cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.10874716
title: Supplementary Information: Multimodal binding and inhibition of bacterial ribosomes by the  2 antimicrobial peptides Api137 and Api88

description: This dataset contains important data files for the MD simulation that are part of this publication.

 

The "simulations" directory contains Gromacs parameter files (.mdp) and the run input files (.tpr) as well as the final coordinate files (.gro) of each individual production simulation.

 

The directory "figure3" contains the raw data used to create Figure 3 in the manuscript.

 

The subdirectory "a" contains the data for the PCA projection plot in subfigure 3a. It includes projections of the simulation ensembles of Api88 conformation I-III on to the two dominant conformational modes (.xvg) and the respective extreme conformations (.pdb). The projections of the three initial models and the optimized structure set are also included.

 

Subdirectory "b" contains a numpy array (.npy) with the data for the correlation heatmap in subfigure 3b.

 

Subdirectory "c" contains the results of several correlation-optimization searches. Each directory "N#_maps", where # is to be replaced by the number of structures in the set, contains the search results for N correlation-optimized structures in the Api88 trajectories in the form of a pickled python dictionary (state.pkl). The dictionary has the following keys:



used: Already used sets of MD structures (frozenset)

selection: Structure set selected in the last iteration (set)

weights: weights of each structure in the selected structure set (numpy array)

iteration: Counter of the last iteration (int)


 

The directory "supplentary_figure_correlation_time" contains the data for a plot of the optimized correlation coefficient as a function of simulation time. The results of the optimization algorithms (as pickled python objects) are included in the subdirectories with the associated trajectory length as a name.
DOI: 10.5281/zenodo.10884476
title: Replication Package for Political Language In Economics

description: Replication Data for "Political Language in Economics" by Zubin Jelveh, Bruce Kogut, and Suresh Naidu
DOI: 10.5281/zenodo.10884477
title: Replication Package for Political Language In Economics

description: Replication Data for "Political Language in Economics" by Zubin Jelveh, Bruce Kogut, and Suresh Naidu
DOI: 10.15468/dl.bwyesb
title: Occurrence Download

description: A dataset containing 79276067 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is one of (Occurrence evidence, Living Specimen, Specimen, Material citation, Material sample, Human Observation, Machine Observation, Observation)",
 "Geometry POLYGON((22 -90,40 -90,40 90,22 90,22 -90))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Issue is Continent derived from coordinates",
 "OccurrenceStatus is Present",
 "Year 1942-2024"
 ]
}

 The dataset includes 79276067 records from 3005 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0041373-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17632/jb7t6zy87v.1
title: raw_dopedaluminumwaterreactions

description: raw experimental data in reference to manuscript "Leveraging grain size effects on hydrogen generated via doped aluminum-water reactions enabled by a liquid metal"
DOI: 10.17632/hpxhkyvctb.2
title: Extended metabolic biosensor design for dynamic pathway regulation of cell factories. Boada et al.

description: This dataset comprises all the data resulting from the model of our dynamic pathway regulation strategy for cell factories: The Extended metabolic TF-based biosensor antithetic controller (EMBA). Analysis of this dataset was performed and published in the article “Extended metabolic biosensor design for dynamic pathway regulation of cell factories” Yadira Boadaa, Alejandro Vignoni, Jesús Picó, Pablo Carbonell, 2020, iScience. DOI: https://doi.org/10.1016/j.isci.2020.101305 Different data in the dataset was obtained by changing some of the simulation parameters. Perturbation Data includes: -Time-courses of Naringenin and CHS for the open-loop and the closed-loop for varying available amounts of Malonyl-CoA (in number of molecules per cell) -Static (equilibrium) production level of Naringenin for the open-loop and the closed-loop for varying available amounts of Malonyl-CoA (in g/L). Robustness Data includes: -Static (equilibrium) production level of Naringenin (in g/L). for the direct controller and the antithetic controller for varying available amounts of Malonyl-CoA (100% and 60% of available malonyl-CoA) for each one of the parameter combinations. -Static levels of Naringenin vs CHS, Naringenin Vs Kaempferol vs anti-sigma and Anti-sigma vs CHS; for 15% CV random values of the pathway enzymes to obtain the plots of the different Transfer Function (dose-response curve) circuit parts (metabolic part of the biosensor, TF-based biosensor and controller, and overall sensor-controller transfer function).
DOI: 10.17632/35jrmwd4fw.1
title: PyChart_Python_Application

description: PyChart – A Python module for analysis and visual view of 2D/3D Charts The PyChart module (aimed at analysis and visual view of 2D/3D Charts) was created with the help of free and Open Source resources, using Python as a programming language and wx.Python as a graphical user interface toolkit. The chart data is imported from a Excel/ CSV file with a template structure and is drawn in the PyChart module as XY or XYZ curves similar with Excel scatter with smooth lines and markers style. The main functions of the charts are activated using the toolbar. The module is provided with zooming instruments (fit, pan, zoom in, zoom out), cubic spline curves interpolation, chart intersection with constant X, Y or Z values, visual follow of the 2D chart points to view coordinates, export of data in Windows Clipboard, Excel or Microsoft Word format and saving the chart as a image file.
DOI: 10.17632/6z5zkzb3hv.3
title: Omics-driven systems interrogation of metabolic dysregulationin COVID-19 pathogenesis

description: Systematic analyses of metabolic alterations during COVID-19 pathogenesis will uncover candidate pathways implicated in disease progression. We utilize a combination of targeted and untargeted tandem mass spectrometry for quantitative profiling of plasma lipidome and metabolome in mild, moderate and severe COVID-19 patients and healthy controls. We found that the plasma lipidome of COVID-19 resembled that of monosialodihexosyl gangliosides (GM3)-enriched exosomes, with enhanced levels of sphingomyelins (SMs) and GM3s. We conducted systems evaluation of metabolic dysregulation in COVID-19 using multiscale embedded differential correlation networks, and uncovered two lipid modules implicating bis(monoacylglyero)phosphate (BMPs)-mediated lipid sorting in multivesicular bodies (MVBs), and the negative co-regulation between GM3s and phosphatidylserines (PSs) in COVID-19 pathogenesis. We validated our postulations drawn based on plasma lipid changes using exosomes isolated from the same cohort. We measured exosome lipids and demonstrated that GM3s were increasingly enriched in the exosomes of COVID-19 patients with elevating disease severity. The levels of lipids and metabolotes are presented in the attached excel file. The level of lipids was expressed as nmol/L, while the level of polar metabolites was expressed as peak area (intensity).
DOI: 10.17632/dj4ybp77jw.1
title: Concatenated protein gene sequences of 183 Clonorchis sinensis specimens
DOI: 10.17632/pf53pxf6fn.2
title: data and statistical analysis of hatchability of reciprocal grouper hybrids

description: We produced fertilized eggs of reciprocal hybrids of kelp grouper and red-spotted grouper and evaluated the hatchability of these hybrid. These data shows the value of fertilization, hatching, deformity rates and the results of statistical analysis. These data indicates that hatching rates were similar in reciprocal hybrids and maternal purebreds. Finally, the two hybrids produced viable larvae.
DOI: 10.17632/kg3ypr2cww.1
title: Mitochondrial genome

description: Taku spinosocarinatus
DOI: 10.17632/wn7vkj89hg.3
title: Data for: Experimental Simulations of Hypervelocity Impact Penetration of Asteroids into the Terrestrial Ocean and Benthic Cratering

description: Dataset of hypervelocity impact experiments simulating oceanic impacts of asteroids. Table 1: Relationship between cavity depth and time after the first contact between projectile and water. Table 2: Time evolution of cavity growth and pressure wave propagation in the water column. (We have removed the pressure values in water from Table 2 due to the wrong estimates. )
DOI: 10.5066/f7v986x3
title: Riparian Vegetation and Environmental Variables, Colorado River, 2014Data

description: These data consist of species relative cover, percent cover of dead plant material, percent cover of soil and rock, and a variety of broad - and local- scale environmental variables. These data relate to sample sites along the Colorado River through Grand Canyon between Lees Ferry and river mile 245. The plant and ground cover data included here were originally collected as a part of annual vegetation monitoring by Grand Canyon Monitoring and Research Center. Environmental variables were either recorded in the field or obtained through other data sources. Species and ground cover data were collected in August and September 2014 at 96 randomly selected sample sites that were approximately evenly distributed along the river corridor. The sample sites were distributed among three geomorphic features: channel margins (44), debris fans (28), and sandbars (24). These data were compiled to study riparian vegetation patterns along the Colorado River through Grand Canyon and relate those vegetation patterns to environmental variables. In particular, the objectives of this study were to 1) determine if the riparian plant assemblages along the Colorado River change longitudinally and, if so, 2) describe how those assemblages differ in floristic composition, richness, and functional diversity, 3) determine if those assemblages are more likely explained by landscape or local factors, and 4) discuss the management and ecological implications of these results. These data are associated with the journal manuscript: Palmquist, E., Ralston, B.E., Merritt, D.M., and Shafroth, P.B., 2017, Landscape-scale processes influence riparian plant composition along a regulated river: Journal of Arid Environments, v. (online), doi:10.1016/j.jaridenv.2017.10.001.
DOI: 10.17632/ctv52cbkp8.2
title: Dataset: spatial variables for describing and mapping ecotone forests associated to the Maracá Island region, State of Roraima, northern Brazilian Amazon

description: The dataset provides information on spatial variables (altitude, slope, drainage distance, Normalized Difference Vegetation Index - NDVI) that are useful for describing and mapping the ecotone forest zones that occur on the Maracá Island and its surroundings, State of Roraima, northern Brazilian Amazon. The study area is ~450,000 ha, with its geographic center located in Maracá Island. The altitude, slope and drainage distance maps are derived from the TOPODATA Project (http://www.dsr.inpe.br/topodata/). The NDVI (Normalized Difference Vegetation Index) map was obtained from Landsat TM5 images: (i) orbit 232: points 57 (03/20/2007) and 58 (03/04/2007) and (ii) orbit 233: points 57 and 58 (11/03/2007). All maps were produced in a raster format with 30 m of spatial resolution and designed for UTM / Zone 20 N, WGS 84, using the ArcGis 10.0 software (http://www.esri.com/software/arcgis/index.html; licensed by Federal University of Roraima - UFRR). The maps were used to extract samples (pixel values) of each variable (altitude, slope, drainage distance, NDVI) from 129 permanent plots (50 mx 10 m; 6.45 ha) dispersed in the six East-West walking trails from the research grid of the Biodiversity Research Program (PPBio) (see Santos et al., 2020 - https://data.mendeley.com/datasets/2j354jtddx/2). The dataset consists of three files: (i) study_site - a figure indicating the location of the study area; (ii) maps - altitude (m), slope (°), drainage distance (m), NDVI (-1: 1); (iii) environmental_variables - altitude (m), slope (°), drainage_distance (m) and NDVI (-1: 1) related to the 129 permanent plots used in the dataset. The current dataset was supported by the projects (i) SavFloRR - Ecologia e manejo dos recursos naturais de ecossistemas de savanas e florestas de Roraima (PPI INPA 015/122), and (ii) Crescimento e mortalidade de árvores em florestas ecotonais de Roraima: efeito das condicionantes ambientais e da variabilidade climática (Proc. CNPq n. 403591 / 2016-3). The Coordination for the Improvement of Higher Education Personnel (CAPES) supported E.H.S. The PELD Program provide a scholarship to W.R.S. (CNPq / CAPES / FAPs / BC-Fundo Newton; Proc. N. 441575 / 2016-1). The National Council for Scientific and Technological Development (CNPq) provided a grant to R.I. Barbosa (CNPq 304204 / 2015-3). The Chico Mendes Institute for Biodiversity Conservation (ICMBio) authorized the study (SISBIO nº 52071).
DOI: 10.17632/cc78ftcdf9.2
title: Data for: An automatic recognition system of Brazilian flora species based on textural features of macroscopic images of wood

description: This dataset is related to the research article entitled "A system of automatic recognition of species of Brazilian flora based on textural characteristics of macroscopic images of wood", by Deivison Venicio Souza, Joielan Xipaia Santos, Helena Cristina Vieira, Tawani Lorena Naide, Silvana Nisgoski and Luiz Eduardo S Oliveira published in the journal Wood Science and Technology (https://link.springer.com/article/10.1007/s00226-020-01196-z). Wood samples were from the collection of the Wood Anatomy and Quality Laboratory (LANAQM) of Federal University of Paraná (UFPR), located in Curitiba, Paraná. The wood samples’ transversal surfaces were sanded with a 120 sandpaper and macroscopic images of 46 species were taken with a Zeiss Discovery V 12 stereomicroscope, with size of 2080 × 1540 pixels and 10× magnification. The captured images have a resolution of 150 dpi. A total of 1,901 macroscopic images were obtained. Of the 46 species used in this study, 7 are on Brazil’s official list of endangered species. More specifically, the species Araucaria angustifolia and Ocotea porosa are classified in the category “Endangered”, Cedrela fissilis, Bertholletia excelsa, Mezilaurus itauba and Swietenia macrophylla are part of the “Vulnerable” group, and Euxylophora paraensis is considered “Critically Endangered”.
DOI: 10.17632/xpdv4dt79b.1
title: Supplemental Table 1&2

description: Table 1. Summary of patients with PCFCL treated with systemic rituximab. Table 2. Summary of patients with PCMZL treated with systemic rituximab.
DOI: 10.17632/swvt5cpnr2.1
title: HERRY LLOCLLA - INFORMACIÓN

description: Información varia
DOI: 10.17632/5z4cc7pmht.1
title: Social Media in Disaster Response: Covid-19 and Bangladesh Perspectives

description: The study was conducted quantitative data which was collected through online platform. All the data was coded and analyzed through IBM SPSS V.25.
DOI: 10.17632/23bndmtc3s.2
title: Greenhouse gas emissions, freshwater consumption, and thermal emissions to freshwater of global steam-electric power production

description: A global dataset of steam-electric power generating units with location, technical information, performance characteristics and associated environmental stressors (GHG emissions, freshwater consumption, thermal emissions to freshwater) as well as stressor intensities (per GJ el. produced).
DOI: 10.17632/p4tx2k852r.2
title: SDCOR Synthetic Datasets

description: SDCOR: Scalable Density-based Clustering for Local Outlier Detection in Massive-Scale Datasets Link to arXiv e-print: https://arxiv.org/pdf/2006.07616.pdf This paper presents a method for local outlier detection in massive-scale datasets, which is based on a batch-wise density-based clustering approach. SDCOR consists of three consecutive phases: 1) Sampling; 2) Scalable Clustering; and 3) Scoring. In the Sampling phase, a preliminary random sampling is conducted to obtain an abstraction of the entire data, named temporary clustering model; and also to acquire some information over the necessary parameters for the clustering procedures. Then, the Scalable Clustering phase will commence and the input data will be processed in chunks; as for each chunk, the temporary clustering model gets gradual updates, till it turns into the final clustering model after processing the last chunk. Ultimately, at the last phase of the algorithm, regarding the final clustering model attained through the batch-wise clustering, and also the Mahalanobis distance criterion, each object is given an outlying score called its local Mahalanobis distance. Each synthetic dataset in this repository is made of some Gaussian clusters with arbitrary mean vectors, far enough from each other, to impede probable overlappings among multidimensional clusters. For each of these artificial datasets, a specific amount of outliers are added around every cluster in the corresponding data; and moreover, the outliers "truth" is available along with each synthetic data. For every artificial dataset, there is a n-by-p matrix of dataset X, along with the n-by-1 vector y of outlier labels, all together as a single binary MAT-file. We have implemented our code in MATLAB 9, which due to becoming reproducible, is accessible through our GitHub page (https://github.com/sana33/SDCOR).
DOI: 10.21227/x9vx-yx14
title: A Large-Scale Dataset for Active Fire Detection/Segmentation (Landsat-8)

description: This dataset was created from all Landsat-8 images from South America in the year 2018. More than 31 thousand images were processed (15 TB of data), and approximately on half of them active fire pixels were found. The Landsat-8 sensor has 30 meters of spatial resolution (1 panchromatic band of 15m), 16 bits of radiometric resolution and 16 days of temporal resolution (revisit). The images in our dataset are in TIFF format with 10 bands (excluding the 15m panchromatic band). We cropped the original Landsat-8 scenes into image patches with 128 x 128 pixels by using a stride overlap of 64 pixels (vertical and horizontal). The masks are in binary format where True (1) represents fire and False (0) represents background and they were generated from the conditions set by Schroeder et al. (2016).
DOI: 10.17632/jjmzmvkmws.2
title: Amoxicillin induced toxic epidermal necrolysis

description: We reported the case of amoxicillin induced severe toxic epidermal necrolysis. A Patient admitted in the hospital with the symptoms of epidermal sloughing that resulted in bare dermis as he received Amoxicillin drug for his diagnosis of fever. After clear examination TEN was confirmed and suspected with the cause due to Amoxicillin. The drug was stopped and patient was treated with other drugs for symptomatic cure. The patient was recovered from his condition and improved significantly
DOI: 10.17632/bggs42s3k4.1
title: A Case Report on Herpes Zoster Eruption Associated with Chronic Obstructive Pulmonary Disease

description: we report a case of 67-year--old male patient who is a known case of COPD and developed features such as exfoliation of skin and vesicular lesions over thoracic region during his stay in the hospital. His condition was diagnosed as herpes zoster infection and treated with oral and topical antiviral agents
DOI: 10.17632/8w2vywsj48.1
title: A Case Report on Pleural Effusion Induced by Pulmonary Tuberculosis Reactivation

description: we present a case of 78 years old man who admitted in the hospital with complaints of left sided chest pain, shortness of breath and cough associated sputum with fever and had a past medical history of known case of pulmonary tuberculosis and used the anti-tubercular therapy five months back and discontinued the therapy by last one month. Patient had a history of use of Ergotamine tablets for his recurrent headaches as OTC medication. After clear examination this was confirmed as reactivated pulmonary tuberculosis with pleural effusion that is further increased by usage of Ergotamine
DOI: 10.17632/4g58knb8t2.1
title: Diclofenac – a cause for lichenoid drug eruptions: A rare presentation

description: An 18-year-old female presented to the dermatological clinic with the symptoms of pruritic lesions for 20 days after the administration of diclofenac 50 mg tablet for the duration of 5 days with a frequency of two tablets a day for backache. The condition was diagnosed as diclofenac-induced lichenoid drug eruptions.
DOI: 10.17632/y3vvw8y2y7.1
title: A case report on life threatening hypotensive anaphylactic shock induced by ceftriaxone with clinidipine [drug-drug interaction]

description: we report a case of a 60 years old male patient admitted in Government General Hospital with a generalised weakness, shortness of breath after the administration of IV Ceftriaxone injection from outside hospital and was on antihypertensive medication Clinidipine of dose 5 mg. The condition was diagnosed as Drug induced hypotensive anaphylactic shock. Immediately all the antihypertensive drugs were stopped and other drugs were provided for symptomatic recovery.
DOI: 10.17632/jjmzmvkmws.1
title: Amoxicillin induced toxic epidermal necrolysis

description: We reported the case of amoxicillin induced severe toxic epidermal necrolysis. A Patient admitted in the hospital with the symptoms of epidermal sloughing that resulted in bare dermis as he received Amoxicillin drug for his diagnosis of fever. After clear examination TEN was confirmed and suspected with the cause due to Amoxicillin. The drug was stopped and patient was treated with other drugs for symptomatic cure. The patient was recovered from his condition and improved significantly
DOI: 10.4119/unibi/2914527
title: Research Data for publication: Kinematic cross-correlation induces sensory integration across separate objects.
DOI: 10.17632/wjshy9hp7z.1
title: Dataset for paper “An exact bone-wise kinematics of human hind+mid foot”
DOI: 10.5281/zenodo.3922294
title: Envargs - Labelling Environmental Belgian Case Law

description: This dataset contains cases from the Belgian administrative law, the topic of law they belong to, as well as an additional binary label that determines if the case can be considered as an 'environmental law' case. <strong>Files description: </strong><br> <strong>- topics_env.csv :</strong> the columns contains the list of specific topics that are considered to be 'environmental law' topics. Under each topic is the list of case_numbers that are related to that topic of law. <br> <br> <strong>- topics_non_env.csv : </strong>the columns contains the list of specific topics that are considered <strong>not</strong> to be 'environmental law' topics. Under each topic is the list of case_numbers that are related to that topic of law. <br> <br> <strong>- labelled_case_dataset.csv :</strong> this file contains all the cases together with their text and their label (0 if non-environmental, 1 if environmental). The columns are the following: ['case_number', 'topic', 'year', 'case_text', 'label']. The 'case_text' filed contain the raw text of the case (no pre-processing applied). <br> <br> <strong>- labelled_case_dataset_lemmatized.csv: </strong>this file contains all the cases together with their text and their label (0 if non-environmental, 1 if environmental). The columns are the following: ['case_number', 'topic', 'year', 'case_text', 'label']. The 'case_text' filed contain the lemmatised version of the cases, stopwords and punctuation signs have been removed too. <br> <br> <strong>- labelled_case_dataset_no_stopwords.csv </strong>: this file contains all the cases together with their text and their label (0 if non-environmental, 1 if environmental). The columns are the following: ['case_number', 'topic', 'year', 'case_text', 'label']. The 'case_text' filed contain the text of the cases, after having removed stopwords and punctuation signs.