsive loads. The residential appliance-level demand data are derived from smart meters connected to 1,120 homes in a real distribution system from Iowa State, hereafter called Midwest 240-Node test distribution system. A queueing load model was used to derive the appliance-level data from the smart meter data. The Midwest 240-Node test distribution system provides granular appliance-level information for all homes in the distribution system (i.e., individual appliances that constitute the home load), and the aggregate of all customer load emulates the actual smart meter data. The performance of the Midwest 240-Node test distribution system is evaluated by comparing the aggregated appliance-level demand with the actual measured smart meter data from the utility. The one-year appliance data has a mean absolute percentage error of 2.58 % compared to the measured smart meter data. The test system is modeled in OpenDSS and GridLAB-D and is openly available to researchers to enable demand response and transactive energy studies with active end-users.
DOI: 10.17632/w2zv6tdcn6
title: Journal of Methodology of Social Sciences and Humanities (MSSH);114

description: The main objective of Methodology of Humanities and Social Sciences (MSSH) is to provide an intellectual platform for national and international researchers to discuss their most recent findings related to philosophical foundations and methodology of humanities and social sciences. By doing so, the Journal hopes to improve the status of the field in Iran and in the world and to find solutions to theoretical and practical problems the profession is faced with. Given the importance of the humanities and social sciences and the fundamental role of these sciences in the realization of a coherent and civilized intellectual system, investigating the philosophical and methodological foundations of these sciences and criticizing and evaluating them, as well as attempting to extract Islamic foundations and views in the field of humanities is of great importance. In this regard, the following objectives have been considered as a roadmap for MSSH. To serve this purpose, researchers are encouraged to submit their unpublished, original, full-length papers for potential publication in the journal. The journal is set to publish original articles on a wide range of issues including;

 Study of the relationship between philosophy, philosophy of social sciences and humanities, methodology and research method; 
 The role of philosophy and methodology of social sciences and humanities in the quantitative and qualitative improvement of the social sciences and humanities;
 Comparative study of philosophy and methodology of social sciences and humanities and natural sciences;
 Study of the evolution of philosophy and methodology of social sciences and humanities;
 Comparative examination of quantitative and qualitative research methods;
 Philosophical analysis of concepts used in the social sciences and humanities;
 The study of the philosophical and theological foundations of the production of religious and indigenous social sciences and humanities;
 Methodology of the production of religious and indigenous social sciences and humanities;
 Methodology of using religious texts in social sciences and humanities and social sciences;
 Methodology of Muslim scholars in social studies;
 The deficiencies of the social sciences and humanities in the field of goals, foundations, methods and achievements;
 Philosophical and methodological assessment of studies in the field of humanities and social sciences;
 Philosophical and methodological assessment of studies in the field of Islamic humanities and social sciences;
 Philosophical and methodological assessment of macro policies of the country in the scientific, economic, political, social and cultural fields

To let individual researchers and libraries have access to the most recent research findings in the field, the journal allows open-access to its articles.
DOI: 10.25403/upresearchdata.27612405.v1
title: Aerodynamic loads of a steady gliding grey-headed albatross

description: This data contributed to the PhD thesis titled "Investigating aerodynamic factors in wind-driven grey-headed albatross crash-landings". The work looked into the fine scale wind vectors on Marion Island and the impact that has on fatal crash-landings in grey-headed albatrosses. The dataset given is an Excel file containing the aerodynamic loads extracted from an extensive CFD campaign (174 simulations, at varying speeds, angles of attack and sideslip angles) for a full 3D bill-body-wing-tail configuration of a grey-headed albatross in steady gliding flight.
DOI: 10.6084/m9.figshare.c.3302111_d77.v1
title: Basin characteristics in Europe

description: Basin characteristics in Europe
DOI: 10.21233/ets7-p825
title: Lake Tai ostracode surface sample dataset

description: Raw data for the Lake Tai ostracode surface sample dataset submitted to the Neotoma Paleoecology Database. Data is available through the landing page in JSON format. The landing page referenced by the DOI also contains links to publications and a map-based viewer for the dataset. The Neotoma Paleoecology Database maintains a homepage at https://www.neotomadb.org.
DOI: 10.6084/m9.figshare.23584686.v2
title: Acoustic emission data and rock temeprature data of Wetterstein limestone from experimental laboratory tests

description: Data used for paper Influences driving and limiting the Efficacy of Ice Segregation in Alpine Rocks in GRL by Mayer, Eppes, Draebing
DOI: 10.6084/m9.figshare.28582199.v2
title: Data of the MES test systems

description: Data of the MES test systems.
DOI: 10.6084/m9.figshare.c.3642014_d1.v1
title: MOESM4 of Distinct functional enrichment of transcriptional signatures in pigs with high and low IFN-gamma responses after vaccination with a porcine reproductive and respiratory syndrome virus (PRRSV)

description: Additional file 4. Upstream regulators analysis using Ingenuity Pathway Analysis for the HR and LR vaccinated pigs. As described in material and methods section the expression dataset for HR and LR pigs were analysed independently with Fisher’s exact test. To create this dataset, activation z-score| ≥2 for HR and LR pigs were generated and ranked from the highest to the lowest. Data were considered significant with P value
DOI: 10.6084/m9.figshare.19395146.v1
title: white throated sparrow - fixed difference

description: These files include a list of the fixed SNP and INDEL between white- and tan-striped white throated sparrows. These files include four columns (scaffold, position, genotype of tan birds, genotype of white birds).<br>Reference genome: Zonotrichia_albicollis-1.0.1
DOI: 10.6084/m9.figshare.24734076.v1
title: Final Dataset - Does culture moderate the encoding and recognition of negative cues? Evidence from an eye-tracking study

description: Cross-cultural research has elucidated many important differences between people from Western European and East Asian cultural backgrounds regarding how each group encodes and consolidates the contents of complex visual stimuli. While Western European groups typically demonstrate a perceptual bias towards centralised information, East Asian groups favour a perceptual bias towards background information. However, this research has largely focused on the perception of neutral cues and thus questions remain regarding cultural group differences in both the perception and recognition of negative, emotionally significant cues. The present study therefore compared Western European (<i>n</i> = 42) and East Asian (<i>n</i><i> </i>= 40) participants on a free-viewing task and a subsequent memory task utilising negative and neutral social cues. Attentional deployment to the centralised versus background components of negative and neutral social cues was indexed via eye-tracking, and memory was assessed with a cued-recognition task two days later. While both groups demonstrated an attentional bias towards the centralised components of the neutral cues, only the Western European group demonstrated this bias in the case of the negative cues. There were no significant differences observed between Western European and East Asian groups in terms of memory accuracy, although the Western European group was unexpectedly less sensitive to the centralised components of the negative cues. These findings suggest that culture modulates low-level attentional deployment to negative information, however not higher-level recognition after a temporal interval. This paper is, to our knowledge, the first to concurrently consider the effect of culture on both attentional outcomes and memory for both negative and neutral cues.
DOI: 10.6084/m9.figshare.25289734.v1
title: MYH7 R453C Induced Cardiac Remodeling via Activating TGF-β/Smad2/3, ERK1/2 and Nox4/ROS/NF-κB Signaling Pathways

description: Hypertrophic cardiomyopathy (HCM) is a monogenic cardiac disorder commonly induced by sarcomere gene mutations. However, the mechanism for HCM is not well defined. Here, we generated transgenic MYH7 R453C and MYH6 R453C piglets and found they both developed typically cardiac hypertrophy. Unexpectedly, we found serious fibrosis and cardiomyocyte loss in the ventricular of MYH7 R453C, not MYH6 R453C piglets similar to HCM patients. Then RNA-seq analysis and western blotting identified the activation of ERK1/2 and PI3K-Akt pathways in MYH7 R453C. Expected the increased expression of fetal gene, we noticed the excessed ROS in MYH7 R453C piglet models produced by Nox4 and they subsequently induced inflammation response. In addition, the phosphorylated Smad2/3, ERK1/2, and NF-kB p65 protein in the MYH7 R453C mutation cardiomyocytes reinforced. Furthermore, EGCG, a natural bioactive compound, could be used as a drug to reduce cell death by adjusting significant downregulation of the protein expression of Bax and upregulated Bcl-2 levels in the H9C2 models with MYH7 R453C mutation. In conclusion, our study illustrated that TGF-β/Smad2/3, ERK1/2, and Nox4/ROS pathways have synergistic effects on cardiac remodeling and inflammation in MYH7 R453C mutation.
DOI: 10.6084/m9.figshare.7926893.v1
title: gVCF_NA19159

description: 1000 Genomes gVCF mapped to hs37d5 for NA19159. Complete collection: https://doi.org/10.6084/m9.figshare.c.4414307
DOI: 10.17632/vvyws6ptvd
title: A Pseudomonas Plant Growth Promoting Rhizobacterium and Arbuscular Mycorrhiza differentially modulate the growth, photosynthetic performance, nutrients allocation, and stress response mechanisms triggered by a mild Zinc and Cadmium stress in tomato

description: Supplementary material of manuscript - A Pseudomonas Plant Growth Promoting Rhizobacterium and Arbuscular Mycorrhiza differentially modulate the growth, photosynthetic performance, nutrients allocation, and stress response mechanisms triggered by a mild Zinc and Cadmium stress in tomato
DOI: 10.6084/m9.figshare.12821153.v1
title: The unprecedented outbreak of dengue in Singapore, a dataset of spatiotemporal dengue cases covering the nationwide lockdown period in 2020

description: Dengue, a mosquito-transmitted viral disease, has posed a public health challenge to Singapore residents over years. As in this year 2020, Singapore has been experiencing the unprecedented dengue outbreaks. As of 17 Aug, the cumulative number of dengue cases for this year stands at more than 25000. A fine-grained of dengue cases at an urban scale could give us a feasible way to explore the spatial and temporal dengue risk, as well as reveal reasons for the resurgence. Here, we collect a dataset of weekly dengue cases with the locality of each case. Specifically, our dataset captures all dengue cases with onset date from 15 Feb to 10 July in 2020, which covers the nationwide lockdown period for preventing the pandemics of COVID-19. The locality is matched to a spatial unit with high resolution, whose average coverage is just 1.35 km<sup>2</sup>. The resulting dengue case records with spatial locality and onset week are released in simple formats for easy access to motivating research of dengue epidemics.
DOI: 10.6084/m9.figshare.20409546.v1
title: Metadata: Geospatial data list

description: A list of geospatial data in this data collection.
DOI: 10.6084/m9.figshare.21545436.v1
title: Processed Patients Information

description: This is a table of the 349 patients with the data processed/imputed and formatted in the same format I use for data analysis and the visual interface.
<br>
Columns for dose-values (DX, V5, mean_dose) consist of arrays showing the respective DVH feature where position corresponds to the organ, in the following order:
<br>

 Esophagus, Spinal_Cord, Lt_Brachial_Plexus, Rt_Brachial_Plexus, Cricopharyngeal_Muscle, Cricoid_cartilage, IPC, MPC, Brainstem, Larynx, Thyroid_cartilage, Rt_Sternocleidomastoid_M, Rt_Mastoid, Rt_Parotid_Gland, Rt_Medial_Pterygoid_M, Rt_Lateral_Pterygoid_M, Rt_Masseter_M, Lt_Sternocleidomastoid_M, Lt_Mastoid, Lt_Parotid_Gland, Lt_Submandibular_Gland, Lt_Medial_Pterygoid_M, Lt_Lateral_Pterygoid_M, Lt_Masseter_M, Supraglottic_Larynx, SPC, Rt_Submandibular_Gland, Hyoid_bone, Soft_Palate, Genioglossus_M, Tongue, Rt_Ant_Digastric_M, Lt_Ant_Digastric_M, Mylogeniohyoid_M, Extended_Oral_Cavity, Mandible, Hard_Palate, Lower_Lip, Upper_Lip, Glottic_Area

<br>
Symptom arrays correspond to the rating (0-10) at the given time point in the following order (in terms of weeks since start of Radiation Treatment)

 0, 1, 2, 3, 4, 5, 6, 7 (end of treatment), 13 (6 week followup), 33 (6 Month Followup), 59, 85. 

<br>
The last two datapoint in the symptom ratings are ignored in the data.
DOI: 10.6084/m9.figshare.26892364.v1
title: <b>Acceptor splicing sequence</b>

description: Data for "Difference analysis of sequence composition among different acceptor splicing modes in human genes"