cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.24038020
title: Characterizing nucleotide binding site domain (NBD) of <i>ZzR</i>1 resistance gene from <i>Zingiber zerumbet</i>: <i>in silico</i> ligand docking and optimizing heterologous expression

description: The Nucleotide-binding site domain (NBD) of plant resistance (R) genes plays a vital role during plant defense signaling. The functional significance of CC-NBS-LRR (Coiled coil-NBS-Leucine Rich Repeat) class of R gene designated <i>ZzR</i>1, characterized from <i>Zingiber zerumbet</i> in earlier studies, was determined by molecular modeling and docking studies. Docked complex showed the ligand GTP interacts with amino acid residues in the cleft made by GLPL and P-loop motifs of the NBD. Heterologous expression of ZzR1 NBS protein was optimized using expression vectors, p<i>Ecoli</i>-Nterm-6xHN and pET Directional TOPO and transformed in five <i>Escherichia coli</i> strains namely DH5α, TOP10, BL21DE3, BL21DE3 star and BL21plysS cells. The NBS protein of 36 kDa molecular size was expressed in <i>E. coli</i> BL21DE3 strain using pET TOPO vector. Optimum induction was detected at 30 °C using isopropyl-1-thio-β-D-galactopyranoside (IPTG) (1 mM). The present study provides valuable information on ligand interactions and heterologous expression of ZzR1 NBD protein.
DOI: 10.6084/m9.figshare.24038020.v1
title: Characterizing nucleotide binding site domain (NBD) of <i>ZzR</i>1 resistance gene from <i>Zingiber zerumbet</i>: <i>in silico</i> ligand docking and optimizing heterologous expression

description: The Nucleotide-binding site domain (NBD) of plant resistance (R) genes plays a vital role during plant defense signaling. The functional significance of CC-NBS-LRR (Coiled coil-NBS-Leucine Rich Repeat) class of R gene designated <i>ZzR</i>1, characterized from <i>Zingiber zerumbet</i> in earlier studies, was determined by molecular modeling and docking studies. Docked complex showed the ligand GTP interacts with amino acid residues in the cleft made by GLPL and P-loop motifs of the NBD. Heterologous expression of ZzR1 NBS protein was optimized using expression vectors, p<i>Ecoli</i>-Nterm-6xHN and pET Directional TOPO and transformed in five <i>Escherichia coli</i> strains namely DH5α, TOP10, BL21DE3, BL21DE3 star and BL21plysS cells. The NBS protein of 36 kDa molecular size was expressed in <i>E. coli</i> BL21DE3 strain using pET TOPO vector. Optimum induction was detected at 30 °C using isopropyl-1-thio-β-D-galactopyranoside (IPTG) (1 mM). The present study provides valuable information on ligand interactions and heterologous expression of ZzR1 NBD protein.
DOI: 10.17632/fjpwfwfcg9.1
title: Bibliographic dataset and analysis of machine learning in space weather

description: The bibliometric data are utilized to compile the literatures in machine learning and space weather studies. Basic bibliometric evaluation provides descriptive analysis that can be visualized with the Biblioshiny web application.
DOI: 10.17632/fjpwfwfcg9.2
title: Bibliographic dataset and analysis of machine learning in space weather

description: The bibliometric data are utilized to compile the literatures in machine learning and space weather studies. Basic bibliometric evaluation provides descriptive analysis that can be visualized with the Biblioshiny web application.
DOI: 10.57841/casdc.0002474
title: 钴基费托合成浆态床工业示范性能标定数据集
DOI: 10.17632/5pv49vxsjk.1
title: CGR images of virus families

description: Chaos Game Representation (CGR) is a alignment free method which converts textual biosequences into graphical images, which can then be used to classify the sequence. Genome sequences can be represented as CGR images. Human pathogenic viruses are always a hot topic in the area of research. The dataset contains 1600 CGR images of 8 different human pathogenic virus families. The virus families included are Adenoviridae, Anelloviridae, Coronaviridae, Flaviviridae, Papillomaviridae, Picornaviridae, Poxviridae and Retroviridae.
The images are placed under three folders named "train", "test" and "validate". The "train" folder has 1120 images, 140 images from each class. Likewise "test" folder has 320 images, 40 images from each class. Finally the "validate" folder has 160 images, 20 images from each class.
DOI: 10.57841/casdc.0002475
title: 钴基费托合成固定床催化剂放大制备数据库
DOI: 10.57841/casdc.0002476
title: OXZEO催化剂吨级放大制备数据集
DOI: 10.57841/casdc.0002477
title: 钴基费托合成浆态床催化剂放大制备数据库
DOI: 10.18465/07ff4264-dfb3-4065-a595-6871a3077b80
title: MNS Sables d'Olonne 2018

description: Modèle Numérique de Surface obtenu par LiDAR sur la côte vendéenne au niveau des Sables d'Olonne
DOI: 10.57841/casdc.0002478
title: 钴基费托合成固定床催化剂研究数据集
DOI: 10.18465/c2e638ca-d199-4d06-9407-e15d62b2052b
title: MNS Sables d'Olonne 2020

description: Modèle Numérique de Surface obtenu par LiDAR sur la côte vendéenne au niveau des Sables d'Olonne
DOI: 10.18465/99c9c4b7-dc47-4fd9-b025-900cf6838b7d
title: MNS Sables d'Olonne 2019

description: Modèle Numérique de Surface obtenu par LiDAR sur la côte vendéenne au niveau des Sables d'Olonne
DOI: 10.18465/720263be-e4f7-4160-bcb5-4aa53730e62f
title: MNS Sables d'Olonne 2017

description: Modèle Numérique de Surface obtenu par LiDAR sur la côte vendéenne au niveau des Sables d'Olonne
DOI: 10.18465/48ce16ff-b7f4-4eec-b62e-ddabd2756921
title: MNT Sables d'Olonne 2021

description: Modèle Numérique de Terrain obtenu par LiDAR sur la côte vendéenne au niveau des Sables d'Olonne
DOI: 10.57841/casdc.0002479
title: ZnZrOx固溶体催化剂表面羟基在CO2加氢制甲醇中的作用数据
DOI: 10.18465/7ec14e9b-180c-43fd-9c09-ae694ad1eb3e
title: MNT Sables d'Olonne 2019

description: Modèle Numérique de Terrain obtenu par LiDAR sur la côte vendéenne au niveau des Sables d'Olonne
DOI: 10.18465/8bb690b0-e2b5-42b6-a980-b11ac9d7d073
title: MNT Sables d'Olonne 2017

description: Modèle Numérique de Terrain obtenu par LiDAR sur la côte vendéenne au niveau des Sables d'Olonne
DOI: 10.18465/efab3e04-9264-4b0b-9eef-552bcee21813
title: MNT Sables d'Olonne 2018

description: Modèle Numérique de Terrain obtenu par LiDAR sur la côte vendéenne au niveau des Sables d'Olonne
DOI: 10.18465/0df06780-aa8a-45a9-993b-864a63427096
title: MNS Sables d'Olonne 2021

description: Modèle Numérique de Surface obtenu par LiDAR sur la côte vendéenne au niveau des Sables d'Olonne
DOI: 10.18465/cc6cefef-ff45-4d69-a6ad-9d0aa9eb1b17
title: MNT Sables d'Olonne 2020

description: Modèle Numérique de Terrain obtenu par LiDAR sur la côte vendéenne au niveau des Sables d'Olonne
DOI: 10.11588/data/cyynba/6rqbd4
title: MSD_SAMPLES_Clinical_data_2020-01-24_final_public.xlsx

description: :unav
DOI: 10.11588/data/cyynba
title: Diagnostic performance of host protein signatures as a triage test for active pulmonary TB [data]

description: The current four symptom screen recommended by the WHO is widely used as screen to initiate diagnostic testing for active pulmonary tuberculosis (TB), yet the performance is poor especially when TB prevalence is low. In contrast, more sensitive molecular tests are less suitable for placement at primary care level in low resource settings. In order to meet the WHO End TB targets new diagnostic approaches are urgently needed to find the missing undiagnosed cases. Proteomics-derived blood host biomarkers have been explored because protein detection technologies are suitable for the point-of-care setting and could meet cost targets. This study aimed to find a biomarker signature that fulfills WHO’s target product profile (TPP) for a TB screening. 12 blood-based protein biomarkers from three sample populations (Vietnam, Peru, South Africa) were analyzed individually and in combinations via advanced statistical methods and machine learning algorithms. The combination of I-309, SYWC and kallistatin showed the most promising results to discern active TB throughout the datasets meeting the TPP for a triage test in adults from two countries (Peru and South Africa). The top performing individual markers identified at the global level (I-309 and SYWC) were also among the best performing markers at country level in South Africa and Vietnam. This analysis clearly shows that a host protein biomarker assay is feasible in adults for certain geographical regions based on one or two biomarkers with a performance that meets minimal WHO TPP criteria.
DOI: 10.57770/pnfgtf
title: Generation of two isogenic human induced pluripotent stem cell lines from a 15 year-old female patient with MERRF syndrome and A8344G mutation of mitochondrial DNA

description: MERRF syndrome is predominantly caused by A8344G mutation in the mitochondrial DNA (mtDNA), affecting MT-TK gene, which impairs the mitochondrial electron transport chain function. Here, we report the generation of two isogenic induced pluripotent stem cell (iPSC) lines, TVGH-iPSC-MRF-Mlow and TVGH-iPSC-MRF-Mhigh, from the skin fibroblasts of a female MERRF patient harboring mtDNA A8344G mutation by using retrovirus transduction system. Both cell lines share the same genetic background except containing different proportions of mtDNA with the A8344G mutation. Both cell lines exhibited the pluripotency and capacity to differentiate into three germ layers.
DOI: 10.57770/ukgguk
title: Depletion of Sirt3 leads to the impairment of adipogenic differentiation and insulin resistance via interfering mitochondrial function of adipose-derived human mesenchymal stem cells

description: Upregulation of mitochondrial function and oxidative metabolism is a hallmark in the differentiation of stem cells. However, the mechanism underlying the metabolic reprogramming and upregulation of mitochondrial function during the differentiation of human mesenchymal stem cells(hMSCs) is largely unclear. Sirt3 has emerged as a sensor in regulating mitochondrial function and antioxidant defence system in cellular response to energy demand or environmental stimuli, but its roles in stem cell differentiation have not been fully understood. In this study, we used adipose-derived hMSCs (ad-hMSCs) to investigate the role of Sirt3 in adipogenic differentiation and in the function of mature adipocytes. We showed that at the early stage of adipogenic differentiation, Sirt3 upregulation is essential for the activation of biogenesis and bioenergetic function of mitochondria. In addition, we found that induction of Forkhead Box O 3a (FoxO3a), an upstream factor that regulates MnSOD gene transcription, is involved in the upregulation of antioxidant enzymes at the early stage of adipogenic differentiation. Silencing of Sirt3 by shRNA decreased the protein level of FoxO3a and subsequently downregulated a number of FoxO3amediated antioxidant enzymes and increased oxidative stress in ad-hMSCs after adipogenic induction. Importantly, depletion of Sirt3 compromised the ability of ad-hMSCs to undergo adipogenic differentiation and led to adipocyte dysfunction and insulin resistance. These findings suggest that Sirt3-mediated protein deacetylation plays an important role in regulating oxidative metabolism and antioxidant defence in stem cell differentiation, and that Sirt3 deficiency may be related to insulin resistance.
DOI: 10.5281/zenodo.8365966
title: arcaravaggi/2023_SSSI_bird_assemblages: v.01

description: No description provided.
DOI: 10.5281/zenodo.8365965
title: arcaravaggi/2023_SSSI_bird_assemblages: v.01

description: No description provided.
DOI: 10.4121/73aef63e-e16f-4d72-920a-aff52b7fb1a2
title: Data underlying the research of GPS velocity field

description: It contains the GPS velocity fields relative to the Asian and European plates and the GPS velocity fields relative to the Ordos massif, the block delineation of the Ordos and surrounding areas and the TDEFNODE software control file (for more information, see the TDEFNODE user manual).<br>The .boundary file is the latitude and longitude of the mapped boundary contour points.The .txt file is the velocity of the GPS station relative to the Eurasian plate or Ordovician massif, divided into northward and eastward components and their respective uncertainties, the correlation of the northeast component and the station code.<br>The .tdfn file is the TDEFNODE control file, please refer to the TDEFNODE user manual for keyword meanings.<br><br>它包含相对于亚洲和欧洲板块的GPS速度场和相对于鄂尔多斯地块的GPS速度场，鄂尔多斯及周边地区的块划定以及TDEFNODE软件控制文件（有关更多信息，请参阅TDEFNODE用户手册）。<br>边界文件是映射的边界等值线点的纬度和经度。.txt文件是GPS站相对于欧亚板块或奥陶纪地块的速度，分为向北和向东的分量及其各自的不确定性，东北分量和台站代码的相关性。<br>.tdfn文件是TDEFNODE控制文件，关键字含义请参考TDEFNODE用户手册。
DOI: 10.4121/73aef63e-e16f-4d72-920a-aff52b7fb1a2.v2
title: Data underlying the research of GPS velocity field

description: It contains the GPS velocity fields relative to the Asian and European plates and the GPS velocity fields relative to the Ordos massif, the block delineation of the Ordos and surrounding areas and the TDEFNODE software control file (for more information, see the TDEFNODE user manual).<br>The .boundary file is the latitude and longitude of the mapped boundary contour points.The .txt file is the velocity of the GPS station relative to the Eurasian plate or Ordovician massif, divided into northward and eastward components and their respective uncertainties, the correlation of the northeast component and the station code.<br>The .tdfn file is the TDEFNODE control file, please refer to the TDEFNODE user manual for keyword meanings.<br><br>它包含相对于亚洲和欧洲板块的GPS速度场和相对于鄂尔多斯地块的GPS速度场，鄂尔多斯及周边地区的块划定以及TDEFNODE软件控制文件（有关更多信息，请参阅TDEFNODE用户手册）。<br>边界文件是映射的边界等值线点的纬度和经度。.txt文件是GPS站相对于欧亚板块或奥陶纪地块的速度，分为向北和向东的分量及其各自的不确定性，东北分量和台站代码的相关性。<br>.tdfn文件是TDEFNODE控制文件，关键字含义请参考TDEFNODE用户手册。
DOI: 10.25345/c5zp3w99c
title: MassIVE MSV000092918 - Chronic lymphocytic leukemia derived exosomes educate endothelial cells to become IL-6 producing CLL supportive cells
title: We hypothesized that via exosomes, chronic lymphocytic leukemia (CLL) cells turn endothelial cells into CLL supportive cells. To test this, we treated vein-derived (HUVECs) and arterial- derived (HAOEC) endothelial cells with exosomes isolated from the peripheral blood of 45 treatment naive patients. Endothelial cells took-up CLL-exosomes in a dose- and time- dependent manner. To test whether CLL-exosomes turn endothelial cells into IL-6-producing cells this, we exposed them to CLLexosomes and found 50% increase in IL-6 levels. Subsequently, we filtered out the endothelial cells, and added CLL cells to this IL-6 enriched medium. After 15 minutes, STAT3 became phosphorylated and there was 40% decrease in apoptosis rate, indicating that IL-6 activated STAT3-dependent anti-apoptotic pathway. Phospho-proteomics analysis of CLL- exosome sexposed endothelial cells revealed 23 phospho-proteins that were upregulated and network analysis unraveled the central role of phosphor- beta catenin. We transfected HUVECs with a beta-catenin containing plasmid and found by ELISA 30% increase in the levels of IL-6 in the culture medium. By chromatin immunoprecipitation assay an increased binding of 3 transcription factors to the IL-6 promoter. Taken together, we found that CLL cells communicate with endothelial cells through exosomes that they release. Once they are taken up by endothelial, they turn them into IL-6 producing cells.
DOI: 10.21954/ou.rd.23143217.v1
title: <strong>Dataset: </strong><strong>Structural Map of Tectonic Shortening Structures in Chryse Planitia and Arabia Terra, Mars.</strong>

description: This dataset contains:<b>READ ME Data guid</b><b>e</b><b> (.txt)</b>.<b>Shapefile</b><b> (.shp)</b> of tectonic shortening structures in Chryse Planitia and Arabia Terra, Mars (digitised in ArcGIS Pro 2.7.2 software as polylines at a scale of 1:50,000).<b>Layer file</b><b> (.lyrx)</b> for the symbology of the tectonic shortening structures.<b>Shapefile</b><b> (.shp)</b> of identified impact ejecta blankets.<b>Projection file</b><b> (.prj)</b> of a Hotine Oblique Mercator projection (azimuth 37°, centre latitude 23°, centre longitude −20°) using the IAU Mars 2000 Sphere.A publication and map sheet accompanying this dataset can be found at:Savana Z. Woodley, Peter Fawdon, Matthew R. Balme & David A. Rothery (2023) Map of tectonic shortening structures in Chryse Planitia and Arabia Terra, Mars, Journal of Maps, 19:1, DOI: 10.1080/17445647.2023.2251514This dataset was gathered using freely available data:CTX data is available from the Murray Lab (https://murray-lab.caltech.edu/CTX/) or Mars Image Explorer (http://viewer.mars.asu.edu/viewer/ctx#T = 0).HRSC data can be downloaded from the Freie Universitat Berlin (https://maps.planet.fu-berlin.de/#map = 3/2074498.35/0).Data is available from the USGS Astrogeology Science Center for THEMIS (https://astrogeology.usgs.gov/search/map/Mars/Odyssey/THEMIS-IR-Mosaic-ASU/Mars_MO_THEMIS-IR-Day_mosaic_global_100m_v12) and MOLA gridded data (https://astrogeology.usgs.gov/search/map/Mars/GlobalSurveyor/MOLA/Mars_MGS_MOLA_ClrShade_merge_global_463m).How to cite:Woodley, S. Z., Fawdon, P., Balme, M. R., & Rothery, D. A. (2023). Dataset: Tectonic shortening structures in Chryse Planitia and Arabia Terra, Mars. The Open University. https://doi.org/10.21954/ou.rd.23143217.
DOI: 10.21954/ou.rd.23143217
title: <strong>Dataset: </strong><strong>Structural Map of Tectonic Shortening Structures in Chryse Planitia and Arabia Terra, Mars.</strong>

description: This dataset contains:<b>READ ME Data guid</b><b>e</b><b> (.txt)</b>.<b>Shapefile</b><b> (.shp)</b> of tectonic shortening structures in Chryse Planitia and Arabia Terra, Mars (digitised in ArcGIS Pro 2.7.2 software as polylines at a scale of 1:50,000).<b>Layer file</b><b> (.lyrx)</b> for the symbology of the tectonic shortening structures.<b>Shapefile</b><b> (.shp)</b> of identified impact ejecta blankets.<b>Projection file</b><b> (.prj)</b> of a Hotine Oblique Mercator projection (azimuth 37°, centre latitude 23°, centre longitude −20°) using the IAU Mars 2000 Sphere.A publication and map sheet accompanying this dataset can be found at:Savana Z. Woodley, Peter Fawdon, Matthew R. Balme & David A. Rothery (2023) Map of tectonic shortening structures in Chryse Planitia and Arabia Terra, Mars, Journal of Maps, 19:1, DOI: 10.1080/17445647.2023.2251514This dataset was gathered using freely available data:CTX data is available from the Murray Lab (https://murray-lab.caltech.edu/CTX/) or Mars Image Explorer (http://viewer.mars.asu.edu/viewer/ctx#T = 0).HRSC data can be downloaded from the Freie Universitat Berlin (https://maps.planet.fu-berlin.de/#map = 3/2074498.35/0).Data is available from the USGS Astrogeology Science Center for THEMIS (https://astrogeology.usgs.gov/search/map/Mars/Odyssey/THEMIS-IR-Mosaic-ASU/Mars_MO_THEMIS-IR-Day_mosaic_global_100m_v12) and MOLA gridded data (https://astrogeology.usgs.gov/search/map/Mars/GlobalSurveyor/MOLA/Mars_MGS_MOLA_ClrShade_merge_global_463m).How to cite:Woodley, S. Z., Fawdon, P., Balme, M. R., & Rothery, D. A. (2023). Dataset: Tectonic shortening structures in Chryse Planitia and Arabia Terra, Mars. The Open University. https://doi.org/10.21954/ou.rd.23143217.
DOI: 10.18465/34ffda3e-1c7a-4ae7-9490-d3b20cbca9f9
title: MNT Jard-sur-Mer 2020

description: Modèle Numérique de Terrain obtenu par LiDAR sur la côte vendéenne au niveau de Jard-sur-Mer
DOI: 10.6084/m9.figshare.24173610
title: nucleotide fasta file for 43,130 non-redundant viral genomes

description: Using virion-enriched metagenomics, we characterized and compared the gut DNA virome of 25 captive and wild <i>R. roxellana</i> with no signs of disease at the time of sampling. A dataset contained 43,130 non-redundant viral genomes was generated.
DOI: 10.6084/m9.figshare.24173610.v2
title: nucleotide fasta file for 43,130 non-redundant viral genomes

description: Using virion-enriched metagenomics, we characterized and compared the gut DNA virome of 25 captive and wild <i>R. roxellana</i> with no signs of disease at the time of sampling. A dataset contained 43,130 non-redundant viral genomes was generated.
DOI: 10.6084/m9.figshare.24173610.v1
title: 43,130 non-redundant viral genomes

description: Using virion-enriched metagenomics, we characterized and compared the gut DNA virome of 25 captive and wild <i>R. roxellana</i> with no signs of disease at the time of sampling. A dataset contained 43,130 non-redundant viral genomes was generated.
DOI: 10.18465/mnt_jard_sur_mer_2013
title: MNT Jard-sur-Mer 2013

description: Modèle Numérique de Terrain obtenu par LiDAR sur la côte vendéenne au niveau de Jard-sur-Mer
DOI: 10.34740/kaggle/dsv/6510197
title: AutoXGB
DOI: 10.34740/kaggle/dsv/6510198
title: OnlineFree
DOI: 10.18465/mns_jard_sur_mer_2013
title: MNS Jard-sur-Mer 2013

description: Modèle Numérique de Surface obtenu par LiDAR sur la côte vendéenne au niveau de Jard-sur-Mer
DOI: 10.18465/7e55e3a4-5794-410a-98fb-9a469d73ebfe
title: MNT Jard-sur-Mer 2019

description: Modèle Numérique de Terrain obtenu par LiDAR sur la côte vendéenne au niveau de Jard-sur-Mer
DOI: 10.5281/zenodo.8338963
title: Single nuclei RNAseq stratifies multiple sclerosis patients into distinct white matter glial responses

description: The lack of understanding of the cellular and molecular basis of clinical and genetic heterogeneity in progressive multiple sclerosis (MS) has hindered the search for new effective therapies. Here, to address this gap, we analysed 632,000 single nuclei RNAseq profiles of 156 brain tissue samples, comprising white matter (WM) lesions, normal appearing WM, grey matter (GM) lesions and normal appearing GM from 54 MS patients and 26 controls. We observed the expected changes in overall neuronal and glial numbers previously described within the classical lesion subtypes. We found highly cell type-specific gene expression changes in MS tissue, with distinct differences between GM and WM areas, confirming different pathologies. However, surprisingly, we did not observe distinct gene expression signatures for the classical different WM lesion types, rather a continuum of change. This indicates that classical lesion characterization better reflects changes in cell abundance than changes in cell type gene expression, and indicates a global disease effect. Furthermore, the major biological determinants of variability in gene expression in MS WM samples relate to individual patient effects, rather than to lesion types or other metadata. We identify four subgroups of MS patients with distinct WM glial gene expression signatures and patterns of oligodendrocyte stress and/or maturation, suggestive of engagement of different pathological processes, with an additional more variable regenerative astrocyte signature. The discovery of these patterns, which were also found in an independent MS patient cohort, provides a framework to use molecular biomarkers to stratify patients for optimal therapeutic approaches for progressive MS, significantly advances our mechanistic understanding of progressive MS, and highlights the need for precision-medicine approaches to address heterogeneity among MS patients.