cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.24239314.v1
title: Dataset of "Ants evade harmful food by active abandonment"

description: Row Data accompanying the manuscript "Ants evade harmful food by active abandonment", published in Communication Biology.
DOI: 10.5066/p9aeqwx0
title: Puuhonua o Honaunau and Kaloko-Honokohau National Historical Parks, carbon dioxide treatment and qPCR eDNA assays for eradicating and monitoring invasive fish in anchialine pools, 2019-2022 (ver. 2.0, July 2023)

description: This data release includes metadata and tabular data that documents lab and field trials testing the efficacy of carbon dioxide (CO2) gas diffused into water to manage invasive fish in anchialine pools. The data release also includes information documenting sensitivity, specificity, and accuracy of quantitative polymerase chain reaction (qPCR) assays to detect environmental DNA (eDNA) from tilapia (Oreochromis mosambicus), western mosquitofish (Gambusia affinis) and guppies (Poecilia reticulata). In total there are 8 datasets, 6 describing lab trials and 2 describing field trials. Lab data include 1) initial water conditions, 2) behavioral response of fish to CO2, 3) survival of fish and invertebrates following exposure to CO2, 4) specificity of qPCR assays, 5) sensitivity of qPCR assays, and 6) accuracy of qPCR assays for detecting invasive fish from water samples collected from anchialine pools. Field data include 1) pH levels obtained in pools during treatment and 2) body lengths of fish removed during treatment. The lab work was conducted during 2019-2022 at the USGS Kilauea Field Station and field trials were conducted at Puuhonua o Honaunau National Historical Park and Kaloko-Honokohau National Historical Park during 2021-2022.
DOI: 10.5066/p9ko49ot
title: Model Code, Outputs, and Supporting Data for Approaches to Process-Guided Deep Learning for Groundwater-Influenced Stream Temperature Predictions

description: This model archive provides all data, code, and modeling results used in Barclay and others (2023) to assess the ability of process-guided deep learning stream temperature models to accurately incorporate groundwater-discharge processes. We assessed the performance of an existing process-guided deep learning stream temperature model of the Delaware River Basin (USA) and explored four approaches for improving groundwater process representation: 1) a custom loss function that leverages the unique patterns of air and water temperature coupling resulting from different temperature drivers, 2) inclusion of additional groundwater-relevant catchment attributes, 3) incorporation of additional process model outputs, and 4) a composite model. The associated manuscript examines changes in the predictive accuracy, feature importance, and predictive ability in un-seen reaches resulting from each of the four approaches. This model archive includes four zipped folders for 1) Data Preparation, 2) Model Code, 3) Model Predictions, and 4) the catchment attributes that were compiled for reaches in the study area. Instructions for running data preparation and modeling code can be found in the README.md files in 01_Data_Prep and 02_Model_Code respectively. File dictionaries have also been included and serve as metadata documentation for the files and datasets within the four zipped folders.
DOI: 10.17632/ncvvgnwhgr.1
title: Central Retinal Artery Occlusion in a Child with ADA2 deficiency: A Case report

description: Whole-exome sequencing for suspected monogenic inherited autoinflammatory disorders. A homozygous A-&gt;G substitution at chr22:17687970 confirms the diagnosis of DADA2 (germline mutation of the ADA2/ CECR1 gene c.533T&gt;C leading to p.Phe178Ser).
DOI: 10.17632/m6bdks5s6p.1
title: Water Quality Index Data

description: The table includes key water quality indicators: pH, TDS, Cl, SO4, Na, K, Ca, Mg, Total Hardness, and WQI. These parameters are essential indicators used to assess the quality of water. The WQI serves as a comprehensive metric summarizing the overall quality of the water based on these parameters. This data is crucial for understanding and evaluating the quality and safety of water sources.
DOI: 10.17632/945bnp4kfy.1
title: DIB

description: DIB Supplementary
DOI: 10.17632/945bnp4kfy.2
title: Compliance Assessment Datasets for data Clustering and Association Modelling

description: Personal Data Regulation Compliance Research at Durban University of Technology, South Africa.

Compliance Assessment Datasets for data Clustering and Association Modelling

Context of the Datasets

The four datasets are directly related to the assessment of company compliance with personal data protection regulations. The datasets were populated for the scenario of company compliance with the Personal Data Protection Act of South Africa. The researchers are G. Sema, O.O. Olugbara, P.A. Owolawi, and S.P. Moyane.

These datasets can be viewed as the tasks of data clustering and association modeling in the fields of Data Science and Machine Learning.

The datasets will also be available from the Mendeley repository.

For more information, research articles will soon be available on the datasets.
DOI: 10.7278/s50d-hmxz-4bf1
title: Cleaned Event-level Wireless Sensor Data from the University of Utah from the CDC-funded Granular Modeling Project
DOI: 10.17632/rkj4y68cxx.1
title: Hydrofoil Optimization via Automated Multi-Fidelity Surrogate Models

description: The training data set files (TrainingSet_FrA.dat and TrainingSet_FrB.dat) are provided for framework A (RANS based only) and framework B (Potential RANS based). The first 10 columns show the geometrical parameters (Span, Dihedral angle, Span ratio arc2, Tip angle, Sweep angle, Chord root, Chord ratio arc2, Chord ratio tip, Camber, Twist), and the last column is the corresponding drag values scaled with 1/2 rho V^2. The predicted optimum values (first column) and associated uncertainty (second column) are presented in the files (OptimumForceSet_frA.dat and OptimumForceSet_frB.dat).
DOI: 10.17632/jcg9v36nmg.1
title: Effects of Coffee Waste Mulching on Photosynthetic Characteristics and Water Use Efficiency of Coffee Seedlings

description: Effects of Coffee Waste Mulching on Photosynthetic Characteristics and Water Use Efficiency of Coffee Seedlings
DOI: 10.17632/v4b5fhr4mh.3
title: Melanoma Characteristics and Overall Survival Predictors in American Indians and Alaska Natives: An Analysis of the National Cancer Database from 2004 to 2018

description: Supplementary Material for research letter
DOI: 10.17632/v4b5fhr4mh.1
title: Melanoma Characteristics and Survival Patterns in American Indians and Alaska Natives: An Analysis of the National Cancer Database from 2004 to 2018

description: Supplementary Material for research letter
DOI: 10.17632/v4b5fhr4mh.2
title: Melanoma Characteristics and Overall Survival Predictors in American Indians and Alaska Natives: An Analysis of the National Cancer Database from 2004 to 2018

description: Supplementary Material for research letter
DOI: 10.17632/6pbg4gb478.1
title: Exchange Rate Pass-Through in Small, Open, Commodity-exporting Economies: Lessons from Canada

description: Replication package for the paper "Exchange Rate Pass-Through in Small, Open, Commodity-exporting Economies: Lessons from Canada".
DOI: 10.17632/6pbg4gb478.2
title: Replication Package for the paper "Exchange Rate Pass-Through in Small, Open, Commodity-exporting Economies: Lessons from Canada"

description: Replication package for the paper "Exchange Rate Pass-Through in Small, Open, Commodity-exporting Economies: Lessons from Canada".
DOI: 10.17632/4g45b98pzy.1
title: Racial and Ethnic differences in time to definitive surgery for melanoma: A retrospective study from the National Cancer Database

description: Supplementary material
DOI: 10.17632/4g45b98pzy.2
title: Racial and Ethnic differences in time to definitive surgery for melanoma: A retrospective study from the National Cancer Database

description: Supplementary material
DOI: 10.17632/4g45b98pzy.3
title: Racial and Ethnic differences in time to definitive surgery for melanoma: A retrospective study from the National Cancer Database

description: Supplementary material
DOI: 10.17632/hwxk9cxps9.2
title: Salt-rejecting continuous passive solar thermal desalination via convective flow and thin-film condensation dataset

description: This dataset contains UV-Vis-NIR, vapor production, distillate production and temperature data as well as the model code for the following work: https://www.cell.com/cell-reports-physical-science/fulltext/S2666-3864(23)00513-1.
DOI: 10.17632/hwxk9cxps9.1
title: Salt-rejecting continuous passive solar thermal desalination via convective flow and thin-film condensation dataset

description: This dataset contains UV-Vis-NIR, vapor production, distillate production and temperature data as well as the model code for the following work: https://www.cell.com/cell-reports-physical-science/fulltext/S2666-3864(23)00513-1.
DOI: 10.17632/ws7g6tgkf8.1
title: The role of inositols during pregnancies complicated by gestational diabetes mellitus: a narrative review

description: Pregnancy is a critical period marked by intricate physiological changes and maintaining maternal and fetal well-being is paramount. Inositols, a group of naturally occurring sugar alcohols, have gained attention for their potential benefits during pregnancy. This abstract provides a comprehensive review of the current literature on the use of inositols, primarily myo-inositol (MI) and D-chiro-inositol (DCI) in pregnancy. Inositols play a crucial role in cellular signal transduction and insulin sensitivity, making them integral to various physiological processes. Several studies suggest that inositols may contribute to the prevention and management of gestational diabetes mellitus (GDM). MI, in particular, has shown promise in improving insulin sensitivity and mitigating insulin resistance, thereby influencing glucose metabolism. As our understanding of inositol's role in pregnancy deepens, it may emerge as a valuable supplement to enhance maternal and fetal health outcomes.
DOI: 10.17632/82xy767gdp.1
title: Raw, uncropped supporting Western blot files for: Li J. ... Pagano M. “A noncanonical function of SKP1 regulates the switch between autophagy and unconventional secretion”

description: Raw, uncropped supporting Western blot files for: Li J., Krause G.J., Gui Q., Kaushik S., Rona R., Zhang Q., Liang F.X., Dhabaria A., Anerillas C., Martindale J., Vasilyev N., Askenazi M., Ueberheide B., Nudler E., Gorospe M., Cuervo A.M., and Pagano M. A noncanonical function of SKP1 regulates the switch between autophagy and unconventional secretion.
DOI: 10.17632/m5r6nk52tg.1
title: Raw, uncropped supporting Western blot files for: Duan S. ... Pagano M. Loss of FBXO31-mediated degradation of DUSP6 dysregulates ERK and PI3K-AKT signaling and promotes prostate tumorigenesis

description: Raw, uncropped supporting Western blot files for: Shanshan Duan, Loredana Moro, Rui Qui, Daniele Simoneschi, Hyunwoo Cho, Shaowen Jiang, Huiyong Zhao, Qing Chang, Elisa de Stanchina, Arnaldo A. Arbini, and Michele Pagano. Loss of FBXO31-mediated degradation of DUSP6 dysregulates ERK and PI3K-AKT signaling and promotes prostate tumorigenesis.
DOI: 10.17632/m5r6nk52tg.2
title: Raw, uncropped supporting Western blot files for: Duan S. ... Pagano M. Loss of FBXO31-mediated degradation of DUSP6 dysregulates ERK and PI3K-AKT signaling and promotes prostate tumorigenesis

description: Raw, uncropped supporting Western blot files for: Shanshan Duan, Loredana Moro, Rui Qui, Daniele Simoneschi, Hyunwoo Cho, Shaowen Jiang, Huiyong Zhao, Qing Chang, Elisa de Stanchina, Arnaldo A. Arbini, and Michele Pagano. Loss of FBXO31-mediated degradation of DUSP6 dysregulates ERK and PI3K-AKT signaling and promotes prostate tumorigenesis.
DOI: 10.17632/8xs7xfjmrk.2
title: Raw, uncropped supporting Western blot files for: Marzio A. ... Pagano M. EMSY inhibits homologous recombination repair and the interferon response promoting lung cancer immune evasion”

description: Raw, uncropped supporting Western blot files for: Antonio Marzio, Emma Kurz, Jennifer M. Sahni, Giuseppe Di Feo, Joseph Puccini, Shaowen Jiang, Carolina Alcantara-Hirsch, Arnaldo A. Arbini, Warren L. Wu, Dafna Bar-Sagi, Thales Papagiannakopoulos and Michele Pagano. EMSY inhibits homologous recombination repair and the interferon response promoting lung cancer immune evasion
DOI: 10.5066/p9rlsx0y
title: Molecular data used to test species boundaries, characterize phylogeographic patterns of genetic diversity, and guide the Endangered Species Act listing decision for a North American freshwater mussel species complex

description: Here we provide the molecular datasets and metadata associated with specimens used in the investigation of species boundaries and phylogeographic structure of two freshwater mussels, one common (Pleurobema sintoxia) and one being considered for protection under the Endangered Species Act (Pleurobema rubrum).
DOI: 10.17632/2ysttdn63n.1
title: Questionnaire Forest Certifications

description: A questionnaire created for a study on the adoption of FSC and PEFC certifications in the forest-wood sector in Italy
DOI: 10.17632/32bvfw6xhj.1
title: GCC-GAN and GSN-GAN script and dataset

description: This repository contains the scripts used to develop the GCC-GAN and GSN-GAN models for color normalization in the work:
- Salvi M., Branciforti F., and Meiburger K. M. , "A novel paradigm for color normalization: a GAN-based pix2pix solution for digital pathology and dermatology", Scientific Reports 2022

Abstract:
Color variability represents one of the greatest challenges in color medical imaging. Normalization algorithms have proven to be powerful tools for reducing color variability and standardizing image appearance. Several studies have demonstrated the advantages of using standardized images, both for clinical specialists and for image analysis algorithms. In this paper, we present a new deep learning paradigm for color standardization in two of the most popular color imaging techniques: anatomic pathology and dermatology. We present a color-to-color translation based on generative adversarial networks (GANs) that can standardize images of digital pathology (stain normalization) and dermatology (color constancy). Specifically, we formulate the color normalization task as an image-to-image translation problem, maintaining a pixel-to-pixel correspondence between the original and normalized images. Our approach outperforms existing models in both digital pathology and dermatology. Extensive validation was conducted on public datasets to evaluate the effectiveness of color normalization results on completely external test sets, and our framework proved able to generalize well on unseen data. Finally, we publicly release the source code of our models and the datasets used in the development of our method, to encourage open science.
DOI: 10.17632/32bvfw6xhj.2
title: GCC-GAN and GSN-GAN script and dataset

description: This repository contains the scripts used to develop the GCC-GAN and GSN-GAN models for color normalization in the work:
- Salvi M., Branciforti F., Molinari F., and Meiburger K. M. , "Generative models for color normalization in digital pathology and dermatology: advancing the learning paradigm", Expert Systems with Applications 2024, DOI: 10.1016/j.eswa.2023.123105

Abstract:
Color medical images introduce an additional confounding factor when compared to conventional grayscale medical images: color variability. This variability alludes to potential critical issues of inconsistent evaluation by clinicians and the misinterpretation or suboptimal learning process of automatic quantitative algorithms. To mitigate the potential negative ramifications of color variability, various color normalization strategies have been introduced and have proven to be a powerful tool for standardizing image appearance. Here we present a novel paradigm for the color normalization process that is based on generative adversarial networks (GANs) that can standardize images of digital pathology (stain normalization) and dermatology (color constancy), two foundational research fields in which the acquired images consistently present high color variability. Specifically, we formulate the color normalization task as an image-to-image translation problem, maintaining a pixel-to-pixel correspondence between the original and normalized images. Our approach outperforms existing state of the art methods in both the digital pathology and dermatology clinical fields. Extensive validation was conducted on public datasets to evaluate the effectiveness of color normalization results on completely external test sets. Our framework generalized well on unseen data, showing how it can be effectively included in the pipeline of automatic quantitative algorithms for reducing color variability and hence enhancing final segmentation and/or classification performance. Finally, we publicly release the source code of our models to encourage open science.
DOI: 10.25345/c57s7j383
title: MassIVE MSV000093768 - A mechanism that transduces lysosomal damage signals to stress granule formation for cell survival
title: Lysosomal damage is a major threat to cell survival. Our previous work has reported that lysosomal damage induces stress granule (SG) formation. However, the significance of SG formation on cell fate and the precise mechanisms by which lysosomal damage triggers SG formation remains unclear. Here, we show that SG formation is initiated through a novel calcium-dependent pathway and plays a significant role in promoting cell survival in response to lysosomal damage. Mechanistically, we demonstrate that during lysosomal damage, ALIX (ALG2-interacting protein X) together with its partner, the calcium-binding protein ALG2, transduces lysosomal damage signals by detecting calcium leakage to induce SG formation by controlling the phosphorylation of eIF2alpah. ALIX facilities SG formation by coordinating the upstream regulation of eIF2alpha phosphorylation via PKR and PACT. We also found this regulatory event of SG formation occur on damaged lysosomes. Collectively, these investigations reveal novel insight into the precise regulation of SG formation, and the interaction between damaged lysosomes and stress granules. Importantly, SG formation is significant for promoting cell survival in the physiological context of lysosomal damage inflicted by SARS-CoV-2 ORF3a, adenovirus infection, Malaria hemozoin, proteopathic tau as well as environmental hazard silica.
DOI: 10.5281/zenodo.10421063
title: Data - "Balancing Risk-Return Decisions by Manipulating the Mesofrontal Circuits in Primates"

description: Averaged data associated with article "Balancing Risk-Return Decisions by Manipulating the Mesofrontal Circuits in Primates"
DOI: 10.5281/zenodo.8371505
title: Data - "Balancing Risk-Return Decisions by Manipulating the Mesofrontal Circuits in Primates"

description: Averaged data associated with article "Balancing Risk-Return Decisions by Manipulating the Mesofrontal Circuits in Primates"
DOI: 10.5281/zenodo.8371506
title: Data - "Balancing Risk-Return Decisions by Manipulating the Mesofrontal Circuits in Primates"

description: Averaged data associated with article "Balancing Risk-Return Decisions by Manipulating the Mesofrontal Circuits in Primates"
DOI: 10.25345/c5416t948
title: MassIVE MSV000093769 - Alterations in the secretome composition arising from YIPF5 depletion or mutation
title: Secretome analysis was conducted on MCF10A cells with various conditions, including wild-type (wt) cells, YIPF5-depleted cells, cells with mutated YIPF5, and cells with re-expression of wild-type YIPF5. The primary objective was to discern alterations in the secretome composition arising from YIPF5 depletion or mutation. This investigation aimed to shed light on the influence of YIPF5 on the secretory profile of MCF10A cells, providing insights into potential changes in extracellular signaling and cellular communication associated with YIPF5 status.
DOI: 10.7278/s50d-6wz0-jk8j
title: Admission Discharge Transfer (ADT) Room Occupancy Data from the University of Utah and Veterans Affairs from the CDC-funded Granular Modeling Project
DOI: 10.6084/m9.figshare.24129069
title: Replication Data for: The Reality of the Good Faith Exception

description: Dataset associated with The Reality of the Good Faith Exception. The document is an excel spreadsheet containing a comprehensive set of coded Fourth Amendment cases from July 2021, July 2018, and July 2015.
DOI: 10.5281/zenodo.10452844
title: Evaluation of the Zurich Social Competence Training for Adolescents and young adults with Autism Spectrum Disorder

description: This study aims to examine the effectiveness of the Zurcher Social Competence Training for adolescents and young adults diagnosed with autism spectrum disorder (ASD), known as KOMPASS. The dataset includes all measurements used to evaluate both components of KOMPASS: the basic and advanced training, outlined in two separate manuscripts.

KOMPASS-B

Increased social demands during adolescence and early adulthood pose specific challenges for individuals with ASD. Targeted group-based social competence trainings have emerged as the most effective therapeutic interventions for children and adolescents with ASD. In the first work, we introduce the basic training of KOMPASS (KOMPASS-B).  







In this longitudinal study, we assessed 108 participants using various reports and tasks, with follow-up data collected a year post-intervention. Additionally, we analyzed pre- and post-data from 35 individuals who completed KOMPASS-B training elsewhere.

Our findings showed a significant decrease in autistic symptoms and an increase in social competences, sustained even a year after training. General psychiatric symptoms also improved post-intervention. Remarkably, participants from external centers showed similar improvements to those at our center, highlighting the effectiveness of the program. Gender did not affect results. Both participants and caregivers expressed satisfaction with the training.

Overall, KOMPASS-B is highly effective, addressing prior study limitations by utilizing a large sample, including a control group, conducting one-year follow-ups, and comprehensive skill assessments. It offers a transparent methodological description but lacks a randomized controlled trial design as a limitation.

KOMPASS-F










The second study evaluates an advanced training phase aimed at older adolescents and young adults with ASD, addressing crucial social challenges they encounter during this developmental stage.

Using a quasi-randomized design, we assessed 52 individuals who received the advanced training (intervention group) and 62 who didn't after completing the basic training (control group). Data collection involved participant, parent, and teacher questionnaires, along with a computerized task.

Results showed substantial improvements in social competences for the intervention group, seen in enhanced social skills, reduced autistic symptoms, and better overall health. A one-year follow-up confirmed the sustained improvements. Participants and parents highly praised the program.

These findings emphasize the efficacy of a two-stage social competence training for ASD individuals, highlighting lasting improvements during adolescence and young adulthood. It underscores the need for comprehensive interventions tailored to their unique social challenges. Further research should explore the program's effects on social relationships and occupational status later in life.