cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.6171161.v1
title: Molecular characterization of fowl aviadenoviruses species D and E associated with inclusion body hepatitis in chickens and falcons indicates possible cross-species transmission

description: During the period from 2015 to 2017, frequent outbreaks of inclusion body hepatitis (IBH) were observed in broiler chickens and falcons in Saudi Arabia. Fifty samples were collected from both species. The histopathological examination and polymerase chain reaction confirmed the IBH infection in eight samples (five samples from chickens and three samples from falcons). The genomic sequence and phylogenetic analysis based on nucleotide and amino acid sequences of Saudi strains, reference fowl aviadenoviruses (FAdVs) and field viruses available in Genbank revealed that all investigated FAdVs clustered into FAdV-2 (species D) and FAdV-6 (species E). The host-dependent characterization revealed that falcon origin strains showed low identity (∼35%) with falcon adenoviruses isolated from USA, which clustered into a separate group. The identification of FAdV-D and FAdV-E in diseased falcons and chickens indicates cross-species transmission although falcons and chickens are phylogenetically different. The control of IBH infection in falcons and chickens should be based on the separation of carriers and susceptible chickens as well as falcons to prevent cross-species contact. Vaccination is an important method for prevention of IBH. The characterization of newly emerging FAdV strains provides valuable information for the development of an efficacious control strategy based on the molecular structure of current circulating FAdV strains in different species of birds.
DOI: 10.6084/m9.figshare.6171029
title: Modern pollen–vegetation studies from the Sajnekhali Island Wildlife Sanctuary, Sundarbans, Eastern India

description: Modern pollen–vegetation studies are crucial for the calibration and interpretation of fossil pollen assemblages. In eastern India, knowledge regarding the relationship between pollen deposition and the modern-day vegetation is required to make use of fossil pollen data, which is still scant. To fill this gap, the present study deals with the pollen analysis of 20 surface sediment samples from the Sajnekhali Island Wildlife Sanctuary, Sundarbans, India. The palynological results show that 20 genera in 18 families are identified, of which 16 major pollen taxa are recorded under mangrove and its associate groups. To understand potential drivers changing pollen abundance in the surface samples, a detrended correspondence analysis (DCA) is conducted to typify the environmental gradients among samples. The DCA of the modern pollen assemblages reveals the taxa defining the environmental gradient from inland to the margin of the island. The primary gradient appears to be the salinity tolerance of mangroves from near the water margin to the less salt-tolerant taxa. Axis 1 describes 62.5% of the variance in the dataset. The secondary axis appears to describe the gradient in subtaxa away from the mangrove. Axis 2 describes 4.5% of the variance in the dataset. <i>Rhizophora mucronata</i>, <i>Avicennia marina</i>, <i>Sonneratia apetala</i>, <i>Excoecaria agallocha</i>, <i>Heritiera fomes</i>, <i>Bruguiera gymnorrhiza</i>, <i>Xylocarpus granatum</i> and <i>Nypa fruticans</i> are recorded as the dominant pollen taxa that follow a salinity gradient. All modern pollen rain appears compatible with the actual floristics of the area. Thus, the present study indicates that the mangrove environment is well represented in the pollen record and displays close linkages between pollen composition and native parent plants in the area. This pollen dataset fills an information gap and is useful in understanding and interpreting the palaeoecology and palaeoenvironment of tropical marshes of similar environments.
DOI: 10.6084/m9.figshare.6171029.v1
title: Modern pollen–vegetation studies from the Sajnekhali Island Wildlife Sanctuary, Sundarbans, Eastern India

description: Modern pollen–vegetation studies are crucial for the calibration and interpretation of fossil pollen assemblages. In eastern India, knowledge regarding the relationship between pollen deposition and the modern-day vegetation is required to make use of fossil pollen data, which is still scant. To fill this gap, the present study deals with the pollen analysis of 20 surface sediment samples from the Sajnekhali Island Wildlife Sanctuary, Sundarbans, India. The palynological results show that 20 genera in 18 families are identified, of which 16 major pollen taxa are recorded under mangrove and its associate groups. To understand potential drivers changing pollen abundance in the surface samples, a detrended correspondence analysis (DCA) is conducted to typify the environmental gradients among samples. The DCA of the modern pollen assemblages reveals the taxa defining the environmental gradient from inland to the margin of the island. The primary gradient appears to be the salinity tolerance of mangroves from near the water margin to the less salt-tolerant taxa. Axis 1 describes 62.5% of the variance in the dataset. The secondary axis appears to describe the gradient in subtaxa away from the mangrove. Axis 2 describes 4.5% of the variance in the dataset. <i>Rhizophora mucronata</i>, <i>Avicennia marina</i>, <i>Sonneratia apetala</i>, <i>Excoecaria agallocha</i>, <i>Heritiera fomes</i>, <i>Bruguiera gymnorrhiza</i>, <i>Xylocarpus granatum</i> and <i>Nypa fruticans</i> are recorded as the dominant pollen taxa that follow a salinity gradient. All modern pollen rain appears compatible with the actual floristics of the area. Thus, the present study indicates that the mangrove environment is well represented in the pollen record and displays close linkages between pollen composition and native parent plants in the area. This pollen dataset fills an information gap and is useful in understanding and interpreting the palaeoecology and palaeoenvironment of tropical marshes of similar environments.
DOI: 10.6084/m9.figshare.6171008
title: Korda Lake 13/04/2018 TQ 04590 88480

description: Korda Lake 12/04/2018 TQ 04590 88480<br>
DOI: 10.6084/m9.figshare.6171008.v1
title: Korda Lake 13/04/2018 TQ 04590 88480

description: Korda Lake 12/04/2018 TQ 04590 88480<br>
DOI: 10.6084/m9.figshare.6171005
title: SI2 Adding Research Accounts to the ASSISTments Platform: Helping Researchers Do Randomized Controlled Studies with Thousands of Students

description: ASSISTments is a free, university-based platform. Each day, teachers assign problems to thousands of students (currently 50,000 students) through problem sets aligned to the Common Core State Standards. Randomized controlled experiments are often embedded in these problem sets to evaluate the efficacy of learning interventions. Heffernan has been funded by the NSF to conduct certain types of research using ASSISTments (i.e., spacing studies). Seventeen peer-reviewed publications have resulted from controlled experiments conducted within ASSISTments. <br>
DOI: 10.6084/m9.figshare.6170945
title: Sport Field Soil Compaction Dataset

description: Contains 8 soil compaction readings at different depth per position in a sports field.
DOI: 10.6084/m9.figshare.6170930
title: grassland-corrected.yaml

description: This File contains soil compaction data for a grassland field, it has a soil compaction reading for 8 different layers at 284 different positions, distributed in a grid shape along the field.
DOI: 10.6084/m9.figshare.6170930.v1
title: grassland-corrected.yaml

description: This File contains soil compaction data for a grassland field, it has a soil compaction reading for 8 different layers at 284 different positions, distributed in a grid shape along the field.
DOI: 10.6084/m9.figshare.6170651
title: Supplemental gene lists to accompany Figure 5b-g. MCL Clustering of tfap2a;tfap2c knockout associated genes.

description: Gene list to accompany Figure 5b-g. MCL clustering of tfap2a and tfap2c knockout associated genes. the log2 fold changes and adj p-value are derived from tfpa2a/c knockouts compared to wild-type siblings.
DOI: 10.6084/m9.figshare.6170648
title: NANOPARTICLE BASED GAS-SENSING ARRAY FOR PESTICIDE DETECTION_data.rar

description: Data obtained during measurement/characterisation of multiple sensor, as seen and analysed in the paper: "NANOPARTICLE BASED GAS-SENSING ARRAY FOR PESTICIDE DETECTION". Data are in txt form and can be opened and processed using any related software (e.g. origin, excel etc.)
DOI: 10.6084/m9.figshare.6170648.v1
title: NANOPARTICLE BASED GAS-SENSING ARRAY FOR PESTICIDE DETECTION_data.rar

description: Data obtained during measurement/characterisation of multiple sensor, as seen and analysed in the paper: "NANOPARTICLE BASED GAS-SENSING ARRAY FOR PESTICIDE DETECTION". Data are in txt form and can be opened and processed using any related software (e.g. origin, excel etc.)
DOI: 10.6084/m9.figshare.6170603
title: OO_table_2_supplement.ods

description: This table provides detailed information which was used in the analysis of the article's Figure 1 / Table 2.
DOI: 10.6084/m9.figshare.6170603.v1
title: OO_table_2_supplement.ods

description: This table provides detailed information which was used in the analysis of the article's Figure 1 / Table 2.
DOI: 10.6084/m9.figshare.6170474
title: Supplemental gene lists to accompany Figure 4c & h. 14 subset gene lists derived from Figure 4c.

description: 14 Subset gene lists to accompany Figure 4c.
DOI: 10.6084/m9.figshare.6170474.v1
title: Supplemental gene lists to accompany Figure 4c & h. 14 subset gene lists derived from Figure 4c.

description: 14 Subset gene lists to accompany Figure 4c.
DOI: 10.6084/m9.figshare.6170423
title: A keystone microbial enzyme for nitrogen control of soil carbon storage

description: We used Web of Science (http://apps.webofknowledge.com/), google scholar (http://scholar.google.com/) and China National Knowledge Infrastructure (http://www.cnki.net/) for an exhaustive search of articles published before March 2018. The keywords and phrases used for literature research were: (1) “nitrogen addition” or “nitrogen amendment” or “nitrogen enrichment” or “nitrogen fertilizer” or “nitrogen elevated” or “nitrogen deposition”, and (2) “glucosidase” or “cellobiosidase” or “xylosidase” or “peroxidase” or “phenol oxidase” or “polyphenol oxidase” or “ligninase” or “cellulase”, and (3) “soil carbon”, and (4) “terrestrial” or “soil” or “land”. To be included in our dataset, articles had to meet several requirements. First, we only considered experiments that lasted at least one year. Second, control and N addition treatments had to be applied at the same experimental site; that is, the microclimate, vegetation, and soil types were similar between treatments. Third, standard deviations and replicates had to be reported or could be derived from the results. Fourth, details on N addition methods (rate, frequency, form, and duration) had to be provided. We identified 40 papers that met these criteria. For each study, we recorded linginase and cellulase activities, site location (longitude and latitude), climatic variables (mean annual precipitation (MAP), mean annual temperature (MAT)), elevation, background N deposition (BND), vegetation and soil types and N addition methods (rate, duration, frequency and form of N addition). If these data were not reported, we contacted the corresponding author for more information. Otherwise, we obtained MAT and MAP from WorldClim Database (http://www.worldclim.org/), BND from Global N deposition database (http://webmap.ornl.gov/), vegetation types from the Whittaker Biome Diagram, and soil types from FAO classification (http://www.fao.org/soils-portal/soil-survey/soil-classification/usda-soil-taxonomy/en). Where available, we also tabulated plant productivity, soil pH, soil C:N, microbial abundance, soil texture and recalcitrant C pool.
DOI: 10.6084/m9.figshare.6170423.v1
title: A keystone microbial enzyme for nitrogen control of soil carbon storage

description: We used Web of Science (http://apps.webofknowledge.com/), google scholar (http://scholar.google.com/) and China National Knowledge Infrastructure (http://www.cnki.net/) for an exhaustive search of articles published before March 2018. The keywords and phrases used for literature research were: (1) “nitrogen addition” or “nitrogen amendment” or “nitrogen enrichment” or “nitrogen fertilizer” or “nitrogen elevated” or “nitrogen deposition”, and (2) “glucosidase” or “cellobiosidase” or “xylosidase” or “peroxidase” or “phenol oxidase” or “polyphenol oxidase” or “ligninase” or “cellulase”, and (3) “soil carbon”, and (4) “terrestrial” or “soil” or “land”. To be included in our dataset, articles had to meet several requirements. First, we only considered experiments that lasted at least one year. Second, control and N addition treatments had to be applied at the same experimental site; that is, the microclimate, vegetation, and soil types were similar between treatments. Third, standard deviations and replicates had to be reported or could be derived from the results. Fourth, details on N addition methods (rate, frequency, form, and duration) had to be provided. We identified 40 papers that met these criteria. For each study, we recorded linginase and cellulase activities, site location (longitude and latitude), climatic variables (mean annual precipitation (MAP), mean annual temperature (MAT)), elevation, background N deposition (BND), vegetation and soil types and N addition methods (rate, duration, frequency and form of N addition). If these data were not reported, we contacted the corresponding author for more information. Otherwise, we obtained MAT and MAP from WorldClim Database (http://www.worldclim.org/), BND from Global N deposition database (http://webmap.ornl.gov/), vegetation types from the Whittaker Biome Diagram, and soil types from FAO classification (http://www.fao.org/soils-portal/soil-survey/soil-classification/usda-soil-taxonomy/en). Where available, we also tabulated plant productivity, soil pH, soil C:N, microbial abundance, soil texture and recalcitrant C pool.
DOI: 10.6084/m9.figshare.6170420
title: Anvio_database

description: Refinement of supervised Vizbin binning strategy to reconstruct metagenome assembled genomes (MAGs).
DOI: 10.6084/m9.figshare.6170417
title: Supplemental gene list to accompany Figure 2f. 15 individual subset gene lists and full ZFA enrichment.

description: 15 gene lists which are derived from the 15 different subsets found in Figure 2f. An UpSet comparison of tfap2a;tfap2c knockouts at 4 somites, 15 somites, 24 hpf and a neural crest gene enriched set from 22 hpf FACSed and RNA-Seq sequenced cells. Full ZFA enrichment shown in the magenta box.
DOI: 10.6084/m9.figshare.6170417.v1
title: Supplemental gene list to accompany Figure 2e. 15 individual subset gene lists and full ZFA enrichment.

description: 15 gene lists which are derived from the 15 different subsets found in Figure 2e. An UpSet comparison of tfap2a;tfap2c knockouts at 4 somites, 15 somites, 24 hpf and a neural crest gene enriched set from 22 hpf FACSed and RNA-Seq sequenced cells. Full ZFA enrichment shown in the magenta box.
DOI: 10.6084/m9.figshare.6170417.v3
title: Supplemental gene list to accompany Figure 2f. 15 individual subset gene lists and full ZFA enrichment.

description: 15 gene lists which are derived from the 15 different subsets found in Figure 2f. An UpSet comparison of tfap2a;tfap2c knockouts at 4 somites, 15 somites, 24 hpf and a neural crest gene enriched set from 22 hpf FACSed and RNA-Seq sequenced cells. Full ZFA enrichment shown in the magenta box.
DOI: 10.6084/m9.figshare.6170417.v2
title: Supplemental gene list to accompany Figure 2f. 15 individual subset gene lists and full ZFA enrichment.

description: 15 gene lists which are derived from the 15 different subsets found in Figure 2f. An UpSet comparison of tfap2a;tfap2c knockouts at 4 somites, 15 somites, 24 hpf and a neural crest gene enriched set from 22 hpf FACSed and RNA-Seq sequenced cells. Full ZFA enrichment shown in the magenta box.
DOI: 10.6084/m9.figshare.6170414
title: Crossref Works Dump - April 2018

description: An effort by eLife Sciences to make citation data more accessible.http://elifesciences.org/<br>This dump provides the raw Crossref works JSON responses as a bulk dump, downloaded in April 2018.<br>It was created by retrieving the works from Crossref API http://api.crossref.org/works (using a 1000 rows per page and a cursor).<br>The source code that produced the file can be found here:https://github.com/elifesciences/datacapsule-crossref<br>The output is a 32 GB zip file (using LZMA encryption) contains all of the Crossref raw response. In this case some manuscripts received updates during the download process and therefore will appear twice.<br>To uncompress the file you will need a tool that can handle LZMA (Python 3's zipfile can for example, so can 7zip).<br>The aforementioned project (datacapsule-crossref) also includes code that extracts information from JSON responses included in the zip.
DOI: 10.6084/m9.figshare.6170414.v1
title: Crossref Works Dump - April 2018

description: An effort by eLife Sciences to make citation data more accessible.http://elifesciences.org/<br>This dump provides the raw Crossref works JSON responses as a bulk dump, downloaded in April 2018.<br>It was created by retrieving the works from Crossref API http://api.crossref.org/works (using a 1000 rows per page and a cursor).<br>The source code that produced the file can be found here:https://github.com/elifesciences/datacapsule-crossref<br>The output is a 32 GB zip file (using LZMA encryption) contains all of the Crossref raw response. In this case some manuscripts received updates during the download process and therefore will appear twice.<br>To uncompress the file you will need a tool that can handle LZMA (Python 3's zipfile can for example, so can 7zip).<br>The aforementioned project (datacapsule-crossref) also includes code that extracts information from JSON responses included in the zip.
DOI: 10.6084/m9.figshare.6170345
title: BTS direkt irradiance measurements Izana intercomparison 2016

description: Direct irradiance measurements performed at the Izaña Atmospheric Observatory on 20.-22. September 2016 during the ATMOZ intercomparison campaign.<br><br>The Data given in wavelength [nm] and spectral irradiance [W/(m²nm)] were directly used to calculate spectral analysis data and total ozone column values (TOC) presented in the AMT Paper by Ralf Zuber et. al.,"Adaption of an array spectroradiometer for total ozone column retrieval using direct solar irradiance measurements in the UV spectral range", https://doi.org/10.5194/amt-2017-240
DOI: 10.6084/m9.figshare.6170162
title: Crossref Citation Links - April 2018

description: An effort by eLife Sciences to make citation data more accessible.http://elifesciences.org/<br>The citation links are an extract of the Crossref bulk dump (April 2018) that is available here: https://doi.org/10.6084/m9.figshare.6170414<br>The source code that produced the file can be found here:https://github.com/elifesciences/datacapsule-crossref
DOI: 10.6084/m9.figshare.6170162.v1
title: Crossref Citation Links - April 2018

description: An effort by eLife Sciences to make citation data more accessible.http://elifesciences.org/<br>The citation links are an extract of the Crossref bulk dump (April 2018) that is available here: https://doi.org/10.6084/m9.figshare.6170414<br>The source code that produced the file can be found here:https://github.com/elifesciences/datacapsule-crossref
DOI: 10.6084/m9.figshare.6170159
title: Androgen receptor ensemble docking

description: Androgen receptor agonist and antagonist ensemble obtained from clustering of MD trajectories together with agonist, antagonist and decoy set for the benchmarking of docking performance (enrichment)<br>
DOI: 10.6084/m9.figshare.6170159.v1
title: Androgen receptor ensemble docking

description: Androgen receptor agonist and antagonist ensemble obtained from clustering of MD trajectories<br>
DOI: 10.6084/m9.figshare.6170159.v2
title: Androgen receptor ensemble docking

description: Androgen receptor agonist and antagonist ensemble obtained from clustering of MD trajectories together with agonist, antagonist and decoy set for the benchmarking of docking performance (enrichment)<br>
DOI: 10.6084/m9.figshare.6170117
title: panG-ramli.tar.gz

description: Pangenome analysis in Anvi'o (v2.3.0) of the reconstructed Ramlibacter sp. MAG and three publicly available Ramlibacter genomes.
DOI: 10.6084/m9.figshare.6170051
title: Data-Driven Models for Predictive Molecular Simulations

description: Poster.
DOI: 10.6084/m9.figshare.6170051.v1
title: Data-Driven Models for Predictive Molecular Simulations

description: Poster.
DOI: 10.6084/m9.figshare.6169637
title: MOESM4 of Genome-centric metatranscriptomes and ecological roles of the active microbial populations during cellulosic biomass anaerobic digestion

description: Additional file 4. Detailed summary of the reconstructed PGs from the five enrichment cultures.
DOI: 10.6084/m9.figshare.6169637.v1
title: MOESM4 of Genome-centric metatranscriptomes and ecological roles of the active microbial populations during cellulosic biomass anaerobic digestion

description: Additional file 4. Detailed summary of the reconstructed PGs from the five enrichment cultures.
DOI: 10.6084/m9.figshare.6169628
title: MOESM2 of Genome-centric metatranscriptomes and ecological roles of the active microbial populations during cellulosic biomass anaerobic digestion

description: Additional file 2. Summary statistics of de novo co-assembly and binning of metagenomes of the five enrichment cultures.
DOI: 10.6084/m9.figshare.6169628.v1
title: MOESM2 of Genome-centric metatranscriptomes and ecological roles of the active microbial populations during cellulosic biomass anaerobic digestion

description: Additional file 2. Summary statistics of de novo co-assembly and binning of metagenomes of the five enrichment cultures.
DOI: 10.6084/m9.figshare.6169622
title: MOESM1 of Genome-centric metatranscriptomes and ecological roles of the active microbial populations during cellulosic biomass anaerobic digestion

description: Additional file 1. Sample description and sequencing summary of the (a) metagenome and (b) metatranscriptome samples.
DOI: 10.6084/m9.figshare.6169622.v1
title: MOESM1 of Genome-centric metatranscriptomes and ecological roles of the active microbial populations during cellulosic biomass anaerobic digestion

description: Additional file 1. Sample description and sequencing summary of the (a) metagenome and (b) metatranscriptome samples.
DOI: 10.6084/m9.figshare.6169619
title: Additional file 1: of Differences in the health transition patterns of migrants and non-migrants aged 50 and older in southern and western Europe (2004â 2015)

description: Complete results, including all steps and the effects of all covariates, as well as the models showing the risk of experiencing transitions leading to attrition (death or loss to follow-up). (XLSX 87Â kb)
DOI: 10.6084/m9.figshare.6169556
title: Monthly_Rainfall_Totals_1997-2011_86 stations_Mauritius.xlsx

description: Monthly rainfall totals in mm, including station information (name,elevation, latitude and longitude) for 86 stations on Mauritius 1997-2011. These public data come from Monthly Climatological Summaries that were archived at the Mauritius Sugar Industry Research Institute in Reduit Mauritius.<br>
DOI: 10.6084/m9.figshare.6169523
title: Data for "Four assessment methods to measure student gains in a graduate course on mathematical modeling in cell biology"

description: Data for the article "Four assessment methods to measure student gains in a graduate course on mathematical modeling in cell biology".
DOI: 10.6084/m9.figshare.6169523.v1
title: Data for "Four assessment methods to measure student gains in a graduate course on mathematical modeling in cell biology"

description: Data for the article "Four assessment methods to measure student gains in a graduate course on mathematical modeling in cell biology".