cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.6061097
title: Additional file 3: of QAPA: a new method for the systematic analysis of alternative polyadenylation from RNA-seq data

description: Poly(A) site feature matrix for modeling the APA regulatory code. This tab-delimited file contains feature matrix used to build a regression model of poly(A) site strength. Each row is a training/test example of a poly(A) site based on proximal and constitutive 3′ UTRs. Except for the first six columns, each column is a feature vector describing a particular property of the example’s poly(A) site. The response vector (“y”) is the average PAU of all samples from the Hubbard et al. RNA-seq dataset. Polyadenylation signal features begin with the prefix “PAS”. Poly(A) site dinucleotide features have the suffix “_pasite”. Overall upstream and downstream dinucleotide contents have the suffices “_upcontent” and “_downcontent”, respectively. Conservation features have the prefix “phyloP60way” followed by the bin location. Cis RBP motif features have the prefix “cis”. (TXT 18071 kb)
DOI: 10.6084/m9.figshare.6061097.v1
title: Additional file 3: of QAPA: a new method for the systematic analysis of alternative polyadenylation from RNA-seq data

description: Poly(A) site feature matrix for modeling the APA regulatory code. This tab-delimited file contains feature matrix used to build a regression model of poly(A) site strength. Each row is a training/test example of a poly(A) site based on proximal and constitutive 3′ UTRs. Except for the first six columns, each column is a feature vector describing a particular property of the example’s poly(A) site. The response vector (“y”) is the average PAU of all samples from the Hubbard et al. RNA-seq dataset. Polyadenylation signal features begin with the prefix “PAS”. Poly(A) site dinucleotide features have the suffix “_pasite”. Overall upstream and downstream dinucleotide contents have the suffices “_upcontent” and “_downcontent”, respectively. Conservation features have the prefix “phyloP60way” followed by the bin location. Cis RBP motif features have the prefix “cis”. (TXT 18071 kb)
DOI: 10.6084/m9.figshare.6061079
title: Additional file 2: of QAPA: a new method for the systematic analysis of alternative polyadenylation from RNA-seq data

description: Neuronal differentiation APA. This tab-delimited file contains the QAPA-estimated PAU and Sailfish TPM values of each 3â ˛ UTR isoform for samples from the Hubbard et al. [29] RNA-seq dataset. (TXT 6281 kb)
DOI: 10.6084/m9.figshare.6061079.v1
title: Additional file 2: of QAPA: a new method for the systematic analysis of alternative polyadenylation from RNA-seq data

description: Neuronal differentiation APA. This tab-delimited file contains the QAPA-estimated PAU and Sailfish TPM values of each 3â ˛ UTR isoform for samples from the Hubbard et al. [29] RNA-seq dataset. (TXT 6281 kb)
DOI: 10.6084/m9.figshare.6061016
title: MOESM2 of Comparison of three PCR-based assays for SNP genotyping in plants

description: Additional file 2: Table S2. Flanking sequences of evaluated SNPs indicated by brackets.
DOI: 10.6084/m9.figshare.6061016.v1
title: MOESM2 of Comparison of three PCR-based assays for SNP genotyping in plants

description: Additional file 2: Table S2. Flanking sequences of evaluated SNPs indicated by brackets.
DOI: 10.6084/m9.figshare.6061010
title: MOESM1 of Comparison of three PCR-based assays for SNP genotyping in plants

description: Additional file 1: Table S1. Description of the sugar beet genotypes used in this study.
DOI: 10.6084/m9.figshare.6061010.v1
title: MOESM1 of Comparison of three PCR-based assays for SNP genotyping in plants

description: Additional file 1: Table S1. Description of the sugar beet genotypes used in this study.
DOI: 10.6084/m9.figshare.6060686
title: PacBio assemblies of Cryptococcus neoformans var grubii genomes

description: PacBio assemblies of three Cryptococcus neoformans var grubii genomes. PI on the project, Jeremy Day, Oxford University Clinical Research Unit (OUCRU).
DOI: 10.6084/m9.figshare.6060686.v1
title: PacBio assemblies of Cryptococcus neoformans var grubii genomes

description: PacBio assemblies of three Cryptococcus neoformans var grubii genomes. PI on the project, Jeremy Day, Oxford University Clinical Research Unit (OUCRU).
DOI: 10.6084/m9.figshare.6059168
title: risp_area.csv

description: Daily Ross Ice Shelf Polynya area (km<sup>2</sup>) derived from SSM/I series data. The general polynya detection algorithm used to create the data is presented in<br>Tamura, T., K. I. Ohshima, T. Markus, D. J. Cavalieri, S. Nihashi, and N. Hirasawa (2007), Estimation of thin ice thickness and detection of fast ice from SSM/I data in the Antarctic Ocean, Journal of Atmospheric and Oceanic Technology, 24(10), 1757-1772, doi:10.1175/jtech2113.1.
DOI: 10.6084/m9.figshare.6059168.v1
title: risp_area.csv

description: Daily Ross Ice Shelf Polynya area (km<sup>2</sup>) derived from SSM/I series data. The general polynya detection algorithm used to create the data is presented in<br>Tamura, T., K. I. Ohshima, T. Markus, D. J. Cavalieri, S. Nihashi, and N. Hirasawa (2007), Estimation of thin ice thickness and detection of fast ice from SSM/I data in the Antarctic Ocean, Journal of Atmospheric and Oceanic Technology, 24(10), 1757-1772, doi:10.1175/jtech2113.1.
DOI: 10.6084/m9.figshare.6057755
title: performance after success and failure.dta

description: Human Performance after Success and Failure - Evidence from the NBA<br>
DOI: 10.6084/m9.figshare.6057752
title: 20180225 HPV phenylephrine data.xlsx

description: This file is data set from the results of "The effects of phenylephrine on oxygenation during one-lung ventilation; a randomized, double-blind, cross-over study".
DOI: 10.6084/m9.figshare.6057752.v1
title: 20180225 HPV phenylephrine data.xlsx

description: This file is data set from the results of "The effects of phenylephrine on oxygenation during one-lung ventilation; a randomized, double-blind, cross-over study".
DOI: 10.6084/m9.figshare.6057719
title: A Petri Net Approach to PBTK Modeling

description: Petri Net PBTK model of waterborne fluoranthene exposure in rainbow trout<br>
DOI: 10.6084/m9.figshare.6057719.v1
title: A Petri Net Approach to PBTK Modeling

description: Petri Net PBTK model of waterborne fluoranthene exposure in rainbow trout<br>
DOI: 10.6084/m9.figshare.6057719.v3
title: A Petri Net Approach to PBTK Modeling

description: Petri Net PBTK model of waterborne fluoranthene exposure in rainbow trout<br>
DOI: 10.6084/m9.figshare.6057719.v2
title: A Petri Net Approach to PBTK Modeling

description: Petri Net PBTK model of waterborne fluoranthene exposure in rainbow trout<br>
DOI: 10.6084/m9.figshare.6057491
title: Online supplementary materials for northern wheatgrass GBS data

description: These are supplementary files for our paper:<br>Pingchuan Li, Surendra Bhattarai, Gregory W. Peterson, Bruce Coulman, Michael P. Schellenberg, Bill Biligetu, and Yong-Bi Fu (2018) Genetic diversity of northern wheatgrass (Elymus lanceolatus ssp. lanceolatus) as revealed by genotyping-by-sequencing. Diversity 10:23 (doi:10.3390/d10020023)
DOI: 10.6084/m9.figshare.6057491.v1
title: Online supplementary materials for northern wheatgrass GBS data

description: These are supplementary files for our paper:<br>Pingchuan Li, Surendra Bhattarai, Gregory W. Peterson, Bruce Coulman, Michael P. Schellenberg, Bill Biligetu, and Yong-Bi Fu (2018) Genetic diversity of northern wheatgrass (Elymus lanceolatus ssp. lanceolatus) as revealed by genotyping-by-sequencing. Diversity 10:23 (doi:10.3390/d10020023)
DOI: 10.6084/m9.figshare.6057116
title: Supplemental Dataset S2 from Multi-omics analysis of thermal stress response in a zooxanthellate cnidarian reveals the importance of associating with thermotolerant symbionts

description: Transcript levels of antioxidant genes
DOI: 10.6084/m9.figshare.6057116.v1
title: Supplemental Dataset S2 from Multi-omics analysis of thermal stress response in a zooxanthellate cnidarian reveals the importance of associating with thermotolerant symbionts

description: Transcript levels of antioxidant genes
DOI: 10.6084/m9.figshare.6057104
title: Supplemental Dataset S1 from Multi-omics analysis of thermal stress response in a zooxanthellate cnidarian reveals the importance of associating with thermotolerant symbionts

description: All significant GO Terms enriched for RS transcriptome
DOI: 10.6084/m9.figshare.6057104.v1
title: Supplemental Dataset S1 from Multi-omics analysis of thermal stress response in a zooxanthellate cnidarian reveals the importance of associating with thermotolerant symbionts

description: All significant GO Terms enriched for RS transcriptome
DOI: 10.6084/m9.figshare.6056984
title: Simulation code from Family ties: The multilevel effects of households and kinship on the networks of individuals

description: This script simulates data to determine if the models recover parameters, and this script also assesses the effects of informant accuracy.
DOI: 10.6084/m9.figshare.6056984.v1
title: Simulation code from Family ties: The multilevel effects of households and kinship on the networks of individuals

description: This script simulates data to determine if the models recover parameters, and this script also assesses the effects of informant accuracy.
DOI: 10.6084/m9.figshare.6056978
title: Statistical code for analysis from Family ties: The multilevel effects of households and kinship on the networks of individuals

description: This script is for analyzing the empirical data.
DOI: 10.6084/m9.figshare.6056978.v1
title: Statistical code for analysis from Family ties: The multilevel effects of households and kinship on the networks of individuals

description: This script is for analyzing the empirical data.
DOI: 10.6084/m9.figshare.6056963
title: Data from Family ties: The multilevel effects of households and kinship on the networks of individuals

description: This file contains the empirical data for the paper.
DOI: 10.6084/m9.figshare.6056963.v1
title: Data from Family ties: The multilevel effects of households and kinship on the networks of individuals

description: This file contains the empirical data for the paper.
DOI: 10.6084/m9.figshare.6054401
title: Simulation Data

description: This data is in regards to hydrodynamic focusing simulations of a biomimetic microfluidic device.
DOI: 10.6084/m9.figshare.6054401.v1
title: Simulation Data

description: This data is in regards to hydrodynamic focusing simulations of a biomimetic microfluidic device.
DOI: 10.6084/m9.figshare.6053498
title: Data Set for Hydrodynamic Focusing Experiments

description: This data is in regards to raw mechanical testing and hydrodynamic focusing bench top spinning.
DOI: 10.6084/m9.figshare.6052817
title: Volume-averaged velocity signal from LES of channel flow at Re_tau=1000

description: This dataset accompanies the following publication:<br><b>Rezaeiravesh, S., Mukha, T., & Liefvendahl, M. (2018). a-Priori Study of Wall Modeling in Large Eddy Simulation. In ECCM-ECFD 2018, Glasgow, UK.</b><br><br>The dataset provides velocity signals from a well-resolved LES of channel flow. The velocity is spatially averaged in space over cubes with side-length delta/30 and delta/20. This intends to mimic the velocity signal from a wall-modelled LES. Note that now time-filtering is applied, and data at each time-step of the wall-resolved LES is provided.<br>Different files correspond to different consecutive wall-normal positions of the cube.So, for example, 20_1.csv contains data from a cube with side delta/20, which lower boundary is located at the wall and the upper boudnary and delta/20. And e.g. 30_2.csv contains data from a cube with side delta/30, lower boundary at delta/30 and upper boundary and 2delta/30.<br>Additionally, two more files, 20_yw.csv and 30_yw.csv are provided. These contain velocity signal averaged over a surface of (delta/20)^2 and (delta/30)^2, respectively. The wall normal location of the surface is at the center of the wall-adjacent cell of the wall-resolved simulation, corresponding to y+=0.445. The averaged wall shear stress components, computed directly from the averaged velocity, is also included.<br>For more details, please refer to the publication.Please cite it, if you use the data.
DOI: 10.6084/m9.figshare.6052430
title: Nexus file for the main phylogenetic analysis from A new large squalodelphinid (Cetacea, Odontoceti) from Peru sheds light on the Early Miocene platanistoid disparity and ecology

description: Analysis including Macrosqualodelphis ukupachai and other nearly homodont Platanistoidea.
DOI: 10.6084/m9.figshare.6052430.v1
title: Nexus file for the main phylogenetic analysis from A new large squalodelphinid (Cetacea, Odontoceti) from Peru sheds light on the Early Miocene platanistoid disparity and ecology

description: Analysis including Macrosqualodelphis ukupachai and other nearly homodont Platanistoidea.
DOI: 10.6084/m9.figshare.6052415
title: Nexus file for an alternative phylogenetic analysis (2) from A new large squalodelphinid (Cetacea, Odontoceti) from Peru sheds light on the Early Miocene platanistoid disparity and ecology

description: Analysis with molecular constraint using a modified matrix of Tanaka & Fordyce (2016) and Lambert et al. (2017).
DOI: 10.6084/m9.figshare.6052415.v1
title: Nexus file for an alternative phylogenetic analysis (2) from A new large squalodelphinid (Cetacea, Odontoceti) from Peru sheds light on the Early Miocene platanistoid disparity and ecology

description: Analysis with molecular constraint using a modified matrix of Tanaka & Fordyce (2016) and Lambert et al. (2017).
DOI: 10.6084/m9.figshare.6052400
title: Nexus file for an alternative phylogenetic analysis (1) from A new large squalodelphinid (Cetacea, Odontoceti) from Peru sheds light on the Early Miocene platanistoid disparity and ecology

description: Analysis without molecular constraint using a modified matrix of Tanaka & Fordyce (2016) and Lambert et al. (2017)
DOI: 10.6084/m9.figshare.6052400.v1
title: Nexus file for an alternative phylogenetic analysis (1) from A new large squalodelphinid (Cetacea, Odontoceti) from Peru sheds light on the Early Miocene platanistoid disparity and ecology

description: Analysis without molecular constraint using a modified matrix of Tanaka & Fordyce (2016) and Lambert et al. (2017)
DOI: 10.6084/m9.figshare.6052034
title: Data-lactate Mars 2018

description: Retrospective analysis in ED patients to evaluate the diagnostic categories associated to a blood lactate measurement<br>
DOI: 10.6084/m9.figshare.6051878
title: wheat.tar.gz

description: Splice junctions associated with our wheat experiments.
DOI: 10.6084/m9.figshare.6051875
title: main_data.tar.gz

description: Junctions associated with the arabidopsis, drosophila and human datasets used in the Portcullis paper.
DOI: 10.6084/m9.figshare.6051812
title: Impact of Solids Residence Time on Nutrient and Community Structure Dynamics of Algal-Bacterial Wastewater Treatment Systems

description: This work examined the effect of solids residence time (SRT) as an accessible parameter that can be used to control growth rate, community structure, and overall system performance in algal-bacterial wastewater systems. Specifically, the objective of this work was to study the effect of SRT on microbial community structure in mixed algal-bacterial wastewater treatment systems. Wastewater-fed reactors were operated in duplicate at distinct SRTs (5, 10, and 15 days) with diel lighting until long-term steady-state operation was achieved (&gt;6 SRTs). High-throughput sequencing was used to examine the microbial diversity, including bacteria and eukaryotes, over time. This project contains script files for analyzing data using mothur (scripts start with a fasta input file, following the "make.contigs" command in mothur to merge individual fastq files).
DOI: 10.6084/m9.figshare.6051812.v1
title: Impact of Solids Residence Time on Nutrient and Community Structure Dynamics of Algal-Bacterial Wastewater Treatment Systems

description: This work examined the effect of solids residence time (SRT) as an accessible parameter that can be used to control growth rate, community structure, and overall system performance in algal-bacterial wastewater systems. Specifically, the objective of this work was to study the effect of SRT on microbial community structure in mixed algal-bacterial wastewater treatment systems. Wastewater-fed reactors were operated in duplicate at distinct SRTs (5, 10, and 15 days) with diel lighting until long-term steady-state operation was achieved (&gt;6 SRTs). High-throughput sequencing was used to examine the microbial diversity, including bacteria and eukaryotes, over time. This project contains script files for analyzing data using mothur (scripts start with a fasta input file, following the "make.contigs" command in mothur to merge individual fastq files).
DOI: 10.6084/m9.figshare.6051794
title: Residential Wearable RSSI and Accelerometer Measurements with Detailed Annotations

description: <b>Context</b><b></b><br>This repository offers smart-home wearable accelerometer and Radio Signal Strength (RSS) data acquired : 1) with low-cost hardware 2) with high-resolution location annotations 3) from four lived-in premises.<br><b>Instructions</b><br><br>1. Download and unzip the dataset.<br><br>2. Navigate to:<br><i>ble-accelerometer-indoor-localisation-measurements/codes/load_dataset_py</i><br><br><br>3. Install prerequisites: <br><i>pip -r install requirements.txt</i><br><br>4.Run the sample module to load and view the measurements : <br><i>python3 src/load_data.py</i><i><br></i><i><br></i><b>Further Information</b><i><br></i><i><br></i>Please cite: Byrne, D., Kozlowski, M., Santos-Rodriguez, R., Piechocki, R. & Craddock, I. Residential wearable RSSI and accelerometer measurements with detailed location annotations. Sci. Data 5, 180168 (2018). https://www.nature.com/articles/sdata2018168<br> Thanks to: Raul Santos-Rodriguez, Robert Piechocki, Ian Craddock, SPHERE IRC team, Beatriz Monsalve-Carcalen and Raimon Fransoy.
DOI: 10.6084/m9.figshare.6051794.v2
title: Residential Wearable RSSI and Accelerometer Measurements with Detailed Annotations

description: #Context<br>This repository offers smart-home wearable accelerometer and Radio Signal Strength (RSS) data acquired : 1) with low-cost hardware 2) with high-resolution location annotations 3) from four lived-in premises.<br>#Instructions<br><br>1. Download and unzip the dataset.<br><br>2. Navigate to:<br>```<br>residential_wearable_data_repo_with_location_labels_sub/codes/load_dataset_py<br>```<br><br>3. Install prerequisites: <br>```<br>pip -r install requirements.txt<br>```<br><br>4.Run the sample module to load and view the measurements : <br>```<br>python3 src/load_data.py<br>```<br>
DOI: 10.6084/m9.figshare.6051794.v4
title: Residential Wearable RSSI and Accelerometer Measurements with Detailed Annotations

description: <b>Context</b><b></b><br>This repository offers smart-home wearable accelerometer and Radio Signal Strength (RSS) data acquired : 1) with low-cost hardware 2) with high-resolution location annotations 3) from four lived-in premises.<br><b>Instructions</b><br><br>1. Download and unzip the dataset.<br><br>2. Navigate to:<br><i>residential_wearable_data_repo_with_location_labels_sub/codes/load_dataset_py</i><br><br><br>3. Install prerequisites: <br><i>pip -r install requirements.txt</i><br><br>4.Run the sample module to load and view the measurements : <br><i>python3 src/load_data.py</i><i><br></i><i><br></i><b>Further Information</b><i><br></i><i><br></i>Please cite: Byrne, D., Kozlowski, M., Santos-Rodriguez, R., Piechocki, R. & Craddock, I. Residential wearable RSSI and accelerometer measurements with detailed location annotations. Sci. Data 5, 180168 (2018). https://www.nature.com/articles/sdata2018168<br> Thanks to: Raul Santos-Rodriguez, Robert Piechocki, Ian Craddock, SPHERE IRC team, Beatriz Monsalve-Carcalen and Raimon Fransoy.
DOI: 10.6084/m9.figshare.6051572
title: The point cloud of the model. A sauropod-dominated tracksite from Rubha nam Brathairean (Brothers' Point), Isle of Skye, Scotland

description: The point cloud of the model [file types: .ply, .obj]
DOI: 10.6084/m9.figshare.6051572.v1
title: The point cloud of the model. A sauropod-dominated tracksite from Rubha nam Brathairean (Brothers' Point), Isle of Skye, Scotland

description: The point cloud of the model [file types: .ply, .obj]
DOI: 10.6084/m9.figshare.6051338
title: The original images used to construct the model. A sauropod-dominated tracksite from Rubha nam Brathairean (Brothers' Point), Isle of Skye, Scotland

description: The original images used to construct the model [file type: .jpg]
DOI: 10.6084/m9.figshare.6051338.v1
title: The original images used to construct the model. A sauropod-dominated tracksite from Rubha nam Brathairean (Brothers' Point), Isle of Skye, Scotland

description: The original images used to construct the model [file type: .jpg]
DOI: 10.6084/m9.figshare.6051065
title: The photogrammetric model of track BP2_40. A sauropod-dominated tracksite from Rubha nam Brathairean (Brothers' Point), Isle of Skye, Scotland

description: The photogrammetric model of track BP2_40 [file types: .ply, .obj, .stl]
DOI: 10.6084/m9.figshare.6051065.v1
title: The photogrammetric model of track BP2_40. A sauropod-dominated tracksite from Rubha nam Brathairean (Brothers' Point), Isle of Skye, Scotland

description: The photogrammetric model of track BP2_40 [file types: .ply, .obj, .stl]
DOI: 10.6084/m9.figshare.6050570
title: Researcher Profile Extraction Dataset

description: A copy of the dataset used for researcher profile extraction by Jie Tang, Jing Zhang, Limin Yao, Juanzi Li, Li Zhang, and Zhong Su.<br>This dataset was downloaded from https://aminer.org/lab-datasets/profiling/
DOI: 10.6084/m9.figshare.6050486
title: Insect Transformation Plasmids

description: piggyBac-based reporter assay constructs described in the following paper.<br><b>Enhancer identification and activity evaluation in the red flour beetle, Tribolium castaneum.</b> Lai YT, Deem KD, Borràs-Castells F, Sambrani N, Rudolf H, Suryamohan K, El-Sherif E, Halfon MS, McKay DJ, Tomoyasu Y. Development. 2018 Mar 14. pii: dev.160663. doi: 10.1242/dev.160663.<br>Also see our lab website at:http://blogs.miamioh.edu/tomoyasulab/plasmids/<br>
DOI: 10.6084/m9.figshare.6050486.v1
title: Insect Transformation Plasmids

description: piggyBac-based reporter assay constructs described in the following paper.<br><b>Enhancer identification and activity evaluation in the red flour beetle, Tribolium castaneum.</b> Lai YT, Deem KD, Borràs-Castells F, Sambrani N, Rudolf H, Suryamohan K, El-Sherif E, Halfon MS, McKay DJ, Tomoyasu Y. Development. 2018 Mar 14. pii: dev.160663. doi: 10.1242/dev.160663.<br>Also see our lab website at:http://blogs.miamioh.edu/tomoyasulab/plasmids/<br>
DOI: 10.6084/m9.figshare.6050105
title: British (GB) postcode polygons for area and district levels

description: Postcode area and district polygons derived from Ordnance Survey Open Data using R and GRASS. Method used was creating voronoi polygons from point postcode data and dissolving boundaries based on postcode area and district attributes.<br><br>Contains OS data © Crown Copyright [and database right] (2018)<br><br>File descriptions:<br><b>postcode_polygons.gpkg</b>: geopackage file containing two polygon layers: postcode_area and postcode_district.<br><b>postcode_aggregator.R</b>: R script to extract area and district from full postcode.<br><b>postcode_aggregator.sh</b>: GRASS/Bash script to convert point postcode data into polygons.<br><b>postcode_overview.png</b>: image of polygons available.<br>