cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.25556922.v1
title: Supplementary Material for: Exposure to Progestin 17-OHPC Induces Gastrointestinal Dysfunction through Claudin 1 Suppression in Female Mice with Increased Anxiety-Like Behaviors

description: Introduction: Progestin, commonly used in oral contraception and preventing preterm birth, elicits various off-target side effects on brain and gastrointestinal (GI) functions, yet the precise mechanisms remain elusive. This study aims to probe progestin's impact on GI function and anxiety-like behaviors in female mice.
Methods: Colon stem cells were utilized to explore the mechanism underlying progestin 17-hydroxyprogesterone caproate (17-OHPC)-mediated suppression of claudin-1 (CLDN1), crucial for epithelial integrity. Chromatin immunoprecipitation and luciferase assays identified potential progestin-response elements on the CLDN1 promoter, with subsequent assessment of oxidative stress and pro-inflammatory cytokine release. Manipulation of vitamin D receptor (VDR) or estrogen receptor β (ERβ) expression elucidated their roles in 17-OHPC-mediated effects. Intestine-specific VDR deficient mice were generated to evaluate 17-OHPC's impact on GI dysfunction and anxiety-like behaviors in female mice. Additionally, gene expression was analyzed in various brain regions, including the amygdala, hypothalamus, and hippocampus.
Results: Exposure to 17-OHPC suppressed CLDN1 expression via epigenetic modifications and VDR dissociation from the CLDN1 promoter. Furthermore, 17-OHPC intensified oxidative stress and proinflammatory cytokine release. VDR knockdown partly mimicked, while overexpression of either VDR or ERβ partly restored 17-OHPC-mediated effects. Intestinal VDR deficiency partly mirrored 17-OHPC-induced GI dysfunction, with minimal impact on 17-OHPC-mediated anxiety-like behaviors.
Conclusions: 17-OHPC suppresses CLDN1 expression through VDR, contributing to GI dysfunction in female mice, distinct from 17-OHPC-induced anxiety-like behaviors. This study reveals a new mechanism and potential negative impact of progestin exposure on the gastrointestinal tract, alongside inducing anxiety-like behaviors in female mice.
DOI: 10.6084/m9.figshare.27154458.v1
title: The Role of Small Mitigation Wetlands in Supporting Fall Migrating Waterfowl

description: Results from a bioenergetics study that explores the effect of wetland mitigation quality on waterfowl forage availability and energetic carrying capacity (ECC) across five mitigation wetlands in the Lake Champlain Valley (New York, USA). Data includes vegetation and macroinvertebrate sampling results that occurred from August 15th - September 15th, 2023. Variables measured include plant species, invertebrate class, percent cover, dry mass (g), and number of seed heads. Additional site characteristics were recorded including wetland cover type classification, cover type area, and coordinates. For more information on study design and methods, and to view data dictionaries, please download and view the <b>metadata.html</b> file.To learn more about our research and contact the authors visit https://lucaskemmerling.wixsite.com/lucas-kemmerling or https://malldred.github.io/. <br><br>
DOI: 10.6084/m9.figshare.27280626.v1
title: BuDDI analysis of sciplex3 data

description: In this zipped folder are two folders: <b>data</b> and <b>results</b><br>The sciplex data used in all of the sciplex3 analyses were downloaded from https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM4150378, presented in this paper: DOI: 10.1126/science.aax6234<br><b>data</b><b>data</b> contains one subfolders: <b>single_cell_data</b><b>single_cell_data</b> has the processed single-cell data and the generated pseudobulks used by BuDDI. Within this folder,<br><b>augmented_sciplex_data</b> contains the pseudobulks<b>cibersort_sciplex</b> contains the CIBERSORTx results<b>sciplex</b><b> </b>contains the processed sciplex data<b>results</b>This folder contains several results folders. Each one is specific to an experiment and a model. The naming convention is "model_CellLine". Each model learns all the drug embeddings together.<br><b>buddiM2</b>: the BuDDI model<br><b>bp</b>: BayesPrism<br><b>CVAE</b>: conditional Variational Autoencoder<br><b>PCA</b>: principal components analysis
DOI: 10.6084/m9.figshare.3204175.v1
title: pMTN1907 Manual and Sequence

description: A genbank file containing pseudomolecule sequence for pMTN1907 plasmid<br>A PDF manual for creating deletions with pMTN1907<br>Please cite first description of pMTN1907 in reference:<br>Mol Plant Microbe Interact. 2012 Jul;25(7):877-88. doi: 10.1094/MPMI-08-11-0218.The molecular basis of host specialization in bean pathovars of Pseudomonas syringae.Baltrus DA1, Nishimura MT, Dougherty KM, Biswas S, Mukhtar MS, Vicente J, Holub EB, Dangl JL.<br>http://apsjournals.apsnet.org/doi/abs/10.1094/MPMI-08-11-0218
DOI: 10.6084/m9.figshare.3520601.v1
title: Appendix A. Detailed descriptions of development of multi-scale models with exponentially- and gamma-distributed extirpation time.

description: Detailed descriptions of development of multi-scale models with exponentially- and gamma-distributed extirpation time.
DOI: 10.6084/m9.figshare.20291241.v1
title: Supplementary Material for: No Adverse Effects following Off-Label Magnetic Resonance Imaging in a Patient with Two Deep Brain Stimulation Systems: A Case Report

description: Magnetic resonance imaging (MRI) in patients with implanted deep brain stimulation (DBS) systems is subject to strict guidelines in order to ensure patient safety. Criteria include limits on the number of implanted leads. Here, we describe the case of a 29-year-old patient with generalized dystonia implanted with 4 DBS electrodes and 2 implantable pulse generators, who had an off-label spinal MRI without regard for manufacturer guidance yet suffered no adverse effects. This suggests that manufacturer guidelines might be overly restrictive with regards to limits on implanted DBS hardware. Further research in this area is needed to widen access to this fundamental imaging modality for patients with DBS.
DOI: 10.6084/m9.figshare.16704145.v1
title: Suppelemtary Data.xlsx

description: In this study, continuous flooded as in Control and AWD irrigation water management were proposed. The experiment was conducted at the Department of Agriculture Kelantan Research and Developmental Platform Padang Raja Kelantan, Malaysia and was grown under main and off season relatively. The agronomic performance subjected to plant height and number of tiller were evaluated to determine the significant effect towards the proposed water management and growing season.
DOI: 10.17632/h9dd6hsvc2.1
title: HT Mtb RNA-Seq Paper Data Files

description: Mycobacterium tuberculosis genomics datasets required to produce figures at https://github.com/peterculviner/HT-Mtb-RNA-Seq-Paper-Notebooks.
DOI: 10.6084/m9.figshare.13536986.v1
title: Gene expression of human bone marrow derived stem cells after culture under ultrasound stimulation

description: Gene expression of human bone marrow derived stem cells after culture under ultrasound stimulation for 21 days on PLA, PCL and Janus scaffolds. Gene expression of human bone marrow derived stem cells under identical experimental conditions but adding NFP to the media
DOI: 10.6084/m9.figshare.5241991.v1
title: Erratum: Use of an Amnioport to Maintain Amniotic Fluid Volume in Fetuses with Oligohydramnios Secondary to Lower Urinary Tract Obstruction or Fetal Renal Anomalies

description: <b><i>Objective:</i></b> We describe a technique to maintain amniotic fluid in fetuses with severe oligo-/anhydramnios secondary to lower urinary tract obstruction or fetal renal disease when urine production is inadequate to maintain a normal amniotic fluid volume (AFV). <b><i>Methods:</i></b> An amnioport was inserted into the amniotic space. The catheter was secured to prevent dislodgment and tunneled to a subcutaneous reservoir. The reservoir was accessed as necessary, infusing normal saline to maintain AFV. Pregnancy continued until term or indicated delivery. <b><i>Results:</i></b> Since 2010, 15 patients in this category were considered for an amnioport. Six chose comfort care and one elected percutaneous amnioinfusions. Nine amnioport procedures were performed in eight patients. There were no fetal deaths. All eight had successful restoration and maintenance of amniotic fluid. Delivery ranged from 9 to 96 days after placement (mean 63.7 days). One died due to unrecognized laryngeal web and another one died of pulmonary hypoplasia after preterm premature rupture of membranes. None of the remaining six had pulmonary hypoplasia. Three remain alive. <b><i>Discussion:</i></b> Severe oligo-/anhydramnios in the second trimester secondary to fetal anomalies is almost uniformly lethal due to pulmonary hypoplasia without restoration of amniotic fluid. The amnioport procedure may allow pulmonary survival but commits families to postnatal care decisions regarding pulmonary and renal complications.
DOI: 10.6084/m9.figshare.24648141.v1
title: Assessments of the environmental performance ofglobal companies need to account for company size: supplementary data

description: Enclosed here are all the data generated for the publication: Assessments of the environmental performance of global companies need to account for company size. Rossana Mastrandrea, Rob ter Burg, Yuli Shan, Klaus Hubacek & Franco Ruzzenenti.The included files provide data on the beta and gamma (slope and intercept) for both univariate and multivariate regressions, for every sector/industry, for all the 4 impact indicators and all the 4 size categories. We also included basic statistics for all impact indicators and size variables (correlation, R2 and p-values).
DOI: 10.6084/m9.figshare.22153463.v1
title: A model-based boosting approach to risk factors for physical intimate partner violence against women and girls in Mexico (R-code and data)

description: A model-based boosting approach to risk factors for physical intimate partner violence against women and girls in Mexico (R-code and data)
DOI: 10.6084/m9.figshare.6571319.v1
title: Supplementary Material for: Rapid Electrical Stimulation Increased Cardiac Apoptosis Through Disturbance of Calcium Homeostasis and Mitochondrial Dysfunction in Human Induced Pluripotent Stem Cell-Derived Cardiomyocytes

description: <b><i>Background/Aims:</i></b> Heart failure induced by tachycardia, the most common arrhythmia, is frequently observed in clinical practice. This study was designed to investigate the underlying mechanisms. <b><i>Methods:</i></b> Rapid electrical stimulation (RES) at a frequency of 3 Hz was applied on human induced pluripotent stem cell-derived cardiomyocytes (hiPSC-CMs) for 7 days, with 8 h/day and 24 h/day set to represent short-term and long-term tachycardia, respectively. Age-matched hiPSC-CMs without electrical stimulation or with slow electrical stimulation (1 Hz) were set as no electrical stimulation (NES) control or low-frequency electrical stimulation (LES) control. Following stimulation, JC-1 staining flow cytometry analysis was performed to examine mitochondrial conditions. Apoptosis in hiPSC-CMs was evaluated using Hoechst staining and Annexin V/propidium iodide (AV/PI) staining flow cytometry analysis. Calcium transients and L-type calcium currents were recorded to evaluate calcium homeostasis. Western blotting and qPCR were performed to evaluate the protein and mRNA expression levels of apoptosis-related genes and calcium homeostasis-regulated genes. <b><i>Results:</i></b> Compared to the controls, hiPSC-CMs following RES presented mitochondrial dysfunction and an increased apoptotic percentage. Amplitudes of calcium transients and L-type calcium currents were significantly decreased in hiPSC-CMs with RES. Molecular analysis demonstrated upregulated expression of Caspase3 and increased Bax/Bcl-2 ratio. Genes related to calcium re-sequence were downregulated, while phosphorylated Ca<sup>2+</sup>/calmodulin-dependent protein kinase II (CaMKII) was significantly upregulated following RES. There was no significant difference between the NES control and LES control groups in these aspects. Inhibition of CaMKII with 1 µM KN93 partly reversed these adverse effects of RES. <b><i>Conclusion:</i></b> RES on hiPSC-CMs disturbed calcium homeostasis, which led to mitochondrial stress, promoted cell apoptosis and caused electrophysiological remodeling in a time-dependent manner. CaMKII played a central role in the damages induced by RES, pharmacological inhibition of CaMKII activity partly reversed the adverse effects of RES on both structural and electrophysiological properties of cells.
DOI: 10.6084/m9.figshare.26028745.v1
title: <b>Investigating protistan predators and bacteria within soil microbiomes in agricultural ecosystems under organic and chemical fertilizer applications</b>

description: We provided the feature table and raw Zotu sequences related to bacterial and protistan communities under different fertilizer applications for the project entitled "I<b>nvestigating protistan predators and bacteria within soil microbiomes in agricultural ecosystems under organic and chemical fertilizer applications.</b>"
DOI: 10.6084/m9.figshare.5126254.v1
title: Supplementary Material for: Neural Correlates of Procedural Variants in Cognitive-Behavioral Therapy: A Randomized, Controlled Multicenter fMRI Study

description: <b><i>Background:</i></b> Cognitive behavioral therapy (CBT) is an effective treatment for panic disorder with agoraphobia (PD/AG). It is unknown, how variants of CBT differentially modulate brain networks involved in PD/AG. This study was aimed to evaluate the effects of therapist-guided (T+) versus self-guided (T-) exposure on the neural correlates of fear conditioning in PD/AG. <b><i>Method:</i></b> In a randomized, controlled multicenter clinical trial in medication-free patients with PD/AG who were treated with 12 sessions of manualized CBT, functional magnetic resonance imaging (fMRI) was used during fear conditioning before (t1) and after CBT (t2). Quality-controlled fMRI data from 42 patients and 42 healthy subjects (HS) were obtained. Patients were randomized to two variants of CBT (T+, n = 22, and T-, n = 20). <b><i>Results:</i></b> The interaction of diagnosis (PD/AG, HS), treatment group (T+, T-), time point (t1, t2) and stimulus type (conditioned stimulus: yes, no) revealed activation in the left hippocampus and the occipitotemporal cortex. The T+ group demonstrated increased activation of the hippocampus at t2 (t2 &gt; t1), which was positively correlated with treatment outcome, and a decreased connectivity between the left inferior frontal gyrus and the left hippocampus across time (t1 &gt; t2). <b><i>Conclusion:</i></b> After T+ exposure, contingency-encoding processes related to the posterior hippocampus are augmented and more decoupled from processes of the left inferior frontal gyrus, previously shown to be dysfunctionally activated in PD/AG. Linking single procedural variants to neural substrates offers the potential to inform about the optimization of targeted psychotherapeutic interventions.
DOI: 10.6084/m9.figshare.13055576.v1
title: Supplementary Material for: Hematological and Chemical Profiles in a Porcine Model of Severe Multiple Trauma

description: <b><i>Background:</i></b> Clinical chemistry and hematological tests are widely used to monitor the clinical course of several diseases. However, these parameters are sparse in large-animal models of multiple trauma (MT). Thus, we aimed to provide these missing data to improve future experimental setups in trauma research. <b><i>Methods:</i></b> Male pigs (German Landrace pigs) were randomized into either an MT group (<i>n</i> = 8) including blunt thoracic trauma, tibial fracture, and controlled hemorrhage or a sham group (<i>n</i> = 8) without any trauma. After trauma induction, all animals received intensive care treatment for 72 h under anesthesia, including mechanical ventilation and volume resuscitation. Blood and urine samples were obtained to measure common hematological and chemical parameters before trauma (0 h), after trauma (1.5 h), during resuscitation (2.5 h), after fracture stabilization (3.5 h), and at 12, 24, 48, and 72 h. Statistical analyses were performed using a linear mixed model (group × time) and Welch’s ANOVA. <b><i>Results:</i></b> MT led to a perceptible immunological reaction. Between groups, significantly different time courses of leukocyte counts (<i>p</i> = 0.034) and lymphocyte proportions (<i>p</i> = 0.001) were observed. Moreover, MT changed the time course of total protein (<i>p</i> = 0.006). Significantly lower concentrations compared to sham were found in MT at each single time point starting at 1.5 h to the end of the observation period (all <i>p</i> &lt; 0.05). <b><i>Conclusions:</i></b> Our results indicate that a traumatic insult leads to significant alterations in the immune system already shortly after trauma. Together with the additional catabolic reactions observed, these alterations might contribute to the occurrence of later complications. The presented data provide valid references for further experimental setups with prolonged observation times, especially in similar porcine models of MT.
DOI: 10.6084/m9.figshare.11898141.v1
title: Moringa oleifera transcriptome

description: De novo assembly of Moringa oleifera leaf transcriptome
DOI: 10.6084/m9.figshare.20493042.v5
title: CORMS (DATASET): A GitHub and Gerrit based Hybrid Code Reviewer Recommendation Approach for Modern Code Review

description: CORMS DATASET: This dataset contains the reviews mined from GitHub and Gerrit platforms for analysing the performance of MCR techniques.
DOI: 10.6084/m9.figshare.7814186.v2
title: random media meshes

description: FEM triangular mesh with random polydisperse spherical exclusions<br>
DOI: 10.6084/m9.figshare.14899077.v2
title: Feline behavior and personality survey data

description: ! We noticed that the prior dataset was missing an important column and updated it 12/01/2022 ! <br>Dataset used in the article "Reliability and Validity of Seven Feline Behavior and Personality Traits" by Salla Mikkola, Milla Salonen, Emma Hakanen, Sini Sulkama, and Hannes Lohi
DOI: 10.6084/m9.figshare.12579113.v1
title: JVASP-69854 to JVASP-70899

description: JARVIS-DFT input/output files
DOI: 10.6084/m9.figshare.20115926.v1
title: Supplementary Material for: Impact of Kangaroo Care on Premature Infants’ Oxygenation: Systematic Review

description: <b><i>Introduction:</i></b> Kangaroo care (KC) is defined by the World Health Organization as a method of care consisting in putting premature infants or newborns in skin-to-skin contact with their parents. KC is an effective method of promoting health and well-being of infants and their families. Physiological stability during KC has been widely analyzed, however with controversial results. <b><i>Methods:</i></b> A systematic review was conducted. Electronic databases searched included MEDLINE, Embase, CINAHL, and Scopus. Two authors independently reviewed and extracted information using a data extraction form. The methodological quality of the observational studies was assessed using “STROBE” and the “Cochrane Collaboration tool” for randomized controlled trials. The physiological monitoring parameters included were heart rate (HR), arterial oxygen saturation (SpO<sub>2</sub>), regional cerebral oxygen saturation (rScO<sub>2</sub>), and fractional oxygen extraction (FtOE). <b><i>Results:</i></b> A total of 345 articles were identified. First, 302 articles were excluded by title and then 34 articles after full-text analysis. Finally, a total of 25 studies were included. Physiological parameters monitored (HR, SpO<sub>2</sub>, rScO<sub>2</sub>, and FtOE) showed no significant changes at different study periods: pre-KC, during KC, and post-KC. <b><i>Conclusions:</i></b> We conclude that stable preterm infants receiving or not respiratory support show no significant differences in HR, SpO<sub>2</sub>, FtOE during KC compared to routine incubator care. rScO<sub>2</sub> remains stable during KC with slight upward trend. Further studies with a higher level of methodological quality are needed to confirm these findings.
DOI: 10.6084/m9.figshare.28638671.v1
title: All Data for Deep Physical Priors Enhanced Single-Photon Single-Pixel Imaging

description: All data for deep physical priors enhanced single-photon single-pixel imaging.
DOI: 10.6084/m9.figshare.26828278.v1
title: TBLASTN results for lineage-specific enzyme gene clusters

description: For the 48 lineage-specific enzyme gene clusters predicted to function in peptidoglycan metabolism, we used TBLASTN to align representative protein sequences against genomes that did not encode genes assigned to that gene cluster. Results are reported as query coverage and amino acid identity or "no significant similarity found".
DOI: 10.6084/m9.figshare.19921848.v1
title: COMPARISON OF TWO METHODS OF FIXATION OF SUPRACONDYLAR FRACTURES OF THE HUMERUS IN CHILDREN

description: ABSTRACT Objective: To compare the outcomes of the fixation of complete and displaced supracondylar humeral fractures in children with two different Kirschner wire configurations. Methods: The type of fixation was randomized to either crossed (19 cases), or two divergent lateral Kirschner wires (24 cases). The comparison was made six months later between the two treated groups and each group with the non-fractured elbow (clinical alignment, range of motion, Baumann angle, and lateral humeral capitellar angle). Results: 43 children were evaluated (65% boys) with a mean age of six years and five months. The carrying angle (p = 0.94), extension (p = 0.89), and the Flynn´s criteria (p = 0.56) were similar between the groups. The flexion was slightly smaller for the crossed wire group (p = 0.04), but similar to the uninjured side. The Baumann angle was not different between the two fixations (p = 0.79) and the contralateral side (p = 0.1). The lateral humeral capitellar angle was slightly greater for the lateral pinning (p = 0.08), but with no difference with the uninjured elbow (p = 0.62). No iatrogenic injuries were observed. Conclusion: Both fixations presented similar outcomes that did not significantly affect the carrying angle in relation to the non-fractured side. Level of evidence II, Therapeutic study - Investigating the results of treatment.
DOI: 10.17632/prn6p3fds8.1
title: Ecological Footprint of Microplastics in Coastal and Estuarine Environments of India: Sediment-Water Interface Analysis

description: Microplastic distribution was investigated at different coastal and estuarine regions of India. The chemical nature of microplastic and macroplastic debris was determined using Raman spectroscopy. SEM-EDX was done to analyze the surface morphology of microplastic. The heavy metal concentrations on plastic debris were measured using ICPOES.
DOI: 10.6084/m9.figshare.14160476.v2
title: Figure 2 - Bell states tomography

description: This dataset contains raw current traces acquired during state tomography of prepared Bell states. Matlab scripts appended to the data allow for the reanalysis of the data to recreate figures in the paper.
DOI: 10.25405/data.ncl.21896646.v1
title: Maillard reaction - OD at 420 nm

description: The browning intensity caused by pigment formation in the final stage of the Maillard reaction was measured spectrophotometrically at 420 nm.
DOI: 10.6084/m9.figshare.28643666.v4
title: High-dimentional Multipartite Entanglement Structure Detection with Low Cost

description: High-dimentional Multipartite Entanglement Structure Detection with Low Costif you have any question please connect me rli_buaa@126.com
DOI: 10.6084/m9.figshare.3525581.v1
title: Appendix B. A table of variables extracted from each of the papers.

description: A table of variables extracted from each of the papers.
DOI: 10.6084/m9.figshare.1536467.v4
title: GenFamClust: An accurate, synteny-aware and reliable homology inference algorithm

description: Complete datasets, results and supplementary data for homology and gene family inference. It contains the complete supplementary data.