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opencc-by-4.0May 2023View details →

Systematic revision of the Spotted and Northern Dusky Salamanders (Plethodontidae: Desmognathus conanti and D. fuscus), with six new species from the eastern United States

Appendix S1 - Specimen, locality, and morphometric data for 674 individual salamanders analyzed in this study. We used the ‘geomorph’ package in R (Adams and Otárola-Castillo 2013) to extract 17 measurements at 0.01mm precision: SVL (snout-vent length), TL (tail length), AG (axilla-groin length), CW (chest width), FL (femur length), HL (humerus length), SG (snout-gular length), TW (tail width at rear of vent), TO (length of third toe), FI (length of third finger), HW (head width), ED (eye diameter), IN (internarial distance), ES (eye-snout distance), ON (orbito-narial distance), IO (inter-orbital distance), and IC (inter-canthal distance).

opencc-by-4.0Jun 2023View details →

Data release for paper "Waveform systematics in identifying gravitationally lensed gravitational waves: Posterior overlap method"

This is the data release for the paper "Waveform systematics in identifying gravitationally lensed gravitational waves: Posterior overlap method", which is available on https://arxiv.org/abs/2306.12908. These results are derived from the gravitational-wave parameter-estimation results by the LIGO-Virgo-KAGRA Collaboration, released with the GWTC-1, GWTC-2, GWTC-2.1, and GWTC-3 catalogs under the following links: <ul> <li>    https://dcc.ligo.org/P1800370-v5/public</li> <li>    https://dcc.ligo.org/P2000223-v7/public</li> <li>    https://doi.org/10.5281/zenodo.6513631</li> <li>    https://doi.org/10.5281/zenodo.5546663</li> </ul> For the lensed-unlensed hypothesis test posterior overlap Bayes factors, we provide the following files for event pairs from within each observing run: <ul> <li>    blu_all_pairs_O1.txt</li> <li>    blu_all_pairs_O2.txt</li> <li>    blu_all_pairs_O3.txt</li> </ul> In each file, the column "event_pair" contains the names of the two events from the pair sorted chronologically, the column "data_releases" contains the names of the data releases from which the posterior samples of each event were taken, the column "waveform" contains the name of the waveform model used in the parameter estimation for both sets of posteriors, and the column "log10blu" contains the log10 of the Bayes factors. The differences between runs for the same event pair, only including O1-O1, O2-O2, O3-O3 pairs, where at least one run gave log10blu>0, are also given in the file "blu_differences_pairs_with_log10blu_pos.txt". The column "event_pair" contains the event pairs, the columns "waveform_{1,2}" contain the names of the waveform models used in the parameter estimation for both sets of posteriors, the columns "data_releases_{1,2}" contain the the data releases from which the posterior samples of each event were taken, the columns "log10blu_{1,2}" contain the log10 Bayes factors, and the column "difference" contains the difference between "log10blu_1" and "log10blu_2". We also provide the following files corresponding to the appendix of the paper, analyzing overlaps between posterior samples for individual events: <ul> <li>    overlap_different_runs.txt</li> <li>    overlap_same_run.txt</li> <li>    rescaled_difference_single_event.txt</li> </ul> The file "overlap_different_runs.txt" contains Bayes factors for a single event, but comparing the posteriors from different runs. The file "overlap_same_run.txt" contains Bayes factors for the overlap of a single run on a single event with itself. The file "rescaled_difference_single_event.txt" contains the difference between the results contained in the file overlap_different_runs.txt and the results in overlap_same_run.txt, taking the ones that produce the biggest difference, as per equation (A.1) in the paper. In these files, the column "event_name" is the name of the event, the column "data_release" or "data_releases" contains the name(s) of the data release(s) from which the posterior samples of each run were taken, the column "waveform" or "waveform_pair" contains the name(s) of the waveform model(s) used, and the column "log10blu" is the log10 Bayes factor obtained. In the file "rescaled_difference_single_event.txt", the columns "max_run_waveform" and "max_run_data_release" identify an entry from the "overlap_same_run.txt" file from which we use the "log10blu" to compute the value listed in the "difference" column using equation (A.1).

opencc-by-4.0May 2023View details →

Dataset: A Systematic Literature Review on the topic of High-value datasets

This dataset contains data collected during a study ("T<a href="http://https://arxiv.org/abs/2305.10234">owards High-Value Datasets determination for data-driven development: a systematic literature review</a>") conducted by Anastasija Nikiforova (University of Tartu), Nina Rizun, Magdalena Ciesielska (Gdańsk University of Technology), Charalampos Alexopoulos (University of the Aegean) and Andrea Miletič (University of Zagreb) It being made public both to act as supplementary data for "Towards High-Value Datasets determination for data-driven development: a systematic literature review" paper (pre-print is available in Open Access here -><a href="http://https://arxiv.org/abs/2305.10234"> https://arxiv.org/abs/2305.10234</a>) and in order for other researchers to use these data in their own work. The protocol is intended for the Systematic Literature review on the topic of High-value Datasets with the aim to gather information on how the topic of High-value datasets (HVD) and their determination has been reflected in the literature over the years and what has been found by these studies to date, incl. the indicators used in them, involved stakeholders, data-related aspects, and frameworks. The data in this dataset were collected in the result of the SLR over Scopus, Web of Science, and Digital Government Research library (DGRL) in 2023.   ***Methodology*** To understand how HVD determination has been reflected in the literature over the years and what has been found by these studies to date, all relevant literature covering this topic has been studied. To this end, the SLR was carried out to by searching digital libraries covered by Scopus, Web of Science (WoS), Digital Government Research library (DGRL). These databases were queried for keywords ("open data" OR "open government data") AND ("high-value data*" OR "high value data*"), which were applied to the article title, keywords, and abstract to limit the number of papers to those, where these objects were primary research objects rather than mentioned in the body, e.g., as a future work. After deduplication, 11 articles were found unique and were further checked for relevance. As a result, a total of 9 articles were further examined. Each study was independently examined by at least two authors. To attain the objective of our study, we developed the protocol, where the information on each selected study was collected in four categories: (1) descriptive information, (2) approach- and research design- related information, (3) quality-related information, (4) HVD determination-related information.   ***Test procedure*** Each study was independently examined by at least two authors, where after the in-depth examination of the full-text of the article, the structured protocol has been filled for each study. The structure of the survey is available in the supplementary file available (see Protocol_HVD_SLR.odt, Protocol_HVD_SLR.docx) The data collected for each study by two researchers were then synthesized in one final version by the third researcher. ***Description of the data in this data set*** Protocol_HVD_SLR provides the structure of the protocol Spreadsheets #1 provides the filled protocol for relevant studies. Spreadsheet#2 provides the list of results after the search over three indexing databases, i.e. before filtering out irrelevant studies The information on each selected study was collected in four categories: (1) descriptive information, (2) approach- and research design- related information, (3) quality-related information, (4) HVD determination-related information Descriptive information     1) Article number - a study number, corresponding to the study number assigned in an Excel worksheet 2) Complete reference - the complete source information to refer to the study 3) Year of publication - the year in which the study was published 4) Journal article / conference paper / book chapter - the type of the paper -{journal article, conference paper, book chapter} 5) DOI / Website- a link to the website where the study can be found 6) Number of citations - the number of citations of the article in Google Scholar, Scopus, Web of Science 7) Availability in OA - availability of an article in the Open Access 8) Keywords - keywords of the paper as indicated by the authors 9) Relevance for this study - what is the relevance level of the article for this study? {high / medium / low} Approach- and research design-related information 10) Objective / RQ - the research objective / aim, established research questions 11) Research method (including unit of analysis) - the methods used to collect data, including the unit of analy-sis (country, organisation, specific unit that has been ana-lysed, e.g., the number of use-cases, scope of the SLR etc.) 12) Contributions - the contributions of the study 13) Method - whether the study uses a qualitative, quantitative, or mixed methods approach? 14) Availability of the underlying research data- whether there is a reference to the publicly available underly-ing research data e.g., transcriptions of interviews, collected data, or explanation why these data are not shared? 15) Period under investigation - period (or moment) in which the study was conducted 16) Use of theory / theoretical concepts / approaches - does the study mention any theory / theoretical concepts / approaches? If any theory is mentioned, how is theory used in the study? Quality- and relevance- related information     17) Quality concerns - whether there are any quality concerns (e.g., limited infor-mation about the research methods used)? 18) Primary research object - is the HVD a primary research object in the study? (primary - the paper is focused around the HVD determination, sec-ondary - mentioned but not studied (e.g., as part of discus-sion, future work etc.)) HVD determination-related information     19) HVD definition and type of value - how is the HVD defined in the article and / or any other equivalent term? 20) HVD indicators - what are the indicators to identify HVD? How were they identified? (components & relationships, “input -> output") 21) A framework for HVD determination - is there a framework presented for HVD identification? What components does it consist of and what are the rela-tionships between these components? (detailed description) 22) Stakeholders and their roles - what stakeholders or actors does HVD determination in-volve? What are their roles? 23) Data - what data do HVD cover? 24) Level (if relevant) - what is the level of the HVD determination covered in the article? (e.g., city, regional, national, international) ***Format of the file*** .xls, .csv (for the first spreadsheet only), .odt, .docx ***Licenses or restrictions*** CC-BY   For more info, see README.txt

opencc-by-4.0Jul 2023View details →

Dataset of "Early triadic interactions in the first year of life: A systematic review on object-mediated shared encounters"

<pre>Two files are available as a result of data extraction from the 51 studies included in the systematic review entitled: "Early triadic interactions in the first year of life: A systematic review on object-mediated shared encounters": (1) DataExtraction.csv -> Dataset resulting from data extraction. (2) DictionaryVariables.csv -> dictionary of the variables included in the dataset: Authors, doi, Year of publication, Study type, Design type, Data analysis strategy, Type of task, Objects, Infants' age (months), Context of interaction, and Country. </pre>

opencc-by-4.0Aug 2023View details →

Domain-Driven Design for Microservices Architecture Systems Development: A Systematic Mapping Study

This repository contains all artifacts related to the study: Domain-Driven Design for Microservices Architecture Systems Development: A Systematic Mapping Study

opencc-by-4.0Oct 2023View details →

Cognition in Social Engineering Empirical Research: a Systematic Literature Review

# Description of contents This repository contains the codebook, dataset and analysis scripts in R used for the following publication: Pavlo Burda, Luca Allodi, Nicola Zannone. "Cognition in Social Engineering Empirical Research: a Systematic Literature Review". ACM Transactions on Computer-Human Interaction (TOCHI). The repository consists of the following files: ## dataset_and_codebook.xlsx contains the dataset, the codebook and a detailed description of contents. ## scripts/ contains the R scripts used for the analysis ## readme.txt contains this readme # Dataset and codebook The dataset_and_codebook.xlsx contains the following sheets: ## Codebook Contains a detailed description of the dataset (tables, columns, fields, etc.). The codebook describes the concepts and variables that are present in the dataset. This includes explanations on meaning, numerical values, classification schemes and labels. ## Hypotheses table         Contains the hypotheses for all analyzed papers and is used in the results of the paper.      Each row is a hypothesis of an included paper, cells contain one or more values (e.g., value1,value2,...) with or without sub values (e.g., value1,value2(sub-value1, ...)). Any content that is in square brackets [] is ignored in the analysis. Empty cells mean that there is no applicable value for that column. ## Papers table Contains the analyzed papers and is used in the results of the paper. It is also used in the overview table (Table 6) in Appendix C. Each row is an included paper, cells contain up to two values (e.g., value1, value2) or the word 'multiple' in case of more than two values. Empty cells mean that there is no applicable value for that column. ## Values table         Contains the description of cell values of 'Hypotheses' and 'Papers' and sub-values (specific variables in a study) that belong to a value.      It has a hierarchical structure from left to right where each field on the right column falls under the first non-empty field on the immediate left-top. # Reproducing results with scripts/ (generate figures) To run the R scripts included in the 'scripts' directory it is sufficient to follow the instructions in and run the 'RUN_ALL_SCRIPTS.R' in 'scripts' directory. The scripts use the TSV (Tab Separated Values) format of the dataset, which is the exact copy of the 'Papers' and 'Hypotheses' tables in the 'dataset_and_codebook.xlsx' file. The resulting figures are stored in the 'scripts/results' directory.

opencc-by-4.0Oct 2023View details →

Bibliographic data for the systematic review on tilting table tests of masonry assemblies

This database contains all the bibliographic information about the records found after applying the Search Strategy used for the Systematic Review on Tilting Table Tests of Masonry Assemblies. The search was conducted in Scopus, Web of Science, IEEE Explore, Engineering Village, and Wiley Online Library databases. It was performed on 13/09/2023. The bibliographic data of the records found in the different databases is presented in .ris, .bib, and .csv format.

opencc-by-3.0-usSep 2023View details →

Systematic Multi-Trait AAV Capsid Engineering for Efficient Gene Delivery

Datasets for "Systematic Multi-Trait AAV Capsid Engineering for Efficient Gene Delivery", Eid et al., Nature Communications.

opencc-by-4.0Jan 2020View details →

Data from Comparative effectiveness of common therapies for Wilson disease: A systematic review and meta‐analysis of controlled studies

This dataset contains three text files in RIS format. They represent the screening process during study selection for "Comparative effectiveness of common therapies for Wilson disease: A systematic review and meta‐analysis of controlled studies" (<a href="https://doi.org/10.1111/liv.14179">https://doi.org/10.1111/liv.14179</a>). The file DOKU_All TiAb-Screening_20200116_cap contains all 3453 records (merged from original and update search) that were subjected to title-abstract screening. The file DOKU_All FT-Screening_20200116_cap contains all 174 records that were subjected to full-text screening. The file DOKU_All Included_20200116_cap contains all 26 records that were included into the final review. In addition, a PRISMA flow diagram (Fig. 1 in the paper) is available in TIF format.

opencc-by-4.0Jun 2019View details →

Fig. 3 in Species or population? Systematic status of Vieja coatlicue (Teleostei: Cichlidae)

Fig. 3. Haplotype network recovered from analysis of the cyt b dataset for populations of Vieja coatlicue (Atlantic) and Vieja zonata (Pacific). Dashes lines represent mutational steps.

opencc-by-4.0Jun 2019View details →

Fig. 2 in Species or population? Systematic status of Vieja coatlicue (Teleostei: Cichlidae)

Fig. 2. Bayesian phylogeny based on cytochrome b sequence data. Number above clades is posterior probability.

opencc-by-4.0Jun 2019View details →

Fig. 1 in Species or population? Systematic status of Vieja coatlicue (Teleostei: Cichlidae)

Fig. 1. Map of Mexico displaying localities for specimens (triangles) examined and tissue samples (circles) for Vieja coatlicue (green) and Vieja zonata (black) used in this study. Star indicates locality for Vieja guttulata sample.

Fig. 29 in Systematics of the enigmatic South American Streblopus Van Lansberge, 1874 dung beetles and their transatlantic origin: a case study on the role of dispersal events in the biogeographical history of the Scarabaeinae (Coleoptera: Scarabaeidae)

Fig. 29. Current distribution of Streblopus van Lansberge, 1874 and the Old World groups with which it is believed to be more closely related plotted on an Upper Cretaceous palaeomap (~ 80 million years ago). Based particularly on the hypothesis in Tarasov & Génier (2015) that Streblopus is part of a clade otherwise composed uniquely of dung beetle lineages either exclusively distributed in Africa (Circellium, Chalconotus and Gyronotus) or with a distribution largely centred on that continent (Scarabaeini), and on the dating of the origin of the Scarabaeini as 71 million years ago (Gunter et al. 2016), we propose that the lineage that would eventually lead to Streblopus branched off from those groups in Africa some time between 95 and 71 million years ago, and that one of its descendent lineages (the only one living today) dispersed from its original continent to South America during the late Upper Cretaceous or the early Cenozoic. Since Africa and South America have not been connected by land since the Lower Cretaceous, the only way the ancestor of Streblopus could have reached South America was through transoceanic dispersal across the early South Atlantic. That dispersal probably happened by rafting on floating pieces of plants or other debris, as probably occurred with a large number of other organisms. Palaeomap modified from Scotese (2016); distribution area based on Balthasar (1963), Scholtz & Howden (1987), Davis et al. (2008) and our own results.

Fig. 14. Profemora. A‒B. Streblopus opatroides van Lansberge, 1874. A in Systematics of the enigmatic South American Streblopus Van Lansberge, 1874 dung beetles and their transatlantic origin: a case study on the role of dispersal events in the biogeographical history of the Scarabaeinae (Coleoptera: Scarabaeidae)

Fig. 14. Profemora. A‒B. Streblopus opatroides van Lansberge, 1874. A. ♂. B. ♀. C‒D. S. punctatus (Balthasar, 1938). C. ♂. D. ♀. Note the differences between the species and sexes in relation to the overall shape of the profemora and the presence of spurs on the anterior edge in males.

Fig. 12. Pronotum. A. Streblopus opatroides van Lansberge, 1874. B. S in Systematics of the enigmatic South American Streblopus Van Lansberge, 1874 dung beetles and their transatlantic origin: a case study on the role of dispersal events in the biogeographical history of the Scarabaeinae (Coleoptera: Scarabaeidae)

Fig. 12. Pronotum. A. Streblopus opatroides van Lansberge, 1874. B. S. punctatus (Balthasar, 1938). Note the differences in the umbilicate punctation and colour between the species.

Fig. 1. Streblopus opatroides van Lansberge, 1874. A‒B. Ordinary specimens, dorsal view. A in Systematics of the enigmatic South American Streblopus Van Lansberge, 1874 dung beetles and their transatlantic origin: a case study on the role of dispersal events in the biogeographical history of the Scarabaeinae (Coleoptera: Scarabaeidae)

Fig. 1. Streblopus opatroides van Lansberge, 1874. A‒B. Ordinary specimens, dorsal view. A. ♂. B. ♀. C‒D. Lectotype, ♂. C. Dorsal view. D. Attached labels.

Fig. 3 in Systematics of the enigmatic South American Streblopus Van Lansberge, 1874 dung beetles and their transatlantic origin: a case study on the role of dispersal events in the biogeographical history of the Scarabaeinae (Coleoptera: Scarabaeidae)

Fig. 3. Streblopus punctatus (Balthasar, 1938). A‒B. Holotype, ♀. A. Dorsal view. B. Attached labels. C‒D. Ordinary specimens, dorsal view. C. ♂. D. ♀.

opencc-by-4.0Sep 2019View details →

Figures 67–82. Pentilia spp. 67-72 in South American Coccinellidae (Coleoptera), Part XXI: systematic revision of South American Pentilia Mulsant (Cryptognathini)

Figures 67–82. Pentilia spp. 67-72) Pentilia elena. 67) Habitus. 68) Frons. 69) Penis guide ventral. 70) Penis guide lateral. 71) Base of penis. 72) Spermathecal capsule. 73-76) Pentilia krystal. 73) Habitus. 74) Frons. 75) Penis guide ventral. 76) Penis guide lateral. 77-82) Pentilia lora. 77) Habitus. 78) Frons. 79) Penis guide ventral. 80) Penis guide lateral. 81) Apical 1/2 of penis. 82) Spermathecal capsule.

opencc-by-4.0Sep 2019View details →

Figures 18–34. Pentilia spp. 18-23 in South American Coccinellidae (Coleoptera), Part XXI: systematic revision of South American Pentilia Mulsant (Cryptognathini)

Figures 18–34. Pentilia spp. 18-23) Pentilia nichole. 18) Habitus. 19) Frons. 20) Penis guide ventral. 21) Penis guide lateral. 22) Penis. 23) Spermathecal capsule 24-29) Pentilia jody. 24) Habitus. 25) Frons. 26) Penis guide ventral. 27) Penis guide lateral. 28) Penis. 29-34) Pentilia kendra. 29) Habitus. 30) Frons. 31) Penis guide ventral. 32) Penis guide lateral. 33) Penis. 34) Spermathecal capsule.