cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.5547861
title: SAPPAN: Advanced Threat Data

description: The data were acquired from a simulated environment consisting of two Windows clients, a Windows server, a Linux host, and a Linux router whose connection diagram can be found in the infrastructure.png file. One attack scenario was performed in this environment, and data relevant to this attack are uploaded as this dataset. The advanced attack scenario follows our previous experiment (see SAPPAN: Combined Network and Host Data), where the initial compromise of a host from outside has already been carried out. The scenario starts by running the code on Workstation1 and extracting the data, followed by a lateral movement to Workstation2, where the data is also extracted. The scenario ends with the deactivation of all implants. A detailed description of the scenario can be found in the test_protocol.xlsx file. The scenario is inspired by the first scenario described in APT29 Evaluation: Operational Flow and APT29 Day 1 (Steps 1 through 10). However, in order to better showcase analyses relevant to the SAPPAN project, we have chosen a different C2 framework (POshC2 instead of Pupy RAT) and performed certain steps concerning code execution, downloading and exfiltrating data differently. The dataset consists of the following data: infrastructure.png - Schema of the artificial infrastructure test-protocol.xlsx - Detailed protocol of the captured attack network_traffic_capture.pcap - Full packet capture (PCAP format) of all network traffic passing through firewall host RDR-data.zip - Raw event data (JSON format) from all Windows host with the following attributes: time - the time when the sensor recorded the event event_type - the type of the event host - info about the host machine (name and OS version) event - event type-specific payload
DOI: 10.17028/rd.lboro.16738717
title: Supplementary information files for: Do intergovernmental organizations have a socialization effect on member state preferences? Evidence from the UN general debate

description: Supplementary files for article: Do intergovernmental organizations have a socialization effect on member state preferences? Evidence from the UN general debate.The question of whether intergovernmental organizations (IGOs) have a socialization effect on member state preferences is central to international relations. However, empirical studies have struggled to separate the socializing effects of IGOs on preferences from the coercion and incentives associated with IGOs that may lead to foreign policy alignment without altering preferences. This article addresses this issue. We adopt a novel approach to measuring state preferences by applying text analytic methods to country statements in the annual United Nations General Debate (UNGD). The absence of interstate coordination with UNGD statements makes them particularly well suited for testing socialization effects on state preferences. We focus on the European Union (EU), enabling us to incorporate the pre-accession period—when states have the strongest incentives for foreign policy alignment—into our analysis. The results of our analysis show that EU membership has a socialization effect that produces preference convergence, controlling for coercion and incentive effects.
DOI: 10.17028/rd.lboro.16738717.v1
title: Supplementary information files for: Do intergovernmental organizations have a socialization effect on member state preferences? Evidence from the UN general debate

description: Supplementary files for article: Do intergovernmental organizations have a socialization effect on member state preferences? Evidence from the UN general debate.The question of whether intergovernmental organizations (IGOs) have a socialization effect on member state preferences is central to international relations. However, empirical studies have struggled to separate the socializing effects of IGOs on preferences from the coercion and incentives associated with IGOs that may lead to foreign policy alignment without altering preferences. This article addresses this issue. We adopt a novel approach to measuring state preferences by applying text analytic methods to country statements in the annual United Nations General Debate (UNGD). The absence of interstate coordination with UNGD statements makes them particularly well suited for testing socialization effects on state preferences. We focus on the European Union (EU), enabling us to incorporate the pre-accession period—when states have the strongest incentives for foreign policy alignment—into our analysis. The results of our analysis show that EU membership has a socialization effect that produces preference convergence, controlling for coercion and incentive effects.
DOI: 10.5285/cd857050-0c6d-3a71-e053-6c86abc08527
title: Chemical water quality in the Ba Catchment coastal zone - 2019 - University of the South Pacific.

description: Within Pacific Small Island Developing States (Pacific SIDS), the ridge-to-reef (R2R) approach has emerged as a framework for monitoring river connectivity between terrestrial and marine ecosystems. The study measured water quality, including pH and a range of other physical and chemical properties over 88.40 km of the Ba River in Fiji. The sampling design focused on measuring spatio-temporal variability in pH throughout the sugarcane season (April - August) with three rapid sampling periods (RSP1, 2 and 3) along the Ba River, together with continuous measurement of temperature and pH using stationary data loggers at two locations upstream and downstream of the sugar mill (April to August 2019). Spatial variability in pH and water quality was characterized before (RSP1 and RSP2) and during (RSP3) the sugarcane season. Mean pH measured before the sugarcane crushing season for RSP1 and RSP2 were 8.16 (± 0.49) and 8.20 (± 0.61) respectively. During the sugarcane crushing season (RSP3) mean pH declined by 3.06 units to 6.94 within 42 m downstream of the sugar mill (P &lt; 0.001). The 3.06 unit decline in pH for RSP3 exceeded both the mean diurnal variation in pH of 0.39 and mean seasonal variation in pH of 2.01. This decline in pH could be a potential source of acidification to downstream coastal ecosystems with implications for coral reefs, biodiversity and fishery livelihoods.
DOI: 10.5281/zenodo.5524859
title: Novel anammox family represented by three Oslofjord Tunnel MAGs

description: DRAM annotation excel spreadsheet also containing refined blastp results, as well as DRAM-annotated gene nucleotide (fna) and amino acid (faa) sequences from three metagenome-assembled genomes (MAGs) representing a novel family of anammox.
DOI: 10.5281/zenodo.5524858
title: Novel anammox family represented by three Oslofjord Tunnel MAGs

description: DRAM annotation excel spreadsheet also containing refined blastp results, as well as DRAM-annotated gene nucleotide (fna) and amino acid (faa) sequences from three metagenome-assembled genomes (MAGs) representing a novel family of anammox.
DOI: 10.48370/ofd/kqdhf3/4y7jec
title: HMW_Cryptogramma_roddeana_Fomin_H_03390.jpg

description: :unav
DOI: 10.48370/ofd/kqdhf3
title: Cryptogramma roddeana Fomin., 3390

description: Herbarium
DOI: 10.5281/zenodo.5549502
title: Data and code for "A Linear Time Solution to the Labeled Robinson-Foulds Distance Problem"

description: <strong>Data and code for "A Linear Time Solution to the Labeled Robinson-Foulds Distance Problem"</strong> Samuel Briand, Christophe Dessimoz, Nadia El-Mabrouk, Yannis Nevers <strong>Experimental data</strong> The __ALF\_Output__ directory contains the results obtained from ALF with parameters specified in the paper, as well as additional files generated in the downstream analysis (see below) The __Partitions__ directory contains one directory by partitioning of the 100 species from ALF in nested sets. Each contains three folder and a file. The summary.txt directory report which family are part of the nested set. The Allfamily directory contains the FASTA file of the 100 gene families generated with ALF, with only the species selected in the partition. The Aln directory contains the MSA for each gene family as generated with MAFFT with the selected species set The FTree directory contains the gene tree for each family as generated with FastTree with the selected species set The __Script__ directory containst the files used to generated the data from the ALF directory, as well as downstream analysis To reproduce the results start by runing __rewriteSeq.py__ , which is used for generating the Partitions. It takes as parameter the ALF directory, the directory in which you wish to generate the partitions, and the path to ALF's genomes FASTA files. If the partition file already exist, you can use the -r option to redo the random selection, otherwise it will generate file for the previous random selection. Example command : python rewriteSeq.py -i ../ALF\_output -o ../Partitions -g ../ALF\_output/DB Then, by runing __rewriteTree.py__ you will generated the reference trees used for the RF comparisons, as well as species tree used for each partitions. It takes as parameters the ALF directory , the Partitions directory and the species file of the partitions used to create the reference tree (smallest of all partitions) Example command : python rewriteTree.py -i ../ALF\_output/ -p ../Partitions/ -s ../Partitions/Part10/summary.txt Then, the script __launchFastTree.sh__ will, by partitions, generate a MSA using MAFFT and a phylogenetic tree using FastTree. It takes as parameter the Partitions directory and the number of the identifier of the partition for which you wish tu run it. Notes that the afforementionned software need to be installed before hand. Example command: bash launchFastTree.sh ../Partitions 10 Finally, the __LRFAnalysis.ipynb__ file is a Jupyer Notebook used to run downstream analysis of RF and LRF on the different Partitions, including figure generation. Path to the data directory can be set in the 4th block of the Notebook. <strong>Comparison of RF, LRF, and ELRF</strong> The code to compare is provided as a Jupyter notebook in the directory "Comparison with RF and ELRF". The input NOX4 family from Ensembl version 99 is provided. The output figures are provided as PDF but they can be regenerated by running the notebook.
DOI: 10.5281/zenodo.4329898
title: Data and code for "A Linear Time Solution to the Labeled Robinson-Foulds Distance Problem"

description: <strong>Data and code for "A Linear Time Solution to the Labeled Robinson-Foulds Distance Problem"</strong> Samuel Briand, Christophe Dessimoz, Nadia El-Mabrouk, Yannis Nevers <strong>Experimental data</strong> The __ALF\_Output__ directory contains the results obtained from ALF with parameters specified in the paper, as well as additional files generated in the downstream analysis (see below) The __Partitions__ directory contains one directory by partitioning of the 100 species from ALF in nested sets. Each contains three folder and a file. The summary.txt directory report which family are part of the nested set. The Allfamily directory contains the FASTA file of the 100 gene families generated with ALF, with only the species selected in the partition. The Aln directory contains the MSA for each gene family as generated with MAFFT with the selected species set The FTree directory contains the gene tree for each family as generated with FastTree with the selected species set The __Script__ directory containst the files used to generated the data from the ALF directory, as well as downstream analysis To reproduce the results start by runing __rewriteSeq.py__ , which is used for generating the Partitions. It takes as parameter the ALF directory, the directory in which you wish to generate the partitions, and the path to ALF's genomes FASTA files. If the partition file already exist, you can use the -r option to redo the random selection, otherwise it will generate file for the previous random selection. Example command : python rewriteSeq.py -i ../ALF\_output -o ../Partitions -g ../ALF\_output/DB Then, by runing __rewriteTree.py__ you will generated the reference trees used for the RF comparisons, as well as species tree used for each partitions. It takes as parameters the ALF directory , the Partitions directory and the species file of the partitions used to create the reference tree (smallest of all partitions) Example command : python rewriteTree.py -i ../ALF\_output/ -p ../Partitions/ -s ../Partitions/Part10/summary.txt Then, the script __launchFastTree.sh__ will, by partitions, generate a MSA using MAFFT and a phylogenetic tree using FastTree. It takes as parameter the Partitions directory and the number of the identifier of the partition for which you wish tu run it. Notes that the afforementionned software need to be installed before hand. Example command: bash launchFastTree.sh ../Partitions 10 Finally, the __LRFAnalysis.ipynb__ file is a Jupyer Notebook used to run downstream analysis of RF and LRF on the different Partitions, including figure generation. Path to the data directory can be set in the 4th block of the Notebook. <strong>Comparison of RF, LRF, and ELRF</strong> The code to compare is provided as a Jupyter notebook in the directory "Comparison with RF and ELRF". The input NOX4 family from Ensembl version 99 is provided. The output figures are provided as PDF but they can be regenerated by running the notebook.
DOI: 10.6084/m9.figshare.16739491
title: Supplementary Material for: Anatomic Measurements of Distances from Lateral Surface of Cranium to Cochlea in Congenital Aural Atresia and Stenosis Patients

description: Introduction: Studies have shown that higher response lev?els can be obtained when the bone conduction stimulation position is closer to the cochlea. However, the morphologi?cal characteristics of round window niche and posterior tym?panum in congenital aural atresia (CAA) and stenosis (CAS) patients were different from the normal. These affected the position of the cochlea at the cranial base. It was still un?known whether the distances from the cranium of CAA and CAS patients to the cochlea were the same as those of nor?mal patients or not. Objective: To measure distances from various points on the lateral surface of the cranium to the cochlea and the cranium thickness on these points among a CAA group, CAS group and normal control group, which may provide valuable information for the better position of bone conduction stimulation. Methods: CT images of CAA, CAS patients and these patients’ healthy sides were analyzed. Firstly, the Frankfurt horizontal plane (Pfrkt) was established. Secondly, a model of part of the cranium was three-dimen?sionally reconstructed. Then, the Pfrkt plane was rotated down 20, 30 and 40° according to the superior margin of the external auditory canal. At every angle, points 25, 30, 35 and 40 mm away from the superior margin of the external audi?tory canal were marked out on the surface of the model and recorded as P20A, P30A, P40A, P20B, etc. The spatial distances between the cranium and ipsilateral cochlea were defined as lengths of points on the surface of the model to the cochlea apex (CA), cochlear base (CB) and modiolus midpoint (MM), respectively, recorded as P20A/CA, P20A/CB, P20A/MM, P30A/CA, etc. Results and Conclusions: In all groups, the length of P20D/CA was the shortest compared to P30D/CA and P40D/CA (p &lt; 0.05). The P20A/CB and P20A/MM were also the shortest (p &lt; 0.05). When the Pfrkt plane was rotated down 30 and 40°, the results were the same as at 20° (p &lt; 0.05). However, P20D, P30D and P40D were almost on the mastoid air cells. We suggest that the bone conduction stimulation position is placed closer to the ear, while avoiding the mastoid air cells in the CAA and CAS patients.<br>
DOI: 10.6084/m9.figshare.16739491.v1
title: Supplementary Material for: Anatomic Measurements of Distances from Lateral Surface of Cranium to Cochlea in Congenital Aural Atresia and Stenosis Patients

description: Introduction: Studies have shown that higher response lev?els can be obtained when the bone conduction stimulation position is closer to the cochlea. However, the morphologi?cal characteristics of round window niche and posterior tym?panum in congenital aural atresia (CAA) and stenosis (CAS) patients were different from the normal. These affected the position of the cochlea at the cranial base. It was still un?known whether the distances from the cranium of CAA and CAS patients to the cochlea were the same as those of nor?mal patients or not. Objective: To measure distances from various points on the lateral surface of the cranium to the cochlea and the cranium thickness on these points among a CAA group, CAS group and normal control group, which may provide valuable information for the better position of bone conduction stimulation. Methods: CT images of CAA, CAS patients and these patients’ healthy sides were analyzed. Firstly, the Frankfurt horizontal plane (Pfrkt) was established. Secondly, a model of part of the cranium was three-dimen?sionally reconstructed. Then, the Pfrkt plane was rotated down 20, 30 and 40° according to the superior margin of the external auditory canal. At every angle, points 25, 30, 35 and 40 mm away from the superior margin of the external audi?tory canal were marked out on the surface of the model and recorded as P20A, P30A, P40A, P20B, etc. The spatial distances between the cranium and ipsilateral cochlea were defined as lengths of points on the surface of the model to the cochlea apex (CA), cochlear base (CB) and modiolus midpoint (MM), respectively, recorded as P20A/CA, P20A/CB, P20A/MM, P30A/CA, etc. Results and Conclusions: In all groups, the length of P20D/CA was the shortest compared to P30D/CA and P40D/CA (p &lt; 0.05). The P20A/CB and P20A/MM were also the shortest (p &lt; 0.05). When the Pfrkt plane was rotated down 30 and 40°, the results were the same as at 20° (p &lt; 0.05). However, P20D, P30D and P40D were almost on the mastoid air cells. We suggest that the bone conduction stimulation position is placed closer to the ear, while avoiding the mastoid air cells in the CAA and CAS patients.<br>
DOI: 10.5281/zenodo.5543836
title: On the effect of morphology and particle-wall interaction on colloidal near-wall dynamics

description: <strong>Related publication:</strong><br> J. A. Rivera-Morán, Y. Liu, S. Monter, C. Hsu, P. Ruckdeschel, M. Retsch, M. K. Lisicki and P. R. Lang. On the effect of morphology and particle-wall interaction on colloidal near-wall dynamics. <em>Soft Matter</em> 2021.<br> DOI: https://doi.org/10.1039/D1SM01191J <strong>EUSMI proposal code:</strong><br> E190800323 We investigated the near-wall Brownian dynamics of different types of colloidal particles with a typical size in the 100 nm range using evanescent wave dynamic light scattering (EWDLS). In detail we studied dilute suspensions of silica spheres and shells with a smooth surface and silica particles with controlled surface roughness. While the near wall dynamics of the particle with smooth surface differ only slightly from the theoretical prediction for hard spheres colloids, the rough particles diffuse significantly slower. We analysed the experimental data by comparison with model calculations and suggest that the deviating dynamics of the rough particles are not due to increased hydrodynamic interaction with the wall. Rather, the particle roughness significantly changes their DLVO interaction with the wall, which in turn effects their diffusion.
DOI: 10.5281/zenodo.5543835
title: On the effect of morphology and particle-wall interaction on colloidal near-wall dynamics

description: <strong>Related publication:</strong><br> J. A. Rivera-Morán, Y. Liu, S. Monter, C. Hsu, P. Ruckdeschel, M. Retsch, M. K. Lisicki and P. R. Lang. On the effect of morphology and particle-wall interaction on colloidal near-wall dynamics. <em>Soft Matter</em> 2021.<br> DOI: https://doi.org/10.1039/D1SM01191J <strong>EUSMI proposal code:</strong><br> E190800323 We investigated the near-wall Brownian dynamics of different types of colloidal particles with a typical size in the 100 nm range using evanescent wave dynamic light scattering (EWDLS). In detail we studied dilute suspensions of silica spheres and shells with a smooth surface and silica particles with controlled surface roughness. While the near wall dynamics of the particle with smooth surface differ only slightly from the theoretical prediction for hard spheres colloids, the rough particles diffuse significantly slower. We analysed the experimental data by comparison with model calculations and suggest that the deviating dynamics of the rough particles are not due to increased hydrodynamic interaction with the wall. Rather, the particle roughness significantly changes their DLVO interaction with the wall, which in turn effects their diffusion.
DOI: 10.6084/m9.figshare.16739722
title: Supplementary Material for: Radiation Safety and Electrophysiologists: Radiation Protection Status – Go for Zero Fluoroscopy European Heart Rhythm Association Registry

description: Background: The purpose of this study was to analyze elec?trophysiologists’ radiation-protective devices for occupa?tional exposure across European countries. Methods: Data reported herein were gathered from the international, mul?ticenter prospective Go for Zero Fluoroscopy registry per?formed in years 2018–2019. The registry encompassed 25 European electrophysiological centers from 14 countries and up to 5 operators from each center. Results: The analysis included 95 operators (median age: 39 years, 85% of male, median training time: 5 years). The most frequently used X-ray protection tools (used by ≥80% of the group) were lead aprons, thyroid shields, screens below the table, glass in the laboratory, and least often (&lt;7%) protective gloves and cab?in. No statistically significant differences regarding the number of procedures performed monthly, electrophysiologists’ experience and gender, and radiation exposure dose or radiation protection tools were observed, except lead thyroid shields and eyeglasses, which were more often used in case of fewer electrophysiological procedures performed (&lt;20 procedures per month). Operators who were protected by &gt;4 X-ray protection tools were exposed to lower radiation levels than those who were protected by ≤4 X-ray protection tools (median radiation exposure: 0.6 [0.2–1.1] vs. 0.2 [0.1– 0.2] mSv per month, p &lt; 0.0001; 1.1 [0.1–12.0] vs. 0.5 [0.1–1.1] mSv per year, p &lt; 0.0001), respectively. Conclusions: Electro?physiologists’ radiation-protective devices for occupational exposure are similar across European centers and in accor?dance with the applicable X-ray protection protocols, irre?spective of the level of experience, number of monthly per?formed EP procedures, and gender.