cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.7320236
title: Supplementary Material for: Tacrolimus Suppositories in Therapy-Resistant Ulcerative Proctitis

description: <b><i>Background:</i></b> Ulcerative proctitis may often be managed with topical salicylates or steroids alone, but in some patients, symptoms are persistent and severe. We analyzed the efficacy of tacrolimus suppositories in patients who had proven refractory to combined topical and systemic treatment. <b><i>Methods:</i></b> In this retrospective analysis, ulcerative colitis activity index (CAI), side effects, co-medication and drug levels were assessed in 43 patients with distal ulcerative colitis who received suppositories containing 2 mg of tacrolimus b.i.d. as add-on medication. <b><i>Results:</i></b> A total of 23 patients with ulcerative proctitis presented to follow-up within ≤50 days (mean 27.0 days) after suppositories were started. A decrease in CAI (from 8.0 to 5.5 points) was observed and 52.3% reached clinical remission (CAI ≤4). In total, 43 patients were available for analysis, of whom 9 had inflammation of the sigmoid colon as well. For the entire cohort, the median treatment duration was 76 days; 60% were in remission on the last documented visit. Serum measurements revealed a substantial tacrolimus level with a mean of 5.5 ng/mL. We observed one case of mild reversible acute kidney injury. <b><i>Conclusions:</i></b> In ulcerative proctitis, adding tacrolimus suppositories can be an effective and safe option when topical mesalazine, corticoid formulations and concomitant oral or parenteral medications have failed.
DOI: 10.7284/121698
title: Multibeam Echosounder data collected during research cruise RR1603 using a Kongsberg EM122 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/121703
title: Winch data collected during research cruise RR1603 using a Markey DUTW-9-11 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/121707
title: Winch data collected during research cruise RR1603 using a Markey DUSH-5 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/121709
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise RR1604 using a Hawaii UHDAS instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/121719
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise RR1604 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/121710
title: GNSS (Global Navigation Satellite System) data collected during research cruise RR1604 using a Furuno GP-150 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/121713
title: GNSS (Global Navigation Satellite System) data collected during research cruise RR1604 using a Ashtech ADU2 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/122644
title: GNSS (Global Navigation Satellite System) data collected during research cruise RR1604 using a Trimble SPS351 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/121717
title: Gyrocompass data collected during research cruise RR1604 using a iXSea Phins instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/122645
title: INS (Inertial Navigation System) data collected during research cruise RR1604 using a Kongsberg Seapath 320+ instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7318916
title: Alhagi sparsifolia microbiomes

description: The aim of this study is to decipher the rhizosphere and endosphere microbiomes to identify drought resistance-promoting bacteria and to unravel the mechanisms by which they protect plants against drought stress.
DOI: 10.7284/121708
title: Meteorological Station data collected during research cruise RR1604 using a SIO MET-System instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7318916.v2
title: Alhagi sparsifolia microbiomes

description: The aim of this study is to decipher the rhizosphere and endosphere microbiomes to identify drought resistance-promoting bacteria and to unravel the mechanisms by which they protect plants against drought stress.
DOI: 10.7284/121711
title: Multibeam Echosounder data collected during research cruise RR1604 using a Kongsberg EM122 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7318916.v1
title: Alhagi sparsifolia microbiomes

description: The aim of this study is to decipher the rhizosphere and endosphere microbiomes to identify drought resistance-promoting bacteria and to unravel the mechanisms by which they protect plants against drought stress.
DOI: 10.7284/121716
title: Winch data collected during research cruise RR1604 using a Markey DUTW-9-11 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/121720
title: Winch data collected during research cruise RR1604 using a Markey DUSH-5 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/121728
title: Expendable Probe data collected during research cruise RR1605 using a Turo Quoll instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/121723
title: GNSS (Global Navigation Satellite System) data collected during research cruise RR1605 using a Furuno GP-150 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7318877.v2
title: unitarity.m

description: This file is the demonstration of optical transformation matrix's unitarity for general nonoverlapping-image multimode interference couplers with any input and output ports.
DOI: 10.7284/121726
title: GNSS (Global Navigation Satellite System) data collected during research cruise RR1605 using a Ashtech ADU2 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/122646
title: GNSS (Global Navigation Satellite System) data collected during research cruise RR1605 using a Trimble SPS351 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/121731
title: HDSS (Hydrographic Doppler Sonar System) data collected during research cruise RR1605 using a SIO HDSS instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/121730
title: Gyrocompass data collected during research cruise RR1605 using a iXSea Phins instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/122647
title: INS (Inertial Navigation System) data collected during research cruise RR1605 using a Kongsberg Seapath 320+ instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7318523
title: A Mouse Model of Binge Alcohol Consumption and Burkholderia Infection

description: The following data sets describes the major findings in "A Mouse Model of Binge Alcohol Consumption and Burkholderia Infection" DOI: 10.1101/380683
DOI: 10.6084/m9.figshare.7318592
title: Atta_trail_construction_mechanism--data_and_code

description: This fileset holds the empirical data of trail clearing experiments and the code used to analyse it and simulate the process. The corresponding manuscript is titled "Infrastructure construction without information exchange -- the trail clearing mechanism in Atta leaf-cutter ants", by Bochynek, Burd, Kleineidam, and Meyer.
DOI: 10.6084/m9.figshare.7318523.v1
title: A Mouse Model of Binge Alcohol Consumption and Burkholderia Infection

description: The following data sets describes the major findings in "A Mouse Model of Binge Alcohol Consumption and Burkholderia Infection" DOI: 10.1101/380683
DOI: 10.6084/m9.figshare.7318520
title: PBL Barley and AtPBS1 Alignment

description: Alignment of PBS1 and PBS1-like protein kinase amino acid sequences from barley and Arabidopsis, aligned by Clustal Omega. Barley sequences were obtained by a BLAST search using Arabidopsis PBLs as queries. This alignment was used to generate the phylogenetic tree in Figure 2A and S1 in Carter and Helm, et al 2018 (in submission).<br>From methods section:Sequence similarity searches were performed using BLASTp to gather barley amino acid sequences homologous to Arabidopsis PBS1 and PBS1-like proteins. First, AtPBL (1 to 27), BIK1, and other PBS1-homologous sequences were gathered by searching the Arabidopsis genome (TAIR10, GCA_000001735.1) with the AtPBS1 (OAO91748.1) amino acid sequence and by name search. Potential barley PBLs were collected by searching the barley protein database (assembly Hv_IBSC_PGSB_v2) with each Arabidopsis homologue and taking the top five hits derived from distinct genes. Amino acid sequences were aligned with Clustal Omega (Sievers et al., 2011). <br>
DOI: 10.6084/m9.figshare.7318592.v1
title: Atta_trail_construction_mechanism--data_and_code

description: This fileset holds the empirical data of trail clearing experiments and the code used to analyse it and simulate the process. The corresponding manuscript is titled "Infrastructure construction without information exchange -- the trail clearing mechanism in Atta leaf-cutter ants", by Bochynek, Burd, Kleineidam, and Meyer.
DOI: 10.7284/121721
title: Meteorological Station data collected during research cruise RR1605 using a SIO MET-System instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7318592.v2
title: Atta_trail_construction_mechanism--data_and_code

description: This fileset holds the empirical data of trail clearing experiments and the code used to analyse it and simulate the process. The corresponding manuscript is titled "Infrastructure construction without information exchange -- the trail clearing mechanism in Atta leaf-cutter ants", by Bochynek, Burd, Kleineidam, and Meyer.
DOI: 10.6084/m9.figshare.7318592.v3
title: Atta_trail_construction_mechanism--data_and_code

description: This fileset holds the empirical data of trail clearing experiments and the code used to analyse it and simulate the process. The corresponding manuscript is titled "Infrastructure construction without information exchange -- the trail clearing mechanism in Atta leaf-cutter ants", by Bochynek, Burd, Kleineidam, and Meyer.
DOI: 10.7284/121724
title: Multibeam Echosounder data collected during research cruise RR1605 using a Kongsberg EM122 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7318433
title: coast.zip

description: High-resolution global coastline
DOI: 10.7284/121725
title: Singlebeam Echosounder data collected during research cruise RR1605 using a Knudsen 3260 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/121729
title: Winch data collected during research cruise RR1605 using a Markey DUTW-9-11 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7316462
title: Mass Spec Raw File Data

description: Here we report HDX raw files supporting the manuscript "Regulator of G-protein signaling, GPCR signaling, neurotransmitter signaling, crystal structure, Hydrogen-deuterium exchange mass-spectrometry (HDX)". The raw file sets are packaged in rar format in order to group the files into the two groups "Dimer vs Trimer" and "Monomer vs Trimer".
DOI: 10.6084/m9.figshare.7318433.v2
title: coast.zip

description: High-resolution global coastline
DOI: 10.7284/121732
title: Winch data collected during research cruise RR1605 using a Markey DUSH-5 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7318433.v1
title: coast.zip

description: High-resolution global coastline
DOI: 10.6084/m9.figshare.7316462.v1
title: Mass Spec Raw File Data

description: Here we report HDX raw files supporting the manuscript "Regulator of G-protein signaling, GPCR signaling, neurotransmitter signaling, crystal structure, Hydrogen-deuterium exchange mass-spectrometry (HDX)". The raw file sets are packaged in rar format in order to group the files into the two groups "Dimer vs Trimer" and "Monomer vs Trimer".
DOI: 10.7284/121734
title: ADCP (Acoustic Doppler Current Profiler) data collected during research cruise RR1606 using a Hawaii UHDAS instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7315676
title: The prevalence of avian haemosporidian parasites in an invasive bird is lower in urban than non-urban environments

description: Urbanization affects the ecology of wildlife diseases and while it has been suggested that there are lower risks of infection in urban areas, there have been no experiments to support this conclusion. We assessed haemosporidian prevalence and intensity in House Sparrows <i>Passer domesticus</i>using field and experimental data under contrasting conditions (i.e. urban vs. non-urban). For experimental data, we kept 32 male sparrows in captivity as a proxy of stress, and for field data we sampled 49 sparrows (17 females). We made use of microscopy to determine the relative intensity and used PCR to estimate infection prevalence. We obtained total leucocyte counts, leucocyte differentials, H/L ratios as measures of stress, and the Polychromatic Index as a measure of physiological condition (erythropoiesis). We identified a total of ten haemosporidian lineages. For field samples (both males and females), we found significantly higher prevalence in non-urban sparrows compared to urban ones. For experimental set up, non-urban sparrows showed higher prevalence than urban ones both before and after captivity, with a significant increase in parasite intensity. The number of infected birds increased after captivity for both urban (~32%) and non-urban sparrows(~19%), indicating either a recrudescence of chronic and relapses of latent infections or the appearance of infections that were acquired earlier. The H/L ratio was significantly higher for non-urban compared to urban male sparrows before captivity. No difference in H/Lwas found for urban sparrows before and after captivity, indicating tolerance to city stressors. Our results showed a significant decrease in H/L for non-urban birds after captivity, suggesting higher stress in the non-urban agricultural environment. Haemosporidian infections were not associated with the H/L ratio. Our study provides evidence that highly urbanized areas within cities represent lower haemosporidian infection risk compared to non-urban areas for House Sparrows.
DOI: 10.6084/m9.figshare.7315682
title: Barley and Arabidopsis NLR Alignment

description: Alignment of amino acid sequences of NB-ARC domains from barley NLRs predicted by NLR-parser and 15 known Arabidopsis NLRs, aligned by Clustal Omega. This alignment was used to generate the phylogenetic tree in Figure 4 in Carter and Helm, et al 2018 (in submission).<br>From the methods section:For the analysis of the barley and Arabidopsis NLRs, barley NLR genes for the entire Morex genome were predicted by NLR-Parser using the high confidence protein predictions (Steuernagel et al., 2015; Mascher et al., 2017). The amino acid sequence of NB-ARC domains identified in this pipeline were extracted into a FASTA file, to which the NB-ARC domains from 15 Arabidopsis CC-NB-LRRs were added from UniProt accessions. The combined 319 sequences were aligned using Clustal Omega<br>
DOI: 10.6084/m9.figshare.7315682.v1
title: Barley and Arabidopsis NLR Alignment

description: Alignment of amino acid sequences of NB-ARC domains from barley NLRs predicted by NLR-parser and 15 known Arabidopsis NLRs, aligned by Clustal Omega. This alignment was used to generate the phylogenetic tree in Figure 4 in Carter and Helm, et al 2018 (in submission).<br>From the methods section:For the analysis of the barley and Arabidopsis NLRs, barley NLR genes for the entire Morex genome were predicted by NLR-Parser using the high confidence protein predictions (Steuernagel et al., 2015; Mascher et al., 2017). The amino acid sequence of NB-ARC domains identified in this pipeline were extracted into a FASTA file, to which the NB-ARC domains from 15 Arabidopsis CC-NB-LRRs were added from UniProt accessions. The combined 319 sequences were aligned using Clustal Omega<br>
DOI: 10.7284/121744
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise RR1606 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7315655
title: Pbr1 Allele Alignment

description: Alignment of Pbr1 allele sequences (genomic DNA of start codon to stop codon) from 12 barley genotypes, aligned by Clustal Omega. Allele sequences were obtained by Sanger sequencing PCR fragments. This alignment was used to generate the phylogenetic tree in Figure 5C in Carter and Helm, et al 2018 (in submission).<br>From methods section:DNA was isolated from ground frozen leaf tissue using the GeneJET Plant Genomic DNA Purification Kit (Thermo Scientific™). Primers were designed throughout the genes of interest and fragments were amplified from genomic DNA using Q5 2X Master Mix (NEB), then Sanger sequenced at the Cornell Biotechnology Resource Center.For the analysis of <i>Pbr1</i> alleles, nucleotide sequences were selected from each sequenced allele that spanned from the start codon to the stop codon of the Rasmusson allele, including the intron. Sequences were aligned with Clustal Omega.<br>
DOI: 10.6084/m9.figshare.7315655.v1
title: Pbr1 Allele Alignment

description: Alignment of Pbr1 allele sequences (genomic DNA of start codon to stop codon) from 12 barley genotypes, aligned by Clustal Omega. Allele sequences were obtained by Sanger sequencing PCR fragments. This alignment was used to generate the phylogenetic tree in Figure 5C in Carter and Helm, et al 2018 (in submission).<br>From methods section:DNA was isolated from ground frozen leaf tissue using the GeneJET Plant Genomic DNA Purification Kit (Thermo Scientific™). Primers were designed throughout the genes of interest and fragments were amplified from genomic DNA using Q5 2X Master Mix (NEB), then Sanger sequenced at the Cornell Biotechnology Resource Center.For the analysis of <i>Pbr1</i> alleles, nucleotide sequences were selected from each sequenced allele that spanned from the start codon to the stop codon of the Rasmusson allele, including the intron. Sequences were aligned with Clustal Omega.<br>
DOI: 10.7284/121735
title: GNSS (Global Navigation Satellite System) data collected during research cruise RR1606 using a Furuno GP-150 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/121738
title: GNSS (Global Navigation Satellite System) data collected during research cruise RR1606 using a Ashtech ADU2 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.12885587
title: Plonk example: dust-gas protoplanetary disc with embedded planet

description: Sample Phantom (https://github.com/danieljprice/phantom) smoothed particle hydrodynamics data for demonstrating Plonk (https://github.com/dmentipl/plonk). The dataset is a simulation of a dust and gas protoplanetary disc with an embedded planet. The dataset contains 30 snapshot files, several time series files, and several parameter files. See the examples section of https://plonk.readthedocs.io/ for more.
DOI: 10.6084/m9.figshare.7315589
title: Table_S2.xlsx

description: Supplementary data for "Drosophila small ovary encodes a zinc-finger protein with broad function in repressing gene expression" Benner et al.
DOI: 10.7284/122648
title: GNSS (Global Navigation Satellite System) data collected during research cruise RR1606 using a Trimble SPS351 instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.12885587.v2
title: Plonk example: dust-gas protoplanetary disc with embedded planet

description: Sample Phantom (https://github.com/danieljprice/phantom) smoothed particle hydrodynamics data for demonstrating Plonk (https://github.com/dmentipl/plonk). The dataset is a simulation of a dust and gas protoplanetary disc with an embedded planet. The dataset contains 30 snapshot files, several time series files, and several parameter files. See the examples section of https://plonk.readthedocs.io/ for more.
DOI: 10.6084/m9.figshare.12885587.v1
title: Plonk example dataset

description: Sample Phantom (https://github.com/danieljprice/phantom) smoothed particle hydrodynamics data for demonstrating Plonk (https://github.com/dmentipl/plonk). The dataset is a simulation of a dust and gas protoplanetary disc with an embedded protoplanet. The dataset contains 30 snapshot files, several time series files, and several parameter files. See the examples section of https://plonk.readthedocs.io/ for more.
DOI: 10.7284/121742
title: Gyrocompass data collected during research cruise RR1606 using a iXSea Phins instrument system onboard the platform RV Roger Revelle

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.21954/ou.rd.7315418
title: OpenMARS water vapour database

description: The Open access to Mars Assimilated Remote Soundings (OpenMARS) database is a reanalysis product combining past spacecraft observations with a state-of-the-art Mars Global Circulation Model (GCM). The OpenMARS product is a global surface/atmosphere reference database of key variables for multiple Mars years.<br><br>Spacecraft observations of water vapour column abundance and temperature profiles from the Thermal Emission Spectrometer (TES) instrument on the Mars Global Surveyor spacecraft are combined with a Mars GCM used at the Open University. The database includes 2-hourly output of water vapour column abundance.<br>Extended details on this dataset can be found in the OpenMARS-water-reference-manual.pdf document included in this repository.<br>This project has received funding from the European Union's Horizon 2020 research and innovation programme under grant agreement No. 633127.