cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5121025.v1
title: Supplementary Material for: Severe Progressive Autism Associated with Two de novo Changes: A 2.6-Mb 2q31.1 Deletion and a Balanced t(14;21)(q21.1;p11.2) Translocation with Long-Range Epigenetic Silencing of <i>LRFN5</i> Expression

description: In a 19-year-old severely autistic and mentally retarded girl, a balanced de novo t(14;21)(q21.1;p11.2) translocation was found in addition to a de novo 2.6-Mb 2q31.1 deletion containing 15 protein-encoding genes. To investigate if the translocation might contribute to developmental stagnation at the age of 2 years with later regression of skills, i.e. a more severe phenotype than expected from the 2q31.1 deletion, the epigenetic status and expression of genes proximal and distal to the 14q21.1 breakpoint were investigated in Ebstein Barr Virus-transformed lymphoblast and primary skin fibroblast cells. The 14q21.1 breakpoint was found to be located between a cluster of 7 genes 0.1 Mb upstream, starting with <i>FBXO33</i>, and the single and isolated <i>LRFN5</i> gene 2.1 Mb downstream. Only expression of <i>LRFN5</i> appeared to be affected by its novel genomic context. In patient fibroblasts, <i>LRFN5</i> expression was 10-fold reduced compared to <i>LRFN5</i> expressed in control fibroblasts. In addition, a relative increase in trimethylated histone H3 lysine 9 (H3K9M3)-associated DNA starting exactly at the translocation breakpoint and going 2.5 Mb beyond the <i>LRFN5</i> gene was found. At the <i>LRFN5</i> promoter, there was a distinct peak of trimethylated histone H3 lysine 27 (H3K27M3)-associated DNA in addition to a diminished trimethylated histone H3 lysine 4 (H3K4M3) level. We speculate that dysregulation of <i>LRFN5</i>, a postsynaptic density-associated gene, may contribute to the patient’s autism, even though 2 other patients with 14q13.2q21.3 deletions that included <i>LRFN5</i> were not autistic. More significantly, we have shown that translocations may influence gene expression more than 2 Mb away from the translocation breakpoint.
DOI: 10.6084/m9.figshare.5890579.v3
title: Matlab Code - calculation of sea level (PRSL)

description: Code: calculation of P<sub>RSL</sub> for both ‘coral’ and ‘range’ type vertical uncertainties, as well as U-series and radiocarbon ages [pdf of Matlab code file]<br>Supplement to Hibbert et al., 2018 (Scientific Data)<br>
DOI: 10.6084/m9.figshare.7654493.v1
title: Salivary gland carcinomas with unusual presentations

description: Salivary gland carcinomas with unusual presentations
DOI: 10.17632/bk6wr6dk2k
title: A cell and transcriptome atlas of the human arterial vasculature reveals roles of developmental master regulators in health and disease

description: Original images of immunofluorescence and RNAscope staining data for the following article: Quanyi Zhao, Albert Pedroza, Disha Sharma, Wenduo Gu, Alex Dalal, Chad Weldy, William Jackson, Daniel Yuhang Li, Yana Ryan, Trieu Nguyen, Rohan Shad, Brian T. Palmisano, João P. Monteiro, Matthew Worssam, Alexa Berezwitz, Meghana Iyer, Huitong Shi, Ramendra Kundu, Lasemahang Limbu, Juyong Brian Kim, Anshul Kundaje, Michael Fischbein, Robert Wirka, Thomas Quertermous, Paul Cheng. A cell and transcriptome atlas of the human arterial vasculature reveals roles of developmental master regulators in health and disease. BIORXIV/2024/612293. https://doi.org/10.1101/2024.09.10.612293
DOI: 10.6084/m9.figshare.1425020.v2
title: 日本の大学図書館における電子書籍のタイトル数および資料費

description: 学術情報基盤実態調査（文部科学省）のデータに基づく。
DOI: 10.6084/m9.figshare.19310939.v1
title: Thermal bioclimatic indicators over Southeast Asia: present status and future projection using CMIP6

description: Spatial distribution of 11 thermal bioclimatic indicators for historical and future projection changes using medium and high (SSP2-4.5 and 5-8.5) emission scenarios only with their associated uncertainty.
DOI: 10.6084/m9.figshare.24070350.v1
title: GCTA exe for windows

description: This an executable file of GCTA in windows
DOI: 10.6084/m9.figshare.28715006.v3
title: <b>DNA signaturing database for Scenedesmaceae</b>

description: DNA signaturing database for Scenedesmaceae
DOI: 10.17632/tdbw9r9jtx
title: Data for: Pre-harvest application of chitosan and postharvest Aloe vera gel coating enhances quality of table grape (Vitis vinifera L. cvs. 'Yaghouti') during postharvest period

description: Data on the effect of pre-harvest application of chitosan and postharvest Aloe vera gel coating enhances quality of table grape (Vitis vinifera L. cv. ‘Yaghouti’) during postharvest period
DOI: 10.6084/m9.figshare.10005047.v1
title: Smaltophilia_wgMLST_all-alleles.fasta.gz

description: This FASTA file contains all loci of the whole genome Multilocus sequence typing scheme for Stenotrophomonas maltophilia, as preprinted in the reference below. <br>The different loci are separated as follows:&gt;STENO_LociNumber_AlleleNumber<br>
DOI: 10.6084/m9.figshare.12401759.v1
title: BreCAHAD for YOLO

description: This is the dataset that includes labels of BreCAHAD dataset in YOLO format, JPEG images and XML label files.<br>The images are labeled with LabelImg program.
DOI: 10.6084/m9.figshare.19383299.v2
title: adhdSexSpecific2018

description: GWAS summary statistics from the Psychiatric Genomics Consortium (PGC
DOI: 10.6084/m9.figshare.24599850.v3
title: Pre-processed data

description: These are the pre-processed data used in the paper, unzipped in the same directory as the code and use them, see the github site for steps on how to use them https://github.com/TimE9527/stDGCC
DOI: 10.6084/m9.figshare.25894654.v1
title: Supplementary Material for: A Descriptive Diagnosis or a Causal Explanation? Accuracy of Depictions of Depression on Authoritative Health Organization Websites

description: Background: Psychiatric diagnoses are descriptive in nature, but the lay public commonly misconceives them as causal explanations. It is not known whether this logical error, a form of circular reasoning, can sometimes be mistakenly reinforced by health authorities themselves. In this study, we investigated the prevalence of misleading causal descriptions of depression in the information provided by authoritative mental health organizations on widely accessed internet sites.

Methods: We searched for popular websites managed by leading mental health organizations and conducted a content analysis to evaluate whether they presented depression accurately as a description of symptoms, or inaccurately as a causal explanation. 

Results: Most websites used language that inaccurately described depression as a causal explanation to depressive symptoms. 

Conclusion: Leading professional medical and psychiatric organizations commonly confound depression, a descriptive diagnostic label, with a causal explanation on their most prominently accessed informational websites. We argue that the scientifically inaccurate causal language in depictions of psychiatric diagnoses is potentially harmful because it leads the public to misunderstand the nature of mental health problems. Mental health authorities providing psychoeducation should clearly state that psychiatric diagnoses are purely descriptive to avoid misleading the public.
DOI: 10.6084/m9.figshare.3843489.v1
title: Supplementary Material for: Phosphorylation of STAT3 in Undifferentiated Pleomorphic Sarcoma Is Correlated with a Favorable Prognosis

description: <strong><em>Objective:</em></strong> The Janus kinase (JAK)-signal transducer and activator of transcription (STAT) pathway plays a role in various biological processes. Phosphorylated STAT3 (p-STAT3) functions as a transcriptional factor, and suppressor of cytokine signaling 3 (SOCS3) is a potential inhibitor of STAT3. Here, we analyzed the status of the JAK-STAT pathway in undifferentiated pleomorphic sarcoma (UPS). <b><i>Methods:</i></b> We performed immunohistochemistry in 79 samples of UPS and Western blotting in 10 frozen samples. We also examined alterations in protein expression in the JAK-STAT pathway after the inhibition of phosphorylated Akt (p-Akt) or extracellular signal-regulated kinase (p-Erk) in vitro. <b><i>Results:</i></b> Immunohistochemically, p-STAT3 and SOCS3 were positive in 59.7 and 55.8%, respectively. Positivity for p-STAT3 was significantly correlated with a better prognosis (p = 0.0006) and negatively with SOCS3 expression (p = 0.0223). Positivity for SOCS3 was significantly correlated with a worse prognosis (p = 0.0001). Western blotting analysis revealed that p-STAT3 expression was lower in tumor than in normal tissue. In vitro results demonstrated that there was no detectable change in the expression of p-STAT3 regardless of the status of p-Akt or p-Erk. <b><i>Conclusion:</i></b> p-STAT3 may be a useful prognostic factor for UPS.
DOI: 10.6084/m9.figshare.5128732.v1
title: Supplementary Material for: L-Carnitine Ameliorates Cancer Cachexia in Mice Partly via the Carnitine Palmitoyltransferase-Associated PPAR-γ Signaling Pathway

description: <b><i>Background:</i></b>L-Carnitine has been demonstrated to ameliorate cachectic symptoms. In the present study, we sought to investigate the role of the peroxisome proliferator-activated receptor-γ (PPAR-γ) signaling pathway in the ameliorative effects of L-carnitine on cancer cachexia in a colon-26 tumor-bearing mouse model. <b><i>Methods:</i></b> The cachectic mice received L-carnitine (p.o.) or etomoxir (i.p.), or pioglitazone hydrochloride (p.o.) or GW9662 (i.p.). The physiological cachexia parameters, biochemical parameters, and serum cytokines were measured. The expression levels of representative molecules in the PPAR-γ signaling pathway were measured by using quantitative real-time polymerase chain reaction (qRT-PCR) or Western blot analysis. <b><i>Results:</i></b> Oral administration of L-carnitine at 9 mg/kg/day improved the cachexia parameters and biochemical parameters in cancer cachectic mice. The elevated serum concentrations of interleukin (IL)-6 and tumor necrosis factor-α (TNF-α) were decreased by L-carnitine. These ameliorative effects of L-carnitine were lessened by the carnitine palmitoyltransferase I (CPT I) inhibitor, etomoxir. The mRNA and protein expression levels of PPAR-α and PPAR-γ were decreased in the livers of cancer cachectic mice and increased after L-carnitine administration, which attenuated the increased mRNA expression levels of sterol-regulatory element-binding protein-1c (SREBP-1c) and fatty acid synthase (FAS). Similar to pioglitazone, L-carnitine augmented the phosphorylation of PPAR-γ and attenuated the expression levels of phospho-p65 and cyclooxygenase (COX)-2. Additionally, the above-mentioned effects of L-carnitine were reversed by GW9662. <b><i>Conclusion:</i></b>L-Carnitine exerts its ameliorative effects in cancer cachexia in association with the PPAR-γ signaling pathway.
DOI: 10.17632/hgz2n5jxhp
title: An Image Dataset of Fruit fly Species 

description: This dataset contains images of fruit fly species namely Bactrocera zonata and Bactrocera dorsalis.  This data is very useful because it can be used for species identification on the other hand this data is important to study and analyze the behavior of fruitflies species. By using this data researchers and entomologists can save their time and effort to visit orchards or fields. This data can be helpful for entomologists, researchers, and farmers. This data can be used for the detection of fruit fly species in any specific area. Temperature, humidity, and moisture sensors data can be related to the growth rate and population density of fruitflies.
DOI: 10.17632/s94bpctvvr
title: Immunofluorescent images and HALO analysis of porous precision-templated scaffolds

description: This repository contains immunofluorescent images and raw data of porous precision-templated scaffolds implanted subcutaneously in LysM-Cre:mTmG or MyD88KO mice.
DOI: 10.6084/m9.figshare.25452019.v1
title: NCC Dataset.xlsx

description: Raw data (Oxygen traces) for non-chemical communication assays. Excel file includes a read me tab with further description and contents
DOI: 10.6084/m9.figshare.24580753.v1
title: Targeted metabolomics of Rapeseeds lateral roots

description: JA,SA etc content in rapeseeds lateral roots.
DOI: 10.6084/m9.figshare.5121592.v1
title: Supplementary Material for: Localization of the Invadopodia-Related Proteins Actinin-1 and Cortactin to Matrix-Contact-Side Cytoplasm of Cancer Cells in Surgically Resected Lung Adenocarcinomas

description: <i>Objectives:</i> Actin-associated proteins at cell-matrix-contact sites form invadopodia in cancer cells and participate in migration, matrix degradation and invasion. We investigated an alteration of subcellular localization of invadopodia-related actin-associated proteins, actinin-1 and cortactin, in lung adenocarcinomas, its clinical significance, and its possible regulatory factors. <i>Methods:</i> Invadopodia-related proteins, actinin-1 and cortactin, were immunohistochemically examined in 90 cases of lung adenocarcinomas. Expression of invadopodia-associated proteins and their possible regulators in lung adenocarcinomas were examined by real-time RT-PCR, database search, and immunohistochemistry. <i>Results:</i> Actinin-1 and cortactin showed matrix-contact-side localization in adenocarcinoma cells, but rarely in normal bronchiolar epithelial cells, alveolar cells, or precursor lesion atypical adenomatous hyperplasia cells. Immunoelectron-microscopic examination of adenocarcinoma cells revealed actinin-1 localization to matrix-contact-side cytoplasm with cytoplasmic protrusions. Matrix-contact-side localization of actinin-1 and cortactin was correlated with tumor stages, lymph node metastasis, vascular permeation, and loss of basement membrane. The tumor-specific survival rate was worse for the group in which matrix-contact-side localization of cortactin was high than for the low group. mRNA of the Rho guanine exchange factor epithelial cell transforming sequence-2 (Ect2) tended to be overexpressed in lung adenocarcinomas and cytoplasmic expression of Ect2 tended to be correlated with matrix-contact-side localization of actinin-1. <i>Conclusion:</i> Matrix-contact-side localization of invadopodia-related proteins in the lung adenocarcinoma cells were correlated with invasion, metastasis, and poor prognosis. Ect2 was a possible regulator of matrix-contact-side localization of invadopodia-related proteins.
DOI: 10.17632/9mpy8mc6hn
title: Data for: Analysis of heterogeneity of peritumoral T2 hyperintensity in patients with pretreatment glioblastoma: Prognostic value of MRI-based radiomics

description: Clinical information (age, sex, surgical resection type, MGMT methylation status, overall survival time, status) Tumor and peritumoral volumes in cc. 106 radiomic features extracted from peritumoral edema.
DOI: 10.17632/f2fv7gb577
title: Data for: Surface EMG muscle activation patterns of the lower extremities during gait in individuals with and without a knee injury history

description: This data set was used to investigate lower extremity muscle activation patterns during treadmill walking in young adults with and without a previous intra-articular knee injury 3-12 years ago. The hypothesis was that systematic adaptations in time-frequency activation patterns of lower extremity muscles during gait persist more than three years post-injury.

Bipolar surface EMG signals and heel accelerations (1D) were recorded at 2400 Hz from 71 individuals with and without a history of knee injury 3-12 years prior during one minute of treadmill walking (4.5 km/h). EMG signals were obtained bilaterally from five muscles: Vastus lateralis (VL), biceps femoris (BF), medial hamstrings (MH), gastrocnemius lateralis (GL), gastrocnemius medialis (GM). Recordings from 61 individuals were used for further analysis. Raw EMG data and the time points (sample numbers) of heel strike for the right and left leg of each individual can be found in the .mat file 'Raw_Data'. 

Raw EMG signals were transformed into time-frequency space using a wavelet analysis (for details, see: von Tscharner, 2000, "Intensity analysis in time-frequency space of surface myoelectric signals by wavelets of specified resolution"). EMG intensities were resampled to 250 time points, summarized in three frequency bands: Low 30-60Hz, Mid 60-100 Hz, High 100-300Hz, and amplitude-normalized to the overall, mean EMG intensity across all 49 gait cycles. 

Normalized EMG intensities were then averaged across the 49 gait cycles, yielding one EMG intensity pattern for each of the five muscles, representing 3 frequency bands and 250 time points (5x3x250 = 3750 elements per pattern). Thus, there are 122 MMPs, one for each leg of the 61 participants that were appended row-wise in matrix M in file 'M.mat'.

A PCA was applied to the data matrix M (for details, see: von Tscharner et al., 2018, "A wavelet based time frequency analysis of electromyograms to group steps of runners into clusters that contain similar muscle activation patterns"). The residual mean (PC 0) and the first 10 PC-vectors (70% of the original variance) are saved in the file 'PC-vectors-features.mat' and the corresponding weights in the matrix W are saved in 'W_unwhitened.mat'.

W was whitened and used as an input to a support vector machine analysis to investigate systematic differences in lower extremity muscle activation patterns between legs that had sustained a previous injury vs. legs with no injury history. The results showed that trained classifiers could successfully recognize whether muscle activation patterns belonged to the affected or unaffected leg of previously injured individuals. In contrast, it was not possible to discriminate between patterns belonging to the previously injured legs or dominant legs of control subjects. In conclusion, systematic knee injury effects on the neuromuscular control of the knee during gait were present 3 to 12 years later.
DOI: 10.6084/m9.figshare.11342063.v1
title: Event Logs CSV

description: The event logs in CSV format. The dataset contains both correlated and uncorrelated logs
DOI: 10.6084/m9.figshare.12400976.v4
title: Enslaved dataset: Complex Ontology Alignment Benchmark

description: This benchmark is collected from the Enslaved project, which is funded by The Andrew W. Mellon Foundation. And this version is designed for the Ontology Alignment Evaluation Initiative 2020. It provides two resources with a reference alignment between them, which is aim to help researchers to develop their automatic or semiautomatic alignment algorithms.
DOI: 10.6084/m9.figshare.24572683.v4
title: ReptTraits: a comprehensive dataset of ecological traits in reptiles

description: Trait datasets are increasingly being used in studies investigating the eco-evolutionary theory and global conservation initiatives. Reptiles are emerging as a key group for studying these questions, with new data accumulation accelerating. We collected data, from earlier databases and the primary literature, to create the most up-to-date dataset on reptilian traits with 40 traits from 12060 species of reptile (Amphisbaenia, Crocodylia, Rhynchocephalia, Sauria, Serpentes and Testudines). Data were collected from 1288 data sources published between 1820–2023. The data encompass various morphological, physiological, behavioural, and performance traits along with availability of genetic data, IUCN red list assessments, and population trends. Our intention is to make this resource freely accessible, ensuring its current status and encouraging the inclusion of additional relevant traits in the future. Gaps in trait data might impede our ability to conduct large-scale analyses but we aim to catalyse a collaborative effort within the scientific community to address these data gaps.
DOI: 10.17632/h2y7mj4kt7
title: Degradation path prediction of lithium-ion batteries under dynamic operating sequences

description: The datasets developed for this study consist of 80 commercial high-nickel NMC811/Gr-SiOx cells (LG Chem, INR18650-MJ1, 3.5 Ah nominal capacity and 3.635 V nominal voltage). All tests were conducted at a controlled temperature of 25 °C.

Path-dependent degradation dataset
The dataset contains 72 cells in total, with 3 cells assigned to each of the 24 different dynamic operating sequences. Each sequence spanned 600 cycles, divided into four stages of 150 cycles, with varying operating conditions in each stage.

Highly dynamic operation dataset
The dataset contains 8 cells, each with distinct dynamic operation sequences, developed to implement more complex dynamic patterns. The operating condition was changed every 25 cycles.
DOI: 10.17632/g8r3nk3d5y
title: Stress-displacement curves of red sandstone under direct tensile and compressive splitting

description: We provide data on the stress-displacement curves of red sandstone samples subjected to direct tensile and compressive splitting. The red sandstone sample used for the direct tensile experiments was machined into the shape of a dog bone, which was 110 mm high, with a maximum radius of 64 mm at each end and a minimum radius of 40 mm at the center; its sides were machined into a smooth surface with a radius of curvature of 100 mm. The red sandstone sample used for the Brazilian splitting experiments was machined into a disk shape with a diameter of 40 mm and a thickness of 20 mm. In the direct tensile experiment, the upper loading plate was fixed in position, and the lower loading plate was moved downward at a speed of 0.05 mm/min until the dog bone-shaped sample was cracked and damaged from the middle under the tensile action, and the damage surface was perpendicular to the loading direction. In the Brazilian splitting experiment, the upper loading plate was also fixed, and the lower loading plate moved upward at a speed of 0.05 mm/min, and the disc-shaped sample was extruded by the curved compression mold, and finally formed a rupture surface in the middle along the direction of loading and destroyed.
DOI: 10.6084/m9.figshare.13124975.v1
title: Observational Study of Human Disturbance on Bird Behaviour in City of Vaughan Ponds – Data

description: The following observation study of bird behaviour in ponds with high or low human disturbance from the period of October 9, 2020 to October 12, 2020. The purpose of the correlational study was to determine a relationship between level of human disturbance in pond habitats and frequency of fleeing bird behaviour. A list of Vaughan ponds was divided into high human disturbance and low human disturbance habitats, with high disturbance habitats defined as a circumference trail alongside the pond and a low disturbance habitat as a minimum of 50 meters between the pond and human interference. From this, two ponds from each level of disturbance were randomly selected using a random number generator to allow for site replication. All four ponds were visited each day for a total of four days, henceforth a total of 4 replications at each pond site. Each day, all four ponds were visited during dusk, from 4:30 pm to 6:30 pm, for a duration of 30 minutes at pond to maintain consistency in the time of observation between locations and days. The weather on all four days was sunny, clear skies, except for October 12, 2020 where it was slightly cloudy. At each pond, three transects were randomly picked using a random choice generator for directional values – front, back, left, right – along with their respective metres using a random number generator. Observations were noted at each pond, particularly each transect, for the following two bird behaviours and their respective frequencies: fleeing and non-fleeing. Furthermore, human disturbance – in respect to the number of people in a particular transect –was recorded for each transect as well. After data collection, a dataset was created together with metadata and published to figshare for open science contribution.