cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.6513862
title: Appendix to Combinatorial Methods for Dynamic Gray-Box SQL Injection Testing

description: This appendix contains the detailed results of our case study performed in the context of our article "Combinatorial Methods for Dynamic Gray-Box SQL Injection Testing", published in the Journal of Software Testing, Verification and Reliability. <br> For each web application investigated, one table exists, provided as a separate PDF file.<br> In each of these tables, the results are grouped by endpoint. For each investigated approach, we list the total number of submitted vectors, the number of injected vectors and the injection rate, the amount of executed vectors and the execution rate, and the total time required to submit the attack vectors and evaluate the responses. Please note that no false positive endpoints are listed for WAVSEP. Furthermore, some entries for the execution rate may be displayed as 0.00 despite some vectors having been executed; this is merely a consequence of rounding.
DOI: 10.5281/zenodo.6513861
title: Appendix to Combinatorial Methods for Dynamic Gray-Box SQL Injection Testing

description: This appendix contains the detailed results of our case study performed in the context of our article "Combinatorial Methods for Dynamic Gray-Box SQL Injection Testing", published in the Journal of Software Testing, Verification and Reliability. <br> For each web application investigated, one table exists, provided as a separate PDF file.<br> In each of these tables, the results are grouped by endpoint. For each investigated approach, we list the total number of submitted vectors, the number of injected vectors and the injection rate, the amount of executed vectors and the execution rate, and the total time required to submit the attack vectors and evaluate the responses. Please note that no false positive endpoints are listed for WAVSEP. Furthermore, some entries for the execution rate may be displayed as 0.00 despite some vectors having been executed; this is merely a consequence of rounding.
DOI: 10.18728/igb-fred-720.0
title: EPTO of northwestern Spain

description: Study site: Spain. Authors: Jorge García-Girón, Camino Fernández Aláez & Francisco García-Criado Contact details: Jorge García-Girón. E-mail: jogarg@unileon.es. ORCID: https://orcid.org/0000-0003-0512-3088. Affiliation: Finnish Environment Institute / University of León. Francisco García-Criado. E-mail: fgarc@unileon.es. ORCID: https:/orcid.org/0000-0003-3419-7086. Affiliation: University of León. Camino Fernández Aláez. E-mail: mcfera@unileon.es. ORCID: https:/orcid.org/0000-0001-9385-1354. Affiliation: Department of Biodiversity and Environmental Management. Research Unit of Ecology. University of León.
DOI: 10.18728/igb-fred-721.0
title: EPT Altai

description: Study site: Russia. Authors: Liubov Yanygina. More accurate coordinates, species names and sampling days available upon communication with the authors. Contact details: Liubov Yanygina. E-mail: yan_lv@mail.ru. ORCID: https:/orcid.org/0000-0001-6738-2769. Affiliation: Altai State University.
DOI: 10.18728/igb-fred-722.0
title: Macroinvertebrates of North Central Nigeria

description: Study site: Nigeria. Authors: Unique N. Keke & Francis Arimoro. Contact details: Unique N. Keke. E-mail: uniquekkn@gmail.com. ORCID: https:/orcid.org/0000-0002-9528-0599. Affiliation: Federal University of Technology, Minna, Nigeria. Francis O. Arimoro. E-mail: francisarimoro@gmail.com. ORCID: https:/orcid.org/0000-0001-6100-4011. Affiliation: Federal University of Technology, Minna, Nigeria.
DOI: 10.18728/igb-fred-723.0
title: Ephemeroptera, Trichoptera and Odonata of Cuba

description: Study site: Cuba. Authors: Yusdiel Torres-Cambas & Juan Carlos Salazar Salinas. Species names available upon communication with the authors. Contact details: Yusdiel Torres-Cambas. E-mail: yusdiel.torres@gmail.com. ORCID: https:/orcid.org/0000-0003-2312-2329. Affiliation: Leibniz Institute of Freshwater Ecology and Inland Fisheries. Juan Carlos Salazar Salinas. E-mail: juancarlossalazarcu@gmail.com. ORCID: https://orcid.org/0000-0003-3796-8691. Affiliation: Departamento de Biología y Geografía. Facultad de Ciencias Naturales. Universidad de Oriente, Santiago de Cuba.
DOI: 10.25625/aidfg2
title: Normalized Difference Vegetation Indices (NDVIs) at 1 m resolution

description: Raster models of NDVI over the PTPN 6 estate (Area 1), Batanghari regency (Area 2), Harapan rainforest protected area (Area 3), and Sarolangun regency (Area 4), in Jambi, Sumatra, Indonesia. Pixel size: 1m. Geographic Coordinate System: EPSG 32748.
DOI: 10.18728/igb-fred-724.0
title: Aquatic insects of central Germany

description: Study site: Germany. Authors: Peter Haase. Contact details: Peter Haase. E-mail: peter.haase@senckenberg.de. ORCID: https:/orcid.org/0000-0002-9340-0438. Affiliation: Senckenberg Forschungsinstitut und Naturmuseum Frankfurt.
DOI: 10.6084/m9.figshare.14478365.v1
title: Genome-wide DNA methylation of the liver reveals delayed effects of early-life exposure to 17-α-ethinylestradiol in the self-fertilizing mangrove rivulus

description: Organisms exposed to endocrine disruptors in early life can show altered phenotype later in adulthood. Although the mechanisms underlying these long-term effects remain poorly understood, an increasing body of evidence points towards the potential role of epigenetic processes. In the present study, we exposed hatchlings of an isogenic lineage of the self-fertilizing fish mangrove rivulus for 28 days to 4 and 120 ng/L of 17-α-ethinylestradiol. After a recovery period of 140 days, reduced representation bisulphite sequencing (RRBS) was performed on the liver in order to assess the hepatic genome-wide methylation landscape. Across all treatment comparisons, a total of 146 differentially methylated fragments (DMFs) were reported, mostly for the group exposed to 4 ng/L, suggesting a non-monotonic effect of EE2 exposure. Gene ontology analysis revealed networks involved in lipid metabolism, cellular processes, connective tissue function, molecular transport and inflammation. The highest effect was reported for <i>nipped-B-like protein B</i> (NIPBL) promoter region after exposure to 4 ng/L EE2 (+ 21.9%), suggesting that NIPBL could be an important regulator for long-term effects of EE2. Our results also suggest a significant role of DNA methylation in intergenic regions and potentially in transposable elements. These results support the ability of early exposure to endocrine disruptors of inducing epigenetic alterations during adulthood, providing plausible mechanistic explanations for long-term phenotypic alteration. Additionally, this work demonstrates the usefulness of isogenic lineages of the self-fertilizing mangrove rivulus to better understand the biological significance of long-term alterations of DNA methylation by diminishing the confounding factor of genetic variability.
DOI: 10.6084/m9.figshare.14478365
title: Genome-wide DNA methylation of the liver reveals delayed effects of early-life exposure to 17-α-ethinylestradiol in the self-fertilizing mangrove rivulus

description: Organisms exposed to endocrine disruptors in early life can show altered phenotype later in adulthood. Although the mechanisms underlying these long-term effects remain poorly understood, an increasing body of evidence points towards the potential role of epigenetic processes. In the present study, we exposed hatchlings of an isogenic lineage of the self-fertilizing fish mangrove rivulus for 28 days to 4 and 120 ng/L of 17-α-ethinylestradiol. After a recovery period of 140 days, reduced representation bisulphite sequencing (RRBS) was performed on the liver in order to assess the hepatic genome-wide methylation landscape. Across all treatment comparisons, a total of 146 differentially methylated fragments (DMFs) were reported, mostly for the group exposed to 4 ng/L, suggesting a non-monotonic effect of EE2 exposure. Gene ontology analysis revealed networks involved in lipid metabolism, cellular processes, connective tissue function, molecular transport and inflammation. The highest effect was reported for <i>nipped-B-like protein B</i> (NIPBL) promoter region after exposure to 4 ng/L EE2 (+ 21.9%), suggesting that NIPBL could be an important regulator for long-term effects of EE2. Our results also suggest a significant role of DNA methylation in intergenic regions and potentially in transposable elements. These results support the ability of early exposure to endocrine disruptors of inducing epigenetic alterations during adulthood, providing plausible mechanistic explanations for long-term phenotypic alteration. Additionally, this work demonstrates the usefulness of isogenic lineages of the self-fertilizing mangrove rivulus to better understand the biological significance of long-term alterations of DNA methylation by diminishing the confounding factor of genetic variability.
DOI: 10.6084/m9.figshare.14577950
title: Genome-wide CpG density and DNA methylation analysis method (MeDIP, RRBS, and WGBS) comparisons

description: Genome-wide DNA methylation analysis is one of the most common epigenetic processes analysed for genome characterization and differential DNA methylation assessment. Previous genome-wide analysis has suggested an important variable in DNA methylation methods involves CpG density. The current study was designed to investigate the CpG density in a variety of different species genomes and correlate this to various DNA methylation analysis data sets. The majority of all genomes had &gt;90% of the genome in the low density 1–3 CpG/100 bp category, while &lt;10% of the genome was in the higher density &gt;5 CpG/100 bp category. Similar observations with human, rat, bird, and fish genomes were observed. The methylated DNA immunoprecipitation (MeDIP) procedure uses the anti-5-methylcytosine antibody immunoprecipitation followed by next-generation sequencing (MeDIP-Seq). The MeDIP procedure is biased to lower CpG density of &lt;5 CpG/100 bp, which corresponds to &gt;95% of the genome. The reduced representation bisulphite (RRBS) protocol generally identifies DMRs in higher CpG density regions of ≥3 CpG/100 bp which corresponds to approximately 20% of the genome. The whole-genome bisulphite (WGBS) analyses resulted in higher CpG densities, often greater than 10 CpG/100bp. WGBS generally identifies ≥2 CpG/100bp, which corresponds to approximately 50% of the genome. Limitations and potential optimization approaches for each method are discussed. None of the procedures can provide complete genome-wide assessment of the genome, but MeDIP-Seq provides coverage of the highest percentage. Observations demonstrate that CpG density is a critical variable in DNA methylation analysis, and different molecular techniques focus on distinct genomic regions.
DOI: 10.6084/m9.figshare.14577950.v1
title: Genome-wide CpG density and DNA methylation analysis method (MeDIP, RRBS, and WGBS) comparisons

description: Genome-wide DNA methylation analysis is one of the most common epigenetic processes analysed for genome characterization and differential DNA methylation assessment. Previous genome-wide analysis has suggested an important variable in DNA methylation methods involves CpG density. The current study was designed to investigate the CpG density in a variety of different species genomes and correlate this to various DNA methylation analysis data sets. The majority of all genomes had &gt;90% of the genome in the low density 1–3 CpG/100 bp category, while &lt;10% of the genome was in the higher density &gt;5 CpG/100 bp category. Similar observations with human, rat, bird, and fish genomes were observed. The methylated DNA immunoprecipitation (MeDIP) procedure uses the anti-5-methylcytosine antibody immunoprecipitation followed by next-generation sequencing (MeDIP-Seq). The MeDIP procedure is biased to lower CpG density of &lt;5 CpG/100 bp, which corresponds to &gt;95% of the genome. The reduced representation bisulphite (RRBS) protocol generally identifies DMRs in higher CpG density regions of ≥3 CpG/100 bp which corresponds to approximately 20% of the genome. The whole-genome bisulphite (WGBS) analyses resulted in higher CpG densities, often greater than 10 CpG/100bp. WGBS generally identifies ≥2 CpG/100bp, which corresponds to approximately 50% of the genome. Limitations and potential optimization approaches for each method are discussed. None of the procedures can provide complete genome-wide assessment of the genome, but MeDIP-Seq provides coverage of the highest percentage. Observations demonstrate that CpG density is a critical variable in DNA methylation analysis, and different molecular techniques focus on distinct genomic regions.
DOI: 10.6084/m9.figshare.14815705.v1
title: <i>ABCA1, TCF7, NFATC1, PRKCZ,</i> and <i>PDGFA</i> DNA methylation as potential epigenetic-sensitive targets in acute coronary syndrome <i>via</i> network analysis

description: Acute coronary syndrome (ACS) is the most severe clinical manifestation of coronary heart disease. We performed an epigenome-wide analysis of circulating CD4<sup>+</sup> and CD8<sup>+</sup> T cells isolated from ACS patients and healthy subjects (HS), enrolled in the DIANA clinical trial, by reduced-representation bisulphite sequencing (RRBS). In CD4<sup>+</sup> T cells, we identified 61 differentially methylated regions (DMRs) associated with 57 annotated genes (53% hyper- and 47% hypo-methylated) by comparing ACS patients <i>vs</i> HS. In CD8<sup>+</sup> T cells, we identified 613 DMRs associated with 569 annotated genes (28% hyper- and 72% hypo-methylated) in ACS patients as compared to HS. In CD4<sup>+</sup> <i>vs</i> CD8<sup>+</sup> T cells of ACS patients we identified 175 statistically significant DMRs associated with 157 annotated genes (41% hyper- and 59% hypo-methylated). From pathway analyses, we selected six differentially methylated hub genes (<i>NFATC1, TCF7, PDGFA, PRKCB, PRKCZ, ABCA1</i>) and assessed their expression levels by q-RT-PCR. We found an up-regulation of selected genes in ACS patients <i>vs</i> HS (<i>P</i> ABCA1, TCF7, PDGFA, and <i>PRKCZ</i> gene expression was positively associated with CK-MB serum concentrations (<i>r</i> = 0.75, <i>P</i> = 0.03; <i>r</i> = 0.760, <i>P</i> = 0.029; <i>r</i> = 0.72, <i>P</i> = 0.044; <i>r</i> = 0.74, <i>P</i> = 0.035, respectively). This pilot study is the first single-base resolution map of DNA methylome by RRBS in CD4<sup>+</sup> and CD8<sup>+</sup> T cells and provides specific methylation signatures to clarify the role of aberrant methylation in ACS pathogenesis, thus supporting future research for novel epigenetic-sensitive biomarkers in the prevention and early diagnosis of this pathology.
DOI: 10.6084/m9.figshare.14815705
title: <i>ABCA1, TCF7, NFATC1, PRKCZ,</i> and <i>PDGFA</i> DNA methylation as potential epigenetic-sensitive targets in acute coronary syndrome <i>via</i> network analysis

description: Acute coronary syndrome (ACS) is the most severe clinical manifestation of coronary heart disease. We performed an epigenome-wide analysis of circulating CD4<sup>+</sup> and CD8<sup>+</sup> T cells isolated from ACS patients and healthy subjects (HS), enrolled in the DIANA clinical trial, by reduced-representation bisulphite sequencing (RRBS). In CD4<sup>+</sup> T cells, we identified 61 differentially methylated regions (DMRs) associated with 57 annotated genes (53% hyper- and 47% hypo-methylated) by comparing ACS patients <i>vs</i> HS. In CD8<sup>+</sup> T cells, we identified 613 DMRs associated with 569 annotated genes (28% hyper- and 72% hypo-methylated) in ACS patients as compared to HS. In CD4<sup>+</sup> <i>vs</i> CD8<sup>+</sup> T cells of ACS patients we identified 175 statistically significant DMRs associated with 157 annotated genes (41% hyper- and 59% hypo-methylated). From pathway analyses, we selected six differentially methylated hub genes (<i>NFATC1, TCF7, PDGFA, PRKCB, PRKCZ, ABCA1</i>) and assessed their expression levels by q-RT-PCR. We found an up-regulation of selected genes in ACS patients <i>vs</i> HS (<i>P</i> ABCA1, TCF7, PDGFA, and <i>PRKCZ</i> gene expression was positively associated with CK-MB serum concentrations (<i>r</i> = 0.75, <i>P</i> = 0.03; <i>r</i> = 0.760, <i>P</i> = 0.029; <i>r</i> = 0.72, <i>P</i> = 0.044; <i>r</i> = 0.74, <i>P</i> = 0.035, respectively). This pilot study is the first single-base resolution map of DNA methylome by RRBS in CD4<sup>+</sup> and CD8<sup>+</sup> T cells and provides specific methylation signatures to clarify the role of aberrant methylation in ACS pathogenesis, thus supporting future research for novel epigenetic-sensitive biomarkers in the prevention and early diagnosis of this pathology.
DOI: 10.5281/zenodo.6511942
title: Fatiando a Terra Data: Bushveld, Southern Africa - Observed and preprocessed gravity

description: This dataset contains ground gravity observations over the area that comprises the Bushveld Igenous Complex in Southern Africa, including preprocessed gravity fields such as the <em>gravity disturbance</em> and the <em>bouguer gravity disturbance</em> (topography-free gravity disturbance). In addition, the dataset contains the heights of the observation points referenced on the WGS84 reference ellipsoid and over the mean sea-level (what can be considered to be the geoid). This dataset was built upon a portion of the Southern Africa gravity compilation available through NOAA NCEI.<br> <br> <strong>Note:</strong> This is a processed and formatted version of the source dataset below. It's meant for use in documentation and tutorials of the Fatiando a Terra project. Please <strong>cite the original authors</strong> when using this dataset.<br> <br> <strong>Changes made: </strong> The original data were cropped to a region bounded by 25 and 32 degrees on longitude and -27 and -23 degrees on latitude. Geometric observation heights were obtained by adding geoid heights to the original observation heights referenced on the mean sea-level. The geoid heights on each observation point were obtained by interpolation of the geoid available in doi: 10.5281/zenodo.5882205. Gravity disturbances were computed by removing the normal gravity of the WGS84 ellipsoid computed through Boule. Bouguer gravity disturbances were computed by forward modelling the topography using Harmonica starting from the topography grid provided in doi: 10.5281/zenodo.6481379 and using densities of 2670 kg/m³ above the ellipsoid and 1040 - 2670 kg/m³ below the ellipsoid. <strong>Source: </strong>NOAA NCEI (gravity) and ETOPO1 (topography) <strong>Source license: </strong>public domain (gravity) and public domain (topography) <strong>Repository</strong>: https://github.com/fatiando-data/bushveld-gravity
DOI: 10.5281/zenodo.6511941
title: Fatiando a Terra Data: Bushveld, Southern Africa - Observed and preprocessed gravity

description: This dataset contains ground gravity observations over the area that comprises the Bushveld Igenous Complex in Southern Africa, including preprocessed gravity fields such as the <em>gravity disturbance</em> and the <em>bouguer gravity disturbance</em> (topography-free gravity disturbance). In addition, the dataset contains the heights of the observation points referenced on the WGS84 reference ellipsoid and over the mean sea-level (what can be considered to be the geoid). This dataset was built upon a portion of the Southern Africa gravity compilation available through NOAA NCEI.<br> <br> <strong>Note:</strong> This is a processed and formatted version of the source dataset below. It's meant for use in documentation and tutorials of the Fatiando a Terra project. Please <strong>cite the original authors</strong> when using this dataset.<br> <br> <strong>Changes made: </strong> The original data were cropped to a region bounded by 25 and 32 degrees on longitude and -27 and -23 degrees on latitude. Geometric observation heights were obtained by adding geoid heights to the original observation heights referenced on the mean sea-level. The geoid heights on each observation point were obtained by interpolation of the geoid available in doi: 10.5281/zenodo.5882205. Gravity disturbances were computed by removing the normal gravity of the WGS84 ellipsoid computed through Boule. Bouguer gravity disturbances were computed by forward modelling the topography using Harmonica starting from the topography grid provided in doi: 10.5281/zenodo.6481379 and using densities of 2670 kg/m³ above the ellipsoid and 1040 - 2670 kg/m³ below the ellipsoid. <strong>Source: </strong>NOAA NCEI (gravity) and ETOPO1 (topography) <strong>Source license: </strong>public domain (gravity) and public domain (topography) <strong>Repository</strong>: https://github.com/fatiando-data/bushveld-gravity
DOI: 10.14457/cu.the.1999.394
title: ความเหมาะสมและประโยชน์ของชุดการเรียนด้วยตนเอง สำหรับหลักสูตรการฝึกอบรมทางไกล ของสมาคมการจัดการธุรกิจแห่งประเทศไทย

description: การวิจัยครั้งนี้มีวัตถุประสงค์เพื่อศึกษาและเปรียบเทียบความคิดเห็นของผู้ผ่านการฝึกอบรมทางไกลของศูนย์ฝึกอบรมทางไกล สมาคมการจัดการธุรกิจแห่งประเทศไทย เกี่ยวกับชุดการเรียนด้วยตนเองทั้ง 5หลักสูตร คือ หลักสูตรกลยุทธ์การวิเคราะห์และแก้ปัญหา หลักสูตรทักษะในการปรับปรุงงาน หลักสูตรการจัดระเบียบสถานที่ทำงานด้วยกิจกรรม 5 ส. หลักสูตรการพัฒนาหัวหน้างาน และหลักสูตรการพัฒนาผู้บริหารในด้านความเหมาะสมและประโยชน์ของเนื้อหาต่อการนำไปใช้ปฏิบัติงานในหน้าที่ ตามภูมิหลังของผู้ผ่านการฝึกอบรมที่แตกต่างกันคือ วุฒิการศึกษา ตำแหน่งงาน ประสบการณ์ในการทำงาน คะแนนที่ได้จากการทำแบบทดสอบ ช่วงเวลาที่ใช้ในการฝึกอบรม และปริมาณการอ่านชุดการเรียนด้วยตนเอง ประชากรที่ใช้ในการวิจัย คือ ผู้ผ่านการฝึกอบรมทางไกลของศูนย์ฝึกอบรมทางไกล สมาคมการจัดการธุรกิจแห่งประเทศไทยทั้ง 5 หลักสูตรนับตั้งแต่ปี พ.ศ.2534-2539 รวมจำนวน 1,872 คน กลุ่มตัวอย่างได้รับการสุ่มแบบชั้นภูมิได้จำนวนตัวอย่างรวม 322 คน เครื่องมือที่ใช้ในการวิจัยคือ แบบสอบถาม การเก็บรวบรวมข้อมูลใช้การส่งแบบสอบถามทางไปรษณีย์ และได้รับกลับคืนมา 264 ฉบับ คิดเป็นร้อยละ 82.90 วิเคราะห์ข้อมูลโดยเครื่องไมโครคอมพิวเตอร์ด้วยโปรแกรมสำเร็จรูป SPSS/PC ผลการวิจัยพบว่า 1. ผู้ผ่านการฝึกอบรมทางไกลทั้ง 5 หลักสูตรมีความคิดเห็นว่าชุดการเรียนด้วยตนเองโดยรวมและรายด้านมีความเหมาะสมอยู่ในระดับมากทั้ง 6 ด้าน ได้แก่ ด้านวัตถุประสงค์ เนื้อหา ภาษา กิจกรรมในการเรียนการประเมินผล และรูปแบบการนำเสนอความรู้ สำหรับประโยชน์ของเนื้อหาในชุดการเรียนด้วยตนเองมีความคิดเห็นว่าอยู่ในระดับมาก ส่วนประโยชน์ของการนำเนื้อหาในชุดการเรียนด้วยตนเองไปใช้ในการปฏิบัติงานในหน้าที่มีความคิดเห็นว่าอยู่ในระดับปานกลาง 2. ผลการเปรียบเทียบความคิดเห็นของผู้ผ่านการฝึกอบรมทางไกลที่มีภูมิหลังต่างกันพบว่าผู้ผ่านการอบรมทางไกลที่มีวุฒิการศึกษาต่างกันมีความคิดเห็นเกี่ยวกับชุดการเรียนด้วยตนเองในด้านความเหมาะสมของชุดการเรียนประโยชน์ของเนื้อหา และการนำไปใช้ในการปฏิบัติงานในหน้าที่แตกต่างกันอย่างมีนัยสำคัญทางสถิติที่ระดับ .05 ส่วนผู้ที่มีตำแหน่งงาน ประสบการณ์ในการทำงาน คะแนนที่ได้รับจากการทำแบบทดสอบ ช่วงเวลาที่ใช้ในการฝึกอบรมและปริมาณการอ่านชุดการเรียนด้วยตนเองต่างกัน มีความคิดเห็นต่อชุดการเรียนด้วยตนเองไม่แตกต่างกัน
DOI: 10.14457/cu.the.1999.395
title: การเปรียบเทียบความคิดเห็นของนักศึกษาที่พิการทางการมองเห็นที่เรียนหลักสูตรต่างระดับเกี่ยวกับสภาพการจัดการศึกษานอกโรงเรียนสายสามัญในกรุงเทพมหานคร