cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17632/d2kd7j4xxj
title: Four-index integral transformation exploiting symmetry

description: Abstract We present a Fortran implementation of four-index integral transformation in the LCAO-MO (linear combination of atomic orbitals–molecular orbitals) framework that exploits symmetry. Electron correlation calculations, such as configuration interaction (CI) calculations, usually require electron repulsion integrals to be transformed to a molecular orbital basis from a basis using atomic orbitals. In large molecular systems it is vital to exploit the sparsity of integrals in making this transfor... Title of program: SYM4TR Catalogue Id: ADUW_v1_0 Nature of problem Molecular orbital calculations including electron correlation effects usually require electron repulsion integrals to be transformed from an atomic orbital (AO) basis to a molecular orbital (MO) basis. By exploiting the sparsity of molecular integrals, the computational cost and memory needed for the transformation are minimized. Versions of this program held in the CPC repository in Mendeley Data ADUW_v1_0; SYM4TR; 10.1016/j.cpc.2004.01.008 This program has been imported from the CPC Program Library held at Queen's University Belfast (1969-2018)
DOI: 10.6084/m9.figshare.16558338.v1
title: Supplementary Material for: Urine Alpha-1-Microglobulin Levels and Acute Kidney Injury, Mortality, and Cardiovascular Events following Cardiac Surgery

description: <b><i>Introduction:</i></b> Urine alpha-1-microglobulin (Uα1m) elevations signal proximal tubule dysfunction. In ambulatory settings, higher Uα1m is associated with acute kidney injury (AKI), progressive chronic kidney disease (CKD), cardiovascular (CV) events, and mortality. We investigated the associations of pre- and postoperative Uα1m concentrations with adverse outcomes after cardiac surgery. <b><i>Methods:</i></b> In 1,464 adults undergoing cardiac surgery in the prospective multicenter Translational Research Investigating Biomarker Endpoints for Acute Kidney Injury (TRIBE-AKI) cohort, we measured the pre-and postoperative Uα1m concentrations and calculated the changes from pre- to postoperative concentrations. Outcomes were postoperative AKI during index hospitalization and longitudinal risks for CKD incidence and progression, CV events, and all-cause mortality after discharge. We analyzed Uα1m continuously and categorically by tertiles using multivariable logistic regression and Cox proportional hazards regression adjusted for demographics, surgery characteristics, comorbidities, baseline estimated glomerular filtration rate, urine albumin, and urine creatinine. <b><i>Results:</i></b> There were 230 AKI events during cardiac surgery hospitalization; during median 6.7 years of follow-up, there were 212 cases of incident CKD, 54 cases of CKD progression, 269 CV events, and 459 deaths. Each 2-fold higher concentration of preoperative Uα1m was independently associated with AKI (adjusted odds ratio [aOR] = 1.36, 95% confidence interval 1.14–1.62), CKD progression (adjusted hazard ratio [aHR] = 1.46, 1.04–2.05), and all-cause mortality (aHR = 1.19, 1.06–1.33) but not with incident CKD (aHR = 1.21, 0.96–1.51) or CV events (aHR = 1.01, 0.86–1.19). Postoperative Uα1m was not associated with AKI (aOR per 2-fold higher = 1.07, 0.93–1.22), CKD incidence (aHR = 0.90, 0.79–1.03) or progression (aHR = 0.79, 0.56–1.11), CV events (aHR = 1.06, 0.94–1.19), and mortality (aHR = 1.01, 0.92–1.11). <b><i>Conclusion:</i></b> Preoperative Uα1m concentrations may identify patients at high risk of AKI and other adverse events after cardiac surgery, but postoperative Uα1m concentrations do not appear to be informative.
DOI: 10.6084/m9.figshare.19358135.v1
title: Epidemiology, clinical characteristics, and risk factors of coronavirus disease (COVID-19) in Casablanca.xlsx

description: Our database contains the necessary elements that led to the study entitled: Epidemiology, clinical characteristics, and risk factors of coronavirus disease (COVID-19) in Casablanca. This database includes the gender, age, the result of the RT-PCR test performed, the cycle thresold (Ct) values, the clinical signs, and the reason for performing the test. The result is coded as follows: 1 = presence; 0 = absence.
DOI: 10.17632/vrpk8zfwdb
title: Identification of Archean continental fragments in the Paleoproterozoic Trans-North China Orogen

description: This is the datasets of the manuscript of"Identification of Archean continental fragments in the Paleoproterozoic Trans-North China Orogen"
DOI: 10.6084/m9.figshare.25898452.v2
title: Jia-Qi Tian, et al., Nature Chemical Engineering, 2024.

description: Supporting data for Jia-Qi Tian, et al., Nature Chemical Engineering, 2024.
DOI: 10.17632/m59zdjpm9h
title: Dual credit assignment processes underlie dopamine signals in a complex spatial environment. Krausz et al

description: This dataset was collected to test how expectations of future reward are updated through experience. By measuring nucleus accumbens dopamine (dLight fiber photometry) while rats foraged for reward in a complex decision-making task, we found that dopamine scaled with the values of maze locations. We then identified two distinct algorithms used to update these place values: progressive propagation over space, and inference using maze knowledge.

We are sharing four tabular datasets from our photometry recordings. 

The first, “photLevelDf,” is a dataframe where each row consists of a photometry measurement sampled at 250Hz (processed using isosbestic correction and z-scoring) along with the associated relevant behavioral and task variables (i.e., the rat’s location, speed, etc.). 

“hexLevelDf” is a dataframe where each row corresponds to the photometry signal along with relevant task variables binned by the occupancy of each distinct maze location (“hex”) on each run through the maze. 

“sessionTable” lists the experimental subject and recording information associated with each recording session, whose identifiers are identical to those in the other shared dataframes.

Finally, “trialLevelDf” contains a table where each row consists of aggregated information about each individual trial (i.e., which port the rat entered, whether it was leftward or rightward choice from the prior port, whether the rat received reward, etc.) to help with port-level choice analyses. 

Further information about each dataset, along with code to help analyze the data, can be found at https://github.com/Berke-lab/DA_maze
DOI: 10.6084/m9.figshare.5242006.v1
title: Erratum: Different Seasonal Patterns in Song System Volume in Willow Tits and Great Tits

description: In most species of seasonally breeding songbirds studied to date, the brain areas that control singing (i.e. the song control system, SCS) are larger during the breeding season than at other times of the year. In the family of titmice and chickadees (Paridae), one species, the blue tit <i>(Cyanistes caeruleus)</i>, shows the typical pattern of seasonal changes, while another species, the black-capped chickadee <i>(Poecile atricapillus)</i>, shows, at best, very reduced seasonal changes in the SCS. To test whether this pattern holds up in the two Parid lineages to which these two species belong, and to rule out that the differences in seasonal patterns observed were due to differences in geography or laboratory, we compared the seasonal patterns in two song system nuclei volumes (HVC and Area X) in willow tits <i>(Poecile montanus)</i>, closely related to black-capped chickadees, and in great tits <i>(Parus major)</i>, more closely related to blue tits, from the same area around Oulu, Finland. Both species had larger gonads in spring than during the rest of the year. Great tit males had a larger HVC in spring than at other times of the year, but their Area X did not change in size. Willow tits showed no seasonal change in HVC or Area X size, despite having much larger gonads in spring than the great tits. Our findings suggest that the song system of willow tits and their relatives may be involved in learning and producing nonsong social vocalizations. Since these vocalizations are used year-round, there may be a year-round demand on the song system. The great tit and blue tit HVC may change seasonally because the demand is only placed on the song system during the breeding season, since they only produce learned vocalizations during this time. We suggest that changes were not observed in Area X because its main role is in song learning, and there is evidence that great tits do not learn new songs after their first year of life. Further study is required to determine whether our hypothesis about the role of the song system in the learned, nonsong vocalizations of the willow tit and chickadee is correct, and to test our hypothesis about the role of Area X in the great tit song system.
DOI: 10.17632/vgvkh4fr8x
title: Data for: Dataset on the Acceptance of e-learning System among Universities Students' under the COVID-19 Pandemic Conditions

description: E-learning Data
DOI: 10.6084/m9.figshare.25796323.v3
title: Escherichia coli metadata files obtained from isolates listed in Enterobase and PATRIC databases.

description: SampleMiner (SM) is a Python script that helps researchers dependent on limited internet resources to locally perform microbial isolates sampling, metadata retrieval and whole-genome sequences (WGS) download, provided the metadata pages of the online database can be downloaded as comma-separated value (csv) files. The metadata tab-separated value (tsv) files listed in this Figshare item were used during the development of SM code. These files contain all E. coli isolates metadata obtained from Enterobase on 18/11/2021 and from PATRIC on 29/9/2021, using Escherichia or Shigella as combined keywords. The originally downloaded csv files were converted into the tsv files.
DOI: 10.6084/m9.figshare.5598565.v1
title: Supplementary Material for: Impact of Early Infant Growth, Duration of Breastfeeding and Maternal Factors on Total Body Fat Mass and Visceral Fat at 3 and 6 Months of Age

description: <b><i>Background:</i></b> Accelerated gain in fat mass in the first months of life is considered to be a risk factor for adult diseases, given the tracking of infancy fat mass into adulthood. Our objective was to assess the influence of early growth, type of feeding and maternal variables on fat mass in early life. <b><i>Methods:</i></b> In 300 healthy term infants, we longitudinally measured fat mass percentage (FM%) by air-displacement-plethysmography at 1, 3, and 6 months and abdominal visceral and subcutaneous fat measured by ultrasound at 3 and 6 months. <b><i>Results:</i></b> Both gain in FM% and weight-for-length in the first 3 months were positively associated with FM% at 6 months of age and visceral fat at 3 months of age. Gain in FM% and weight-for-length between 3 and 6 months were both positively associated with visceral fat at 6 months. Breastfeeding duration associated positively with subcutaneous fat but not with visceral fat at 3 and 6 months. Maternal characteristics did not associate with FM% or visceral fat at 3 or 6 months. <b><i>Conclusion:</i></b> Higher gain in FM% or in weight-for-length in the first postnatal months leads not only to higher FM% but also more to accumulation of visceral fat. Exclusive breastfeeding appears to promote subcutaneous but not visceral fat in the first 6 months.
DOI: 10.6084/m9.figshare.6860009.v1
title: Supplementary Material for: Significance of the Lysyl Oxidase Members Lysyl Oxidase Like 1, 3, and 4 in Gastric Cancer

description: <b><i>Background/Aims:</i></b> Lysyl oxidase (LOX) family members play a key role in modifying the primary tumor microenvironment by crosslinking collagens and elastin in the extracellular matrix. The aim of this study was to analyze the LOX-like (LOXL)1, LOXL3, and LOXL4 expressions in gastric cancer tissue by immunohistochemical staining. <b><i>Methods:</i></b> The correlations between the clinicopathological features of 597 primary gastric carcinomas and LOX family members – LOXL1, LOXL3, and LOXL4 – were investigated by immunohistochemical studies. The effect of the transforming growth ­factor β1 (TGFβ1) on the expressions of <i>LOXL1, LOXL3,</i> and <i>LOXL4</i> in gastric cancer was examined using diffuse-type gastric cancer cell lines in vitro. <b><i>Results:</i></b> The expressions of LOXL1, LOXL3, and LOXL4 were correlated with T invasion, lymph node metastasis, and lymphatic and venous invasion. LOXL1 expression was associated with histological intestinal-type and expanding growth patterns. The overall survival of patients with LOXL1-, LOXL3-, or LOXL4-positive cancer was poorer than those with negative cancer. <i>LOXL3</i> and <i>LOXL4</i> mRNA expressions were significantly high in diffuse-type gastric cancer cells with high invasion ability. TGFβ decreased the LOXL1 expression and increased LOXL3 and LOXL4 expression. <b><i>Conclusion:</i></b> LOXL1, LOXL3, and LOXL4 expressions are associated with distant metastasis of gastric cancer.
DOI: 10.6084/m9.figshare.c.3607466_d4.v1
title: Additional file 4: of Identification of protein-damaging mutations in 10 swine taste receptors and 191 appetite-reward genes

description: List of variants displaying significant differences in pAAF between F2_F and F2_L. (XLSX 145 kb)
DOI: 10.17632/trgd5tnwxp
title: Data for all records of Roosting Selection For Andean Condor Colombia

description: We gathered roost site data from three sources: i) satellite data from two tagged wild condors (an adult female and an immature male) tracked in north-eastern Colombia between 2019 and 2021 using Geotrack 65G Solar PTT trackers; ii) satellite data from three wild condors tracked between 2014 and 2017 using Microwave Telemetry satellite trackers (PTT-100 50 Gram Solar Patagial) (these individuals were tagged in Ecuador but used roosting sites in southern Colombia); and iii) roosts identified by direct observations between 2014 and 2021 across different parts of the Colombian Andes.
The satellite data recorded 4640 GPS locations, from which we identified 461 roost sites in Colombia, 10 of which were verified by direct observations, here we have also the environmental and geomorphological data from each select and unselect site.
DOI: 10.6084/m9.figshare.25389187.v1
title: Supplementary Material for: MiR-21-5p modulates airway inflammation and epithelial-mesenchymal transition processes in a mouse model of CARAS

description: Introduction: Combined allergic rhinitis and asthma syndrome (CARAS) is a concurrent allergic symptom of diseases of allergic rhinitis and asthma. However, the mechanism of CARAS remains unclear. The study aimed to investigate the impact of microRNA-21 (miR-21) on CARAS via targeting Poly (ADP-ribose) polymerase-1 (PARP-1) and PI3K/AKT pathways.
Methods: The levels of miR-21-5p and PARP-1 in CARAS patients were detected by Quantitative reverse transcription polymerase chain reaction (RT-qPCR) and Enzyme-linked Immunosorbent Assay (ELISA). An ovalbumin (OVA)-sensitized mouse model of CARAS was established. And knock down of miR-21-5p was constructed by intranasally administering with miR-21-5p shRNA-encoding adeno-associated virus (AAV) vector. Airway resistance and airway inflammatory response were detected. ELISA was used to evaluate IL-4/IL-5/IL-13 levels in bronchoalveolar lavage fluid (BALF). Expression levels of E-cadherin, fibronectin, and α-SMA were determined using western blotting. The levels of PARP-1 and the activation of PI3K/AKT were assayed.
Results: Down-regulation of miR-21-5p relieved pathophysiological symptoms of asthma including airway hyperreactivity and inflammatory cell infiltration. Down-regulation of miR-21-5p significantly reduced the levels of IL4, IL-5, and IL-13 in BALF. Additionally, down-regulation of miR-21-5p inhibited the epithelial-mesenchymal transition (EMT) process in CARAS mice. Furthermore, miR-21-5p regulated PARP-1 and was involved in PI3K/AKT activation in CARAS mice.
Conclusion: Down-regulation of miR-21-5p ameliorated CARAS-associated lung injury by alleviating airway inflammation, inhibiting the EMT process and regulating PARP-1/PI3K/AKT in a mouse model of CARAS.
DOI: 10.17632/bf3xbd2mgw
title: Paclitaxel, but Not Cisplatin, Affects Satellite Glial Cells in Dorsal Root Ganglia of Rats with Chemotherapy-Induced Peripheral Neurotoxicity

description: Chemotherapy-induced peripheral neurotoxicity is one of the most common dose-limiting toxicities of several widely used anticancer drugs such as platinum derivatives (cisplatin) and taxanes (paclitaxel). Several molecular mechanisms related to the onset of neurotoxicity have already been proposed, most of them having the sensory neurons of the dorsal root ganglia (DRG) and the peripheral nerve fibers as principal targets. In this study we explore chemotherapy-induced peripheral neurotoxicity beyond the neuronocentric view, investigating the changes induced by paclitaxel (PTX) and cisplatin (CDDP) on satellite glial cells (SGC) in the DRG and their crosstalk. Rats were chronically treated with PTX (10 mg/Kg, 1qwx4) or CDDP (2 mg/Kg 2qwx4) or respective vehicles. Morpho-functional analyses were performed to verify the features of drug-induced peripheral neurotoxicity. Qualitative and quantitative immunohistochemistry, 3D immunofluorescence, immunoblotting, and transmission electron microscopy analyses were also performed to detect alterations in SGCs and their interconnections. We demonstrated that PTX, but not CDDP, produces a strong activation of SGCs in the DRG, by altering their interconnections and their physical contact with sensory neurons. SGCs may act as principal actors in PTX-induced peripheral neurotoxicity, paving the way for the identification of new druggable targets for the treatment and prevention of chemotherapy-induced peripheral neurotoxicity.
DOI: 10.6084/m9.figshare.4311851.v2
title: Algae Growth in Recycled Cultivation Water: Database for Meta-analysis

description: This dataset includes information and extracted data from 86 previously published studies that experimented with algae growth in recycled cultivation water. The Data Extraction Protocol includes descriptions of all variables (column headers) and how each variable was collected/measured/decided, if applicable. <br>For more information, please see the publication & additional supplementary information that accompanies this dataset. Please cite this publication if using the dataset, since it describes how the dataset was created.<br>Publication:<br>Loftus, S.E. and Johnson, Z.I. "Cross-study analysis of factors affecting algae cultivation in recycled medium," Algal Research Volume 24 Part A, pp 154-166 (2017).
DOI: 10.6084/m9.figshare.21399117.v1
title: HBM-otu-taxa

description: otu-table and taxonomy annotation of microbiome.
DOI: 10.17632/4mtfm2kf88
title: Data and script in thesis

description: This data contains the micrographs of the solder, some scripts for drawing muSHD curve in absolute scale and some JMP data.
DOI: 10.6084/m9.figshare.25713831.v1
title: ARPP - SGUB

description: Dataset describing the faculty of Medicine Faculty Members promotion metrics at Saint George University of Beirut
DOI: 10.17632/v9xwnvn39p
title: Dataset representing growth performance, nutritional assay and biochemical profile of Oscillatoria spp.

description: Physicochemical parameters of water quality
Growth phases of different Oscillatoria spp.
Biomass of different Oscillatoria spp.
Nutritional Profile of Oscillatoria spp.
Fatty acids content (% fatty acids) of Oscillatoria spp.
 Amino acid content (% amino acids) of Oscillatoria spp.
DOI: 10.6084/m9.figshare.11968674.v1
title: TARGET-MAGs-vs-INDEX-MAGs-PANGENOME

description: This data pack is suitable for anvi'o v6.1 or later.<br>This dataset contains anvi'o files for the pangenome shown in <b>Figure 3B</b> of Miyoshi and Miyoshi et al. (2020).<br>To visualize this pangenome interactively please run,<br>anvi-display-pan -p TARGET-MAGs-vs-INDEX-MAGs-PANGENOME-PAN.db -g TARGET-MAGs-vs-INDEX-MAGs-PANGENOME-GENOMES.db<br>
DOI: 10.17632/bd553pdtny
title: A novel pigeonpea leaf dataset for detection and classification of pigeonpea leaf diseases

description: The image of the pigeonpea leaves was collected from cultivation site in the location Agriculture College, Hittinahalli Campus, Vijayapur (Lat 16.769281 and Long 75.748891), Karnataka. Visible light images of pigeonpea leaves were captured in natural conditions with various angles using Sony Cyber-Shot DSCW810 Digital Camera and Smartphone Oppo F19 pro camera. The dataset includes both healthy and infected with Cercospora Leaf Spots, Leaf Webber and Sterilic Mosaic diseases. The dataset contains 1,000 .jpg format images in 256X256 size. Data were uploaded to the repository in 4 distinct folders: 1 folder for healthy data contains 196 images, 1 folder for Cercospora Leaf spot consist of 336 images , 1 folder for Leaf webber contains 146, 1 folder for Sterilic mosaic diseases consist of 292 images so there are total 1000 images in dataset. In addition, each folder's name reflected the associated image class. The Healthy folder comprises a collection of images depicting pigeon pea leaves in a healthy condition. The Cercospora Leaf Spot folder contains images of pigeonpea leaves affected by Cercospora Leaf spot. The folder titled Leaf webber contains images depicting pigeonpea leaves that have been infected by Leaf webber. The Sterilic mosaic folder comprises images of pigeonpea leaves infected by Sterilic mosaic disease. The aim of collecting the dataset is to design an automated Pigeonpea plant leaf disease identification and classification systems based on Computer Vision algorithms.
DOI: 10.6084/m9.figshare.27697014.v1
title: Natural Language Processing with Tiny ML Dataset

description: Natural Language Processing Dataset for research into a complex keyword model. Data is split into two models one for colors and another for commands. These keywords were all trained on one voice on the Arduino Nano 33 BLE sense chip's microphone. The data itself exists in both .wav and .json formats and can be imported to Edge Impulse for proper use or the .wav files can be used for model training outside of Edge Impulse formats. The dataset itself also contains a test and train split and each file has an identifier for its specific label.
DOI: 10.6084/m9.figshare.24474433.v1
title: Characterizing Developer Behavior in LLM-Supported SE Tasks

description: Characterizing Developer Behavior in LLM-Supported SE Tasks
DOI: 10.6084/m9.figshare.1476981.v2
title: Manually labeled tracts (left)

description: Manually labeled tracts for left hemispheres of 12 subjects
DOI: 10.6084/m9.figshare.19389680.v1
title: Correlation between relative afferent pupillary defect and visual field defects_raw data.pdf

description: Raw data of the manuscript
DOI: 10.6084/m9.figshare.28881806.v3
title: Supplementary Material for Review - Policy Analysis Spreadsheet

description: Associated policy content analysis dataset and visualisations for article "Understanding the framing of urban policy at the intersection of smart city and urban innovation across Latin American cities: a policy content analysis"
DOI: 10.6084/m9.figshare.12453374.v1
title: Daily SST, maximum temperature, and minimum temperature at nine wave-exposed intertidal locations along the Atlantic coast of Nova Scotia, Canada (2014-2019)

description: This file gives the values of daily sea surface temperature (SST), maximum temperature (MaxT), and minimum temperature (MinT) recorded at nine wave-exposed intertidal locations along the Atlantic coast of Nova Scotia, Canada, between April 2014 and October 2019. From north to south, these locations are: Glasgow Head (L1), Deming Island (L2), Tor Bay Provincial Park (L3), Barachois Head (L4), Sober Island (L5), Duck Reef (L6), Western Head (L7), West Point (L8), and Baccaro Point (L9).
DOI: 10.6084/m9.figshare.23508339.v1
title: data.xlsx

description: 案件数量; <br> 平均; <br> 标准差;