cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.6380615
title: pWCP ACROSS METAGENOMES

description: <b>An anvi'o merged profile for the read recruitment of pWCP from seven C. pipiens metagenomes.</b><br>Details of the study and a reproducible bioinformatics workflow:<br>http://merenlab.org/data/wolbachia-plasmid/<br><br>All public data files in this collection:<br>https://figshare.com/projects/A_Wolbachia_Plasmid_by_Reveillaud_and_Bordenstein_et_al_2018_/32069
DOI: 10.6084/m9.figshare.6380048
title: Transcriptome sequencing of rice leaves with blast symptoms collected from rice fields of Italy in 2017 and release of raw sequence data on OpenRiceBlast website for open access

description: Infected rice samples were collected by Anna Maria Picco and team, and sent to the Sainsbury Laboratory for RNA extraction and sequencing. Library preparation and RNA-Seq sequencing runs were performed by Genewiz using Illumina HiSeq-2500 machines to produce paired-end reads with ~300 bp average insert size. Here we report the release of these data to general public with open access on OpenRiceBlast website.<br>
DOI: 10.6084/m9.figshare.6380048.v1
title: Transcriptome sequencing of rice leaves with blast symptoms collected from rice fields of Italy in 2017 and release of raw sequence data on OpenRiceBlast website for open access

description: Infected rice samples were collected by Anna Maria Picco and team, and sent to the Sainsbury Laboratory for RNA extraction and sequencing. Library preparation and RNA-Seq sequencing runs were performed by Genewiz using Illumina HiSeq-2500 machines to produce paired-end reads with ~300 bp average insert size. Here we report the release of these data to general public with open access on OpenRiceBlast website.<br>
DOI: 10.6084/m9.figshare.6380048.v2
title: Transcriptome sequencing of rice leaves with blast symptoms collected from rice fields of Italy in 2017 and release of raw sequence data on OpenRiceBlast website for open access

description: Infected rice samples were collected by Anna Maria Picco and team, and sent to the Sainsbury Laboratory for RNA extraction and sequencing. Library preparation and RNA-Seq sequencing runs were performed by Genewiz using Illumina HiSeq-2500 machines to produce paired-end reads with ~300 bp average insert size. Here we report the release of these data to general public with open access on OpenRiceBlast website.<br>
DOI: 10.6084/m9.figshare.6380015
title: ARTIFICIALLY CIRCULARIZED pWCP

description: <b>FASTA files for the artificially circularized Wolbachia plasmid sequence from four Culex pipiens individuals (pWCP).</b><br>Details of the study and a reproducible bioinformatics workflow:<br>http://merenlab.org/data/wolbachia-plasmid/<br><br>All public data files in this collection:<br>https://figshare.com/projects/A_Wolbachia_Plasmid_by_Reveillaud_and_Bordenstein_et_al_2018_/32069
DOI: 10.6084/m9.figshare.6379955.v2
title: Transcriptome sequencing of rice leaves with blast symptoms collected from rice fields of the Philippines in 2017 and release of raw sequence data on OpenRiceBlast website for open access

description: Infected rice samples were collected by Bo Zhou and team, and sent to the Sainsbury Laboratory for RNA extraction and sequencing. Library preparation and RNA-Seq sequencing runs were performed by Genewiz using Illumina HiSeq-2500 machines to produce paired-end reads with ~300 bp average insert size. Here we report the release of these data to general public with open access on OpenRiceBlast website.<br>
DOI: 10.6084/m9.figshare.6379955.v1
title: Transcriptome sequencing of rice leaves with blast symptoms collected from rice fields of the Philippines in 2017 and release of raw sequence data on OpenRiceBlast website for open access

description: Infected rice samples were collected by Bo Zhou and team, and sent to the Sainsbury Laboratory for RNA extraction and sequencing. Library preparation and RNA-Seq sequencing runs were performed by Genewiz using Illumina HiSeq-2500 machines to produce paired-end reads with ~300 bp average insert size. Here we report the release of these data to general public with open access on OpenRiceBlast website.<br>
DOI: 10.6084/m9.figshare.6379883
title: GOAJ3: Gray Open Access Journals 2012-2017

description: Dataset for the book GOAJ3: Gold Open Access Journals 2012-2013, with details (including article counts by year) on journals in the Directory of Open Access Journals as of the end of 2017 (downloaded at 0:30 a.m. January 1, 2018, with 2018 records removed).<br>
DOI: 10.6084/m9.figshare.6379883.v1
title: GOAj3: Gray Open Access Journals 2012-2017

description: Dataset for the book GOAJ3: Gold Open Access Journals 2012-2013, with details (including article counts by year) on journals in the Directory of Open Access Journals as of the end of 2017 (downloaded at 0:30 a.m. January 1, 2018, with 2018 records removed).<br>
DOI: 10.6084/m9.figshare.6379724
title: Transcriptome sequencing of rice leaves with blast symptoms collected from rice fields of Bangladesh in 2017 and release of raw sequence data on OpenRiceBlast website for open access

description: Infected rice samples were collected by Tofazzal Islam and team, and sent to the Sainsbury Laboratory for RNA extraction and sequencing. Library preparation and RNA-Seq sequencing runs were performed by Genewiz using Illumina HiSeq-2500 machines to produce paired-end reads with ~300 bp average insert size. Here we report the release of these data to general public with open access on OpenRiceBlast website.<br>
DOI: 10.6084/m9.figshare.6379724.v2
title: Transcriptome sequencing of rice leaves with blast symptoms collected from rice fields of Bangladesh in 2017 and release of raw sequence data on OpenRiceBlast website for open access

description: Infected rice samples were collected by Tofazzal Islam and team, and sent to the Sainsbury Laboratory for RNA extraction and sequencing. Library preparation and RNA-Seq sequencing runs were performed by Genewiz using Illumina HiSeq-2500 machines to produce paired-end reads with ~300 bp average insert size. Here we report the release of these data to general public with open access on OpenRiceBlast website.<br>
DOI: 10.6084/m9.figshare.6379724.v1
title: Transcriptome sequencing of rice leaves with blast symptoms collected from rice fields of Bangladesh in 2017 and release of raw sequence data on OpenRiceBlast website for open access

description: Infected rice samples were collected by Tofazzal Islam and team, and sent to the Sainsbury Laboratory for RNA extraction and sequencing. Library preparation and RNA-Seq sequencing runs were performed by Genewiz using Illumina HiSeq-2500 machines to produce paired-end reads with ~300 bp average insert size. Here we report the release of these data to general public with open access on OpenRiceBlast website.<br>
DOI: 10.6084/m9.figshare.6379667
title: Host range, host specificity, regional host preferences and genetic variability of <i>Korthalsella</i> Tiegh. (Viscaceae) mistletoes in New Zealand

description: The distribution of parasitic plants is governed by the availability and distribution of suitable host species. Here we report the distributions, host associations and genetic variability of the three endemic New Zealand species of <i>Korthalsella</i> (Viscaceae) mistletoes. These species differ in their primary host and in the breadth of secondary and tertiary hosts. <i>Korthalsella salicornioides</i> is the most host-specific, with 96% of the total records from the primary (<i>Leptospermum scoparium</i> s.l. [Myrtaceae]) and secondary (<i>Kunzea robusta</i> [Myrtaceae]) hosts, but 26 host taxa (six genera in five families) recorded overall. <i>Korthalsella clavata</i> and <i>K. lindsayi</i> are more generalist species, parasitising 44 taxa (19 genera in 14 families) and 42 taxa (13 genera in 11 families), respectively. For <i>K. clavata</i>, <i>Coprosma propinqua</i> (Rubiaceae) and <i>C. dumosa</i> are the primary and secondary hosts, respectively, representing 66% of the total records. For <i>K. lindsayi, Melicope simplex</i> (Rutaceae) is the primary host (26% of records), whereas <i>Coprosma crassifolia</i>, <i>Lophomyrtus obcordata</i> (Myrtaceae), <i>Myrsine australis</i> (Primulaceae) and <i>M. divaricata</i> are secondary hosts. The only overlap among hosts is at the tertiary level, with <i>K. clavata</i> and <i>K. lindsayi</i> sharing <i>Coprosma rigida</i> and <i>C. virescens</i>, and among hosts that are rarely parasitised. <i>Korthalsella salicornioides</i> is the most widely distributed species occurring widely on the North and South Islands, while <i>K. clavata</i> is rare in the North Island and <i>K. lindsayi</i> is rare in the western regions of the South Island. Comparative sequencing of nuclear internal transcribed spacers and plastid <i>trnQ–rps16</i> for the three mistletoes revealed that within-species genetic structure is geographic rather than host-based. Additionally, some plastid haplotypes and ITS sequence types shared between <i>K. clavata</i> and <i>K. lindsayi</i> may result from local hybridisation and introgression between the two species in a few locations.
DOI: 10.6084/m9.figshare.6379667.v2
title: Host range, host specificity, regional host preferences and genetic variability of <i>Korthalsella</i> Tiegh. (Viscaceae) mistletoes in New Zealand

description: The distribution of parasitic plants is governed by the availability and distribution of suitable host species. Here we report the distributions, host associations and genetic variability of the three endemic New Zealand species of <i>Korthalsella</i> (Viscaceae) mistletoes. These species differ in their primary host and in the breadth of secondary and tertiary hosts. <i>Korthalsella salicornioides</i> is the most host-specific, with 96% of the total records from the primary (<i>Leptospermum scoparium</i> s.l. [Myrtaceae]) and secondary (<i>Kunzea robusta</i> [Myrtaceae]) hosts, but 26 host taxa (six genera in five families) recorded overall. <i>Korthalsella clavata</i> and <i>K. lindsayi</i> are more generalist species, parasitising 44 taxa (19 genera in 14 families) and 42 taxa (13 genera in 11 families), respectively. For <i>K. clavata</i>, <i>Coprosma propinqua</i> (Rubiaceae) and <i>C. dumosa</i> are the primary and secondary hosts, respectively, representing 66% of the total records. For <i>K. lindsayi, Melicope simplex</i> (Rutaceae) is the primary host (26% of records), whereas <i>Coprosma crassifolia</i>, <i>Lophomyrtus obcordata</i> (Myrtaceae), <i>Myrsine australis</i> (Primulaceae) and <i>M. divaricata</i> are secondary hosts. The only overlap among hosts is at the tertiary level, with <i>K. clavata</i> and <i>K. lindsayi</i> sharing <i>Coprosma rigida</i> and <i>C. virescens</i>, and among hosts that are rarely parasitised. <i>Korthalsella salicornioides</i> is the most widely distributed species occurring widely on the North and South Islands, while <i>K. clavata</i> is rare in the North Island and <i>K. lindsayi</i> is rare in the western regions of the South Island. Comparative sequencing of nuclear internal transcribed spacers and plastid <i>trnQ–rps16</i> for the three mistletoes revealed that within-species genetic structure is geographic rather than host-based. Additionally, some plastid haplotypes and ITS sequence types shared between <i>K. clavata</i> and <i>K. lindsayi</i> may result from local hybridisation and introgression between the two species in a few locations.
DOI: 10.6084/m9.figshare.6379667.v1
title: Host range, host specificity, regional host preferences and genetic variability of <i>Korthalsella</i> Tiegh. (Viscaceae) mistletoes in New Zealand

description: The distribution of parasitic plants is governed by the availability and distribution of suitable host species. Here we report the distributions, host associations and genetic variability of the three endemic New Zealand species of <i>Korthalsella</i> (Viscaceae) mistletoes. These species differ in their primary host and in the breadth of secondary and tertiary hosts. <i>Korthalsella salicornioides</i> is the most host-specific, with 96% of the total records from the primary (<i>Leptospermum scoparium</i> s.l. [Myrtaceae]) and secondary (<i>Kunzea robusta</i> [Myrtaceae]) hosts, but 26 host taxa (six genera in five families) recorded overall. <i>Korthalsella clavata</i> and <i>K. lindsayi</i> are more generalist species, parasitising 44 taxa (19 genera in 14 families) and 42 taxa (13 genera in 11 families), respectively. For <i>K. clavata</i>, <i>Coprosma propinqua</i> (Rubiaceae) and <i>C. dumosa</i> are the primary and secondary hosts, respectively, representing 66% of the total records. For <i>K. lindsayi, Melicope simplex</i> (Rutaceae) is the primary host (26% of records), whereas <i>Coprosma crassifolia</i>, <i>Lophomyrtus obcordata</i> (Myrtaceae), <i>Myrsine australis</i> (Primulaceae) and <i>M. divaricata</i> are secondary hosts. The only overlap among hosts is at the tertiary level, with <i>K. clavata</i> and <i>K. lindsayi</i> sharing <i>Coprosma rigida</i> and <i>C. virescens</i>, and among hosts that are rarely parasitised. <i>Korthalsella salicornioides</i> is the most widely distributed species occurring widely on the North and South Islands, while <i>K. clavata</i> is rare in the North Island and <i>K. lindsayi</i> is rare in the western regions of the South Island. Comparative sequencing of nuclear internal transcribed spacers and plastid <i>trnQ–rps16</i> for the three mistletoes revealed that within-species genetic structure is geographic rather than host-based. Additionally, some plastid haplotypes and ITS sequence types shared between <i>K. clavata</i> and <i>K. lindsayi</i> may result from local hybridisation and introgression between the two species in a few locations.
DOI: 10.6084/m9.figshare.6379094
title: Presentation for ISB Motor Control Symposium @ ACSM 2018

description: Slides for Ross Miller's presentation at ISB Motor Control Symposium (ACSM 2018 pre-conference)
DOI: 10.6084/m9.figshare.6378485
title: Prioritized Proteins Across DOID, PW, and HPO

description: Collection of popular proteins across 10,129 human diseases as defined by the Disease Ontology, 10,642 disease phenotypes defined by Human Phenotype Ontology, and 2,370 cellular pathways defined by Pathway Ontology<br>
DOI: 10.6084/m9.figshare.6378485.v2
title: Prioritized Proteins Across DOID, PW, and HPO

description: Collection of popular proteins across 10,129 human diseases as defined by the Disease Ontology, 10,642 disease phenotypes defined by Human Phenotype Ontology, and 2,370 cellular pathways defined by Pathway Ontology<br>
DOI: 10.6084/m9.figshare.6378485.v1
title: Prioritized Proteins Across DOID, PW, and HPO

description: Collection of popular proteins across 10,129 human diseases as defined by the Disease Ontology, 10,642 disease phenotypes defined by Human PhenotypeOntology, and 2,370 cellular pathways defined by Pathway Ontology<br>
DOI: 10.6084/m9.figshare.6378302
title: Bicycle Irrigation Pump, CAD of the First Prototype's Gearbox

description: This is CAD drawing of a gearbox to go between the bicycle and a Pedrollo HF50B centrifugal pump. The drawing is using SketchUp software. Note that the features are a scale 10x larger than the actual gearbox.
DOI: 10.6084/m9.figshare.6378224
title: Bicycle Powered Centrifugal Irrigation Pump, Sprint Test Experiment

description: I wanted to compare the efficiency of this bicycle irrigation pump to the leading standard of portable human powered irrigation, one of the MoneyMaker pumps. MoneyMaker has flow data for their products. However, as measuring input power is difficult, these measurements included the weight of the 70 kg (154 lbs) pedaler, but not a measured input power [56]. These flows were generated during a “racing mode” sprint [48], which I interpreted as a pace that could be maintained for minutes rather than for hours. As a rough control of the input power, I had a pedaler ‘sprint’ to fill a 20 liter bucket with first a moneymaker pump and then the bicycle pump. Procedure: Sprint Test During a trial of this sprint test, the pedaler would begin operating the treadle pump or the bicycle as fast as they could. For the treadle pump, the pedaler would put all of their weight on one treadle until the treadle completed the full range of motion. Then, as quickly as possible, the pedaler would switch their weight to the other treadle. For the bicycle pump, the pedaler would pedal at the fastest cadence they could. The resistance on pedals was similar to bicycling on a flat paved road. Because the pedaler did not need to follow a live readout, the outlet person controlled all the trial’s timing. The outlet person would start a timer and simultaneously switch the outlet flow from filling an auxiliary bucket to filling the measurement bucket. The outlet person would then stop the timer when the measurement bucket was filled to 20 liters. The same materials (hoses, valves, reservoirs, locations) were used for both the MoneyMaker and bicycle pump tests. The trials were conducted with 3 meters of vertical head. Two pedalers each took 10 trials with the MoneyMaker and 5 trials each with the bicycle pump. We used a Super MoneyMaker, which is an older model than the current MoneyMaker Max treadle pump. The Super MoneyMaker we used produces around 10% less flow than the MoneyMaker Max. The Super MoneyMaker pump was also well worn and may not have decreased efficiency.
DOI: 10.6084/m9.figshare.6378224.v1
title: Bicycle Powered Centrifugal Irrigation Pump, Sprint Test Experiment

description: I wanted to compare the efficiency of this bicycle irrigation pump to the leading standard of portable human powered irrigation, one of the MoneyMaker pumps. MoneyMaker has flow data for their products. However, as measuring input power is difficult, these measurements included the weight of the 70 kg (154 lbs) pedaler, but not a measured input power [56]. These flows were generated during a “racing mode” sprint [48], which I interpreted as a pace that could be maintained for minutes rather than for hours. As a rough control of the input power, I had a pedaler ‘sprint’ to fill a 20 liter bucket with first a moneymaker pump and then the bicycle pump. Procedure: Sprint Test During a trial of this sprint test, the pedaler would begin operating the treadle pump or the bicycle as fast as they could. For the treadle pump, the pedaler would put all of their weight on one treadle until the treadle completed the full range of motion. Then, as quickly as possible, the pedaler would switch their weight to the other treadle. For the bicycle pump, the pedaler would pedal at the fastest cadence they could. The resistance on pedals was similar to bicycling on a flat paved road. Because the pedaler did not need to follow a live readout, the outlet person controlled all the trial’s timing. The outlet person would start a timer and simultaneously switch the outlet flow from filling an auxiliary bucket to filling the measurement bucket. The outlet person would then stop the timer when the measurement bucket was filled to 20 liters. The same materials (hoses, valves, reservoirs, locations) were used for both the MoneyMaker and bicycle pump tests. The trials were conducted with 3 meters of vertical head. Two pedalers each took 10 trials with the MoneyMaker and 5 trials each with the bicycle pump. We used a Super MoneyMaker, which is an older model than the current MoneyMaker Max treadle pump. The Super MoneyMaker we used produces around 10% less flow than the MoneyMaker Max. The Super MoneyMaker pump was also well worn and may not have decreased efficiency.
DOI: 10.6084/m9.figshare.6378122
title: Model Predictive Control of Marine Vessel Power System by Use of Structure Preserving Model [Simulation code]

description: This script is complimentary to the following conference paper:<i>Dahl, A.R., Thorat, L., and Skjetne, R., 2018. Model Predictive Control of Marine Vessel Power System by Use of Structure Preserving Model. In: Proceedings of the 11th IFAC Control Applications in Marine Systems, Robotics, and Vehicles (CAMS). Opatija, Croatia.</i>Abstract:The paper presents model predictive control (MPC) based on an optimization model drawn from the structure preserving model (SPM) for marine vessel power systems. Three objective functions are proposed to control frequency, transient load and power flow. The objective functions, in addition to a benchmark controller, are applied to a simulated power system.<br>The script sets parameters, runs simulations, determines optimization times, generates plots and tables.<br>Copyright (c) 2018, Andreas Reason DahlAll rights reserved. Published under MIT. See LICENSE.txt.Please include the reference given in reference.txt whenever using this.
DOI: 10.6084/m9.figshare.6378122.v2
title: Model Predictive Control of Marine Vessel Power System by Use of Structure Preserving Model [Simulation code]

description: This script is complimentary to the following conference paper:<i>Dahl, A.R., Thorat, L., and Skjetne, R., 2018. Model Predictive Control of Marine Vessel Power System by Use of Structure Preserving Model. In: Proceedings of the 11th IFAC Control Applications in Marine Systems, Robotics, and Vehicles (CAMS). Opatija, Croatia.</i>Abstract:The paper presents model predictive control (MPC) based on an optimization model drawn from the structure preserving model (SPM) for marine vessel power systems. Three objective functions are proposed to control frequency, transient load and power flow. The objective functions, in addition to a benchmark controller, are applied to a simulated power system.<br>The script sets parameters, runs simulations, determines optimization times, generates plots and tables.<br>Copyright (c) 2018, Andreas Reason DahlAll rights reserved. Published under MIT. See LICENSE.txt.Please include the reference given in reference.txt whenever using this.
DOI: 10.6084/m9.figshare.6378122.v1
title: Model Predictive Control of Marine Vessel Power System by Use of Structure Preserving Model [Simulation code]

description: This script is complimentary to the following conference paper:<i>Dahl, A.R., Thorat, L., and Skjetne, R., 2018. Model Predictive Control of Marine Vessel Power System by Use of Structure Preserving Model. In: Proceedings of the 11th IFAC Control Applications in Marine Systems, Robotics, and Vehicles (CAMS). Opatija, Croatia.</i>Abstract:The paper presents model predictive control (MPC) based on an optimization model drawn from the structure preserving model (SPM) for marine vessel power systems. Three objective functions are proposed to control frequency, transient load and power flow. The objective functions, in addition to a benchmark controller, are applied to a simulated power system.<br>The script sets parameters, runs simulations, determines optimization times, generates plots and tables.<br>Copyright (c) 2018, Andreas Reason DahlAll rights reserved. Published under MIT. See LICENSE.txt.Please include the reference given in reference.txt whenever using this.
DOI: 10.6084/m9.figshare.6378119
title: Multilocus alignment.

description: Multilocus alignment for 31 Lamprolaima rhami individuals and outgroups used in Mr.Bayes analysis and divergence time estimates.
DOI: 10.6084/m9.figshare.6378119.v1
title: Multilocus alignment.

description: Multilocus alignment for 31 Lamprolaima rhami individuals and outgroups used in Mr.Bayes analysis and divergence time estimates.