cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.29023259.v1
title: Extended data

description: Extended data to article :<b> </b><b>Routine Sarcopenia Evaluation: A Missing Piece in Crohn’s Disease Management?</b>
DOI: 10.17632/nd64mvxtym
title: Real-Life OR Scheduling Data at UZGent (Mar-Aug 2021)

description: This dataset addresses a specific issue in operating room scheduling, integrating the surgical case planning problem with the short-term surgeon scheduling problem within a one-to-two-week planning horizon. The problem is inspired by real-life situations at Ghent University Hospital (UZGent) in Belgium. The main objective is to efficiently sequence surgeons across different rooms and days, planning their surgical lists to maximize the daily priority attained.

The dataset consists of two parts:

Instances: This part represents real-life environments and includes a case study conducted at UZGent. To gather the necessary instance information, we conducted interviews with key personnel responsible for composing OR schedules and examined the OR logbook from March 2021. This resulted in the collection of data for 24 instances, with each instance representing the activities of a single week. The total number of patients ranges from 50 to 80 for medium-sized instances (e.g., G00) and 100 to 160 for large-sized instances (e.g., G01). Additionally, this part includes higher-level data in the MSS (Master Surgery Schedule) folder for each instance group.

BCnP: This part contains the final solutions reported by the proposed Branch-Cut-and-Price (BCnP) algorithm. BCnP is divided into two subfolders, each containing 24 solutions in XML format, indicated by ["Ins_"]+[instance number][...].XML.

The findings of this research are detailed in our recent study titled "A dedicated branch-price-and-cut algorithm for surgical case planning and surgeon scheduling," which is currently awaiting peer review. Further information, including the DOI, will be provided upon acceptance.

The information regarding the MSS is already described in our study:
Akbarzadeh, B., & Maenhout, B. (2024). A study on policy decisions to embed flexibility for reactive recovery in the planning and scheduling process in operating rooms. Omega, 103061.

Notes:
All files are in HTML format, organized in an object-oriented manner using related tag objects.
Each file starts with a "description" tag that provides a preview of its contents.
DOI: 10.6084/m9.figshare.26053234.v1
title: Ancient developmental genes underlie evolutionary novelties in walking fish

description: Scripts and data for "Ancient developmental genes underlie evolutionary novelties in walking fish" by Herbert et al. 2024.
DOI: 10.25452/figshare.plus.24523198.v1
title: Image Data for "Quantum Computing Dataset of Maximum Independent Set Problem on King’s Lattice of over Hundred Rydberg Atoms" from Exp 31 to 45

description: This is Image Data for Exp 31 to 45 described from "Quantum Computing Dataset of Maximum Independent Set Problem on King’s Lattice of over Hundred Rydberg Atoms". Raw image files are in TIF format, constituting a list of image files structured as a three-dimensional array. The first two dimensions denote the image, while the third dimension represents the stack of images across experimental repetitions. Due to the substantial file size, raw data is segmented into multiple files for the same experiments, named as ‘Exp{Exp#}_X{#}.tif’, where Exp# corresponds to the experiment index, and # is assigned in sequential order. The raw data can be utilized to generate fluorescence data (‘flouAreshape’) and digitized data (‘floudigreshape’), provided in https://doi.org/10.6084/m9.figshare.23828004, using the code (‘Digitze_Data.m’) available on https://doi.org/10.6084/m9.figshare.23911368.Finding the maximum independent set (MIS) of a large-size graph is a nondeterministic polynomial-time (NP)-complete problem not efficiently solvable with classical computations but may be suitable for quantum computation. In recent years, there are growing interests in using Rydberg-atom arrays to solve the MIS problem. Here, we report a set of quantum adiabatic computing data of Rydberg-atom experiments performed with up to 141 atoms randomly arranged on the King’s lattice. A total of 582,916 events of Rydberg-atom measurements are collected for experimental MIS solutions of 733,853 different graphs. We provide the raw image data along with the entire binary determinations of the measured many-body ground states and the classified graph data, to offer bench-mark testing and advanced data-driven analyses for validation of the performance of the Rydberg-atom approach as well as system improvements.
DOI: 10.6084/m9.figshare.21947981.v1
title: Supplementary Material for: Patterns of Interstitial Lung Disease and Prognosis in Antineutrophil Cytoplasmic Antibody-Associated Vasculitis

description: <b><i>Background:</i></b> Interstitial lung disease (ILD) is a common pulmonary manifestation of antineutrophil cytoplasmic antibody-associated vasculitis (AAV). <b><i>Objectives:</i></b> We aimed to clarify the clinical predictors of mortality in a cohort of patients with AAV-related ILD (AAV-ILD). <b><i>Method:</i></b> We retrospectively identified AAV-ILD patients seen at Peking University First Hospital from January 2010 to June 2020 and manually screened for study inclusion. Baseline computed tomography (CT) images were further classified as nonspecific interstitial pneumonia (NSIP), usual interstitial pneumonia (UIP), organizing pneumonia (OP), and unclassified ILD. Disease characteristics and other pulmonary findings including pulmonary function test and bronchoalveolar lavage (BAL) were also evaluated. Multivariable Cox regression analysis was performed to identify clinical predictors of mortality. <b><i>Results:</i></b> The cohort included 204 patients with AAV-ILD, 152 had UIP on CT (AAV-UIP), 39 had NSIP on CT (AAV-NSIP), 3 had OP, and 10 had unclassified ILD. Microscopic polyangiitis was more prevalent in patients with UIP, while granulomatosis with polyangiitis was more common in the NSIP and OP groups, and eosinophilic granulomatosis with polyangiitis was more frequent in patients with unclassified ILD. ILD diagnosis before AAV was more common in patients with either UIP or NSIP patterns. During the median follow-up of 40 months, 44 (21.6%) patients died. One- and 5-year overall survival rates were 88.2% (95% CI, 83.7–92.7%) and 81.0% (95% CI, 74.9–87.1%) for the entire cohort. Patients with UIP patterns had the worst prognosis, while those with NSIP patterns had the best long-term outcome. Specifically, patients with UIP patterns had an approximately 5-fold risk of death compared to those with NSIP. After controlling for potential confounding factors, we observed that each 10% increase in the BAL fluid neutrophil percentage was associated with nearly a 20% increased risk of death (HR 1.195, 95% CI 1.018–1.404). <b><i>Conclusions:</i></b> Clinical characteristics and survival differ between subgroups defined by CT patterns. BAL fluid neutrophilia is an independent predictor of mortality among AAV-ILD patients, and therefore, the clinical utility of BAL at the time of AAV diagnosis should be considered.
DOI: 10.6084/m9.figshare.25688481.v1
title: <b>Enhanced rock weather</b><b>ing</b><b> </b><b>increased soil phosphorus availability and altered</b><b> </b><b>root phosphorus acquisition strategies</b>

description: Enhanced rock weathering (ERW) measures are considered for CO2 removal with potential for additional organic C sequestration potential (Beerling et al., 2020; Goll et al., 2021). The effects of this practice on the soil phosphorus (P) pools and the general mechanisms affecting microbial P cycling, as well as plant P uptake are not well understood. Here, the impact of ERW on soil P availability and root P-acquisition traits were explored through a two-year wollastonite field addition experiment in a tropical rubber plantation.
DOI: 10.6084/m9.figshare.27012037.v1
title: Genome assembly and annotation files of Mactra veneriformis

description: Supporting dataset for genome assembly of the bivalve mollusk <i>Mactra veneriformis</i>
DOI: 10.6084/m9.figshare.11815257.v2
title: Adversity and REF in BPD

description: Dataset ( R format) coming from the EUropean Research NETwork investigating correlates of BPD in adolescence, the European Research Network on BPD, EURNET-BPD (Corcos et al., 2010; Corcos et al., 2013).<br>Code.R : Code to reproduce the analysis of our study
DOI: 10.6084/m9.figshare.5669950.v1
title: Climate-Richness Anolis lizards Datasets (BJLS-5264.R1)

description: This files correspond to the data used in the paper entittled "Climatic and evolutionary factors shaping geographical gradients of species richness in Anolis lizards" (BJLS-5264.R1). We also provided data for phylogenetic metrics (MRD, PD) and regression parameters from geographically weighted regression models (GWR).
DOI: 10.17632/rxppkmwkxj
title: Data for: Origin of the high-temperature Olserum-Djupedal REE-phosphate mineralisation, SE Sweden: a unique contact metamorphic-hydrothermal system

description: Supplementary data of the article
DOI: 10.17632/zg67nkypyn
title: Data for: Identifying the essential nodes in network pharmacology based on multilayer network combined with random walk algorithm
DOI: 10.17632/zpbnvthp8b
title: MCPyV Large T antigen induced atonal homolog 1 (ATOH1) is a lineage-dependency oncogene in Merkel cell carcinoma

description: This data comprises the methylation levels of ATOH1 and the microRNA (miR) -375 in Merkel cell carcinoma (MCC) cell lines. ATOH1 expression is likely to be modulated by differential DNA methylation in the ATOH1 promoter region (&lt;1500 bps before ATG start codon) in MCC cell lines and MCC tissue samples. ATOH1 is a transcriptional activator of miR-375, which is also hypomethylated in classcial MCC cell lines (PeTa, WaGa, MKL-2, MKL-1, UM-MCC52, UM-MCC34, UM-MCC623) compared to variant MCC cell lines (MCC13, MCC26 and UISO). Methylation was measured using the illumina EPIC array. Please see the metadata file for further information.
DOI: 10.6084/m9.figshare.21382011.v2
title: (Table S5) TCGADEPMAP gene essentiality scores

description: TCGADEPMAP gene essentiality scores, rows are gene models and columns are TCGA samples
DOI: 10.6084/m9.figshare.25956079.v1
title: Genome assembly and annotation of C. teeta

description: Genome assembly and annotation of <i>Coptis teeta</i>
DOI: 10.6084/m9.figshare.28546985.v1
title: Supplementary File 3: 75p_NT_MC

description: Supplementary File 3: 75p_NT_MC
DOI: 10.17632/fdn8yy2npn
title: A Complex Hierarchy of Avoidance Behaviors in a Single-Cell Eukaryote, Dexter et al. (Day 17)

description: Videos for Dexter et al. (Day 17)
DOI: 10.6084/m9.figshare.12806675.v1
title: Supplementary Material for: Inter-α-Trypsin Inhibitor Heavy Chain 5 (ITIH5) Is a Natural Stabilizer of Hyaluronan That Modulates Biological Processes in the Skin

description: <b><i>Introduction:</i></b> Hyaluronan (HA) is a major component of the skin that exerts a variety of biological functions. Inter-α-trypsin inhibitor heavy chain (ITIH) proteins comprise a family of hyaladherins of which ITIH5 has recently been described in skin, where it plays a functional role in skin morphology and inflammatory skin diseases including allergic contact dermatitis (ACD). <b><i>Objective:</i></b> The current study focused on the ITIH5-HA interaction and its potential clinical and functional impact in extracellular matrix (ECM) stabilization. <b><i>Methods:</i></b> Studying the molecular effects of ITIH5 in skin, we established skin models comprising murine skin cells of <i>Itih5</i> knockout mice and corresponding wild-type controls. In addition, human dermal fibroblasts with an ITIH5 knockdown as well as a murine recombinant <i>Itih5</i> protein were established to examine the interaction between ITIH5 and HA using in vitro adhesion and HA degradation assays. To understand more precisely the role of ITIH5 in inflammatory skin diseases such as ACD, we generated ITIH5 knockout cells of the KeratinoSens® cell line. <b><i>Results:</i></b> Using murine skin models, ITIH5 knockdown fibroblasts, and a reactive oxygen species (ROS)-mediated HA degradation assay, we proved that ITIH5 binds to HA, thereby acting as a stabilizer of HA. Moreover, microarray profiling revealed the impact of ITIH5 on biological processes such as skin development and ECM homeostasis. Performing the in vitro KeratinoSens skin sensitization assay, we detected that ITIH5 decreases the sensitizing potential of moderate and strong contact sensitizers. <b><i>Conclusion:</i></b> Taken together, our experiments revealed that ITIH5 forms complexes with HA, thereby on the one hand stabilizing HA and facilitating the formation of ECM structures and on the other hand modulating inflammatory responses.
DOI: 10.6084/m9.figshare.9755450.v1
title: mp_is_metal

description: <pre>Matbench v0.1 test dataset for predicting DFT metallicity from structure. Adapted from Materials Project database. Removed entries having a formation energy (or energy above the convex hull) more than 150meV and those containing noble gases.. Retrieved April 2, 2019.</pre>
DOI: 10.17632/y95n9d3b3b
title: Data for: Regional characteristics of children's blood lead levels in China: a systematic synthesis of national and subnational population data

description: In total, 261 articles reporting BLL and/or LPR data for Chinese children from 267 prefectural level cities were published between 2001 and 2020. From key reviewed publications, samples were inclined to be from higher infrastructure areas with a tendency for lower BLLs and often sampling did not include prefecture-level city data; without which results were incomplete. Limited and censored data from only large cities does not accurately represent of the situation of the country as a whole; as larger cities with better infrastructure and policies tend to do better when it comes to environmental protection efforts than most small and medium cities in China.
DOI: 10.6084/m9.figshare.14102594.v2
title: bip2021

description: PGC3 bipolar disorder GWAS summary statistics<br><br>Three sets of GWAS summary statistics are provided: <br>1. bipolar disorder (all cases): pgc-bip2021-all.vcf.tsv.gz2. bipolar I disorder: pgc-bip2021-BDI.vcf.tsv.gz3. bipolar II disorder: pgc-bip2021-BDII.vcf.tsv.gz<br>Please refer to original publication for detailed study info and phenotype definitions.
DOI: 10.6084/m9.figshare.22687891.v2
title: Biogeographical Districts of the Caatinga Dominion: A Proposal Based on Geomorphology and Endemism - Supplementary data

description: These are the supplementary data to the article "Biogeographical Districts of the Caatinga Dominion: A Proposal Based on Geomorphology and Endemism", published in The Botanical Review (https://doi.org/10.1007/s12229-024-09304-5). Our study proposes a subdivision of the Caatinga Dominion into biogeographical Provinces, Subprovinces and Districts, and produced a new geomorphological and biogeographical map to the whole Caatinga.We provide here the geomorphological map (in JPG and PDF formats) and the shapefile used to produce it, to allow readers to create their own maps based on our proposal. We also provide our biogeographical map in high resolution (in JPEG and PDF formats, with and without the Brejos Nordestinos de Altitude enclaves and with and without the borders of the Brazilian states) for download. The shapefiles used to create our biogeographical map are also available here, with the limits of the proposed biogeographical districts. We also provide a GeoPDF with our map, to allow users to use this map in mobile phones during fieldwork. But we call attention that our map is intended to be used as a general map, and the exact border between one unit and other can be a few kilometres away from what is represented in our map. This map is intended to be used in a scale of 1:1,000,000. It is, thus, not a large scale (detailed) map, but a general reference. The exact line between two units in often difficult to determine and users must use this map with caution during fieldwork, specially near the borders between districts.The mapping of the enclaves of humid forests within Caatinga (Brejos Nordestinos de Altitude district) is a research still in progress by Taynara Rabelo-Costa. She kindly provided a preliminary version of her map to allow readers of this article to have an overview of the distribution of these enclaves, but a final version of her map is still being produced and this version should be considered non-final when our study is released.We also provide here a spreadsheet with 329 endemic Caatinga species records in which district each species is known. Some endemic species are widespread within the Caatinga, while others are restricted to one or few districts.We stimulate biogeographers and those mapping biodiversity in Caatinga to create their own maps, for their own study group, based on our proposal.After the release of our first map in Fighshere posted on 2024-08-19, we detected a number of erros in our polygons. We updated the shapefiles and maps for the article and upload here version 2 of our maps and shapefiles. Version 2 is the version used to illustrate our article and should be the version to use until future studies refine our map.
DOI: 10.6084/m9.figshare.23994426.v1
title: dataset1_best_model_weights.h5

description: File contains the PepCNN model weights for Dataset1
DOI: 10.6084/m9.figshare.29092565.v2
title: ASISTENTA MEDICALA GENERALA VOL4

description: Volumul 4 al seriei „Asistența medicală generală – Eseuri”, avându-l ca autor pe Zaharia Tudorel, se distinge printr-o abordare amplă și rafinată a unor teme esențiale din domeniul practicii medicale.Lucrarea se adresează atât studenților și cadrelor medicale, cât și celor pasionați de complexitatea mecanismelor fiziopatologice și clinice din zone variate ale medicinei moderne.
DOI: 10.60893/figshare.jcp.25705749.v1
title: Supplemental Material

description: Document with supplemental information
DOI: 10.17632/gwdmy5rmb6
title: Supplementary files for "Impact of delay of diagnosis of pyoderma gangrenosum on healing outcomes and healthcare utilization: a prospective cohort study"

description: Supplementary files for "Impact of delay of diagnosis of pyoderma gangrenosum on healing outcomes and healthcare utilization: a prospective cohort study"
DOI: 10.6084/m9.figshare.21816399.v1
title: Rabbit Mountain Soil Data

description: This dataset includes the supplementary information spreadsheet submitted by Brooke D. Hunter, Joshua J. Roering, Lucas C.R. Silva, and Kimber C. Moreland as part of the manuscript titled "Geomorphic controls on the abundance and persistence of soil organic carbon pools in erosional landscapes". They contain soil sample depths, total organic carbon % values and separated mineral associated and particulate OC% values.
DOI: 10.6084/m9.figshare.22574266.v1
title: wc2.1_30s_bio_1.tif

description: Bioclim environmental variables 30 arcsec
DOI: 10.6084/m9.figshare.3995757.v1
title: Supplementary Material for: How Much Do We Know about Maintaining Treatment Response after Successful Acne Therapy? Systematic Review on the Efficacy and Safety of Acne Maintenance Therapy

description: After cessation of successful initial acne therapy, patients often experience flares. Consecutive maintenance treatment after successful induction therapy is promoted by guidelines; however, little is known about the efficacy/safety of different maintenance regimens. A systematic review on acne maintenance treatments was conducted. We identified 5 randomized controlled trials [RCTs; adapalene vs. vehicle or vs. no treatment (3 RCTs), adapalene/benzoyl peroxide (BPO) vs. vehicle, combination/monotherapy of minocycline (systemic)/tazarotene/placebo] and 3 non-RCTs on systemic isotretinoin, adapalene/BPO and azelaic acid. The results of adapalene versus vehicle/no treatment varied depending on the reported outcome. The ‘number of patients maintaining at least 50% improvement' counting inflammatory lesions/non-inflammatory lesions with adapalene was superior to vehicle (risk ratio, RR 1.24, 95% confidence interval, CI 1.08-1.43/RR 1.34, 95% CI 1.18-1.59). However, no significant differences were found in 2 of 3 RCTs for maintaining ‘clear/almost clear' or ‘mild acne' or on the global grading score. For the combination regimens of minocycline/tazarotene/placebo, no significant differences were found. Adapalene/BPO was superior to vehicle counting inflammatory lesions/non-inflammatory lesions (RR 1.61, 95% CI 1.31-1.99; RR 1.80, 95% CI 1.44-2.26). Due to the scarcity of studies, few conclusions can be drawn. More homogeneous outcome measures and specific maintenance study designs may lead to more robust findings.
DOI: 10.6084/m9.figshare.14882967.v1
title: JVASP-593.zip

description: JARVIS-DFT data test
DOI: 10.6084/m9.figshare.22186087.v1
title: Ipsilaterally projecting RGC axons (swc, part 3)

description: Reconstructions (swc files, part 3) of ipsilaterally projecting RGC axons electroporated with anti-sense morpholinos and/or EGFP from 3D images acquired using <em>in vivo</em> multi-photon mictroscopy every 10 minutes over 4 or 5 hours in darkness, asynchronous and synchronous stimulation as described in the linked preprint. Mastersheets corresponding to Figure 1 and Figure 2 of the preprint matching the file name with the metadata, including BDNF signaling manipulation, as well as information on missing or extra time points.
DOI: 10.6084/m9.figshare.1553266.v1
title: GRID release 2015-09-22 in CSV

description: The first public release of the GRID database. Please note, the csv download only includes IDs, names & locations. See the JSON download for all metadata including types & relationships Please see here for a descriotion of the database format: https://www.grid.ac/format Release notes: - Database seeded from research institutes in grant data from over 65 global funders. - GeoNames IDs added to all institutes. - NUTS codes added to all European institutes. - Metadata added for the top 3000 Universities, majority of Germany and Australia and many more. - Parent / Child relationships added for 65 super institute members (e.g. Max Planck, Chinese Academy of Sciences, etc.) External identification systems: - HESA institution codes (Higher Education Statistics Agency UK) - UCAS institution codes (Universities and Colleges Admissions Service, UK) - UKPRN institution codes (UK Provider Reference Number, UK) - 4373 Fundref codes
DOI: 10.6084/m9.figshare.20014631.v1
title: The relationship between senile hearing loss and vestibular activity

description: Abstract Introduction: A considerable high number of SNHL patients also suffer from dizziness and related vestibular symptoms. Objective: To evaluate the association of vestibular dysfunction and sensorineural hearing loss (SNHL) in adult patients. Methods: Prospective, double-blinded, controlled studies composed by 63 adult patients without any vestibular symptoms or diagnosed vestibular diseases. Audiological status was measured with pure tone audiometry and the vestibular system was tested with vestibular evoked myogenic potential (VEMP). Patients were divided into two groups: a study group (patients with SNHL) and a control group (patients without SNHL). VEMP results of the groups were calculated and compared. Results: Mean P1 (23.54) and N1 (30.70) latencies were prolonged in the study group (p &lt; 0.001) and the amplitudes of the study group were significantly reduced (p &lt; 0.001). Both parameters of the VEMP test were abnormal in the study group when compared to the control group. Conclusions: These findings suggest that age-related SNHL may be accompanied by vestibular weakness without any possible predisposing factors for vestibulopathy.