cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.7038534
title: Kaczmarczyk-et-al.-Search-and-Processing-of-Holliday-Junctions-

description: <strong>Kaczmarczyk-et-al.-Search-and-Processing-of-Holliday-Junctions-</strong> scripts and the raw data used in the manuscript by Kaczmarczyk et al. "Search and Processing of Holliday Junctions within Long DNA by Junction-Resolving Enzymes" System requirements: The analysis was performed on operating system MacOS High Sierra, version 10.13.6 Python 3.9.4 The scripts are executed in Jupyter Notebook (Anaconda 4.10.1) using libraries: numpy 1.20.3 matplotlib 3.4.2 statistics lumicks pylake 0.10.1 (https://lumicks-pylake.readthedocs.io/en/stable/install.html#) scipy 1.6.3 peakutils 1.3.3 To install the software, download Anaconda: Go to the Anaconda website and download the Python 3.8 (or newer) installer. Create a new environment for Pylake Install additional libraries (scipy, peakutils through Anaconda desktop app or via Terminal) Detailed instruction on how to install Anaconda and Pylake package is available here: https://lumicks-pylake.readthedocs.io/en/latest/install.html#installation-instructions The instalation process of Anaconda and necessary libraries requires ~15 minutes. To run the scripts, put a copy of the .ipynb Jupyter Notebook in the same folder as the .H5 file you wish to analyze. The script will automatically load the file. Subsequently, it will render a kymograph and the corresponding force measurement. The kymograph can be then cropped and the image's brightness and contrast can be adjusted Within the same script, it is possible to track 1D diffusion and measure the diffusion coefficient. OUTPUTS: -csv files with data png images with kymographs raw TIFF file For questions, contact akaczmarczyk88@gmail.com
description: www.github.com/singlemoleculegroup
DOI: 10.5281/zenodo.7038533
title: Kaczmarczyk-et-al.-Search-and-Processing-of-Holliday-Junctions-

description: <strong>Kaczmarczyk-et-al.-Search-and-Processing-of-Holliday-Junctions-</strong> scripts and the raw data used in the manuscript by Kaczmarczyk et al. "Search and Processing of Holliday Junctions within Long DNA by Junction-Resolving Enzymes" System requirements: The analysis was performed on operating system MacOS High Sierra, version 10.13.6 Python 3.9.4 The scripts are executed in Jupyter Notebook (Anaconda 4.10.1) using libraries: numpy 1.20.3 matplotlib 3.4.2 statistics lumicks pylake 0.10.1 (https://lumicks-pylake.readthedocs.io/en/stable/install.html#) scipy 1.6.3 peakutils 1.3.3 To install the software, download Anaconda: Go to the Anaconda website and download the Python 3.8 (or newer) installer. Create a new environment for Pylake Install additional libraries (scipy, peakutils through Anaconda desktop app or via Terminal) Detailed instruction on how to install Anaconda and Pylake package is available here: https://lumicks-pylake.readthedocs.io/en/latest/install.html#installation-instructions The instalation process of Anaconda and necessary libraries requires ~15 minutes. To run the scripts, put a copy of the .ipynb Jupyter Notebook in the same folder as the .H5 file you wish to analyze. The script will automatically load the file. Subsequently, it will render a kymograph and the corresponding force measurement. The kymograph can be then cropped and the image's brightness and contrast can be adjusted Within the same script, it is possible to track 1D diffusion and measure the diffusion coefficient. OUTPUTS: -csv files with data png images with kymographs raw TIFF file For questions, contact akaczmarczyk88@gmail.com
description: www.github.com/singlemoleculegroup
DOI: 10.5281/zenodo.7009081
title: Cite-Seq mit Aorten und Myokardinfarkt - Analysen

description: v0.2: Update: Multplexing was added! v0.3: Update: doubletes were removed ia hashtagging!
DOI: 10.5281/zenodo.7009082
title: Cite-Seq mit Aorten und Myokardinfarkt - Analysen

description: #R Skript library(Seurat)<br> library(ggplot2)<br> library(patchwork) <br> setwd("E:/BMFZ Data/671/671-1_cellranger_count/outs") data &lt;- Read10X(data.dir ="filtered_feature_bc_matrix/") rna &lt;- CreateSeuratObject(counts = data$`Gene Expression`) adt_assay &lt;- CreateAssayObject(counts = data$`Antibody Capture`) multiplex &lt;- CreateAssayObject(counts = data$`Multiplexing Capture`) <br> cbmc &lt;- rna cbmc[["ADT"]] &lt;- adt_assay cbmc[["HST"]] &lt;- multiplex Assays(cbmc) rownames(cbmc[["ADT"]]) #perform visualization and clustering steps<br> cbmc &lt;- NormalizeData(cbmc)<br> cbmc &lt;- FindVariableFeatures(cbmc)<br> cbmc &lt;- ScaleData(cbmc)<br> cbmc &lt;- RunPCA(cbmc, verbose = FALSE)<br> cbmc &lt;- FindNeighbors(cbmc, dims = 1:30)<br> cbmc &lt;- FindClusters(cbmc, resolution = 0.8, verbose = FALSE)<br> cbmc &lt;- RunUMAP(cbmc, dims = 1:30)<br> DimPlot(cbmc, label = TRUE) <br> #Normalize ADT data,<br> DefaultAssay(cbmc) &lt;- "ADT"<br> cbmc &lt;- NormalizeData(cbmc, normalization.method = "CLR", margin = 2)<br> DefaultAssay(cbmc) &lt;- "RNA" #Now, we will visualize CD8a levels for RNA and protein By setting the default assay, we can<br> #visualize one or the other<br> DefaultAssay(cbmc) &lt;- "ADT"<br> p1 &lt;- FeaturePlot(cbmc, "Ms.CD8a", cols = c("lightgrey", "darkgreen")) + ggtitle("CD8a protein")<br> DefaultAssay(cbmc) &lt;- "RNA"<br> p2 &lt;- FeaturePlot(cbmc, "Cd8a") + ggtitle("CD8a RNA") #place plots side-by-side<br> p1 | p2 <br> #Now, we will visualize CD40 levels for RNA and protein By setting the default assay, we can<br> #visualize one or the other<br> DefaultAssay(cbmc) &lt;- "ADT"<br> p1 &lt;- FeaturePlot(cbmc, "Ms.CD40", cols = c("lightgrey", "darkgreen")) + ggtitle("CD40 protein")<br> DefaultAssay(cbmc) &lt;- "RNA"<br> p2 &lt;- FeaturePlot(cbmc, "Cd40") + ggtitle("CD40 RNA") #place plots side-by-side<br> p1 | p2 setwd("E:/BMFZ Data/671/Analyse_ALL")<br> saveRDS(cbmc, file = "Cite_seq_raw.rds")
DOI: 10.5281/zenodo.7009637
title: Cite-Seq mit Aorten und Myokardinfarkt - Analysen

description: v0.2: Update: Multplexing was added!
DOI: 10.5281/zenodo.7009648
title: Cite-Seq mit Aorten und Myokardinfarkt - Analysen

description: v0.2: Update: Multplexing was added! v0.3: Update: doubletes were removed ia hashtagging!
DOI: 10.5281/zenodo.7016782
title: Cite-Seq mit Aorten und Myokardinfarkt - Analysen

description: v0.2: Update: Multplexing was added! v0.3: Update: doubletes were removed ia hashtagging!
DOI: 10.5281/zenodo.7030750
title: Supporting data: phase-contrast virtual chest radiography

description: This dataset contains supporting data for the publication below (currently under review): <strong>If you use this dataset, please cite:</strong> Ilian Häggmark, Kian Shaker, Sven Nyrén, Bariq Al-Amiry, Ehsan Abadi, William Segars, Ehsan Samei, and Hans M. Hertz, "<em>Phase-contrast virtual chest radiography"</em>, 2022 (under peer review) ------------------------------------- <strong>1. Virtual patient (2D) </strong> <em><strong>[To be uploaded soon]</strong></em> An upsampled and projected virtual patient derived from the XCAT model (see paper for more details). The projected thickness (unit: [m]) of 28 separate materials are stored in the mat-file <em>'virtual_patient.mat'</em>. The accompanying text file <em>'virtual_patient_materials.txt' </em>lists all 28 materials (3rd dimension in the virtual patient .mat file) . Data information: File type: .mat Size: 39200x52200x28 (3D matrix, single, 32-bit) Pixel size: 7.69x7.69 µm<sup>2</sup> ------------------------------------- <strong>2. Full-chest virtual radiographs</strong> Three full-size virtual chest radiographs of the virtual patient (above) simulated with different settings: Conventional (<em>z</em> = 0 m, 120 kVp tungsten spectrum) Control (<em>z</em> = 0 m, 60 keV monochromatic) Phase contrast (<em>z</em> = 12 m, 60 keV monochromatic) Data information: File type: .tif (16-bit) Data size: 8000x6000 pixels Pixel size: 50x50 µm<sup>2</sup> ------------------------------------- <strong>3. Zoom in on chest radiographs at different propagation distances</strong> This is the underlying data for <strong>Figure 2</strong> in the paper. Data information: File type: .tif (16-bit) Data size: 600x600 pixels Pixel size: 50x50 µm<sup>2</sup> ------------------------------------- <strong>4. Observing airway wall thickening</strong> This is the underlying data for<strong> Figure 5</strong> in the paper. Data information: File type: .tif (16-bit) Data size: 750x750 pixels Pixel size: 50x50 µm<sup>2</sup>
DOI: 10.5281/zenodo.4603984
title: Experimental materials for "Using Non-Verbal Expressions as a Tool in Naming Research"

description: Experimental materials for the paper "Using Non-Verbal Expressions as a Tool in Naming Research" published in the 29th IEEE/ACM International Conference on Program Comprehension (ICPC), 18-20 May 2021. Include screenshots of the survey questions used, the raw and normalized responses, and analysis scripts and results.
DOI: 10.5281/zenodo.4603985
title: Experimental materials for "Using Non-Verbal Expressions as a Tool in Naming Research"

description: Experimental materials for the paper "Using Non-Verbal Expressions as a Tool in Naming Research" published in the 29th IEEE/ACM International Conference on Program Comprehension (ICPC), 18-20 May 2021. Include screenshots of the survey questions used, the raw and normalized responses, and analysis scripts and results.
DOI: 10.5281/zenodo.4619665
title: Experimental materials for "Does Code Structure Affect Comprehension? On Using and Naming Intermediate Variables"

description: Experimental materials for the paper "Does Code Structure Affect Comprehension? On Using and Naming Intermediate Variables" published in the 29th IEEE/ACM International Conference on Program Comprehension (ICPC), 18-20 May 2021. Includes screenshots of the survey questions used, the raw responses and judgments of names' correctness, and analysis scripts and results.
DOI: 10.5281/zenodo.4619666
title: Experimental materials for "Does Code Structure Affect Comprehension? On Using and Naming Intermediate Variables"

description: Experimental materials for the paper "Does Code Structure Affect Comprehension? On Using and Naming Intermediate Variables" published in the 29th IEEE/ACM International Conference on Program Comprehension (ICPC), 18-20 May 2021. Includes screenshots of the survey questions used, the raw responses and judgments of names' correctness, and analysis scripts and results.
DOI: 10.5281/zenodo.6387421
title: Experimental materials for "The Effect of Information Content and Length on Name Recollection"

description: Experimental materials for the paper "The Effect of Information Content and Length on Name Recollection" published in the 30th IEEE/ACM International Conference on Program Comprehension (ICPC), 16-17 May 2022. Includes the experimental materials, responses of participants in the experiments, and analysis scripts and results for the two experiments described in the paper.
DOI: 10.5281/zenodo.6387422
title: Experimental materials for "The Effect of Information Content and Length on Name Recollection"

description: Experimental materials for the paper "The Effect of Information Content and Length on Name Recollection" published in the 30th IEEE/ACM International Conference on Program Comprehension (ICPC), 16-17 May 2022. Includes the experimental materials, responses of participants in the experiments, and analysis scripts and results for the two experiments described in the paper.
DOI: 10.6084/m9.figshare.20769082
title: Survival

description: Fly and wasp survival data, analysis and readme file for the 'constant', 'pre-attack' and 'attack and protection' temperature regimes.
DOI: 10.6084/m9.figshare.20769082.v1
title: Survival

description: Fly and wasp survival data, analysis and readme file for the 'constant', 'pre-attack' and 'attack and protection' temperature regimes.
DOI: 10.6084/m9.figshare.20768197
title: Wasp oviposition

description: Wasp oviposition data, analysis and readme file.
DOI: 10.6084/m9.figshare.20768197.v1
title: Wasp oviposition

description: Wasp oviposition data, analysis and readme file.
DOI: 10.5519/qd.58zk1jcu
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (279 records)
DOI: 10.5281/zenodo.7049765
title: Quantitative analysis data of the laminae

description: The organic matter in the laminae was quantified using SVM. The data can be opened with ENVI software and ArcGIS software.
DOI: 10.5281/zenodo.7049764
title: Quantitative analysis data of the laminae

description: The organic matter in the laminae was quantified using SVM. The data can be opened with ENVI software and ArcGIS software.
DOI: 10.5519/qd.3mzq6x7v
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (2146 records)
DOI: 10.5517/ccdc.csd.cc26xxtw
title: CCDC 2053589: Experimental Crystal Structure Determination

description: Related Article: Xiao Tang, Zhihao Li, Haoliang Liu, Hang Qu, Wenbin Gao, Xue Dong, Shilin Zhang, Xinchang Wang, Andrew C.-H. Sue, Liulin Yang, Kai Tan, Zhongqun Tian, Xiaoyu Cao|2021|Chemical Science|12|11730|doi:10.1039/D1SC03428F
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2c7x6r
title: CCDC 2182344: Experimental Crystal Structure Determination

description: Related Article: W. Clegg, R.W. Harrington|2022|CSD Communication|||
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2c7x8t
title: CCDC 2182346: Experimental Crystal Structure Determination

description: Related Article: W. Clegg, R.W. Harrington|2022|CSD Communication|||
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2c7x9v
title: CCDC 2182347: Experimental Crystal Structure Determination

description: Related Article: W. Clegg, R.W. Harrington|2022|CSD Communication|||
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2c7xbw
title: CCDC 2182348: Experimental Crystal Structure Determination

description: Related Article: W. Clegg, R.W. Harrington|2022|CSD Communication|||
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2c7xdy
title: CCDC 2182350: Experimental Crystal Structure Determination

description: Related Article: W. Clegg, R.W. Harrington|2022|CSD Communication|||
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2c7xg0
title: CCDC 2182352: Experimental Crystal Structure Determination

description: Related Article: W. Clegg, R.W. Harrington|2022|CSD Communication|||
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2c7xh1
title: CCDC 2182353: Experimental Crystal Structure Determination

description: Related Article: W. Clegg, R.W. Harrington|2022|CSD Communication|||
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2c85c6
title: CCDC 2182597: Experimental Crystal Structure Determination

description: Related Article: W. Clegg, R.W. Harrington|2022|CSD Communication|||
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2c8gmr
title: CCDC 2182884: Experimental Crystal Structure Determination

description: Related Article: W. Clegg, R.W. Harrington|2022|CSD Communication|||
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2c8gns
title: CCDC 2182885: Experimental Crystal Structure Determination

description: Related Article: W. Clegg, R.W. Harrington|2022|CSD Communication|||
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2c8gpt
title: CCDC 2182886: Experimental Crystal Structure Determination

description: Related Article: W. Clegg, R.W. Harrington|2022|CSD Communication|||
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2chn2m
title: CCDC 2189780: Experimental Crystal Structure Determination

description: Related Article: Frank R. Fronczek|2022|CSD Communication|||
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2cj9hq
title: CCDC 2190413: Experimental Crystal Structure Determination

description: Related Article: Frank R. Fronczek|2022|CSD Communication|||
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2cjh3j
title: CCDC 2190587: Experimental Crystal Structure Determination

description: Related Article: W. Clegg, R.W. Harrington|2022|CSD Communication|||
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2cjh4k
title: CCDC 2190588: Experimental Crystal Structure Determination

description: Related Article: W. Clegg, R.W. Harrington|2022|CSD Communication|||
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2cjhbr
title: CCDC 2190594: Experimental Crystal Structure Determination

description: Related Article: W. Clegg, R.W. Harrington|2022|CSD Communication|||
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5519/qd.6tjxfsdn
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (302 records)
DOI: 10.6084/m9.figshare.20936788
title: Glucose homeostasis genes and diabetic nephropathy

description: Dataset containing clinical and genetic anonymous information on diabetic neprhopathy patients
DOI: 10.21227/k8aw-q363
title: Experimental data of quasi time-fuel optimal controller

description: Experimental data of quasi-time fuel-optimal controllers
DOI: 10.5281/zenodo.7049346
title: Informações das IFES do Brasil para ajuste de modelo RLM

description: Planilha desenvolvida para elaboração de pesquisa que consiste em avaliar o Custo da Manutenção Predial das IFES no Brasil, tendo como base informações administrativas ou financeiras das IFES. A planilha apresenta as informações levantadas e os resultados do ajuste do modelo RLM.
DOI: 10.5281/zenodo.4321940
title: Informações das IFES do Brasil para ajuste de modelo RLM

description: Planilha desenvolvida para elaboração de pesquisa que consiste em avaliar o Custo da Manutenção Predial das IFES no Brasil, tendo como base informações administrativas ou financeiras das IFES. A planilha apresenta as informações levantadas e os resultados do ajuste do modelo RLM.
DOI: 10.5281/zenodo.6361647
title: Data and code: Bayesian Multi-level model calibration of the SPASS phenology model for silage maize

description: Data and code supporting the research article: Bayesian Multi-level model calibration of the SPASS phenology model for silage maize - M. Viswanathan, A. Scheidegger, T. Streck, S. Gayler, T.K.D. Weber. This includes R code for the implementation of the SPASS phenology maize model; Jags in R to implement the Bayesian multi-level models .