cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17632/wrhjrjjvkx.2
title: Replication codes for "Human Capital Risk and Portfolio Choices: Evidence from University Admission Discontinuities"

description: This provides the replication codes for "Human Capital Risk and Portfolio Choices: Evidence from University Admission Discontinuities". The program files in this replication package execute the full analysis using pseudo data.
DOI: 10.17632/5d78g6mmng.2
title: Mexico´s forest diversity: wood densities

description: The data are associated with the following article (please look there for all information): Ricker, M., M.Á. Castillo-Santiago, G. Gutiérrez-García, E.M. Martínez, and E. Mondragón. Dataset about Mexico’s forest diversity: site locations of tree species, wood densities, and geographic database of forest-vegetation provinces. Data in Brief. Under review (December 2023).
DOI: 10.17632/77w6mfzwzj.1
title: Mexico's forest diversity: site locations for specimens

description: The data are associated with the following article (please look there for all information): Ricker, M., M.Á. Castillo-Santiago, G. Gutiérrez-García, E.M. Martínez, and E. Mondragón. Mexico’s forest diversity: wood densities, collection sites of identified tree species, and shapefiles of forest-vegetation provinces.
Data in Brief. In preparation (September 2023).
DOI: 10.17632/77w6mfzwzj.2
title: Mexico's forest diversity: site locations for trees

description: The data are associated with the following article (please look there for all information): Ricker, M., M.Á. Castillo-Santiago, G. Gutiérrez-García, E.M. Martínez, and E. Mondragón. Dataset about Mexico’s forest diversity: site locations of tree species, wood densities, and geographic database of forest-vegetation provinces. Data in Brief. Under review (December 2023).
DOI: 10.17632/w6z9yhnvwn.1
title: Validation of Teacher-Reported Reading Engagement Survey

description: In 2022, 534 8th and 9th grade students' reading engagement was reported by their teachers using a 10-item instrument. Students were from Santiago, Chile.
DOI: 10.17632/xvv4kk7fgz.1
title: Assessing bat-mediated pest control service in apple orchards

description: Appendix
DOI: 10.17632/xfn7j4xb45.1
title: Ehrens et al., 2024, Viable and dead microfilariae of Litomosoides sigmodontis induce different eosinophil ETosis pathways

description: RNA sequencing analysis of bone marrow-derived eosinophils stimulated with viable and dead Litomosoides sigmodontis microfilariae. The data contains the differentially expressed genes for eosinophils stimulated with microfilariae in comparison to unstimulated eosinophils. Differentially expressed genes with an adjusted p-value of 0.01 or lower was used for pathway analysis.
DOI: 10.17632/8kxdp9h4h6.1
title: Diatom size dataset from Diatoms of North America, USA

description: Morphometric dataset of 188 genera and 1094 species of diatom from Diatoms of North America (DONA), informing researchers about morphological variations/size reduction phenomenon examined in diatom, which is still lacking in the literature. Findings of this dataset is as follows:
-Extent of size reduction in diatoms is more in asymmetrical than symmetrical forms.
-Extent of size diminution is more in larger than smaller diatoms.
-Benthic life-forms showed lesser extent of size diminution.
-Motile guilds showed lesser extent of size diminution.
-Study informed whether size reduction is due to natural or anthropogenic perturbations.
DOI: 10.17632/xx5wj3x63j.1
title: The non-isomorphic 1-DOF 5-link PGTs

description: These are figures of the non-isomorphic 1-DOF 5-link PGTs.
DOI: 10.5281/zenodo.10566725
title: Database-Statistical analysis of the climatology and vegetation dynamics in a region on the banks of the Duero.

description: In Castilla y León, more specifically on the riverside of the Duero, the vineyard has great importance. It is a crop with deep cultural roots due to the winemaking tradition of the area, which means that there is a large area of vineyards that are several decades old. In the present work, the dynamics of the vine vegetation on the riverside of the Duero and specifically in the region delimited by the D.O.P Ribera del Duero were analyzed using remote sensing and compared with the dynamics of other crops of great importance also in the region, such as cereals (both rainfed and irrigated), with high number of hectares cultivated. The objective of the present study was to analyze the dynamics of the vegetation through the use of the NDVI index and to relate this index with climatic variables to study how the climate influences the development of crops. For this, the time series of the NDVI extracted from MODIS images of the aforementioned crops in the period 2002-2020 were analyzed and this NDVI was related to the time series of two climatic variables such as temperature and precipitation, to evaluate the influence that these have on the dynamics of the vegetation of the area. The stationarity of the time series was analyzed using the Dickey-Fuller test and, through the use of autocorrelation graphs and periodograms, their seasonality was analyzed. It was observed that none of the climatic and NDVI series studied had a trend and it was also observed that the NDVI series had a clear annual cycle. Through the analysis of the different NDVI series, it was possible to detect differences in the spectral signatures of each crop and through the representation of the climatic series and NDVI, patterns could be observed that allowed us to intuit that there is a relationship that can be studied in the future. Therefore, this work aims to serve as a basis for future research.
DOI: 10.5281/zenodo.10566726
title: Database-Statistical analysis of the climatology and vegetation dynamics in a region on the banks of the Duero.

description: In Castilla y León, more specifically on the riverside of the Duero, the vineyard has great importance. It is a crop with deep cultural roots due to the winemaking tradition of the area, which means that there is a large area of vineyards that are several decades old. In the present work, the dynamics of the vine vegetation on the riverside of the Duero and specifically in the region delimited by the D.O.P Ribera del Duero were analyzed using remote sensing and compared with the dynamics of other crops of great importance also in the region, such as cereals (both rainfed and irrigated), with high number of hectares cultivated. The objective of the present study was to analyze the dynamics of the vegetation through the use of the NDVI index and to relate this index with climatic variables to study how the climate influences the development of crops. For this, the time series of the NDVI extracted from MODIS images of the aforementioned crops in the period 2002-2020 were analyzed and this NDVI was related to the time series of two climatic variables such as temperature and precipitation, to evaluate the influence that these have on the dynamics of the vegetation of the area. The stationarity of the time series was analyzed using the Dickey-Fuller test and, through the use of autocorrelation graphs and periodograms, their seasonality was analyzed. It was observed that none of the climatic and NDVI series studied had a trend and it was also observed that the NDVI series had a clear annual cycle. Through the analysis of the different NDVI series, it was possible to detect differences in the spectral signatures of each crop and through the representation of the climatic series and NDVI, patterns could be observed that allowed us to intuit that there is a relationship that can be studied in the future. Therefore, this work aims to serve as a basis for future research.
DOI: 10.6084/m9.figshare.25101548
title: Epitome Model Weights

description: Model weights for the [epitome model](https://pubmed.ncbi.nlm.nih.gov/34379786/) used to benchmark against Enformer Celltyping. Epitome was trained to predict H3K4me1, H3K4me3, H3K27me3, H3K36me3, H3K9me3 and H3K27ac in this setting and trained on the following cells/tissue types:A549 - epithelial cellGM12878 - B-CellGM23248 - fibroblastGM23338 - iPSCH1 - embryonic stem cellsH9 - embryonic stem cellsHCT116 - colorectal carcinomaHeLa-S3 - Cervical adenocarcinomaHepG2 - hepatocellular carcinomaIMR-90 - fetal lung fibroblastsKarpas-422 - B-cell non-Hodgkin's lymphomaMCF-7 - breast adenocarcinomaOCI-LY7 - B-cell Non-Hodgkin lymphomaPC-9 - lung adenocarcinomaPanc1 - pancreatic carcinoma
DOI: 10.6084/m9.figshare.25101548.v1
title: Epitome Model Weights

description: Model weights for the [epitome model](https://pubmed.ncbi.nlm.nih.gov/34379786/) used to benchmark against Enformer Celltyping. Epitome was trained to predict H3K4me1, H3K4me3, H3K27me3, H3K36me3, H3K9me3 and H3K27ac in this setting and trained on the following cells/tissue types:A549 - epithelial cellGM12878 - B-CellGM23248 - fibroblastGM23338 - iPSCH1 - embryonic stem cellsH9 - embryonic stem cellsHCT116 - colorectal carcinomaHeLa-S3 - Cervical adenocarcinomaHepG2 - hepatocellular carcinomaIMR-90 - fetal lung fibroblastsKarpas-422 - B-cell non-Hodgkin's lymphomaMCF-7 - breast adenocarcinomaOCI-LY7 - B-cell Non-Hodgkin lymphomaPC-9 - lung adenocarcinomaPanc1 - pancreatic carcinoma
DOI: 10.34740/kaggle/dsv/7503966
title: Egypt Gold Prices | Daily Updated
DOI: 10.6084/m9.figshare.24865436
title: BC CLC-Pred: a freely available web-application for quantitative and qualitative predictions of substance cytotoxicity in relation to human breast cancer cell lines

description: In silico prediction of cell line cytotoxicity considerably decreases time and financial costs during drug development of new antineoplastic agents. (Q)SAR models for the prediction of drug-like compound cytotoxicity in relation to nine breast cancer cell lines (T47D, ZR-75-1, MX1, Hs-578T, MCF7-DOX, MCF7, Bcap37, MCF7R, BT-20) were created by GUSAR software based on the data from ChEMBL database (v. 30). The separate datasets related with IC<sub>50</sub> and IG<sub>50</sub> values were used for the creation of (Q)SAR models for each cell line. Based on leave-one-out and 5F CV procedures, 24 reasonable (Q)SAR models were selected for the creation of a freely available web-application (BC CLC-Pred: https://www.way2drug.com/bc/) to predict substance cytotoxicity in relation to human breast cancer cell lines. The mean accuracies of prediction <i>r</i><sup>2</sup>, RMSE, Balance Accuracy for the selected (Q)SAR models calculated by 5F CV were 0.599, 0.679 and 0.875, respectively. As a result, BC CLC-Pred provides simultaneous quantitative and qualitative predictions of IC<sub>50</sub> and IG<sub>50</sub> values for most of the nine breast cancer cell lines, which may be helpful in selecting promising compounds and optimizing lead compounds during the development of new antineoplastic agents against breast cancer.
DOI: 10.6084/m9.figshare.24865436.v1
title: BC CLC-Pred: a freely available web-application for quantitative and qualitative predictions of substance cytotoxicity in relation to human breast cancer cell lines

description: In silico prediction of cell line cytotoxicity considerably decreases time and financial costs during drug development of new antineoplastic agents. (Q)SAR models for the prediction of drug-like compound cytotoxicity in relation to nine breast cancer cell lines (T47D, ZR-75-1, MX1, Hs-578T, MCF7-DOX, MCF7, Bcap37, MCF7R, BT-20) were created by GUSAR software based on the data from ChEMBL database (v. 30). The separate datasets related with IC<sub>50</sub> and IG<sub>50</sub> values were used for the creation of (Q)SAR models for each cell line. Based on leave-one-out and 5F CV procedures, 24 reasonable (Q)SAR models were selected for the creation of a freely available web-application (BC CLC-Pred: https://www.way2drug.com/bc/) to predict substance cytotoxicity in relation to human breast cancer cell lines. The mean accuracies of prediction <i>r</i><sup>2</sup>, RMSE, Balance Accuracy for the selected (Q)SAR models calculated by 5F CV were 0.599, 0.679 and 0.875, respectively. As a result, BC CLC-Pred provides simultaneous quantitative and qualitative predictions of IC<sub>50</sub> and IG<sub>50</sub> values for most of the nine breast cancer cell lines, which may be helpful in selecting promising compounds and optimizing lead compounds during the development of new antineoplastic agents against breast cancer.
DOI: 10.6084/m9.figshare.24967579
title: q-RASTR modelling for prediction of diverse toxic chemicals towards <i>T. pyriformis</i>

description: A series of diverse organic compounds impose serious detrimental effects on the health of living organisms and the environment. Determination of the structural aspects of compounds that impart toxicity and evaluation of the same is crucial before public usage. The present study aims to determine the structural characteristics of compounds for <i>Tetrahymena pyriformis</i> toxicity using the q-RASTR (Quantitative Read Across Structure–Toxicity Relationship) model. It was developed using RASTR and 2-D descriptors for a dataset of 1792 compounds with defined endpoint (pIGC<sub>50</sub>) against a model organism, <i>T. pyriformis</i>. For the current study, the whole dataset was divided based on activity/property into the training and test sets, and the q-RASTR model was developed employing six descriptors (three latent variables) having <i>r</i><sup>2</sup>, <i>Q</i><sup>2</sup><sub>F1</sub> and <i>Q</i><sup>2</sup> values of 0.739, 0.767, and 0.735, respectively. The generated model was thoroughly validated using internationally recognized internal and external validation criteria to assess the model’s dependability and predictability. It was highlighted that high molecular weight, aromatic hydroxyls, nitrogen, double bonds, and hydrophobicity increase the toxicity of organic compounds. The current study demonstrates the applicability of the RASTR algorithm in QSTR model development for the prediction of toxic chemicals (pIGC<sub>50</sub>) towards <i>T. pyriformis</i>.
DOI: 10.6084/m9.figshare.24967579.v1
title: q-RASTR modelling for prediction of diverse toxic chemicals towards <i>T. pyriformis</i>

description: A series of diverse organic compounds impose serious detrimental effects on the health of living organisms and the environment. Determination of the structural aspects of compounds that impart toxicity and evaluation of the same is crucial before public usage. The present study aims to determine the structural characteristics of compounds for <i>Tetrahymena pyriformis</i> toxicity using the q-RASTR (Quantitative Read Across Structure–Toxicity Relationship) model. It was developed using RASTR and 2-D descriptors for a dataset of 1792 compounds with defined endpoint (pIGC<sub>50</sub>) against a model organism, <i>T. pyriformis</i>. For the current study, the whole dataset was divided based on activity/property into the training and test sets, and the q-RASTR model was developed employing six descriptors (three latent variables) having <i>r</i><sup>2</sup>, <i>Q</i><sup>2</sup><sub>F1</sub> and <i>Q</i><sup>2</sup> values of 0.739, 0.767, and 0.735, respectively. The generated model was thoroughly validated using internationally recognized internal and external validation criteria to assess the model’s dependability and predictability. It was highlighted that high molecular weight, aromatic hydroxyls, nitrogen, double bonds, and hydrophobicity increase the toxicity of organic compounds. The current study demonstrates the applicability of the RASTR algorithm in QSTR model development for the prediction of toxic chemicals (pIGC<sub>50</sub>) towards <i>T. pyriformis</i>.
DOI: 10.5281/zenodo.10550228
title: Partial Eversion Carotid Endarterectomy versus Conventional Techniques for Significant Carotid Stenosis

description: Mazzaccaro D, Righini P, Giannetta M, Modafferi A, Malacrida G, Nano G. Partial Eversion Carotid Endarterectomy versus Conventional Techniques for Significant Carotid Stenosis. Ann Vasc Surg. 2023 Jul;93:252-260. doi: 10.1016/j.avsg.2023.01.041. Epub 2023 Feb 2. PMID: 36739080.

Abstract



Background: To compare the outcomes of patients who were submitted to partial carotid endarterectomy (P-CEA) to those of patients who underwent standard conventional CEA with patch closure (C-CEA) and eversion CEA (E-CEA) for a significant carotid stenosis.

Methods: Data of patients who consecutively underwent CEA from January 2014 to December 2018 for a significant carotid stenosis were retrospectively collected. Primary outcomes included mortality and the occurrence of neurologic and cardiologic complications, both at 30 days and during follow-up. Secondary outcomes included the occurrence of perioperative local complications (i.e. cranial nerve injuries, hematomas) and restenosis during follow-up. P values < 0.5 were considered statistically significant.

Results: Three-hundred twenty-seven patients (241 males, 74%) underwent CEA for carotid stenosis (28.6% symptomatic). P-CEA was performed in 202 patients (61.8%), while C-CEA and E-CEA were performed in 103 and 22 cases respectively. At 30 days, neurologic complications were not significantly different among the 3 groups (2.8% in the group of C-CEA, 2.4% after P-CEA and 0% in E-CEA patients, P = 0.81), neither during follow-up. Perioperative local complications also were not significantly different among the 3 groups (P = 0.16).

Conclusions: P-CEA had similar outcomes if compared to C-CEA and to E-CEA in terms of perioperative mortality, occurrence of neurologic and cardiologic complications, and occurrence of local complications. Also, in the long-term, P-CEA, C-CEA, and E-CEA were burdened by similar rates of mortality, neurologic, and cardiologic complications and restenosis.
DOI: 10.5281/zenodo.10550229
title: Partial Eversion Carotid Endarterectomy versus Conventional Techniques for Significant Carotid Stenosis

description: Mazzaccaro D, Righini P, Giannetta M, Modafferi A, Malacrida G, Nano G. Partial Eversion Carotid Endarterectomy versus Conventional Techniques for Significant Carotid Stenosis. Ann Vasc Surg. 2023 Jul;93:252-260. doi: 10.1016/j.avsg.2023.01.041. Epub 2023 Feb 2. PMID: 36739080.

Abstract



Background: To compare the outcomes of patients who were submitted to partial carotid endarterectomy (P-CEA) to those of patients who underwent standard conventional CEA with patch closure (C-CEA) and eversion CEA (E-CEA) for a significant carotid stenosis.

Methods: Data of patients who consecutively underwent CEA from January 2014 to December 2018 for a significant carotid stenosis were retrospectively collected. Primary outcomes included mortality and the occurrence of neurologic and cardiologic complications, both at 30 days and during follow-up. Secondary outcomes included the occurrence of perioperative local complications (i.e. cranial nerve injuries, hematomas) and restenosis during follow-up. P values < 0.5 were considered statistically significant.

Results: Three-hundred twenty-seven patients (241 males, 74%) underwent CEA for carotid stenosis (28.6% symptomatic). P-CEA was performed in 202 patients (61.8%), while C-CEA and E-CEA were performed in 103 and 22 cases respectively. At 30 days, neurologic complications were not significantly different among the 3 groups (2.8% in the group of C-CEA, 2.4% after P-CEA and 0% in E-CEA patients, P = 0.81), neither during follow-up. Perioperative local complications also were not significantly different among the 3 groups (P = 0.16).

Conclusions: P-CEA had similar outcomes if compared to C-CEA and to E-CEA in terms of perioperative mortality, occurrence of neurologic and cardiologic complications, and occurrence of local complications. Also, in the long-term, P-CEA, C-CEA, and E-CEA were burdened by similar rates of mortality, neurologic, and cardiologic complications and restenosis.
DOI: 10.6084/m9.figshare.25101579
title: Ligand-based virtual screening and biological evaluation of inhibitors of <i>Mycobacterium tuberculosis</i> H37Rv

description: Novel antimycobacterial compounds are needed to expand the existing toolbox of therapeutic agents, which sometimes fail to be effective. In our study we extracted, filtered, and aggregated the diverse data on antimycobacterial activity of chemical compounds from the ChEMBL database version 24.1. These training sets were used to create the classification and regression models with PASS and GUSAR software. The IOC chemical library consisting of approximately 200,000 chemical compounds was screened using these (Q)SAR models to select novel compounds potentially having antimycobacterial activity. The QikProp tool (Schrödinger) was used to predict ADME properties and find compounds with acceptable ADME profiles. As a result, 20 chemical compounds were selected for further biological evaluation, of which 13 were the Schiff bases of isoniazid. To diversify the set of selected compounds we applied substructure filtering and selected an additional 10 compounds, none of which were Schiff bases of isoniazid. Thirty compounds selected using virtual screening were biologically evaluated in a REMA assay against the <i>M. tuberculosis</i> strain H37Rv. Twelve compounds demonstrated MIC below 20 µM (ranging from 2.17 to 16.67 µM) and 18 compounds demonstrated substantially higher MIC values. The discovered antimycobacterial agents represent different chemical classes.
DOI: 10.6084/m9.figshare.25101579.v1
title: Ligand-based virtual screening and biological evaluation of inhibitors of <i>Mycobacterium tuberculosis</i> H37Rv

description: Novel antimycobacterial compounds are needed to expand the existing toolbox of therapeutic agents, which sometimes fail to be effective. In our study we extracted, filtered, and aggregated the diverse data on antimycobacterial activity of chemical compounds from the ChEMBL database version 24.1. These training sets were used to create the classification and regression models with PASS and GUSAR software. The IOC chemical library consisting of approximately 200,000 chemical compounds was screened using these (Q)SAR models to select novel compounds potentially having antimycobacterial activity. The QikProp tool (Schrödinger) was used to predict ADME properties and find compounds with acceptable ADME profiles. As a result, 20 chemical compounds were selected for further biological evaluation, of which 13 were the Schiff bases of isoniazid. To diversify the set of selected compounds we applied substructure filtering and selected an additional 10 compounds, none of which were Schiff bases of isoniazid. Thirty compounds selected using virtual screening were biologically evaluated in a REMA assay against the <i>M. tuberculosis</i> strain H37Rv. Twelve compounds demonstrated MIC below 20 µM (ranging from 2.17 to 16.67 µM) and 18 compounds demonstrated substantially higher MIC values. The discovered antimycobacterial agents represent different chemical classes.