cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.1326720.v1
title: Concatenation and species tree methods exhibit statistically indistinguishable accuracy under a range of simulated conditions

description: 50speciesTrees: Fifty species trees of eight taxa. Trees are in newick format but .nex extension needed for simulation script to work simulation.pl : Perl script to simulate 540 gene trees with corresponding 1000bp sequences for all 50 species trees at both tree depths and with varying number of individuals per species. Requires seqgen and ms in same directory to run mbconcat2.py : Python script to concatenate by three, nine and 27 and run MrBayes. Nexus files for each species tree must be in own directory. Input and output directories need to be provided
DOI: 10.6084/m9.figshare.1326721.v1
title: MAPK Data Set 1

description: Single cell flow cytometry data of PMA stimulated T cells.
DOI: 10.6084/m9.figshare.1326694
title: Mean hif-1a Threshold Plot

description: CSV data for plotting threshold graph.
DOI: 10.6084/m9.figshare.1326695
title: Mean hif-1a Time-course Plot

description: CSV data for plotting time-course graph.
DOI: 10.6084/m9.figshare.1326693
title: Time-course data

description: All CSV data from the time-course trials.
DOI: 10.6084/m9.figshare.1326692
title: Theshold data

description: All csv data from the threshold experiments.
DOI: 10.6084/m9.figshare.1326693.v1
title: Time-course data

description: All CSV data from the time-course trials.
DOI: 10.6084/m9.figshare.1326695.v1
title: Mean hif-1a Time-course Plot

description: CSV data for plotting time-course graph.
DOI: 10.6084/m9.figshare.1326677
title: Relief Articulation Techniques

description: We consider techniques used in the articulation of pictorial relief. The related "cue" best known to vision science is "shading". It is discussed in terms of an inverse optics algorithm known as "shape from shading". However, the familiar techniques of the visual arts count many alternative cues for the articulation of pictorial relief. From an art technical perspective these cues are well known. Although serving a similar purpose as shading proper, they allow a much flatter value scale, making it easier to retain the picture plane, or major tonal areas. Vision research has generally ignored such methods, possibly because they lack an obvious basis in ecological optics. We attempt to rate the power of various techniques on a common "shading scale". We find that naive observers spontaneously use a variety of cues, and that several of these easily equal, or beat, conventional shading. This is of some conceptual interest to vision science, because shading has a generally acknowledged ecological basis, whereas the alternative methods lack this.
DOI: 10.6084/m9.figshare.1326691
title: All field data

description: All csv data from the field (Hood Canal, WA).
DOI: 10.6084/m9.figshare.1326691.v1
title: All field data

description: All csv data from the field (Hood Canal, WA).
DOI: 10.6084/m9.figshare.1326692.v1
title: Theshold data

description: All csv data from the threshold experiments.
DOI: 10.6084/m9.figshare.1326694.v1
title: Mean hif-1a Threshold Plot

description: CSV data for plotting threshold graph.
DOI: 10.6084/m9.figshare.1326677.v1
title: Relief Articulation Techniques

description: We consider techniques used in the articulation of pictorial relief. The related "cue" best known to vision science is "shading". It is discussed in terms of an inverse optics algorithm known as "shape from shading". However, the familiar techniques of the visual arts count many alternative cues for the articulation of pictorial relief. From an art technical perspective these cues are well known. Although serving a similar purpose as shading proper, they allow a much flatter value scale, making it easier to retain the picture plane, or major tonal areas. Vision research has generally ignored such methods, possibly because they lack an obvious basis in ecological optics. We attempt to rate the power of various techniques on a common "shading scale". We find that naive observers spontaneously use a variety of cues, and that several of these easily equal, or beat, conventional shading. This is of some conceptual interest to vision science, because shading has a generally acknowledged ecological basis, whereas the alternative methods lack this.
DOI: 10.6084/m9.figshare.1326666
title: Wearable Devices (capabilities and pricing)

description: This dataset provides information on several wearables devices, including the Fitbit Flex, Fitbit Charge HR, Basis Peak, GeneActiv Watch and others.
DOI: 10.6084/m9.figshare.1326662
title: Corpus 200 Emails

description: Corpus containing 200 multilingual emails (Spanish, English and Portuguese) structured according to the RFC2822 specification.
DOI: 10.6084/m9.figshare.1326657
title: Corpus 200 Emails

description: Corpus of 200 multilingual emails (Spanish, English and Portuguese) equally distributed (100 ham and 100 spam).
DOI: 10.6084/m9.figshare.1326454
title: The synthesis of unsymmetrically substituted triphenylenes through controlled construction of the core and subsequent aromatic substitution reactions – a perspective and update

description: George Gray was enthusiastic about the emergence and scientific developments in the field of discotic liquid crystals, taking particular interest in our early work to develop new synthetic methods to widen the area. In this article, an overview of the strength and versatility of the synthetic chemistry is presented, along with two updates. The first describes a simple modification that allows easy preparation of 2,3-dialkoxytriphenylene without overreaction, and the second highlights another unexpected synthesis outcome where bromination and nitration of a tetra-alkoxytriphenylene precursor leads to two different regiochemical outcomes.
DOI: 10.6084/m9.figshare.1326454.v2
title: The synthesis of unsymmetrically substituted triphenylenes through controlled construction of the core and subsequent aromatic substitution reactions – a perspective and update

description: George Gray was enthusiastic about the emergence and scientific developments in the field of discotic liquid crystals, taking particular interest in our early work to develop new synthetic methods to widen the area. In this article, an overview of the strength and versatility of the synthetic chemistry is presented, along with two updates. The first describes a simple modification that allows easy preparation of 2,3-dialkoxytriphenylene without overreaction, and the second highlights another unexpected synthesis outcome where bromination and nitration of a tetra-alkoxytriphenylene precursor leads to two different regiochemical outcomes.
DOI: 10.6084/m9.figshare.1326454.v1
title: The synthesis of unsymmetrically substituted triphenylenes through controlled construction of the core and subsequent aromatic substitution reactions – a perspective and update

description: George Gray was enthusiastic about the emergence and scientific developments in the field of discotic liquid crystals, taking particular interest in our early work to develop new synthetic methods to widen the area. In this article, an overview of the strength and versatility of the synthetic chemistry is presented, along with two updates. The first describes a simple modification that allows easy preparation of 2,3-dialkoxytriphenylene without overreaction, and the second highlights another unexpected synthesis outcome where bromination and nitration of a tetra-alkoxytriphenylene precursor leads to two different regiochemical outcomes.
DOI: 10.6084/m9.figshare.1326228
title: Time-lapse videos of experiments on landscape formation by pressurized groundwater outflow

description: Time-lapse videos of large-scale flume experiments on pressurzied groundwater outbursts. The goal of this work is to understand the relation between groundwater processes and landscape evolution, especially for Martian valleys. Full description of these experiments is published in: Marra, W. A., E. Hauber, S. J. McLelland, B. J. Murphy, D. R. Parsons, S. J. Conway, M. Roda, R. Govers, and M. G. Kleinhans (2014), Pressurized groundwater outflow experiments and numerical modeling for outflow channels on Mars, J. Geophys. Res. Planets, 119, 2668–2693, <strong>doi:10.1002/2014JE004701</strong>. Which is part of: Marra, W.A. Martian groundwater outflow processes and morphology, reconstruction of paleohydrology using landscape evolution experiments, 2015, PhD Thesis, Universiteit Utrecht, The Netherlands.
DOI: 10.6084/m9.figshare.1326228.v1
title: Time-lapse videos of experiments on landscape formation by pressurized groundwater outflow

description: Time-lapse videos of large-scale flume experiments on pressurzied groundwater outbursts. The goal of this work is to understand the relation between groundwater processes and landscape evolution, especially for Martian valleys. Full description of these experiments is published in: Marra, W. A., E. Hauber, S. J. McLelland, B. J. Murphy, D. R. Parsons, S. J. Conway, M. Roda, R. Govers, and M. G. Kleinhans (2014), Pressurized groundwater outflow experiments and numerical modeling for outflow channels on Mars, J. Geophys. Res. Planets, 119, 2668–2693, <strong>doi:10.1002/2014JE004701</strong>. Which is part of: Marra, W.A. Martian groundwater outflow processes and morphology, reconstruction of paleohydrology using landscape evolution experiments, 2015, PhD Thesis, Universiteit Utrecht, The Netherlands.
DOI: 10.6084/m9.figshare.1326221
title: Time-lapse videos of experiments on landscape formation by groundwater seepage

description: Time-lapse videos of large-scale flume experiments on groundwater seepage. The goal of this work is to understand the relation between groundwater processes and landscape evolution, especially for Martian valleys. Full description of the experiments published in: Marra, W. A., S. J. McLelland, D. R. Parsons, B. J. Murphy, E. Hauber, and M. G. Kleinhans (2015), Groundwater seepage landscapes from local or distal sources in experiments and on Mars, Earth Surf. Dyn. Discuss., 3(1), 129–171, <strong>doi:10.5194/esurfd-3-129-2015</strong>. Which is part of: Marra, W.A. Martian groundwater outflow processes and morphology, reconstruction of paleohydrology using landscape evolution experiments, 2015, PhD Thesis, Universiteit Utrecht, The Netherlands.
DOI: 10.6084/m9.figshare.1326221.v1
title: Time-lapse videos of experiments on landscape formation by groundwater seepage

description: Time-lapse videos of large-scale flume experiments on groundwater seepage. The goal of this work is to understand the relation between groundwater processes and landscape evolution, especially for Martian valleys. Full description of the experiments published in: Marra, W. A., S. J. McLelland, D. R. Parsons, B. J. Murphy, E. Hauber, and M. G. Kleinhans (2015), Groundwater seepage landscapes from local or distal sources in experiments and on Mars, Earth Surf. Dyn. Discuss., 3(1), 129–171, <strong>doi:10.5194/esurfd-3-129-2015</strong>. Which is part of: Marra, W.A. Martian groundwater outflow processes and morphology, reconstruction of paleohydrology using landscape evolution experiments, 2015, PhD Thesis, Universiteit Utrecht, The Netherlands.
DOI: 10.6084/m9.figshare.1326216
title: Computed list of effective collision strengths for nebular [O III] optical and infrared lines with kappa electron energy distribution

description: The list consists of effective collision strengths in the electron excitation (Upsilon) and de-excitation (Downsilon) with a kappa electron energy distribution as a function of the electron temperature and kappa for 10 forbidden transitions between the five lowest energy levels of the astronomically abundant doubly-ionized oxygen ion, O^{2+}, in an intermediate coupling scheme using the Breit-Pauli relativistic terms as implemented in an R-matrix atomic scattering code. An atomic target for the R-matrix scattering defined by 72 atomic terms is used in these calculations with Gailitis averaging in the region beneath thresholds where the effective quantum number is greater than 10. The raw collision strength data are obtained from a list created previously by the authors (CDS VI/141). The limits of the effective collision strength data are the same as the limits of the original raw collision strength data, that is the data apply for a temperature range between about 100-25000 K with a free electron excitation energy up to about 1.3 Rydberg. These limits are adopted mainly for relevance to planetary nebulae and H II regions. The data can also be obtained from Centre de Donnees astronomiques de Strasbourg (CDS) database. The dataset associates the following publication: P.J. Storey, Taha Sochi. Effective collision strengths for excitation and de-excitation of nebular [O III] optical and infrared lines with kappa-distributed electron energies. Monthly Notices of the Royal Astronomical Society. DOI: 10.1093/mnras/stv484 See this link: http://cdsarc.u-strasbg.fr/viz-bin/qcat?VI/144
DOI: 10.6084/m9.figshare.1326178
title: Surface Gravity vs Age for Low-Mass Stars and Brown Dwarfs

description: This figure shows surface gravity versus age for low-mass stars and brown dwarfs, in a similar format than the Burrows (2001) figure created by Michael C. Cushing (see link below). These tracks are based on the AMES-Cond evolutionary models (Baraffe et al. 2003; 2nd link below).
DOI: 10.6084/m9.figshare.1326181
title: Prediction of multi-drug resistance transporters dataset

description: Data file 1<br>Data File MDR_TCDB_positives.fasta. Sequence file of MDR transporters used for training. FASTA format file of positive examples used in this study derived from the TCDB. Data file 2<br>Data File MDR_TCDB_negatives.fasta. Sequence file of non-MDR transporters used for training. FASTA format file of negative examples used in this study derived from the TCDB.
DOI: 10.6084/m9.figshare.1326186
title: Chronological analysis of gross and histological lesions induced by field strains of fowl adenovirus serotypes 1, 8b and 11 in one-day-old chickens

description: Fowl adenoviruses (FAdVs) cause diseases in domestic chickens, including inclusion body hepatitis (IBH), with immunosuppression believed to play a role in their pathogenesis. To gain a better understanding of the pathogenesis and chronology of disease caused by FAdVs, the gross pathology, histopathology and dissemination of virus were examined at several different time points, after inoculation of one-day-old specific pathogen-free chickens with FAdV-1, FAdV-8b or FAdV-11 via the ocular route. FAdV-8b had a slightly greater virulence than FAdV-11, but both were primary pathogens. The presence and severity of hepatic lesions were used to define the three stages of the disease: incubation (1–3 days post-inoculation, PI), degeneration (4–7 days PI) and convalescence (14 days PI). Both viruses were detected in the liver, kidney, bursa, thymus and gizzard of most birds during the degenerative stage, and persisted in the gizzard into convalescence. The FAdV-1 isolate was found to be apathogenic, but virus was detected in the bursa and/or gizzard of several birds between 2 and 7 days PI. This is the first study examining the chronology of gross and microscopic lesions of pathogenic and apathogenic FAdVs in association with viral presence in multiple tissues. It was concluded that both FAdV-8b and FAdV-11 are primary pathogens, and that these strains may play a role in immunosuppression.
DOI: 10.6084/m9.figshare.1326186.v1
title: Chronological analysis of gross and histological lesions induced by field strains of fowl adenovirus serotypes 1, 8b and 11 in one-day-old chickens

description: Fowl adenoviruses (FAdVs) cause diseases in domestic chickens, including inclusion body hepatitis (IBH), with immunosuppression believed to play a role in their pathogenesis. To gain a better understanding of the pathogenesis and chronology of disease caused by FAdVs, the gross pathology, histopathology and dissemination of virus were examined at several different time points, after inoculation of one-day-old specific pathogen-free chickens with FAdV-1, FAdV-8b or FAdV-11 via the ocular route. FAdV-8b had a slightly greater virulence than FAdV-11, but both were primary pathogens. The presence and severity of hepatic lesions were used to define the three stages of the disease: incubation (1–3 days post-inoculation, PI), degeneration (4–7 days PI) and convalescence (14 days PI). Both viruses were detected in the liver, kidney, bursa, thymus and gizzard of most birds during the degenerative stage, and persisted in the gizzard into convalescence. The FAdV-1 isolate was found to be apathogenic, but virus was detected in the bursa and/or gizzard of several birds between 2 and 7 days PI. This is the first study examining the chronology of gross and microscopic lesions of pathogenic and apathogenic FAdVs in association with viral presence in multiple tissues. It was concluded that both FAdV-8b and FAdV-11 are primary pathogens, and that these strains may play a role in immunosuppression.
DOI: 10.6084/m9.figshare.1326181.v1
title: Prediction of multi-drug resistance transporters dataset

description: Data file 1<br>Data File MDR_TCDB_positives.fasta. Sequence file of MDR transporters used for training. FASTA format file of positive examples used in this study derived from the TCDB. Data file 2<br>Data File MDR_TCDB_negatives.fasta. Sequence file of non-MDR transporters used for training. FASTA format file of negative examples used in this study derived from the TCDB.
DOI: 10.6084/m9.figshare.1326175
title: Neuronox Versus BOTOX in the Treatment of Post-Stroke Upper Limb Spasticity: A Multicenter Randomized Controlled Trial

description: Background: Botulinum toxin type A is widely used for treating spasticity. Neuronox (Neu-BoNT/A), a newly manufactured botulinum toxin a, has not yet been investigated for its efficacy and safety in the treatment of post-stroke upper limb spasticity. Objective: We evaluated the efficacy and safety of Neuronox (Neu-BoNT/A) compared with BOTOX (onabotulinum toxin A) for treating post-stroke upper limb spasticity. Methods: In total, 196 stroke patients with moderate to severe upper limb spasticity were randomly assigned to either Neuronox or BOTOX intervention. The wrist flexors were mandatory and elbow, finger, and thumb flexors were optional muscles to be injected. Assessments were performed at baseline and 4, 8, and 12 weeks after the intervention. The primary outcome measure was the change from baseline of the Modified Ashworth Scale (MAS) at the wrist flexors at week 4. Secondary outcome measures included the change of MAS at each visit, response rate, Disability Assessment Scale (DAS), Carer Burden Scale, and Global Assessment of treatment benefit. Results: Primary outcome measures were -1.39±0.79 and -1.56±0.81 in the Neuronox and BOTOX groups, respectively. The difference was within the noninferiority margin of 0.45 (95% upper limit=0.40). There were no significant differences between the groups in the secondary outcome and safety measures, except the change of the MAS at the elbow flexors at week 12 (-0.88±0.75 in the Neuronox group, -0.65±0.74 in the BOTOX group; P=0.0429). Both groups showed significant improvements in the MAS, DAS, and Carer Burden Scale at weeks 4, 8, and 12. Conclusion: Neuronox showed equivalent efficacy and safety compared with BOTOX for treating post-stroke upper limb spasticity. Trial Registration: ClinicalTrials.gov NCT01313767.
DOI: 10.6084/m9.figshare.1326176
title: VCF file for chromsome 22 from 1000 Genomes project, annotated by Variant Effect Predictor

description: I downloaded the VCF file for phase 3 of the 1000 Genomes project and annotated it with VEP.
DOI: 10.6084/m9.figshare.1326178.v1
title: Surface Gravity vs Age for Low-Mass Stars and Brown Dwarfs

description: This figure shows surface gravity versus age for low-mass stars and brown dwarfs, in a similar format than the Burrows (2001) figure created by Michael C. Cushing (see link below). These tracks are based on the AMES-Cond evolutionary models (Baraffe et al. 2003; 2nd link below).
DOI: 10.6084/m9.figshare.1326175.v1
title: Neuronox Versus BOTOX in the Treatment of Post-Stroke Upper Limb Spasticity: A Multicenter Randomized Controlled Trial

description: Background: Botulinum toxin type A is widely used for treating spasticity. Neuronox (Neu-BoNT/A), a newly manufactured botulinum toxin a, has not yet been investigated for its efficacy and safety in the treatment of post-stroke upper limb spasticity. Objective: We evaluated the efficacy and safety of Neuronox (Neu-BoNT/A) compared with BOTOX (onabotulinum toxin A) for treating post-stroke upper limb spasticity. Methods: In total, 196 stroke patients with moderate to severe upper limb spasticity were randomly assigned to either Neuronox or BOTOX intervention. The wrist flexors were mandatory and elbow, finger, and thumb flexors were optional muscles to be injected. Assessments were performed at baseline and 4, 8, and 12 weeks after the intervention. The primary outcome measure was the change from baseline of the Modified Ashworth Scale (MAS) at the wrist flexors at week 4. Secondary outcome measures included the change of MAS at each visit, response rate, Disability Assessment Scale (DAS), Carer Burden Scale, and Global Assessment of treatment benefit. Results: Primary outcome measures were -1.39±0.79 and -1.56±0.81 in the Neuronox and BOTOX groups, respectively. The difference was within the noninferiority margin of 0.45 (95% upper limit=0.40). There were no significant differences between the groups in the secondary outcome and safety measures, except the change of the MAS at the elbow flexors at week 12 (-0.88±0.75 in the Neuronox group, -0.65±0.74 in the BOTOX group; P=0.0429). Both groups showed significant improvements in the MAS, DAS, and Carer Burden Scale at weeks 4, 8, and 12. Conclusion: Neuronox showed equivalent efficacy and safety compared with BOTOX for treating post-stroke upper limb spasticity. Trial Registration: ClinicalTrials.gov NCT01313767.
DOI: 10.6084/m9.figshare.1326178.v2
title: Surface Gravity vs Age for Low-Mass Stars and Brown Dwarfs

description: This figure shows surface gravity versus age for low-mass stars and brown dwarfs, in a similar format than the Burrows (2001) figure created by Michael C. Cushing (see link below). These tracks are based on the AMES-Cond evolutionary models (Baraffe et al. 2003; 2nd link below).
DOI: 10.6084/m9.figshare.1325267
title: tillertest1-A versatile phenotyping system and analytics platform reveals diverse temporal responses to water limitation in Setaria

description: Tiller Test Set
DOI: 10.6084/m9.figshare.1326178.v4
title: Surface Gravity vs Age for Low-Mass Stars and Brown Dwarfs

description: This figure shows surface gravity versus age for low-mass stars and brown dwarfs, in a similar format than the Burrows (2001) figure created by Michael C. Cushing (see link below). These tracks are based on the AMES-Cond evolutionary models (Baraffe et al. 2003; 2nd link below).
DOI: 10.6084/m9.figshare.1326178.v3
title: Surface Gravity vs Age for Low-Mass Stars and Brown Dwarfs

description: This figure shows surface gravity versus age for low-mass stars and brown dwarfs, in a similar format than the Burrows (2001) figure created by Michael C. Cushing (see link below). These tracks are based on the AMES-Cond evolutionary models (Baraffe et al. 2003; 2nd link below).
DOI: 10.6084/m9.figshare.1325267.v1
title: tillertest1-A versatile phenotyping system and analytics platform reveals diverse temporal responses to water limitation in Setaria

description: Tiller Test Set
DOI: 10.6084/m9.figshare.1325267.v3
title: tillertest1-A versatile phenotyping system and analytics platform reveals diverse temporal responses to water limitation in Setaria

description: Tiller Test Set
DOI: 10.6084/m9.figshare.1325267.v2
title: tillertest1-A versatile phenotyping system and analytics platform reveals diverse temporal responses to water limitation in Setaria

description: Tiller Test Set