cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.10299548
title: Literature and data on persistence of microbiological hazards in food production and processing environments

description: These data have been gathered by members of the EFSA Working Group on persistence of microbiological hazards (EFSA-Q-2022-00217) dealing with the scientific opinion on the persistence of microbiological hazards in food and feed production and processing environments (https://doi.org/10.2903/ j.efsa.2024.8521).

The following sectors are considered: (i) feed for food animal production, (ii) meat processing (including slaughterhouses and processing plants), (iii) fish and seafood processing, (iv) dairy processing, (v) egg and egg products processing, (vi) fruit and vegetable processing (including herbs), including Controlled Environment Agriculture (CEA)/production through indoor hydroponic operations and (vii) low moisture food (LMF) processing.

The search strategy followed is described in detail in Appendix A while the search string can be found in Annex A.

The supplementary files to the abovementioned EFSA opinion include (i) the reviews that were found eligible at full text level (file "EFSA-2024-8521_Food production and processing_reviews") and (ii) the extracted data from the primary research studies (file "EFSA-2024-8521_Food production and processing_primary research studies") obtained through literature searches for the assessment of the persistence of microbiological hazards in food production and processing environments.

Similarly, files are included of (iii) the reviews that were found eligible at full text level (file "EFSA-2024-8521_Feed production and processing_reviews") and (ii) the extracted data from the primary research studies (file "EFSA-2024-8521_Feed production and processing_primary research studies") obtained through literature searches for the assessment of the persistence of microbiological hazards in feed production and processing environments.
description: EU; xlsx; biohaz@efsa.europa.eu
DOI: 10.5281/zenodo.10299549
title: Literature and data on persistence of microbiological hazards in food production and processing environments

description: These data have been gathered by members of the EFSA Working Group on persistence of microbiological hazards (EFSA-Q-2022-00217) dealing with the scientific opinion on the persistence of microbiological hazards in food and feed production and processing environments (https://doi.org/10.2903/ j.efsa.2024.8521).

The following sectors are considered: (i) feed for food animal production, (ii) meat processing (including slaughterhouses and processing plants), (iii) fish and seafood processing, (iv) dairy processing, (v) egg and egg products processing, (vi) fruit and vegetable processing (including herbs), including Controlled Environment Agriculture (CEA)/production through indoor hydroponic operations and (vii) low moisture food (LMF) processing.

The search strategy followed is described in detail in Appendix A while the search string can be found in Annex A.

The supplementary files to the abovementioned EFSA opinion include (i) the reviews that were found eligible at full text level (file "EFSA-2024-8521_Food production and processing_reviews") and (ii) the extracted data from the primary research studies (file "EFSA-2024-8521_Food production and processing_primary research studies") obtained through literature searches for the assessment of the persistence of microbiological hazards in food production and processing environments.

Similarly, files are included of (iii) the reviews that were found eligible at full text level (file "EFSA-2024-8521_Feed production and processing_reviews") and (ii) the extracted data from the primary research studies (file "EFSA-2024-8521_Feed production and processing_primary research studies") obtained through literature searches for the assessment of the persistence of microbiological hazards in feed production and processing environments.
description: EU; xlsx; biohaz@efsa.europa.eu
DOI: 10.5281/zenodo.10497801
title: RNA-Seq on Primary human hepatocytes Control

description: After extractions, cells were cultured in 5% CO2 at 37°C using Williams E media supplemented with 2.24 g/l NaHCO3, 100 U/100 µM penicillin/streptomycin, 100 µM dexamethasone and 2 mM L-glutamine.

RNA was isolated using the RNeasy® Mini Kit (Qiagen, 74104) on-column DNA digestion was performed.

Libraries were prepared using the NEBNext Ultra II RNA Library Prep Kit (New England Biolabs GmbH, Germany)

Genome assembly: hg38
DOI: 10.5281/zenodo.10497802
title: RNA-Seq on Primary human hepatocytes Control

description: After extractions, cells were cultured in 5% CO2 at 37°C using Williams E media supplemented with 2.24 g/l NaHCO3, 100 U/100 µM penicillin/streptomycin, 100 µM dexamethasone and 2 mM L-glutamine.

RNA was isolated using the RNeasy® Mini Kit (Qiagen, 74104) on-column DNA digestion was performed.

Libraries were prepared using the NEBNext Ultra II RNA Library Prep Kit (New England Biolabs GmbH, Germany)

Genome assembly: hg38
DOI: 10.6084/m9.figshare.25027439
title: 原始数据-Yu et al-植物生态学

description: 日志原始数据
DOI: 10.6084/m9.figshare.25027439.v1
title: 原始数据-Yu et al-植物生态学

description: 日志原始数据
DOI: 10.5281/zenodo.10532230
title: Dataset related to article "Sleep quality burden in chronic rhinosinusitis with nasal polyps and its modulation by dupilumab"

description: This record contains raw data related to article “Sleep quality burden in chronic rhinosinusitis with nasal polyps and its modulation by dupilumab"



Abstract



 Background:  Chronic rhinosinusitis with nasal polyps (CRSwNP) is associated with a substantial burden on patients' quality of life and impaired sleep quality. The most common CRSwNP endotype is characterized by type 2 inflammation, with enhanced production of interleukin (IL)-4, IL-5, and IL-13. Dupilumab is a monoclonal antibody against IL-4 receptor-α, which inhibits both IL-4 and IL-13 signaling, and was recently approved for treatment of CRSwNP.

 Objective:  We investigated the effect of dupilumab on the sleep quality of patients with CRSwNP in a real-life setting.

 Methods:  Patients were evaluated at baseline and after 1 and 3 months of dupilumab treatment by means of the Epworth sleepiness scale (ESS), insomnia severity index (ISI), Pittsburgh sleep quality index (PSQI), and sinonasal outcome test 22 (SNOT-22) sleep domain.

 Results:  A total of 29 consecutive patients were enrolled, and their baseline sleep quality assessment were as follows: ESS of 7.9 (± 4.5); ISI of 13.1 (± 6.2); PSQI of 9.2 (± 3.7); and SNOT-22 sleep domain of 12.1 (± 4.2). Excessive daily sleepiness, insomnia, and globally impaired sleep quality were present in 24.1%, 79.3%, and 93.1% respectively. Treatment with dupilumab was associated with significant improvement in ESS, ISI, PSQI, and SNOT-22 sleep domain with concomitant reduction of the proportion of patients with insomnia and globally impaired sleep quality.

 Conclusion:  CRSwNP was associated with a significant impact on global sleep quality, in particular, insomnia, and treatment with dupilumab induced a rapid improvement (after 1 single month of treatment) in all the sleep quality parameters, suggesting that sleep disturbances should be more carefully evaluated as an additional outcome in these patients.
DOI: 10.5281/zenodo.10532231
title: Dataset related to article "Sleep quality burden in chronic rhinosinusitis with nasal polyps and its modulation by dupilumab"

description: This record contains raw data related to article “Sleep quality burden in chronic rhinosinusitis with nasal polyps and its modulation by dupilumab"



Abstract



 Background:  Chronic rhinosinusitis with nasal polyps (CRSwNP) is associated with a substantial burden on patients' quality of life and impaired sleep quality. The most common CRSwNP endotype is characterized by type 2 inflammation, with enhanced production of interleukin (IL)-4, IL-5, and IL-13. Dupilumab is a monoclonal antibody against IL-4 receptor-α, which inhibits both IL-4 and IL-13 signaling, and was recently approved for treatment of CRSwNP.

 Objective:  We investigated the effect of dupilumab on the sleep quality of patients with CRSwNP in a real-life setting.

 Methods:  Patients were evaluated at baseline and after 1 and 3 months of dupilumab treatment by means of the Epworth sleepiness scale (ESS), insomnia severity index (ISI), Pittsburgh sleep quality index (PSQI), and sinonasal outcome test 22 (SNOT-22) sleep domain.

 Results:  A total of 29 consecutive patients were enrolled, and their baseline sleep quality assessment were as follows: ESS of 7.9 (± 4.5); ISI of 13.1 (± 6.2); PSQI of 9.2 (± 3.7); and SNOT-22 sleep domain of 12.1 (± 4.2). Excessive daily sleepiness, insomnia, and globally impaired sleep quality were present in 24.1%, 79.3%, and 93.1% respectively. Treatment with dupilumab was associated with significant improvement in ESS, ISI, PSQI, and SNOT-22 sleep domain with concomitant reduction of the proportion of patients with insomnia and globally impaired sleep quality.

 Conclusion:  CRSwNP was associated with a significant impact on global sleep quality, in particular, insomnia, and treatment with dupilumab induced a rapid improvement (after 1 single month of treatment) in all the sleep quality parameters, suggesting that sleep disturbances should be more carefully evaluated as an additional outcome in these patients.
DOI: 10.6084/m9.figshare.22785353
title: Crowd logistics - state of the art and current solutions worldwide (except food deliveries only)

description: Dataset is made of inventory of solutions named crowd logistics, except popular food deliveries in cities although we included the peer-to-peer solutions for food deliveries in the dataset (not business-to-customer).
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DOI: 10.6084/m9.figshare.22785353.v2
title: Crowd logistics - state of the art and current solutions worldwide (except food deliveries only)

description: Dataset is made of inventory of solutions named crowd logistics, except popular food deliveries in cities although we included the peer-to-peer solutions for food deliveries in the dataset (not business-to-customer).
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DOI: 10.5281/zenodo.10532261
title: Exploring Antimicrobial Resistance Determinants in the Neanderthal Microbiome

description: This is the supplementary material for the manuscript titled - Exploring Antimicrobial Resistance Determinants in the Neanderthal Microbiome. Contains supplementary data and scripts used for analysis related to that article.
DOI: 10.5281/zenodo.10532262
title: Exploring Antimicrobial Resistance Determinants in the Neanderthal Microbiome

description: This is the supplementary material for the manuscript titled - Exploring Antimicrobial Resistance Determinants in the Neanderthal Microbiome. Contains supplementary data and scripts used for analysis related to that article.
DOI: 10.5281/zenodo.10532257
title: Dataset for 'Projecting the World. The Mediated Geography of the Projection Lantern in Belgium c.1900-c.1920'

description: This is the dataset for the article 'Projecting the World. The Mediated Geography of the Projection Lantern in Belgium c.1900-c.1920' with Thomas Smits.

The dataset contains announcements and reviews of lantern lectures published in Belgian newspapers. The studied newspapers provide an accurate overview of the Belgian newspaper landscape in three sample periods (1902-1904, 1914-1918, and 1922-1924). We considered the different ideological backgrounds (Catholic, liberal, and socialist) and the language of the publication (French and Dutch) and focussed on the two largest cities of Belgium at that time: Antwerp and Brussels. Using different search strings, we identified 8,230 announcements and reviews for lantern lectures, published in 45 different newspaper titles. We included all types of performances (travel, economic, religious, etc). Next to the geographic references, we also recorded: the newspaper and its production date, the date of the performance, the speaker and their profession, the location of the performance, and, when available, information on which images were shown and the reaction of the audience. Taking into account that some lectures were announced and discussed multiple times, our final dataset consists of 5,673 unique lectures of which 2,570 have a spatial reference (45%). We identified three levels of spatial references: continent, country, and city. If the announcements mentioned a place in one of the last two levels (country or city), we completed the parent levels. For instance, we filled in Europe and France for lectures that mentioned Paris. We recorded place names as they were mentioned in the newspapers but also normalized the spatial references to modern-day cities and countries (see methodology).

This is an abbreviated version of the dataset collected for my doctoral dissertation 'From 'Magic' to 'the Masses' Mapping the Lantern Lecture Circuit in Antwerp and Brussels, c.1900-c.1920' (University of Antwerp). You can e-mail me for the larger dataset.

In the article, we analysed the dataset using Jupyter Notebooks which can be found in the GitHub repository: https://github.com/tpsmi/projectingtheworld
DOI: 10.5281/zenodo.10532258
title: Dataset for 'Projecting the World. The Mediated Geography of the Projection Lantern in Belgium c.1900-c.1920'

description: This is the dataset for the article 'Projecting the World. The Mediated Geography of the Projection Lantern in Belgium c.1900-c.1920' with Thomas Smits.

The dataset contains announcements and reviews of lantern lectures published in Belgian newspapers. The studied newspapers provide an accurate overview of the Belgian newspaper landscape in three sample periods (1902-1904, 1914-1918, and 1922-1924). We considered the different ideological backgrounds (Catholic, liberal, and socialist) and the language of the publication (French and Dutch) and focussed on the two largest cities of Belgium at that time: Antwerp and Brussels. Using different search strings, we identified 8,230 announcements and reviews for lantern lectures, published in 45 different newspaper titles. We included all types of performances (travel, economic, religious, etc). Next to the geographic references, we also recorded: the newspaper and its production date, the date of the performance, the speaker and their profession, the location of the performance, and, when available, information on which images were shown and the reaction of the audience. Taking into account that some lectures were announced and discussed multiple times, our final dataset consists of 5,673 unique lectures of which 2,570 have a spatial reference (45%). We identified three levels of spatial references: continent, country, and city. If the announcements mentioned a place in one of the last two levels (country or city), we completed the parent levels. For instance, we filled in Europe and France for lectures that mentioned Paris. We recorded place names as they were mentioned in the newspapers but also normalized the spatial references to modern-day cities and countries (see methodology).

This is an abbreviated version of the dataset collected for my doctoral dissertation 'From 'Magic' to 'the Masses' Mapping the Lantern Lecture Circuit in Antwerp and Brussels, c.1900-c.1920' (University of Antwerp). You can e-mail me for the larger dataset.

In the article, we analysed the dataset using Jupyter Notebooks which can be found in the GitHub repository: https://github.com/tpsmi/projectingtheworld
DOI: 10.5281/zenodo.10532068
title: Improving the Accessibility and Efficiency of Proton Irradiations for 4He/3He Thermochronology

description: Supplementary dataset and figures accompanying a paper entitled “Improving the Accessibility and Efficiency of Proton Irradiations for 4He/3He Thermochronology” submitted to Geochemistry, Geophysics, Geosystems.

The dataset contains 4He/3He step-heating measurements on internal shards of Durango apatite that underwent proton irradiation at three different facilities: the Francis H. Burr Proton Therapy Center (FHB), the Helmholtz Zentrum Berlin (HZB), and the Paul Scherrer Insitute (PSI). Furthermore, the dataset contains bulk 4He and 3He concentrations for each shard analyzed.

The supplementary figures include 4He/3He release spectrum plots for each Durango shard analyzed, 3He concentration maps from the HZB irradiation, and detailed results of PHITS simulations used to assess the HZB irradiations.
DOI: 10.5281/zenodo.10225139
title: A Study of Primordial Very Massive Star Evolution II: Stellar Rotation and Gamma-Ray Burst Progenitors

description: Wind ejecta tables of rotating very massive stars from the paper:

A Study of Primordial Very Massive Star Evolution II: Stellar Rotation and Gamma-Ray Burst Progenitors
DOI: 10.5281/zenodo.10225140
title: A Study of Primordial Very Massive Star Evolution II: Stellar Rotation and Gamma-Ray Burst Progenitors

description: Wind ejecta tables of rotating very massive stars from the paper:

A Study of Primordial Very Massive Star Evolution II: Stellar Rotation and Gamma-Ray Burst Progenitors
DOI: 10.5281/zenodo.10531693
title: udacity
DOI: 10.5281/zenodo.10531694
title: udacity
DOI: 10.5281/zenodo.10532375
title: Dataset - D2.1 Benchmark of the best practice of EAI in relation to biodiversity (qualitative and quantitative)
DOI: 10.5281/zenodo.10532376
title: Dataset - D2.1 Benchmark of the best practice of EAI in relation to biodiversity (qualitative and quantitative)
DOI: 10.6084/m9.figshare.25021337.v1
title: R project and code to simulate data, download me

description: The README file explains the organization of this file.Because of the size of simulated datasets (273G0), here, we provide all scripts required to generate data but provide only a small subsample of the simulated data.
DOI: 10.6084/m9.figshare.6189173
title: DNA barcoding revealed a new species of <i>Neolissochilus</i> Rainboth, 1985 from the Kaladan River of Mizoram, North East India

description: <i>Neolissochilus kaladanensis</i> sp. nov., a new cyprinid species, is described from the Kaladan River drainage of Mizoram. It differs from all other valid <i>Neolissochilus</i> species in having higher number of gill rakers on the lower arm of the first gill arch (13–14 vs. 12 or below in all the species). The analysis of mitochondrial gene cytochrome c oxidase subunit I (COI) sequences separated <i>N. kaladanensis</i> sp. nov. from all other <i>Neolissochilus</i> and <i>Tor</i> species with an average genetic distance of 6.0%. It is further separated from the morphologically most similar species <i>N. hendersoni</i> and <i>N. soroides</i> by a genetic distance of 6.7% and 6.8%, respectively. Based on the lowest BIC and AICc scores, best fit model for COI dataset was TN93 + G + I, out of 24 different nucleotide substitution models tested. The maximum-likelihood (ML) phylogenetic tree was constructed using the COI sequences of representative <i>Neolissochilus</i> and <i>Tor</i> species. The anomalies observed among the GenBank sequences of the genera <i>Tor</i> and <i>Neolissochilus</i> are also discussed.
DOI: 10.6084/m9.figshare.6189173.v1
title: DNA barcoding revealed a new species of <i>Neolissochilus</i> Rainboth, 1985 from the Kaladan River of Mizoram, North East India

description: <i>Neolissochilus kaladanensis</i> sp. nov., a new cyprinid species, is described from the Kaladan River drainage of Mizoram. It differs from all other valid <i>Neolissochilus</i> species in having higher number of gill rakers on the lower arm of the first gill arch (13–14 vs. 12 or below in all the species). The analysis of mitochondrial gene cytochrome c oxidase subunit I (COI) sequences separated <i>N. kaladanensis</i> sp. nov. from all other <i>Neolissochilus</i> and <i>Tor</i> species with an average genetic distance of 6.0%. It is further separated from the morphologically most similar species <i>N. hendersoni</i> and <i>N. soroides</i> by a genetic distance of 6.7% and 6.8%, respectively. Based on the lowest BIC and AICc scores, best fit model for COI dataset was TN93 + G + I, out of 24 different nucleotide substitution models tested. The maximum-likelihood (ML) phylogenetic tree was constructed using the COI sequences of representative <i>Neolissochilus</i> and <i>Tor</i> species. The anomalies observed among the GenBank sequences of the genera <i>Tor</i> and <i>Neolissochilus</i> are also discussed.
DOI: 10.6084/m9.figshare.6189113
title: BCD Beam Search evaluation data

description: BCD Beam Search evaluation data The data we have used to evaluate the BCD Beam Search algorithm.<br><b><br></b><b>Simulated datasets:</b> Supertrees and stats for several simulated data sets.The simulated input data was originally published by:<b>SMIDGenOG: </b>https://doi.org/10.7717/peerj.2172 <b>Supertriplet:</b> https://doi.org/10.1093/bioinformatics/btq196<br><br><b>Biological datasets:</b>Supertrees and stats for the biological datasets we used for evaluation.<br>The biological data was originally published by:<b>Primates:</b> http://dx.doi.org/10.1098/rstb.1995.0078<br><b>THPL:</b> http://citeseerx.ist.psu.edu/viewdoc/download?doi=10.1.1.398.7077&rep=rep1&type=pdf<br><b>OMM:</b> https://doi.org/10.1093/bioinformatics/btq196<br><b>Bats:</b> https://doi.org/10.1017/S1464793101005899<b>Seabirds:</b>https://doi.org/10.1642/0004-8038(2002)119[0088:SSCPEO]2.0.CO;2<br><br> <br>
DOI: 10.6084/m9.figshare.6189041
title: A systematic quality review of high-tech AAC interventions as an evidence-based practice

description: Although high-tech augmentative and alternative communication (AAC) is commonly used to teach social-communication skills to people with autism spectrum disorder or intellectual disabilities who have complex communication needs, there is a critical need to evaluate the efficacy of this approach. The aim of this systematic review was to evaluate the quality of single-case experimental design research on the use of high-tech AAC to teach social-communication skills to individuals with autism spectrum disorder or intellectual disabilities who have complex communication needs, to determine if this intervention approach meets the criteria for evidence-based practices as outlined by the What Works Clearinghouse. Additionally, information on the following extended methodological standards is reported on all included studies: participant description, description of setting and materials, interventionist description, baseline and intervention description, maintenance, generalization, procedural integrity, and social validity. The results from 18 multiple-baseline or multiple-probe experiments across 17 studies indicate that using high-tech AAC to teach social-communication skills to individuals with autism spectrum disorder or intellectual disabilities and complex communication needs can be considered an evidence-based practice, although the review of comparison (i.e., alternating treatment) design studies did not indicate that high-tech AAC is significantly better than low-tech AAC.