cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.13626773.v2
title: Psychometric properties of Spanish Version of Hospital Anxiety and Depression Scale in cancer patients

description: <b>Background: The Hospital Anxiety and Depression Scale (HADS) despite being widely studied in various populations, there is still no consensus on its factor structure. Our study aims to evaluate the psychometric properties of HADS in people with cancer.</b>Methods: Our study was cross-sectional and non-probabilistic. It involved 467 patients diagnosed with cancer, over 18 years old, and were treated in a public institution specialized in cancer. The Hospital Anxiety and Depression Scale, the Beck Anxiety Inventory and the Beck Depression Inventory were used. Internal structure, measurement invariance, relationship with other variables and reliability were evaluated.Results: It was found that HADS is best suited to a bifactorial structure where there is one general factor (emotional distress) and two specific factors (anxiety and depression). HADS proves to be invariant according to sex and years of education. It is moderately related to Beck Anxiety Inventory and Beck Depression Inventory. Also, it presents acceptable levels of reliability and relationship with instruments used in the diagnosis of anxiety and depression.Conclusion: HADS is best suited to a bifactorial structure in a cancer population, comparisons can be made for both men and women and according to years of education. Its brevity, versatility, hospital-focused design and extensive study make HADS a very important instrument in the detection of anxiety and depression in cancer patients.<br>
DOI: 10.6084/m9.figshare.27630078.v1
title: Impacts of cropland masks on the explanation of crop yield anomaly in Africa

description: We provide main scripts for the manuscript: Decoding cropland mask effects on the explanatory power of remote sensing and reanalyzed climate data on yield anomalies in Africa.No new data are generated in this study. Yield and harvest area of maize, millet, and sorghum can be accessed through the FAO (2024); MIRCA2000 data is available through Portmann et al. (2010); SPAM data is available through Yu et al. (2020); GLC_FCS30D data is available through Zhang et al. (2024); African administration boundary is from the U.S. Department of State (2017); MODIS LST data is obtained from the NASA (2024a); MODIS ET data is obtained from the NASA (2024b); GPM v6 data is obtained from the NASA (2024c); ERA5-Land data is obtained from the ECMWF (2024); MODIS, GPM v6, and ERA5-Land are pre-processed on the Google Earth Engine Platform (Gorelick et al., 2017). Python 3.10 and R 4.3.3 used for data processing, regression modelling, and figure visualization.
DOI: 10.17632/vdkpfzjjvg
title: A pan-cancer transcriptome analysis of exitron splicing identifies novel cancer driver genes and neoepitopes

description: An exitron is a cryptic intron within a protein-coding exon that, when spliced, alters the protein-coding potential of the transcript. Exitrons are poorly characterized, but emerging evidence suggests a role for exitron splicing (EIS) in cancer. Through a systematic investigation of EIS across 33 cancers from 9,599 tumor transcriptomes, we discovered EIS affected over 60% of human coding genes and 95% of those events were tumor-specific. Notably, we observed a mutually exclusive pattern between EIS and somatic mutations in their affected genes. Functionally, we discovered known and novel cancer driver genes were affected through gain- or loss-of-function EIS alterations to dictate cancer progression. Importantly, we identified EIS-derived neoepitopes that bind to MHC class I and II. Analysis of clinical data from a clear cell renal cell carcinoma cohort revealed EIS-derived neoantigen burden to be significantly associated with checkpoint inhibitor response. Our findings establish the importance of considering EIS alterations when nominating cancer driver events and neoantigens.
DOI: 10.17632/vpf3y9cbhf
title: Polyrate 2023: A computer program for the calculation of chemical reaction rates for polyatomics. New version announcement

description: Polyrate is a suite of computer programs for the calculation of chemical reaction rates of polyatomic species (including atoms and diatoms as special cases) by variational transition state theory (VTST); conventional transition state theory is also supported. Polyrate can calculate the rate constants for both bimolecular reactions and unimolecular reactions, and it can be applied to reactions in the gas phase, liquid solution phase, or solid state and to reactions at gas–solid interfaces. Polyrate can perform VTST calculations on gas phase reactions with both tight and loose transition states. For tight transition states it uses the reaction path (RP) variational transition state theory developed by Garrett and Truhlar, and for loose transition states it uses variable reaction coordinate (VRC) variational transition state theory developed by Georgievskii and Klippenstein. The RP methods used for tight transition states are conventional transition state theory, canonical variational transition state theory (CVT), and microcanonical variational transition state theory (μVT) with multidimensional semiclassical approximations for tunneling and nonclassical reflection. For VRC calculations, rate constants may be calculated for canonical or microcanonical ensembles or energy and total angular momentum resolved microcanonical ensembles. Pressure dependent rate constants for elementary reactions can be computed using system-specific quantum RRK theory (SS-QRRK) with the information obtained from high pressure limit VTST calculation as input by using the SS-QRRK utility code. Alternatively, Polyrate 2023 may be interfaced with TUMME 2023 for a master equation treatment of pressure dependence or to obtain phenomenological rate constants for complex mechanisms. Potential energy surfaces may be analytic functions evaluated by subroutines, or they may be implicit surfaces defined by electronic structure input files or interface subroutines containing energies, gradients, and force constants (Hessians). For the latter, Polyrate can be used in conjunction with various interfaces to electronic structure programs for direct dynamics, and it has routines designed to make such interfacing straightforward. Polyrate supports six options for direct dynamics, namely (i) straight single-level direct dynamics, (ii) zero-order interpolated variational transition state theory (IVTST-0), (iii) first-order interpolated variational transition state theory (IVTST-1), (iv) interpolated variational transition state theory by mapping (IVTST-M), (v) variational transition state theory with interpolated single-point energies (VTST-ISPE), and (vi) variational transition state theory with interpolated optimized corrections (VTST-IOC). Polyrate can handle multistructural and torsional-potential anharmonicity in conjunction with the MSTor program.
DOI: 10.17632/wjztxv6kbf
title: Fly ash concrete

description: Strength of fly ash concrete
DOI: 10.17632/xm85449wg5
title: True stress true strain curves of 51CrV4 spring steel grade

description: True stress true strain curves of 51CrV4 spring steel grade
Cylindrical samples  5 x 10 mm were machined, with the cylinder axis being in the rolling direction. 
Deformational dilatometer apparatus TA Instruments 805A/D (TA Instruments, New Castle, PA, USA) was employed for determination of true stress - true strain curves,
Experiments were performed at different temperatures (1000, 1050, 1100, 1150, and 1200 °C) and strain rates (0.01, 0.1, 1, and 10 s−1). 
A standard non-lubricated 0.1 mm thick Mo plates are placed on sample contact surfaces. 
Data are firstly used in the article "https://www.mdpi.com/2075-4701/9/3/290"
%%%%%%%%%%%%%%%%%%%%
%Author
%franci.vode@imt.si
%www.IMT.si
%%%%%%%%%%%%%%%%%%%%

Files "BS2V1-xxxx-y.yy.asc" are true stress true strain data for the spring steel presented in the article
xxxx-temperatures - 1000, 1050, 1100, 1150 and 1200 °C
y.yy-strain rates - 0.01,0.1,1,10 s-1.

For execution of four script files (starintg with OCT_*) in the directory, octave is required. 

It can be downloaded and installed from "https://octave.org/" under the following conditions: 
Copyright © 1998-2022 John W. Eaton. 
This work is licensed under a Creative Commons Attribution-NoDerivatives 4.0 International License.

Required packages are 'control' and 'optimization'.

Within scripts provided, edit paths to filenames where required, denoted as 
%!!!!!!!!!!!!!!!!!!!
%enter your path here


Two *.mat files in the directory are :
* "SYSE_1200_0o01.mat" - transfer function G(s) for (1200°C, 0.01 s-1)saved as mat file
* "SYSE_V1_1000_0_01_P4_Z3.mat - transfer function G'(s) for (1000°C, 0.01 s-1)saved as mat file with 3 zeros and 4 poles.
DOI: 10.17632/ykk6sd27n6
title: Good and bad classification of apple

description: Apple Grading Standards

1. Indian Grading Standards (eNAM)

The Electronic National Agriculture Market (eNAM) in India categorizes apples into three primary grades:

Range-I (Superior Quality):

Apples must be of superior quality, characteristic of the variety, and free from defects.

Only very slight superficial defects are permissible, provided they do not affect the general appearance, quality, or presentation.


Range-II (Good Quality):

Apples should be of good quality, characteristic of the variety.

Minor defects in shape, development, coloring, and slight skin or other defects are acceptable, provided they do not affect the overall appearance or quality.


Range-III (Minimum Requirements):

Apples that do not qualify for the higher grades but meet the minimum requirements.

Defects in shape, development, coloring, and skin are permissible, provided the apples retain their essential characteristics regarding quality and presentation.



Minimum Requirements Across All Grades:

Apples must be whole, firm, sound, clean, and free from pests, diseases, and abnormal moisture.

They should have a minimum total soluble solids content of 11° Brix.


Size Classification:

Defect Tolerances:

Russeting outside calyx/stem cavity: up to 1%.

Accumulated blemishes and bruising: not exceeding 1%.

Scab (Venturia inaequalis): not exceeding 0.25 cm² in Class I and 1 cm² in Class II.



---

2. United States Grading Standards (USDA)

The United States Department of Agriculture (USDA) defines the following apple grades:

U.S. Extra Fancy:

Apples must be mature but not overripe, clean, well-formed, and free from decay, internal browning, and other specified defects.

They should have the amount of color specified for the variety.


U.S. Fancy:

Similar to Extra Fancy but allows for slight defects, provided they do not detract from the apple's appearance or quality.


U.S. No. 1:

Apples that meet the requirements of U.S. Fancy, except for color, russeting, and invisible water core.


U.S. Utility:

Apples that are mature but not overripe, not seriously deformed, and free from serious damage.




---

3. European Union Grading Standards

The European Union classifies apples into three main categories:

Class Extra:

Apples of superior quality, characteristic of the variety, and free from defects, with the exception of very slight superficial defects.


Class I:

Good quality apples, allowing for slight defects in shape, development, coloring, and skin, provided they do not affect the overall appearance or quality.


Class II:

Apples that do not qualify for the higher classes but meet the minimum requirements.

Defects in shape, development, coloring, and skin are permissible, provided the apples retain their essential characteristics.Factors Influencing Apple Quality

1. Physical Attributes

Size and Shape:

Larger apples are generally preferred in markets.

Symmetrical and well-shaped apples are favored for their aesthetic appeal.
DOI: 10.17632/hy3y3z692g
title: Software_Guide_Full

description: Guide's software and data repository- full version
DOI: 10.17632/xvzh5y5dhg
title: Mycobacteria develop biofilms on airway epithelial cells and promote mucosal barrier disruption. Barclay et al.

description: Numerical data for this manuscript are combined in a single excel file. In this file, data are organized in separate tabs for each figure. Short descriptions are provided in the excel file. Scanning electron microscopy images are compiled in a separate folder.

Due to the storage limit of 10 GB, our full confocal data set could not be uploaded here. Confocal microscopy data will be provided upon request.
DOI: 10.6084/m9.figshare.28202660.v1
title: Detection of Lampropeltis californiae in environmental DNA samples

description: Invasive snakes are some of the most challenging invaders worldwide due to their exceptionally low detection probability and grave ecological impacts. Environmental DNA (eDNA) detection offers substantial opportunities for invasive snake management programs, yet these have only been tested for two aquatic species so far and its application for terrestrial invasive snakes remains unexplored. We analyzed the applicability of eDNA detection for the invasive California kingsnake (<i>Lampropeltis californiae</i>) in Gran Canaria (Canary Islands, Spain) by (1) designing specific primers to differentiate the species from co-existing reptiles, (2) evaluating snake eDNA detectability in the field using various artificial cover objects (ACOs), soil samples collected under these ACOs, and soil samples collected at random using different sampling protocols, (3) and determining snake eDNA degradation over time under controlled conditions. <i>Lampropeltis californiae </i>primers amplified snake samples but none of the co-existing endemic reptiles. We found that sampling <i>L. californiae </i>eDNA detection varied among sampling protocols, which overall detected snakes in 9.31% of all swab samples, 2.22% of soil samples under the ACOs and none of the randomly collected soil ones. We detected no evidence of snake eDNA degradation seven days after snake removal from their terraria. Our study provides critical insights for the implementation of eDNA detection techniques in the management of <i>L. californiae </i>in the Canary Islands and illustrate the applicability of these techniques for the management of the numerous invasive snakes worldwide.
DOI: 10.6084/m9.figshare.28638236.v1
title: Supplementary Material for: Genotype-phenotype analysis and new clinical findings in a series of 24 patients presenting with Noonan syndrome and related disorders

description: Introduction: RASopathies are a heterogeneous group of conditions of the Ras/MAPK pathway presenting with overlapping features such as growth deficiency, neurodevelopmental disorders, cardiac defects, craniofacial dysmorphisms, cutaneous and ocular abnormalities, and increased cancer risk.
Methods: This retrospective study analyzed the medical records regarding clinical and molecular data from 2018 to 2024 in a single center for rare diseases of individuals diagnosed with Noonan syndrome and related disorders previously submitted to diagnostic molecular analysis through Next Generation Sequencing techniques.
Results: 24 patients were enrolled with an even sex ratio distribution and ages ranging from one month to 16 years at first evaluation. The main reason for referral was diagnostic assessment due to a combination of dysmorphic features (24/24; 100%), growth deficiency (18/24; 75%), neurodevelopmental disorders (15/24; 62.5%), and/or heart disease (13/24; 54.1%). Final diagnoses included 15 individuals with Noonan syndrome (nine with variants in PTPN11, two in SOS1, and one each in LZTR1, A2ML1, and MRAS, besides one with variants in both LZTR1 and SOS1), two with Noonan syndrome with multiple lentigines (both with variants in PTPN11), two with Neurofibromatosis-Noonan (NF1), two with Cardiofaciocutaneous syndrome (BRAF), and one each with Noonan syndrome-like with loose anagen hair (PPP1CB), Noonan syndrome-like (CBL), and Costello syndrome (HRAS); one individual presented with a double diagnosis of Noonan and Klinefelter syndromes.
Discussion/Conclusion: Three pairs of unrelated patients presented recurrent variants in the PTPN11 gene, partially concordant in phenotypic correlation among the pairs but not fully concordant compared to previously described cases in the literature. Undescribed features in this group included myopathy and megacolon in a patient with Noonan syndrome-like, hypogonadotropic hypogonadism, and azoospermia in a patient with Noonan syndrome-like with loose anagen hair, and schizophrenia in a patient with Costello syndrome. One patient with Noonan syndrome had a novel variant of the A2ML1 gene (c.1829G&gt;A), but the variant was strictly of uncertain significance, while c.2033G&gt;A in the LZTR1 gene and c.1A&gt;G in the NF1 gene are variants for the first time associated with features of Noonan syndrome.
DOI: 10.17632/d45wytkcny
title: Systematic Reviews on the Topic of the Bank efficiency

description: All 688 articles on the topic of the Bank efficiency for bibliometric analysis!
DOI: 10.6084/m9.figshare.28722239.v1
title: 宏基因组学和非靶向代谢组学，以发现苦参碱用作饲料添加剂促进断奶仔猪生产的机制

description: The addition of 0.75 mg/kg matrine to the feed has the advantages of improving the production performance of piglets, increasing the positive rate of PCV2 vaccine antibody, and improving the production efficiency of pig farms. The mechanism of matrine improving production performance may be related to Gemmiger formicilisand thiamine. In addition, matrine has the advantages of abundant resources and low price in China, and it is urgent to be developed as a pig growth-promoting feed additive to contribute to the safe, efficient,and sustainable development of the pig industry in China and the world.
DOI: 10.17632/f5rbkd4482
title: Biofouling studies dataset

description: This file merges data from 12 peer-reviewed papers, creating 215 entries with essential information for biofouling studies. A total of 10 factors related to the environment and surface are described. Assumptions were made when the referred study did not define the factor. A follow-up paper will describe in more details the data and how it can be used.
DOI: 10.17632/r8w5dw4swt
title: Cervical Cancer image enhancement

description: This dataset contains the MATLAB code used to implement the image enhancement techniques described in our paper on cervical cancer detection. The approach combines the use of Lucas polynomials, power-law transformation, and Geometric Function Theory for image enhancement. The scripts allow for replication of the results, including parameter tuning and performance metrics (SSIM, PSNR, NIQE and MAE). Future researchers can modify these scripts for further experiments and validation.
DOI: 10.17632/xhxkwzyvhn
title: LINF_170015600

description: Protein of unknown function - conserved; Leishmania infantum (strain JPCM5)
DOI: 10.6084/m9.figshare.20219189.v1
title: Codes for manuscript "Atmospheric forcing dominates winter Barents-Kara sea ice variability"

description: These Python and GrADS codes used for exploring the effects of oceanic and atmospheric processes on Barents-Kara sea ice variability.
DOI: 10.6084/m9.figshare.25943515.v1
title: hcpyaTemplateBrainSegmentation.nii.gz

description: hcpya template brain segmentation
DOI: 10.17632/3bbwz8669k
title: ACEs, Emotion Regulation, and Mental Health

description: This data set was used to examine the relations between adverse childhood experiences (ACEs), emotion regulation, and symptoms of depression, anxiety, and stress in a sample of college students. After recoding of gender and race/ethnicity, and removal of missing data, the final sample was 483. It was hypothesized that ACEs would be related to symptoms of depression, anxiety, and stress. It was also hypothesized that emotion regulation would moderate the associations of ACEs with symptoms of depression, anxiety, and stress. The results supported the hypotheses, indicating that ACEs positive correlated with symptoms of depression, anxiety, and stress, and emotion regulation moderated the associations of ACEs with depression, anxiety, and stress. Further detailed information of the data set is available upon request.
DOI: 10.17632/3ts7hjg2tn
title: Continuous Flow Delivery System Component STL Files

description: The following STL files are for the Continuous Flow Delivery System described in a recent publication from our laboratory.
DOI: 10.6084/m9.figshare.13033841.v1
title: DNE_Data

description: The system data of coupled TN and PDN are created for testing Dynamic network equilibirum.
DOI: 10.6084/m9.figshare.24186804.v1
title: Data Set - The Impact of Entrepreneurial Network Relationships on Women-owned Small Enterprise Performance in Sri Lanka.

description: Data set of the study of Impact of Entrepreneurial Network Relationships on Women-owned Small Enterprise Performance in Sri Lanka.
DOI: 10.6084/m9.figshare.13295828.v2
title: Experimental evolution-driven identification of Arabidopsis rhizosphere competence genes in Pseudomonas protegens

description: Conversion table to link CHA0-GFP annotations to the most recent CHA0 annotations on NCBI.
DOI: 10.6084/m9.figshare.22634356.v2
title: Vegetation composition regulates the interaction of warming and nitrogen deposition on net carbon dioxide uptake in a boreal peatland

description: This data is about three greenhouse gas fluxes (CO2, CH4 and N2O) and related environmnetal variables under warming, nitrogen addition and vegetation compoistion change.
DOI: 10.6084/m9.figshare.23272049.v1
title: Pisces dataset

description: This dataset includes all the drug synergy prediction on cell line, drug synergy prediction on xenografts and drug-drug interaction dataset.
DOI: 10.17632/p337573636
title: Facility location and waste bin allocation and routing problem (FLWBARP)

description: We investigate an underground waste collection system in which waste would be collected at central locations in so-called underground containers with a much larger capacity. If an underground container system is to be introduced to replace the present door-to-door waste collection system, a number of decisions of varying scope have to be made. We have to decide 1. whether a site should be opened, 2. which customers should be assigned to which open site, 3. with which frequency these open sites are to be visited for waste collection, 4. on which days in the planning horizon this has to take place, 5. the number and type of containers with which to equip a collection site, 6. and which routes the vehicles will take. The goal is to minimize the overall costs. We refer to the problem as the facility location and waste bin allocation and routing problem (FLWBARP). In this repository, the benchmark dataset for the FLWBARP is introduced. The instances used and shown here are an extension of the ten instances for the WBARP considered by Hemmelmayr et al. (2014), which in turn are a slightly extended combination of the instances of Cordeau et al. (1997) and Crevier et al. (2007).
DOI: 10.17632/xh66p28zcr
title: Maps of Sea Level Rise Inundation by Specific Heights for the State of Hawaii Maui County Coastal Roads Report

description: This database consists of a series of maps that depict the estimated inundation areas due to sea level rise (SLR) by a specific height (i.e., 1 ft, 2 ft, and 3 ft) in Maui County. Individual maps show inundation areas around the CRESI transect start points, identified for their vulnerability to the effects of climate change in the State of Hawaii Maui County Coastal Roads Report (Francis et al., 2024b), along the coastal roads on the islands of Maui and Molokai.

CRESI transects are identified by Francis et al. (2024a). State of Hawaii Department of Transportation (HDOT) state routes and Maui County Roads are acquired from HDOT (2023) and MC (2022). Shoreline datasets are provided by NGS (2017). Future SLR for +1 ft, +2 ft, and +3 ft are shown with respect to mean higher high water (MHHW).

Details of the data sources and methods can be found in the 'Maps of Sea Level Rise Inundation by Specific Heights-README.docx'.

References cited in this description can be found in the 'Description References-README.docx'.