cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.4121/19228347
title: Supplementary information to: Simpler is not always better: transplanting the Yarrowia lipolytica glycolytic pathway into Saccharomyces cerevisiae reveals essential synergetic regulatory mechanisms

description: This document contains supplementary Tables and Figures pertaining to the research article entitled: Simpler is not always better: transplanting the <i>Yarrowia lipolytica</i> glycolytic pathway into<i> Saccharomyces cerevisiae</i> reveals essential synergetic regulatory mechanisms.<br>Abstract The Embden-Meyerof-Parnas pathway of glycolysis is a widely distributed and intensively investigated metabolic route. While allosteric regulation is thought to be essential for glycolytic flux dynamics in many organisms including yeast, to date single enzyme complementation studies with non-allosteric glycolytic enzymes have failed to experimentally demonstrate this essentiality and quantify the overall contribution of allosteric regulation in tuning the glycolytic flux. This study brings new insight in the synergetic metabolic role of allosteric regulation by implementing pathway swapping, a strategy enabling to remodel, in two simple genetic interventions, the entire glycolytic pathway of <i>Saccharomyces cerevisiae.</i> <i>S. cerevisiae</i> equipped with the full set of non-allosteric glycolytic enzymes from the oleaginous yeast <i>Y. lipolytica</i> lost the ability to grow on media containing 2% glucose and displayed dynamic responses suggesting metabolic imbalance between upper and lower glycolysis. Single and combined gene complementation demonstrated that this phenotype was caused by the simultaneous deregulation of the three key kinases: hexokinase, phosphofructokinase and pyruvate kinase. ‘Deregulated glycolysis’ <i>S. cerevisiae</i> strains could naturally restore glycolytic stability and growth on glucose by evolving mutations in the <i>Y. lipolytica</i> glucokinase, causing a strong decrease in glucokinase activity and glycolytic flux. This solution could be recapitulated in non-evolved deregulated glycolysis <i>S. cerevisiae</i> strains by experimentally tuning glucose import. Supported by kinetic modelling, the present work demonstrates the major synergetic role played by allosteric regulations in preventing metabolic imbalance in glycolysis and highlights the power of synthetic biology in addressing long-standing questions in systems biology.<br>
DOI: 10.4121/19042235.v1
title: Data underlying the publication: "Semantic Segmentation using Deep Neural Networks for MAVs"

description: The dataset used for the experiments presented in the paper "Semantic Segmentation using Deep Neural Networks for MAVs". The data was recorded in the CyberZoo test arena at the Faculty of Aerospace Engineering at TU Delft. <br>The dataset consists of RGB images of racing gates, segmentation masks, and optical flow maps. <br>
DOI: 10.4121/19042235.v2
title: Data underlying the publication: "Semantic Segmentation over Time using Deep Neural Networks"

description: The dataset used for the experiments presented in the paper "Semantic Segmentation over Time using Deep Neural Networks". The data was recorded in the CyberZoo test arena at the Faculty of Aerospace Engineering at TU Delft. <br>The dataset consists of RGB images of racing gates, segmentation masks, and optical flow maps. <br>
DOI: 10.4121/19248725.v1
title: Data underlying the publication: “No Spring Chicken: Quantifying the Lifespan of Exploits in IoT Malware Using Static and Dynamic Analysis”

description: This includes: - Datasets: The three datasets used in this research (Urlhaus, Honeypot and Genealogy)<br>- Scripts: Scripts used to search for exploits signatures and vulnerability matching<br>- PCAPs: Network traffic captures <br>- Exploit signatures: the exploits signatures found in the three datasets<br>- Vulnerability information: List of all the corresponding vulnerabilities for the exploits found
DOI: 10.4121/19248725
title: Data underlying the publication: “No Spring Chicken: Quantifying the Lifespan of Exploits in IoT Malware Using Static and Dynamic Analysis”

description: This includes: - Datasets: The three datasets used in this research (Urlhaus, Honeypot and Genealogy)<br>- Scripts: Scripts used to search for exploits signatures and vulnerability matching<br>- PCAPs: Network traffic captures <br>- Exploit signatures: the exploits signatures found in the three datasets<br>- Vulnerability information: List of all the corresponding vulnerabilities for the exploits found
DOI: 10.4121/19042235
title: Data underlying the publication: "Semantic Segmentation over Time using Deep Neural Networks"

description: The dataset used for the experiments presented in the paper "Semantic Segmentation over Time using Deep Neural Networks". The data was recorded in the CyberZoo test arena at the Faculty of Aerospace Engineering at TU Delft. <br>The dataset consists of RGB images of racing gates, segmentation masks, and optical flow maps. <br>
DOI: 10.4121/19139651.v1
title: CPT-based classification and correlations for organic soils

description: This data corresponds to PhD thesis:Title: Testing and modeling of sheet pile reinforced dikes on organic soils subtitle: Insights from the Eemdijk full-scale failure test<br>It contains the paired and processed data.<br>There are three topics:1) Unit weight correlation of mineral and organic soils2) CPT-based correlations organic soils3) SBT classification organic soils<br>The research is reported in:<br>Lengkeek, A., de Greef, J. & Joosten, S., 21 Jun 2018, Cone Penetration Testing 2018: Proceedings of the 4th International Symposium on Cone Penetration Testing (CPT'18), 21-22 June, 2018, Delft, The Netherlands. Hicks, M. A., Pisano, F. & Peuchen, J. (eds.). London: CRC Press, p. 389-394Research output: Chapter in Book/Conference proceedings/Edited volume › Conference contribution › Scientific › peer-review <br>CPT-based unit weight estimation extended to soft organic clays and peat - an updateLengkeek, H. J. & Brinkgreve, R. B. J., 2022, (Accepted/In press) 5th international symposium on cone penetration testing: cpt'22. 6 p.Research output: Chapter in Book/Conference proceedings/Edited volume › Conference contribution › Professional CPT-based classification of soft organic clays and peatLengkeek, H. J. & Brinkgreve, R. B. J., 2022, (Submitted) 5th international symposium on cone penetration testing: cpt'22. Bologna, 6 p.Research output: Chapter in Book/Conference proceedings/Edited volume › Conference contribution › Professional<br>
DOI: 10.4121/19139651.v2
title: CPT-based classification and correlations for organic soils

description: This data corresponds to PhD thesis:Title: Testing and modeling of sheet pile reinforced dikes on organic soils subtitle: Insights from the Eemdijk full-scale failure test<br>It contains the paired and processed data.<br>There are three topics:1) Unit weight correlation of mineral and organic soils2) CPT-based correlations organic soils3) SBT classification organic soils<br>The research is reported in:<br>Lengkeek, A., de Greef, J. & Joosten, S., 21 Jun 2018, Cone Penetration Testing 2018: Proceedings of the 4th International Symposium on Cone Penetration Testing (CPT'18), 21-22 June, 2018, Delft, The Netherlands. Hicks, M. A., Pisano, F. & Peuchen, J. (eds.). London: CRC Press, p. 389-394Research output: Chapter in Book/Conference proceedings/Edited volume › Conference contribution › Scientific › peer-review <br>CPT-based unit weight estimation extended to soft organic clays and peat - an updateLengkeek, H. J. & Brinkgreve, R. B. J., 2022, (Accepted/In press) 5th international symposium on cone penetration testing: cpt'22. 6 p.Research output: Chapter in Book/Conference proceedings/Edited volume › Conference contribution › Professional CPT-based classification of soft organic clays and peatLengkeek, H. J. & Brinkgreve, R. B. J., 2022, (Submitted) 5th international symposium on cone penetration testing: cpt'22. Bologna, 6 p.Research output: Chapter in Book/Conference proceedings/Edited volume › Conference contribution › Professional<br><br>Data from the Eemdijk full-scale test can be found in:https://www.hwbp.nl/kennisbank/pov-macrostabiliteit https://publicwiki.deltares.nl/display/POVM/Publicaties 4TU.ResearchData https://doi.org/10.4121/19213890.v1 <br>
DOI: 10.4121/19139651
title: CPT-based classification and correlations for organic soils

description: This data corresponds to PhD thesis:Title: Testing and modeling of sheet pile reinforced dikes on organic soils subtitle: Insights from the Eemdijk full-scale failure test<br>It contains the paired and processed data.<br>There are three topics:1) Unit weight correlation of mineral and organic soils2) CPT-based correlations organic soils3) SBT classification organic soils<br>The research is reported in:<br>Lengkeek, A., de Greef, J. & Joosten, S., 21 Jun 2018, Cone Penetration Testing 2018: Proceedings of the 4th International Symposium on Cone Penetration Testing (CPT'18), 21-22 June, 2018, Delft, The Netherlands. Hicks, M. A., Pisano, F. & Peuchen, J. (eds.). London: CRC Press, p. 389-394Research output: Chapter in Book/Conference proceedings/Edited volume › Conference contribution › Scientific › peer-review <br>CPT-based unit weight estimation extended to soft organic clays and peat - an updateLengkeek, H. J. & Brinkgreve, R. B. J., 2022, (Accepted/In press) 5th international symposium on cone penetration testing: cpt'22. 6 p.Research output: Chapter in Book/Conference proceedings/Edited volume › Conference contribution › Professional CPT-based classification of soft organic clays and peatLengkeek, H. J. & Brinkgreve, R. B. J., 2022, (Submitted) 5th international symposium on cone penetration testing: cpt'22. Bologna, 6 p.Research output: Chapter in Book/Conference proceedings/Edited volume › Conference contribution › Professional<br><br>Data from the Eemdijk full-scale test can be found in:https://www.hwbp.nl/kennisbank/pov-macrostabiliteit https://publicwiki.deltares.nl/display/POVM/Publicaties 4TU.ResearchData https://doi.org/10.4121/19213890.v1 <br>
DOI: 10.4121/19224927.v1
title: Data and software accompanying the doctoral dissertation: Automated abstraction of discrete-event simulation models using state-trace data

description: State-trace data and source code accompanying Chapter 3,4,5 and Appendix A of the dissertation: Automated abstraction of discrete-event simulation models using state-trace data.
DOI: 10.4121/19224927
title: Data and software accompanying the doctoral dissertation: Automated abstraction of discrete-event simulation models using state-trace data

description: State-trace data and source code accompanying Chapter 3,4,5 and Appendix A of the dissertation: Automated abstraction of discrete-event simulation models using state-trace data.
DOI: 10.4121/19222239.v1
title: Data undelying the research on: New culture medium for micropropagation protocol of guava (Psidium guajava) seedlings, a plant with interest in cool subtropics.docx

description: <i>Psidium guajava is a new crop cultivated in Greece, with a potential pharmaceutical and ornamental uses. An efficient and reliable protocol for in vitro clonal propagation of P. guajava from seeds was developed. Five different media were examined. Shoot proliferation succeeded on a new basal medium (BB) with extra vitamin solution, without plant growth regulators. In addition, shoots on media supplemented with BB vitamins solution performed better than in MS and WP media. When BB medium was used, the greatest shoot number resulted in 4 mg L-1 BA with a score of 2.8. Regenerated single shoots were rooted in the BB medium, supplemented with 0.1 ΝΑΑ (mg L-1) and producing 2.2 roots of 4.6 cm, along with 3.1 cm of adventitious shoots. Acclimatization was accomplished in three phases, using peat-moss, vermiculite and perlite (1:1:1), declining a total survival of 83.3%. In order to examine the genetic diversity of the plant material, ISSR and SCoT molecular markers were used. The results indicated a low diversity, along with high percentage of polymorphism for both ISSR and SCoT analyzes.</i><br>
DOI: 10.4121/19222239
title: Data undelying the research on: New culture medium for micropropagation protocol of guava (Psidium guajava) seedlings, a plant with interest in cool subtropics.docx

description: <i>Psidium guajava is a new crop cultivated in Greece, with a potential pharmaceutical and ornamental uses. An efficient and reliable protocol for in vitro clonal propagation of P. guajava from seeds was developed. Five different media were examined. Shoot proliferation succeeded on a new basal medium (BB) with extra vitamin solution, without plant growth regulators. In addition, shoots on media supplemented with BB vitamins solution performed better than in MS and WP media. When BB medium was used, the greatest shoot number resulted in 4 mg L-1 BA with a score of 2.8. Regenerated single shoots were rooted in the BB medium, supplemented with 0.1 ΝΑΑ (mg L-1) and producing 2.2 roots of 4.6 cm, along with 3.1 cm of adventitious shoots. Acclimatization was accomplished in three phases, using peat-moss, vermiculite and perlite (1:1:1), declining a total survival of 83.3%. In order to examine the genetic diversity of the plant material, ISSR and SCoT molecular markers were used. The results indicated a low diversity, along with high percentage of polymorphism for both ISSR and SCoT analyzes.</i><br>
DOI: 10.4121/19095962.v1
title: Data underlying the publication: Tuning local microstructure of colloidal gels by ultrasound-activated deformable inclusions

description: Datasets for paper "Tuning local microstructure of colloidal gels by ultrasound-activated deformable inclusions", Soft Matter 2022.<br>Datasets include post-processed data from confocal imaging of colloidal gels, including positions of particles and structural quantities calculated as described in the paper.<br>Datasets are provided for two types of experiment: gel deformation caused by dissolution of an embedded bubble; or by ultrasound-driven bubble oscillations.<br>
DOI: 10.4121/19095962
title: Data underlying the publication: Tuning local microstructure of colloidal gels by ultrasound-activated deformable inclusions

description: Datasets for paper "Tuning local microstructure of colloidal gels by ultrasound-activated deformable inclusions", Soft Matter 2022.<br>Datasets include post-processed data from confocal imaging of colloidal gels, including positions of particles and structural quantities calculated as described in the paper.<br>Datasets are provided for two types of experiment: gel deformation caused by dissolution of an embedded bubble; or by ultrasound-driven bubble oscillations.<br>
DOI: 10.4121/17216162
title: Data underlying the publication: Visualizing bioclimates as a step towards improved climate change communication: tools and indications for the future

description: <i>The territorial dimension of climatic zones, coupled with their ecosystems, is an extremely important marker of (on-going and future) climate change, which can be visually communicated to tell new stories, to frame newsworthy extreme and slowing on-going impacts, to support adaptation measures and to foster reflections on the value of mitigation solutions. In this Research Insight, we highlight an emerging trend in the visual communication strategies calling for moving beyond distant icon. We contribute by underlining the role of isobioclimates and by releasing two sets of tools: copyright-free photos for 221 isobioclimatic areas of the world (both of typical landscape and of corresponding human settlments) and KMZ files mapping the current borders of bioclimates (that will undergo shifts as climate changes). We propose uses of such tools as layers for localising human settlements and events (e.g. wildfires). Furthermore, we provide guidelines for media operators as well as indications for future research.</i>
DOI: 10.4121/19188872
title: Haus Riswick grassland experiment with N fertilization and plant growth monitoring based on Unmanned Aerial Vehicle (UAV) hyperspectral imagery - campaigns of 2014 and 2017

description: Grassland (Lolium perenne) dry aboveground biomass, nitrogen content (N%) and N uptake (t ha-1) measured in experimental plots located near the city of Kleve, in Germany. These measurements correspond to five harvest dates, two in 2014 and three in 2017. In addition, UAV flights were performed on the same dates in the experimental site to acquire hyperspectral images, using the WageningenUR Hyperspectral Mapping System (HYMSY), a pushbroom imaging sensor comprising a spectrometer and a photogrammetric camera.
DOI: 10.4121/19188872.v1
title: Haus Riswick grassland experiment with N fertilization and plant growth monitoring based on Unmanned Aerial Vehicle (UAV) hyperspectral imagery - campaigns of 2014 and 2017

description: Grassland (Lolium perenne) dry aboveground biomass, nitrogen content (N%) and N uptake (t ha-1) measured in experimental plots located near the city of Kleve, in Germany. These measurements correspond to five harvest dates, two in 2014 and three in 2017. In addition, UAV flights were performed on the same dates in the experimental site to acquire hyperspectral images, using the WageningenUR Hyperspectral Mapping System (HYMSY), a pushbroom imaging sensor comprising a spectrometer and a photogrammetric camera.
DOI: 10.5281/zenodo.7035125
title: Zenodo Upload for DataFed record:YG044_Yichen_Guo_07172022

description: Zenodo Upload for DataFed record:YG044_Yichen_Guo_07172022
DOI: 10.5281/zenodo.7035124
title: Zenodo Upload for DataFed record:YG044_Yichen_Guo_07172022

description: Zenodo Upload for DataFed record:YG044_Yichen_Guo_07172022
DOI: 10.4121/19200413.v1
title: Data underlying the research of Overexpression of miR-424-5p reduces cisplatin resistance by downregulating SMURF1 in gastric cancer

description: This is the original data of "Overexpression of miR-424-5p reduces cisplatin resistance by downregulating SMURF1 in gastric cancer". It contain the data of qPCR, WB, FCM, IHC, IF and clinical pathology.
DOI: 10.4121/19200413
title: Data underlying the research of Overexpression of miR-424-5p reduces cisplatin resistance by downregulating SMURF1 in gastric cancer

description: This is the original data of "Overexpression of miR-424-5p reduces cisplatin resistance by downregulating SMURF1 in gastric cancer". It contain the data of qPCR, WB, FCM, IHC, IF and clinical pathology.
DOI: 10.4121/19196765
title: Supplementary video to paper "EigenMPC: An Eigenmanifold-Inspired Model-Predictive Control Framework for Exciting Efficient Oscillations in Mechanical Systems"

description: Video of the simulation of the EigenMPC controller applied to a double pendulum in order to reach sustained regular oscillations. <br>Two versions of the controller are applied: (a) the adaptive version simultaneously finds and converges to the modes, (b) the curved version uses information about a pre-computed mode in order to converge to it.<br>Both versions are applied in order to find the two normal modes of the double pendulum, namely the in-phase mode and the anti-phase one.<br><br>
DOI: 10.4121/19158821
title: Driver simulator data for old aged drivers

description: Driver simulator data for old aged drivers. The M designation shows the Main drive data of each driver and the D designation shows the Divided Attention drive data of each driver.
DOI: 10.4121/19136954
title: Data accompanying the Thesis publication “The Effects of Ageing on Driving Related Performance”

description: Data regarding the Neuropsychological tests. The following drivers were given the following Neuropsychological test: (1) Ufov Test (2) Dichotic Test (3) Trail-Making Test (4) Rey-Osterrieth Test (5) Paper Folding Test (6) Clock Drawing Test. Cronbach’s Alpha is the most general method of finding estimates of reliability through internal consistency. Cronbach’s Alpha is a measure of internal-consistency reliability that provides a lower-bound estimate of a test’s reliability based on a single administration. Multiple linear regression models were developed using nine neuropsychological tests (t<i>rail, clock, rey-copy, rey-recall, dichotic,paper, ufov1, ufov2, ufov3</i>) as predictors in order to predict general driving ability. Cronbach’s Alpha was first estimated using unit nominal weights i.e. weighting all items<br> equally. Further detail can be found in the thesis.
DOI: 10.4121/16760824.v1
title: Supplementary datafiles of - "Expanding the Menu: Are Polyphagy and Gene Family Expansions Linked Across Lepidoptera?

description: This dataset contains all supplementary datafiles for paper entitled: Expanding the Menu: Are Polyphagy and Gene Family Expansions Linked Across Lepidoptera?<br>https://doi.org/10.1093/gbe/evab283<br>Additionally, dataset and partition scheme including selected models used for the phylogenetic reconstruction are available.<br><b>The corresponding data refer to: </b><b>Thijmen Breeschoten, Corné F H van der Linden, Vera I D Ros, M Eric Schranz, Sabrina Simon, Expanding the Menu: Are Polyphagy and Gene Family Expansions Linked across Lepidoptera?, Genome Biology and Evolution, Volume 14, Issue 1, January 2022, evab283, </b>https://doi.org/10.1093/gbe/evab283<br><br>See the README file for detailed information<br><br>
DOI: 10.4121/16760824
title: Supplementary datafiles of - "Expanding the Menu: Are Polyphagy and Gene Family Expansions Linked Across Lepidoptera?

description: This dataset contains all supplementary datafiles for paper entitled: Expanding the Menu: Are Polyphagy and Gene Family Expansions Linked Across Lepidoptera?<br>https://doi.org/10.1093/gbe/evab283<br>Additionally, dataset and partition scheme including selected models used for the phylogenetic reconstruction are available.<br><b>The corresponding data refer to: </b><b>Thijmen Breeschoten, Corné F H van der Linden, Vera I D Ros, M Eric Schranz, Sabrina Simon, Expanding the Menu: Are Polyphagy and Gene Family Expansions Linked across Lepidoptera?, Genome Biology and Evolution, Volume 14, Issue 1, January 2022, evab283, </b>https://doi.org/10.1093/gbe/evab283<br><br>See the README file for detailed information<br><br>
DOI: 10.4121/14596131.v1
title: Supplementary datafiles of - "Genome and transcriptome analysis of the beet armyworm Spodoptera exigua reveals targets for pest control"

description: This dataset contains all supplementary datafiles paper entitled: “Genome and transcriptome analysis of the beet armyworm Spodoptera exigua reveals targets for pest control"<br>https://doi.org/10.1093/g3journal/jkab311<br><br><b>The corresponding data refer to: </b><b>Sabrina Simon, Thijmen Breeschoten, Hans J Jansen, Ron P Dirks, M Eric Schranz, Vera I D Ros, Genome and transcriptome analysis of the beet armyworm Spodoptera exigua reveals targets for pest control, G3 Genes|Genomes|Genetics, Volume 11, Issue 11, November 2021, jkab311, </b>https://doi.org/10.1093/g3journal/jkab311<br><br>See the README file for detailed information<br>
DOI: 10.4121/14596131
title: Supplementary datafiles of - "Genome and transcriptome analysis of the beet armyworm Spodoptera exigua reveals targets for pest control"

description: This dataset contains all supplementary datafiles paper entitled: “Genome and transcriptome analysis of the beet armyworm Spodoptera exigua reveals targets for pest control"<br>https://doi.org/10.1093/g3journal/jkab311<br><br><b>The corresponding data refer to: </b><b>Sabrina Simon, Thijmen Breeschoten, Hans J Jansen, Ron P Dirks, M Eric Schranz, Vera I D Ros, Genome and transcriptome analysis of the beet armyworm Spodoptera exigua reveals targets for pest control, G3 Genes|Genomes|Genetics, Volume 11, Issue 11, November 2021, jkab311, </b>https://doi.org/10.1093/g3journal/jkab311<br><br>See the README file for detailed information<br>