cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.7764368.v1
title: BenSassi et al.TransectSoundness-250219.xlsx

description: These data are of a marked sub-population of broiler chickens that was tracked to investigate the soundness of a welfare assessment method called the transect method. Transects are paths delimited by feeder and drinker lines walked by the observer when assessing welfare. In this study, eighty birds were individually marked within the commercial house, and their movement was tracked during two days in morning and afternoon samplings. Data describe the farm and house ids, the transect where the bird was detected, the bird id, the time in which the assessment was conducted, the number of transects per house and the flock density. From these data, we calculated the detection rate per house sampling, the repetition rates per house and within transect. We also estimated the number of transects that repeated birds traveled as well as the sub-population distribution index. This study complied with the Spanish legislation regarding the use of animals for experimental and other scientific purposes (Real Decreto 1201/2005).<br>
DOI: 10.6084/m9.figshare.7764359.v1
title: Dataset for: mRNA 5’ ends targeted by cytoplasmic recapping cluster at CAGE tags and select transcripts are alternatively spliced

description: Until cytoplasmic recapping was discovered, decapping was thought to irreversibly destine an mRNA to degradation. Contradicting this idea, we readily observe mRNAs targeted by cytoplasmic capping in uncapped, yet stable forms. 5’ RACE shows that nearly all uncapped ends correspond to CAGE tags and that the recapping of <i>ZNF207 </i>mRNA may be restricted to a single splice isoform. A modified RACE approach detected uncapped 5’ RNA ends mapping to 46 mRNAs in dominant negative cytoplasmic capping enzyme expressing and normal cells. 11 of 46 cloned mRNAs also contained splice isoform-limiting sequences. Collectively, these data reinforce earlier work and suggest that alternative splicing may play a role in targeting transcripts for– and/or determining the position of– cytoplasmic capping.
DOI: 10.7284/108358
title: Winch data collected during research cruise AE1109 using a Markey DUSH-5 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7764293
title: Supplementary Table 1_Cell count, areas and longitudinal extension from A simple mathematical model of allometric exponential growth describes the early three-dimensional growth dynamics of secondary xylem in Arabidopsis roots

description: Unravelling the specific growth dynamics of key tissues and organs is fundamental to understand how multicellular organisms orchestrate their different growth programmes. In plants, the secondary growth (thickening) of stems and roots provides the mechanical support that plants need to achieve their developmental potential. We used conventional anatomical and microscopy techniques, image-processing software, and quantitative analysis to understand and mathematically describe the growth dynamics of the early developmental stages of secondary xylem (the main tissue developed during secondary growth). Results show that such early developmental stages are characterized by exponential expansion of secondary xylem in 3D in the form of an inverted cone, with a power law that describes the relationship between the area of the base and the longitudinal progression (height) of the growing secondary xylem cone over time with a scaling exponent of 2/5: the signature of allometric growth. Our work constitutes a starting point for future modelling of secondary xylem in particular and secondary growth in general.
DOI: 10.6084/m9.figshare.7764296
title: Supplementary Material from Multiple scales analysis of slow–fast quasi-linear systems

description: This article illustrates the application of multiple scales analysis to two archetypal quasi-linear systems; i.e. to systems involving fast dynamical modes, called fluctuations, that are not directly influenced by fluctuation–fluctuation nonlinearities but nevertheless are strongly coupled to a slow variable whose evolution may be fully nonlinear. In the first case, fast waves drive a slow, spatially inhomogeneous evolution of their celerity field. Multiple scales analysis confirms that, although the energy <i>E</i>, the angular frequency <i>ω</i> and the modal structure of the waves evolve, the wave action <i>E</i>/<i>ω</i> is conserved in the absence of forcing and dissipation. In the second system, the fast modes undergo an instability that is saturated through a feedback on the slow variable. A new multi-scale analysis is developed to treat this case. The key technical point, confirmed by the analysis, is that the fluctuation energy and mode structure evolve slowly to ensure that the slow field remains in a state of near marginal stability. These two model systems appear to be generic, being representative of many if not all quasi-linear systems. In each case, numerical simulations of both the full and reduced dynamical systems are performed to highlight the accuracy and efficiency of the multiple scales approach. Python codes are provided as electronic supplementary material.
DOI: 10.6084/m9.figshare.7764296.v1
title: Supplementary Material from Multiple scales analysis of slow–fast quasi-linear systems

description: This article illustrates the application of multiple scales analysis to two archetypal quasi-linear systems; i.e. to systems involving fast dynamical modes, called fluctuations, that are not directly influenced by fluctuation–fluctuation nonlinearities but nevertheless are strongly coupled to a slow variable whose evolution may be fully nonlinear. In the first case, fast waves drive a slow, spatially inhomogeneous evolution of their celerity field. Multiple scales analysis confirms that, although the energy <i>E</i>, the angular frequency <i>ω</i> and the modal structure of the waves evolve, the wave action <i>E</i>/<i>ω</i> is conserved in the absence of forcing and dissipation. In the second system, the fast modes undergo an instability that is saturated through a feedback on the slow variable. A new multi-scale analysis is developed to treat this case. The key technical point, confirmed by the analysis, is that the fluctuation energy and mode structure evolve slowly to ensure that the slow field remains in a state of near marginal stability. These two model systems appear to be generic, being representative of many if not all quasi-linear systems. In each case, numerical simulations of both the full and reduced dynamical systems are performed to highlight the accuracy and efficiency of the multiple scales approach. Python codes are provided as electronic supplementary material.
DOI: 10.7284/108366
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise AE1110 using a Hawaii UHDAS instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7764293.v1
title: Supplementary Table 1_Cell count, areas and longitudinal extension from A simple mathematical model of allometric exponential growth describes the early three-dimensional growth dynamics of secondary xylem in Arabidopsis roots

description: Unravelling the specific growth dynamics of key tissues and organs is fundamental to understand how multicellular organisms orchestrate their different growth programmes. In plants, the secondary growth (thickening) of stems and roots provides the mechanical support that plants need to achieve their developmental potential. We used conventional anatomical and microscopy techniques, image-processing software, and quantitative analysis to understand and mathematically describe the growth dynamics of the early developmental stages of secondary xylem (the main tissue developed during secondary growth). Results show that such early developmental stages are characterized by exponential expansion of secondary xylem in 3D in the form of an inverted cone, with a power law that describes the relationship between the area of the base and the longitudinal progression (height) of the growing secondary xylem cone over time with a scaling exponent of 2/5: the signature of allometric growth. Our work constitutes a starting point for future modelling of secondary xylem in particular and secondary growth in general.
DOI: 10.7284/108365
title: Fluorometer data collected during research cruise AE1110 using a Turner 10-AU instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/106530
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE1110 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/108364
title: Singlebeam Echosounder data collected during research cruise AE1110 using a Knudsen 3260 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/108362
title: TSG (Thermosalinograph) data collected during research cruise AE1110 using a Sea-Bird SBE-21 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/108363
title: Winch data collected during research cruise AE1110 using a Markey DUSH-5 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7764233
title: Soft X-ray Harmonic Pressure Scan from Attosecond soft X-ray high harmonic generation

description: Harmonic signal as a function of photon energy and backing pressure used to generate figure 1 in the main text. Energy axis is in eV, pressure is in bar, signal is in counts at the detector.
DOI: 10.6084/m9.figshare.7764230
title: Simulated Electric Field Through Focus, CEP=0.3pi from Attosecond soft X-ray high harmonic generation

description: Simulated infrared propagation data used to calculate results and generate figures 3 and 4 in the main text. Time, longitudinal, and radial axis coordinates are provided. Time and electric field amplitude are in atomic units, real space coordiantes are in meters.
DOI: 10.6084/m9.figshare.7764233.v1
title: Soft X-ray Harmonic Pressure Scan from Attosecond soft X-ray high harmonic generation

description: Harmonic signal as a function of photon energy and backing pressure used to generate figure 1 in the main text. Energy axis is in eV, pressure is in bar, signal is in counts at the detector.
DOI: 10.7284/108370
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise AE1111 using a Hawaii UHDAS instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7764224
title: Simulated Electric Field Through Focus, CEP=0 from Attosecond soft X-ray high harmonic generation

description: Simulated infrared propagation data used to calculate results and generate figure 2 in the main text. Time, longitudinal, and radial axis coordinates are provided. Time and electric field amplitude are in atomic units, real space coordiantes are in meters.
DOI: 10.6084/m9.figshare.7764230.v1
title: Simulated Electric Field Through Focus, CEP=0.3pi from Attosecond soft X-ray high harmonic generation

description: Simulated infrared propagation data used to calculate results and generate figures 3 and 4 in the main text. Time, longitudinal, and radial axis coordinates are provided. Time and electric field amplitude are in atomic units, real space coordiantes are in meters.
DOI: 10.6084/m9.figshare.7764224.v1
title: Simulated Electric Field Through Focus, CEP=0 from Attosecond soft X-ray high harmonic generation

description: Simulated infrared propagation data used to calculate results and generate figure 2 in the main text. Time, longitudinal, and radial axis coordinates are provided. Time and electric field amplitude are in atomic units, real space coordiantes are in meters.
DOI: 10.7284/108371
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise AE1111 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/108369
title: Fluorometer data collected during research cruise AE1111 using a Turner 10-AU instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/106531
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE1111 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7764083
title: sample associated metadata for 188 ancient bison samples

description: Sample associated metadata for 188 ancient bison samples.<br>
DOI: 10.6084/m9.figshare.7764092
title: sample associated metadata for 91 ancient brown bear samples

description: Sample associated metadata for 91 ancient brown bear samples.
DOI: 10.7284/108367
title: TSG (Thermosalinograph) data collected during research cruise AE1111 using a Sea-Bird SBE-21 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7764065
title: 91 ancient brown bear .bam files

description: 91 ancient brown bear samples mapped to the UrsMar1.0 reference and subsampled down to ~20000 reads per sample.<br>
DOI: 10.7284/108368
title: Winch data collected during research cruise AE1111 using a Markey DUSH-5 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7764092.v1
title: sample associated metadata for 91 ancient brown bear samples

description: Sample associated metadata for 91 ancient brown bear samples.
DOI: 10.6084/m9.figshare.7764083.v1
title: sample associated metadata for 188 ancient bison samples

description: Sample associated metadata for 188 ancient bison samples.<br>
DOI: 10.7284/108376
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise AE1112 using a Hawaii UHDAS instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7764047
title: 188 ancient bison .bam files

description: 188 ancient bison samples mapped to the UMD 3.1 reference, and subsampled to ~20000 reads per sample.<br>
DOI: 10.6084/m9.figshare.7764035
title: Data and R-scripts for: "Ecosystem services and ecological degradation of communal wetlands in a South African biodiversity hotspot".

description: The following repository is made up of two files: <code>Survey_data.txt</code><code>Questionnaire_analysis.r</code> The former file contains the anonymised responses from 50 household to a series of questions, and the second file includes all the R-scripts to analyses these data statistically. <br>The information presented here was accurate and correct on 27 July 2017. Any questions can be directed to Falko Buschke at <code>falko.buschke@gmail.com</code>
DOI: 10.6084/m9.figshare.7764047.v1
title: 188 ancient bison .bam files

description: 188 ancient bison samples mapped to the UMD 3.1 reference, and subsampled to ~20000 reads per sample.<br>
DOI: 10.6084/m9.figshare.7764017
title: Interval running training improves age-related skeletal muscle wasting and bone loss: animal experiment in ovariectomized rats

description: Various types of running training play an important role in the prevention of age-related diseases, such as sarcopenia and osteoporosis. However, among various types of running training, interval running training affects age-related muscle wasting and bone loss, and its mechanisms are still unclear. This study was to clarify its effect and mechanism in OVX-induced rat models. Interval running training could improve muscle growth and osteogenic differentiation by enhancing the expression of BMPs and SIRTs in aging-induced OVX rats. Therefore, the repetition of low and high intensities within a single exercise bout, such as interval running training, may be recommended for practical intervention to prevent skeletal muscle wasting and bone loss in the elderly. <br><br><br>
DOI: 10.6084/m9.figshare.7764023
title: fluorescence data

description: there are two zip files. fluorescence source data.zipStored the source images and PSFs in the experiments<br>Evaluation_and_image_sequence.zip Stored the reconstructed images submitted for the inspection by biologists. Zoomed-in images by our boost-decon and the comparative methods (Huygens,TBV-PB,RLTV, WPL,PURELET) were sent to biologists with info about their processing methods removed for visual inspection. The excel tables are the recorded acceptance rate and quality score for each image by the biologists. Each excel file is from one biologist only.<br>
DOI: 10.6084/m9.figshare.7764035.v1
title: Data and R-scripts for: "Ecosystem services and ecological degradation of communal wetlands in a South African biodiversity hotspot".

description: The following repository is made up of two files: <code>Survey_data.txt</code><code>Questionnaire_analysis.r</code> The former file contains the anonymised responses from 50 household to a series of questions, and the second file includes all the R-scripts to analyses these data statistically. <br>The information presented here was accurate and correct on 27 July 2017. Any questions can be directed to Falko Buschke at <code>falko.buschke@gmail.com</code>
DOI: 10.7284/108375
title: Fluorometer data collected during research cruise AE1112 using a Turner 10-AU instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7764017.v1
title: Interval running training improves age-related skeletal muscle wasting and bone loss: animal experiment in ovariectomized rats

description: Various types of running training play an important role in the prevention of age-related diseases, such as sarcopenia and osteoporosis. However, among various types of running training, interval running training affects age-related muscle wasting and bone loss, and its mechanisms are still unclear. This study was to clarify its effect and mechanism in OVX-induced rat models. Interval running training could improve muscle growth and osteogenic differentiation by enhancing the expression of BMPs and SIRTs in aging-induced OVX rats. Therefore, the repetition of low and high intensities within a single exercise bout, such as interval running training, may be recommended for practical intervention to prevent skeletal muscle wasting and bone loss in the elderly. <br><br><br>
DOI: 10.6084/m9.figshare.7764014.v1
title: PEST-CHEMGRIDS_v1

description: PEST-CHEMGRIDS is a comprehensive database of the 20 most used pesticide active ingredients on 6 dominant crops and 4 aggregated crop classes at 5 arc-min resolution (about 10 km at the equator) projected from 2015 to 2025.
DOI: 10.6084/m9.figshare.7764023.v1
title: fluorescence data

description: there are two zip files. <br>Source image and PSF in experiment is save in zip file named fluorescence data. The other is about biologist experiemnt. Zoomed-in images by our boost-decon and the comparative methods （Huygens,TBV-PB,RLTV, WPL,PURELET) were sent to biologists with info about their processing methods removed for visual inspection. The excel tables are the recorded acceptance and quality score for each image by the biologists. Each excel file is from one biologist only.
DOI: 10.7284/106532
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE1112 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7764014.v2
title: PEST-CHEMGRIDS_v1

description: PEST-CHEMGRIDS is a comprehensive database of the 20 most used pesticide active ingredients on 6 dominant crops and 4 aggregated crop classes at 5 arc-min resolution (about 10 km at the equator) projected from 2015 to 2025.
DOI: 10.7284/108374
title: Singlebeam Echosounder data collected during research cruise AE1112 using a Knudsen 3260 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/108372
title: TSG (Thermosalinograph) data collected during research cruise AE1112 using a Sea-Bird SBE-21 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/108373
title: Winch data collected during research cruise AE1112 using a Markey DUSH-5 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7763840
title: MOESM1 of Moving towards universal health coverage for mental disorders in Ethiopia

description: Additional file 1. Situation analysis template.
DOI: 10.6084/m9.figshare.7763840.v1
title: MOESM1 of Moving towards universal health coverage for mental disorders in Ethiopia

description: Additional file 1. Situation analysis template.
DOI: 10.7284/108380
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise AE1113 using a Hawaii UHDAS instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7763669
title: HitPredict interactions - version 17Jul2017

description: Protein-protein interactions from IntAct, BioGRID, HPRD, MINT and DIP are combined, annotated and scored. The reliability score is calculated based on the experimental details of each interaction and the sequence, structure and functional annotations of the interacting proteins.<br> <br>HitPredict update (17Jul2017) contains: 547879 experimentally identified physical protein-protein interactions76954 proteins 115 species
DOI: 10.6084/m9.figshare.7763681
title: HitPredict interactions - version 14Sep2015

description: Protein-protein interactions from IntAct, BioGRID, HPRD, MINT and DIP are combined, annotated and scored. The reliability score is calculated based on the experimental details of each interaction and the sequence, structure and functional annotations of the interacting proteins.<br> <br>HitPredict update (14Sep2015) contains: 398696 experimentally identified physical protein-protein interactions70808 proteins 105 species
DOI: 10.6084/m9.figshare.7763669.v1
title: HitPredict interactions - version 17Jul2017

description: Protein-protein interactions from IntAct, BioGRID, HPRD, MINT and DIP are combined, annotated and scored. The reliability score is calculated based on the experimental details of each interaction and the sequence, structure and functional annotations of the interacting proteins.<br> <br>HitPredict update (17Jul2017) contains: 547879 experimentally identified physical protein-protein interactions76954 proteins 115 species
DOI: 10.6084/m9.figshare.7763648
title: HitPredict interactions - version 04Feb2019

description: Protein-protein interactions from IntAct, BioGRID, HPRD, MINT and DIP are combined, annotated and scored. The reliability score is calculated based on the experimental details of each interaction and the sequence, structure and functional annotations of the interacting proteins.<br> <br>HitPredict update (04Feb2019) contains: 713127 experimentally identified physical protein-protein interactions82152 proteins 119 species