cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.9752795.v1
title: Systematic review and network meta-analysis of the efficacy and safety of lidocaine 700 mg medicated plaster vs. pregabalin

description: <b>Objective:</b> Neuropathic pain prevalence is estimated between 7% and 10% of the population. International guidelines recommend a variety of drugs at different therapy lines for pain relief. However, side effect profiles, for example, prompted the UK government recently to classify pregabalin and gabapentin as class C drugs. Lidocaine 700 mg medicated plaster (LMP) might be a safer alternative. A systematic review assessed how LMP and pregabalin compared in terms of efficacy and safety. The review focused on pain reduction, quality of life and adverse events in peripheral neuropathic pain (PNP) i.e. post-herpetic neuralgia, diabetic peripheral neuropathy, post-surgical/trauma, or other PNP conditions. <b>Methods:</b> Electronic databases were searched as well as a number of other sources up to November 2018. Sensitive strategies were used, with no restriction by language or publication status. Two independent reviewers screened records and extracted data with consensus determining final decisions. Risk of bias was assessed using the Cochrane Collaboration 2011 checklist for RCTs. Full network meta-analysis was conducted to compare LMP to pregabalin 300/600 mg in terms of pain reduction, quality of life, as well as serious adverse events and selected adverse events. Trials with enriched enrolment design were excluded. <b>Results:</b> Searches retrieved 7,104 records. In total 111 references pertaining to 43 RCTs were included for data extraction. Bayesian network meta-analysis of several pain outcomes showed no clear difference in efficacy between treatments However, LMP was clearly advantageous in terms of dizziness and any adverse event vs. pregabalin 600 mg/day and discontinuations vs. pregabalin 300 mg/day or 600 mg/day, as well as being associated with improved quality of life (albeit in this case based on weak evidence). <b>Conclusions:</b> LMP was found to be similar to pregabalin in reducing pain in all populations but had a better adverse events profile.
DOI: 10.6084/m9.figshare.9752804.v1
title: Copepod movement data in response to copper and kairomones

description: This data set contains individual tracking data from Tigriopus brevicornis which where exposed copper and kairomones. Together with the supplementary files from the publication's electronic appendix you can recreate the analysis of the manuscript "THE HIDDEN DIMENSION – CONTEXT-DEPENDENT EXPRESSION OF REPEATABLE BEHAVIOUR IN COPEPODS". In the publication you will also find details about the experimental conditions.<br>Explanation of columnsBottleID - identifies a unique bottle with one animal insideUniqueID - represents a single movie recordingUniqueIDTrackID - identifies a unique track within a recordingRun - represent the sequential recording of a bottleYear- YearDate - month day MMDDExpday - the day the experiment startedMovie - not usedFrame - Frame in the movieX - position on the x-axisY - position on the y-axisvelocity - not used… entry “speed” is correctnetdistance - in px.max_length - length of the track in framesmean.time - averaged frame of speed calculationspeed - frame to frame speed in mm/snumber.of.frames - number of frames of the uniqueTrackTreatment - applied treatment to the bottle.Starttime - date and star time based on sometimes wrong dates from the raspberry pi Copper - Copper or NoCopper in the treatmentKairomone - 2 Levels: Kairomone, NoKairomoneAlive.at.end - was the focal animal alive (1) or dead (0)nauplii.at.end - did nauplii hatch during the experimental time (1) or not (0)eggsacatend - did the female have an eggsac at the end (1) or not(0)pHbefore - pH value of the water beforepH - pH afterSalinity - PSULabel - picture ID from which the animal was measuredLength - length in pixels. Lengthinmm - length of the animal in mmX1mminpix - 1 mm in pixelsSizeMM - size of the animal in pixelsYmm - watercolumn height in mm<br><br><br><br>
DOI: 10.6084/m9.figshare.9752597
title: McLaughlin

description: CTX DEM and co-registered images of McLaughlin crater dunes, Mars.
DOI: 10.6084/m9.figshare.9752570
title: Hellespontus CTX DEM

description: CTX DEM and co-registered images of Hellespontus Montes dunes, Mars.
DOI: 10.6084/m9.figshare.9752597.v1
title: McLaughlin

description: CTX DEM and co-registered images of McLaughlin crater dunes, Mars.
DOI: 10.6084/m9.figshare.9752567
title: East Herschel

description: CTX DEM and co-registered images of East Herschel crater dunes, Mars.
DOI: 10.6084/m9.figshare.9752600
title: CTX Dunes DEM index

description: Index describing the CTX DEMs of martian dunes.
DOI: 10.6084/m9.figshare.9752561
title: West Herschel

description: CTX DEM and co-registered images of West Herschel crater dunes, Mars.
DOI: 10.6084/m9.figshare.9752570.v1
title: Hellespontus

description: CTX DEM and co-registered images of Hellespontus Montes dunes, Mars.
DOI: 10.6084/m9.figshare.9752558
title: Capelin draft genome assembly

description: 47 Gbp (~99x coverage) of sequencing data was generated on the Pacific Biosystems Sequel sequencing machine. Flye version 2.3.3 was run on the PacBio sequencing data specifying a genome size of 700 Mbp (which is between 0.5x and 2.0x of expected genome size) and otherwise default options. The resulting assembly is 490 Mbp with a N50 contig size of 230 kbp. Running BUSCO version 3.0.1 with the actinopterygii dataset on the assembly found 4070 compete, 209 fragmented and 305 missing genes out of total of 4584 genes searched.
DOI: 10.6084/m9.figshare.9752561.v1
title: West Herschel

description: CTX DEM and co-registered images of West Herschel crater dunes, Mars.
DOI: 10.6084/m9.figshare.9752567.v1
title: East Herschel

description: CTX DEM and co-registered images of East Herschel crater dunes, Mars.
DOI: 10.6084/m9.figshare.9752600.v1
title: CTX Dunes DEM index

description: Index describing the CTX DEMs of martian dunes.
DOI: 10.6084/m9.figshare.9752555
title: Meroe Patera

description: CTX DEM and co-registered images of Meroe Patera dunes, Mars.
DOI: 10.6084/m9.figshare.9752558.v1
title: Capelin draft genome assembly

description: 47 Gbp (~99x coverage) of sequencing data was generated on the Pacific Biosystems Sequel sequencing machine. Flye version 2.3.3 was run on the PacBio sequencing data specifying a genome size of 700 Mbp (which is between 0.5x and 2.0x of expected genome size) and otherwise default options. The resulting assembly is 490 Mbp with a N50 contig size of 230 kbp. Running BUSCO version 3.0.1 with the actinopterygii dataset on the assembly found 4070 compete, 209 fragmented and 305 missing genes out of total of 4584 genes searched.
DOI: 10.6084/m9.figshare.9752420
title: Nili Patera

description: CTX DEM and co-registered images of Nili Patera dunes, Mars.
DOI: 10.6084/m9.figshare.9752405
title: The perils of forcing a generalist to be a specialist: lack of dietary essential amino acids impacts honey bee pollen foraging and colony growth

description: Commercial honey bee colonies pollinate large monocultures, which contain one type of food and thus, one unbalanced source of nutrients. We examined how a lack of dietary essential amino acids (EAAs) affects honey bee foraging behavior and colony growth. Using pollen traps and semi-synthetic diets, we raised bees on three treatments in the field: no diet manipulation, a diet with all 10/10 honey bee EAAs, or a diet with only 6/10 EAAs. In 2016, during a drought, bees raised on the diet lacking EAAs collected more pollen than bees raised with all EAAs, suggesting compensatory foraging. This was not found in 2017, when natural resources were likely more abundant. As such, honey bees lacking EAAs worked harder to fill the gap in the nutrient poor environment. In 2017, colonies raised on all 10 EAAs expanded slower than control colonies, and colonies raised on 6/10 EAAs did not expand at all. This suggests that EAA diversity, and likely other nutrients found in pollen, are essential for colony growth. Forcing this generalist pollinator to be a specialist drastically reduces colony growth and likely, honey bee fitness.
DOI: 10.6084/m9.figshare.9752420.v1
title: Nili Patera

description: CTX DEM and co-registered images of Nili Patera dunes, Mars.
DOI: 10.6084/m9.figshare.9752405.v1
title: The perils of forcing a generalist to be a specialist: lack of dietary essential amino acids impacts honey bee pollen foraging and colony growth

description: Commercial honey bee colonies pollinate large monocultures, which contain one type of food and thus, one unbalanced source of nutrients. We examined how a lack of dietary essential amino acids (EAAs) affects honey bee foraging behavior and colony growth. Using pollen traps and semi-synthetic diets, we raised bees on three treatments in the field: no diet manipulation, a diet with all 10/10 honey bee EAAs, or a diet with only 6/10 EAAs. In 2016, during a drought, bees raised on the diet lacking EAAs collected more pollen than bees raised with all EAAs, suggesting compensatory foraging. This was not found in 2017, when natural resources were likely more abundant. As such, honey bees lacking EAAs worked harder to fill the gap in the nutrient poor environment. In 2017, colonies raised on all 10 EAAs expanded slower than control colonies, and colonies raised on 6/10 EAAs did not expand at all. This suggests that EAA diversity, and likely other nutrients found in pollen, are essential for colony growth. Forcing this generalist pollinator to be a specialist drastically reduces colony growth and likely, honey bee fitness.
DOI: 10.6084/m9.figshare.9752186
title: Rapid and easy method for <i>in vitro</i> determination of transcription factor binding core motifs

description: We introduce a rapid method for easily elucidating transcription factor (TF) cis-elements by adopting a highly efficient <i>in vitro</i> protein synthesis method and identifying protein-DNA interactions using PCR. We determined two cis-elements for plant TFs using this method, and the results confirmed our method as an easy and time-saving alternative for elucidating TF cis-elements using common laboratory procedures.
DOI: 10.6084/m9.figshare.9752186.v1
title: Rapid and easy method for <i>in vitro</i> determination of transcription factor binding core motifs

description: We introduce a rapid method for easily elucidating transcription factor (TF) cis-elements by adopting a highly efficient <i>in vitro</i> protein synthesis method and identifying protein-DNA interactions using PCR. We determined two cis-elements for plant TFs using this method, and the results confirmed our method as an easy and time-saving alternative for elucidating TF cis-elements using common laboratory procedures.
DOI: 10.6084/m9.figshare.9752108
title: Interfacial water and its potential role in the function of sericin against biofouling

description: Silk sericin is a globular protein whose resistance against fouling is important for applications in biomaterials and water-purification membranes. Here it is shown how sericin generates a water-exclusion zone that may facilitate antifouling behavior. Negatively charged microspheres were used to mimic the surface charge and hydrophobic domains in bacteria. Immersed in water, regenerated silk sericin formed a 100-µm-sized exclusion zone (for micron-size foulants), along with a proton gradient with a decrease of &gt;2 pH-units. Thus, when in contact with sericin, water molecules near the surface restructure to form a physical exclusionary barrier that might prevent biofouling. The decreased pH turns the aqueous medium unviable for neutrophilic bacteria. Therefore, resistance to biofouling seems explainable, among other factors, on the basis of water-exclusionary phenomena. Furthermore, sericin may play a role in triggering the fibroin assembly process by lowering the pH to the required value.
DOI: 10.6084/m9.figshare.9752108.v1
title: Interfacial water and its potential role in the function of sericin against biofouling

description: Silk sericin is a globular protein whose resistance against fouling is important for applications in biomaterials and water-purification membranes. Here it is shown how sericin generates a water-exclusion zone that may facilitate antifouling behavior. Negatively charged microspheres were used to mimic the surface charge and hydrophobic domains in bacteria. Immersed in water, regenerated silk sericin formed a 100-µm-sized exclusion zone (for micron-size foulants), along with a proton gradient with a decrease of &gt;2 pH-units. Thus, when in contact with sericin, water molecules near the surface restructure to form a physical exclusionary barrier that might prevent biofouling. The decreased pH turns the aqueous medium unviable for neutrophilic bacteria. Therefore, resistance to biofouling seems explainable, among other factors, on the basis of water-exclusionary phenomena. Furthermore, sericin may play a role in triggering the fibroin assembly process by lowering the pH to the required value.
DOI: 10.6084/m9.figshare.9751988
title: Crossref Citation Links - August 2019

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 (August 2019) that is available here: https://doi.org/10.6084/m9.figshare.9751865<br>The source code that produced the file can be found here:https://github.com/elifesciences/datacapsule-crossref
DOI: 10.6084/m9.figshare.9751982
title: Sichuan partridge

description: phylip
DOI: 10.6084/m9.figshare.9751949
title: Epiphytic bryophytes of urban agroforests in Ibadan, southwest Nigeria

description: <b>Introduction.</b> Agroforests are often surrogate habitats for threatened bryophytes and other organisms. This is important in urban settings where natural forests are often absent. Unfortunately, the benefits of urban agroforests for biodiversity are rarely studied. <b>Methods.</b> To better understand the bryophyte diversity of agroforests, we studied corticolous bryophytes (≤ 2 m) on 30 trees each in <i>Citrus</i> L. and <i>Mangifera</i> L. plantations in Nigeria. <b>Key results.</b> Nineteen species were recorded: 13 leafy liverworts and six mosses. Twelve species were recorded per plantation. Five species were shared between the two agroforests, indicating that a diversity of agroforests is ideal for preserving bryophyte diversity. Bryophyte abundance in the agroforests was similar, but the species were more evenly distributed and the diversity was higher in the mango agroforest. The frequent pruning of the crown (a standard horticultural practice) in the mango agroforest may relate to these differences. <i>Calymperes palisotii</i> was the most abundant species recorded in the study and was particularly abundant in the <i>Citrus</i> plantation. Generally, corticolous species were absent from the tree base, but occur at a higher mean height on mango (1.39 m) than on <i>Citrus</i> (1.11 m). This may be due to differences in species, or management practices. The height range for epiphytic bryophytes is slightly broader (0.48–1.80 m) in the <i>Citrus</i> plantation than in the mango plantation (1.17–1.60 m). However, the height of occurrence of bryophyte species in <i>Citrus</i> was generally lower, except for the moss <i>Rhacopilopsis trinitensis</i>, which has the maximum mean height on the trunk.
DOI: 10.6084/m9.figshare.9751940
title: Supplementary Material for: Dose Response to Transnasal Pulmonary Administration of Bronchodilator Aerosols via Nasal High-Flow Therapy in Adults with Stable Chronic Obstructive Pulmonary Disease and Asthma

description: <b><i>Background:</i></b> There has been increasing interest in transnasal pulmonary aerosol administration, but the dose-response relationship has not been reported. <b><i>Objectives:</i></b> To determine the accumulative bronchodilator dose at which patients with stable mild-to-moderate asthma and chronic obstructive pulmonary disease (COPD) achieve similar spirometry responses before and after bronchodilator tests using albuterol via a metered dose inhaler with a valved holding chamber (MDI + VHC). <b><i>Method:</i></b> Adult patients who met ATS/ERS criteria for bronchodilator responses in pulmonary function laboratory were recruited and consented to participate. After a washout period, patients received escalating doubling dosages (0.5, 1, 2, and 4 mg) of albuterol in a total volume of 2 mL delivered by vibrating mesh nebulizer via a nasal cannula at 37°C with a flow rate of 15–20 L/min using a Venturi air entrainment device. Spirometry was measured at baseline and after each dose. Titration was stopped when an additional forced expiratory volume in 1 second (FEV<sub>1</sub>) improvement was &lt;5%. <b><i>Results:</i></b> 42 patients (16 males) with stable mild-to-moderate asthma (<i>n</i> = 29) and COPD (<i>n</i> = 13) were enrolled. FEV<sub>1</sub> increment after a cumulative dose of 1.5 mg of albuterol via nasal cannula at 15–20 L/min was similar to 4 actuations of MDI + VHC (0.34 ± 0.18 vs. 0.34 ± 0.12 L, <i>p</i> = 0.878). Using ATS/ERS criteria of the bronchodilator test, 33.3% (14/42) and 69% (29/42) of patients responded to 0.5 and 1.5 mg of albuterol, respectively. <b><i>Conclusions:</i></b> With a nasal cannula at 15–20 L/min, transnasal pulmonary delivery of 1.5 mg albuterol resulted in similar bronchodilator response as 4 actuations of MDI + VHC.
DOI: 10.6084/m9.figshare.9751982.v1
title: Sichuan partridge

description: phylip
DOI: 10.6084/m9.figshare.9751937
title: Supplementary Material for: Mechanical Prosthetic Heart Valve Thrombosis in a Patient Receiving Rivaroxaban

description: Direct oral anticoagulants are not approved for use in patients with mechanical valves. When used to replace vitamin K antagonists, they may cause catastrophic consequences. The authors describe the case of a patient who, after discontinuation of warfarin and introduction of rivaroxaban, developed thrombosis of his mechanical mitral prosthesis.
DOI: 10.6084/m9.figshare.9751949.v1
title: Epiphytic bryophytes of urban agroforests in Ibadan, southwest Nigeria

description: <b>Introduction.</b> Agroforests are often surrogate habitats for threatened bryophytes and other organisms. This is important in urban settings where natural forests are often absent. Unfortunately, the benefits of urban agroforests for biodiversity are rarely studied. <b>Methods.</b> To better understand the bryophyte diversity of agroforests, we studied corticolous bryophytes (≤ 2 m) on 30 trees each in <i>Citrus</i> L. and <i>Mangifera</i> L. plantations in Nigeria. <b>Key results.</b> Nineteen species were recorded: 13 leafy liverworts and six mosses. Twelve species were recorded per plantation. Five species were shared between the two agroforests, indicating that a diversity of agroforests is ideal for preserving bryophyte diversity. Bryophyte abundance in the agroforests was similar, but the species were more evenly distributed and the diversity was higher in the mango agroforest. The frequent pruning of the crown (a standard horticultural practice) in the mango agroforest may relate to these differences. <i>Calymperes palisotii</i> was the most abundant species recorded in the study and was particularly abundant in the <i>Citrus</i> plantation. Generally, corticolous species were absent from the tree base, but occur at a higher mean height on mango (1.39 m) than on <i>Citrus</i> (1.11 m). This may be due to differences in species, or management practices. The height range for epiphytic bryophytes is slightly broader (0.48–1.80 m) in the <i>Citrus</i> plantation than in the mango plantation (1.17–1.60 m). However, the height of occurrence of bryophyte species in <i>Citrus</i> was generally lower, except for the moss <i>Rhacopilopsis trinitensis</i>, which has the maximum mean height on the trunk.
DOI: 10.6084/m9.figshare.9751937.v1
title: Supplementary Material for: Mechanical Prosthetic Heart Valve Thrombosis in a Patient Receiving Rivaroxaban

description: Direct oral anticoagulants are not approved for use in patients with mechanical valves. When used to replace vitamin K antagonists, they may cause catastrophic consequences. The authors describe the case of a patient who, after discontinuation of warfarin and introduction of rivaroxaban, developed thrombosis of his mechanical mitral prosthesis.
DOI: 10.6084/m9.figshare.9751940.v1
title: Supplementary Material for: Dose Response to Transnasal Pulmonary Administration of Bronchodilator Aerosols via Nasal High-Flow Therapy in Adults with Stable Chronic Obstructive Pulmonary Disease and Asthma

description: <b><i>Background:</i></b> There has been increasing interest in transnasal pulmonary aerosol administration, but the dose-response relationship has not been reported. <b><i>Objectives:</i></b> To determine the accumulative bronchodilator dose at which patients with stable mild-to-moderate asthma and chronic obstructive pulmonary disease (COPD) achieve similar spirometry responses before and after bronchodilator tests using albuterol via a metered dose inhaler with a valved holding chamber (MDI + VHC). <b><i>Method:</i></b> Adult patients who met ATS/ERS criteria for bronchodilator responses in pulmonary function laboratory were recruited and consented to participate. After a washout period, patients received escalating doubling dosages (0.5, 1, 2, and 4 mg) of albuterol in a total volume of 2 mL delivered by vibrating mesh nebulizer via a nasal cannula at 37°C with a flow rate of 15–20 L/min using a Venturi air entrainment device. Spirometry was measured at baseline and after each dose. Titration was stopped when an additional forced expiratory volume in 1 second (FEV<sub>1</sub>) improvement was &lt;5%. <b><i>Results:</i></b> 42 patients (16 males) with stable mild-to-moderate asthma (<i>n</i> = 29) and COPD (<i>n</i> = 13) were enrolled. FEV<sub>1</sub> increment after a cumulative dose of 1.5 mg of albuterol via nasal cannula at 15–20 L/min was similar to 4 actuations of MDI + VHC (0.34 ± 0.18 vs. 0.34 ± 0.12 L, <i>p</i> = 0.878). Using ATS/ERS criteria of the bronchodilator test, 33.3% (14/42) and 69% (29/42) of patients responded to 0.5 and 1.5 mg of albuterol, respectively. <b><i>Conclusions:</i></b> With a nasal cannula at 15–20 L/min, transnasal pulmonary delivery of 1.5 mg albuterol resulted in similar bronchodilator response as 4 actuations of MDI + VHC.
DOI: 10.15131/shef.data.9751907
title: Data.Rda for How uncertain is the survival extrapolation? A study of the impact of different parametric survival models on extrapolated uncertainty about hazard functions, lifetime mean survival and cost-effectiveness

description: An R Rda-file containing the four hypothetical datasets used in the analysis (Flat, increasing, decreasing, unimodal). These are stored in a single data-frame, where the 400 rows correspond to observations. For each dataset there are three variables: an event indicator = 1 for if death was during follow-up, else = 0 (suffix "_dead"), the true time of death (suffix "_time") and the observed follow-up time, which will = 1 if the true time of death &gt; 1 (suffix "_obs"). Hence there are twelve columns.<br>A script is provided seperately within this project (Analysis.R) which includes the code used to analyse this dataset in order to obtain the results reported in the manuscript "How uncertain is the survival extrapolation? A study of the impact of different parametric survival models on extrapolated uncertainty about hazard functions, lifetime mean survival and cost-effectiveness."
DOI: 10.6084/m9.figshare.9751904
title: Raw RNA sequencing data for Hargrave et al 2019

description: Raw RNA sequencing dataset spilt into files comparing either UN with LPS or Toxoplasma gondii and also LPS with Toxoplasma gondii. Each comparison folder should have gene expression tables of all genes, gene expression table of just significant genes, the FPKM values of all genes and then the FPKM of just top genes. Type II Toxoplasma gondii was used and DCs were co-cultured for 6 hours before RNA isolation was performed. Primary analysis was performed by GATC biotech