cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5809656
title: Look-ahead dispatch for integrated electrical and gas systems

description: Data of a modified IEEE 39-node power system and a Belgian 20-node gas system for stochastic look-ahead dispatch has been included.
DOI: 10.6084/m9.figshare.5809656.v1
title: Look-ahead dispatch for integrated electrical and gas systems

description: Data of a modified IEEE 39-node power system and a Belgian 20-node gas system for stochastic look-ahead dispatch has been included.
DOI: 10.6084/m9.figshare.5809653
title: Supplementary Data for A Damped Oscillator Imposes Temporal Order On Posterior Gap Gene Expression In Drosophila

description: Raw data used in "A Damped Oscillator Imposes Temporal Order on Posterior Gap Gene Expression in <em>Drosophila</em>" by Verd B, Clark E, Wotton KR, Janssens H, Jiménez-Guri E, Crombach A & Jaeger J (PLOS Biology 2018).Data Record 1Images and extracted expression profiles of <em>Drosophila</em> wildtype embryos stained for mRNA expression of the gap gene <em>giant</em> (<em>gt</em>). These data are also available via http://superfly.crg.eu."*prof.dat" files contain average Red, Green, and Blue pixel intensity values of a 10% band along the anterior--posterior axis of the corresponding embryo. We refer to Crombach et al. (PLoS One 2012) for details on the placement of the band and the extraction of RGB values.Data Record 2Images and extracted expression profiles of <em>Drosophila</em> embryos derived from <em>caudal</em> (<em>cad</em>) germline clones stained for mRNA expression of the gap gene <em>giant</em> (<em>gt</em>). These embryos are homozygous mutant for maternal <em>cad</em>, but carry one paternal zygotic copy of <em>cad</em>.See Data Record 1 for details on file formats.Data Record 3"{wt|glc}_single_boundary_data.csv" files contain extracted positions of <em>gt</em> expression domain boundaries from individual embryos (WT = wildtype, GLC = embryos derived from <em>cad</em> germline clones)."{wt|glc}_integrated_boundary_data.csv" files contain averaged positions of <em>gt</em> expression domain boundaries integrated across embryos. We provide mean, median, standard deviation (stdev), and median absolute deviation (mad).This data record contains data for <em>gt</em> expression domain boundaries in the trunk region of the embryo (35--90% A-P position).
DOI: 10.6084/m9.figshare.5809617
title: Dataset analysing the impact of mandatory Data Availability Statements at Nature journals

description: This dataset underpins research undertaken by the Data Publishing team at Springer Nature which analysed the impact of Data Availability Statements on Nature journal editors, and how researchers choose to share their data.<br>Mandatory Data Availability Statements were introduced by Nature journals in 2016 which require researchers to state how their data can be accessed.<br>The dataset comprises of a single Excel file, which include the journal title, unique ID for each published article, subject areas, and the estimated time required to include a Data Availability Statement as reported by the journals' editorial staff. The median time per journal is also calculated.<br>The full text of the Data Availability statement is included, and the statements are coded according to the data sharing method described.<br>This dataset supports a paper that has been peer reviewed and accepted for presentation at the International Digital Curation Conference 2018. The paper has been submitted to the International Journal of Digital Curation. At the time of dataset release the full paper is available as a preprint in BioRxiv.<br>
DOI: 10.6084/m9.figshare.5809617.v1
title: Dataset analysing the impact of mandatory Data Availability Statements at Nature journals

description: This dataset underpins research undertaken by the Data Publishing team at Springer Nature which analysed the impact of Data Availability Statements on Nature journal editors, and how researchers choose to share their data.<br>Mandatory Data Availability Statements were introduced by Nature journals in 2016 which require researchers to state how their data can be accessed.<br>The dataset comprises of a single Excel file, which include the journal title, unique ID for each published article, subject areas, and the estimated time required to include a Data Availability Statement as reported by the journals' editorial staff. The median time per journal is also calculated.<br>The full text of the Data Availability statement is included, and the statements are coded according to the data sharing method described.<br>This dataset supports a paper that has been peer reviewed and accepted for presentation at the International Digital Curation Conference 2018. The paper has been submitted to the International Journal of Digital Curation. At the time of dataset release the full paper is available as a preprint in BioRxiv.<br>
DOI: 10.6084/m9.figshare.5809524
title: Data for "Pyrodiversity interacts with rainfall to increase bird and mammal richness in African savannas" DOI 10.1111/ele.12921

description: These files contain the data analysed in the paper Pyrodiversity interacts with rainfall to increase bird and mammal richness in African savannas" DOI 10.1111/ele.12921 by the same authors, published in Ecology Letters in 2018. The files detail the richness of savanna dwelling bird and mammal species in 1/2 degree grid cells across Africa. Fire data (including the pyrodiversity scores used) are available from http://dx.doi.org/10.5061/dryad.26sb5 . A full list of the bird and mammal species included and the sources of the raw distribution data is provided in supplementary material for the paper.<br>All files are geotiffs. savBirds.tif contains the bird richness pattern, BirdsTop25.tif the richness of the commonest 25% of species, BirdsBot25.tif the richness of the rarest 25% of species, richness patterns for mammals are in files mamm.richness.tif (all species), rich.sav.mammlight.tif (small mammals), rich.sav.mammheavy.tif (large mammals), rich.bats.tif (bats), 02.mamm.top25.new.tif (common mammals), 03.mamm.bot25.new.tif (rare mammals).
DOI: 10.6084/m9.figshare.5809509
title: Combining morphology and molecular data to improve <i>Drosophila paulistorum</i> (Diptera, Drosophilidae) taxonomic status

description: The <i>willistoni</i> species subgroup has been the subject of several studies since the latter half of the past century and is considered a Neotropical model for evolutionary studies, given the many levels of reproductive isolation and different evolutionary stages occurring within them. Here we present for the first time a phylogenetic reconstruction combining morphological characters and molecular data obtained from 8 gene fragments (C<i>OI, COII, Cytb, Adh, Ddc, Hb, kl-3</i> and <i>per</i>). Some relationships were incongruent when comparing morphological and molecular data. Also, morphological data presented some unresolved polytomies, which could reflect the very recent divergence of the subgroup. The total evidence phylogenetic reconstruction presented well-supported relationships and summarized the results of all analyses. The diversification of the <i>willistoni</i> subgroup began about 7.3 Ma with the split of <i>D. insularis</i> while <i>D.paulistorum</i> complex has a much more recent diversification history, which began about 2.1 Ma and apparently has not completed the speciation process, since the average time to sister species separation is one million years, and some entities of the <i>D. paulistorum</i> complex diverge between 0.3 and 1 Ma. Based on the obtained data, we propose the categorization of the former “semispecies” of <i>D. paulistorum</i> as a subspecies and describe the subspecies <i>D. paulistorum amazonian, D. paulistorum andeanbrazilian, D. paulistorum centroamerican, D. paulistorum interior, D. paulistorum orinocan</i> and <i>D. paulistorum transitional.</i>
DOI: 10.6084/m9.figshare.5809509.v2
title: Combining morphology and molecular data to improve <i>Drosophila paulistorum</i> (Diptera, Drosophilidae) taxonomic status

description: The <i>willistoni</i> species subgroup has been the subject of several studies since the latter half of the past century and is considered a Neotropical model for evolutionary studies, given the many levels of reproductive isolation and different evolutionary stages occurring within them. Here we present for the first time a phylogenetic reconstruction combining morphological characters and molecular data obtained from 8 gene fragments (C<i>OI, COII, Cytb, Adh, Ddc, Hb, kl-3</i> and <i>per</i>). Some relationships were incongruent when comparing morphological and molecular data. Also, morphological data presented some unresolved polytomies, which could reflect the very recent divergence of the subgroup. The total evidence phylogenetic reconstruction presented well-supported relationships and summarized the results of all analyses. The diversification of the <i>willistoni</i> subgroup began about 7.3 Ma with the split of <i>D. insularis</i> while <i>D.paulistorum</i> complex has a much more recent diversification history, which began about 2.1 Ma and apparently has not completed the speciation process, since the average time to sister species separation is one million years, and some entities of the <i>D. paulistorum</i> complex diverge between 0.3 and 1 Ma. Based on the obtained data, we propose the categorization of the former “semispecies” of <i>D. paulistorum</i> as a subspecies and describe the subspecies <i>D. paulistorum amazonian, D. paulistorum andeanbrazilian, D. paulistorum centroamerican, D. paulistorum interior, D. paulistorum orinocan</i> and <i>D. paulistorum transitional.</i>
DOI: 10.6084/m9.figshare.5809509.v1
title: <b>Combining morphology and molecular data to improve <i>Drosophila paulistorum</i> (Diptera, Drosophilidae) taxonomic status</b>

description: The <i>willistoni</i> species subgroup has been the subject of several studies since the latter half of the past century and is considered a Neotropical model for evolutionary studies, given the many levels of reproductive isolation and different evolutionary stages occurring within them. Here we present for the first time a phylogenetic reconstruction combining morphological characters and molecular data obtained from 8 gene fragments (C<i>OI, COII, Cytb, Adh, Ddc, Hb, kl-3</i> and <i>per</i>). Some relationships were incongruent when comparing morphological and molecular data. Also, morphological data presented some unresolved polytomies, which could reflect the very recent divergence of the subgroup. The total evidence phylogenetic reconstruction presented well-supported relationships and summarized the results of all analyses. The diversification of the <i>willistoni</i> subgroup began about 7.3 Ma with the split of <i>D. insularis</i> while <i>D.paulistorum</i> complex has a much more recent diversification history, which began about 2.1 Ma and apparently has not completed the speciation process, since the average time to sister species separation is one million years, and some entities of the <i>D. paulistorum</i> complex diverge between 0.3 and 1 Ma. Based on the obtained data, we propose the categorization of the former “semispecies” of <i>D. paulistorum</i> as a subspecies and describe the subspecies <i>D. paulistorum amazonian</i>, <i>D. paulistorum andeanbrazilian, D. paulistorum centroamerican, D. paulistorum interior, D. paulistorum orinocan</i> and <i>D. paulistorum transitional.</i>
DOI: 10.6084/m9.figshare.5809491
title: Metabolite BridgeDb ID Mapping Database (20180111)

description: BridgeDb ID mapping database for metabolites, using HMDB 4.0 (11 January 2018), ChEBI 159, and Wikidata (11 January 2018) as data sources. No significant changes but just updated data.<br>If you use this data in your research, please cite this data set, and the BridgeDb, ChEBI, and HMDB articles.
DOI: 10.6084/m9.figshare.5809491.v1
title: Mapping file 20180111

description: BridgeDb ID mapping database for metabolites, using HMDB 4.0 (11 January 2018), ChEBI 159, and Wikidata (11 January 2018) as data sources. No significant changes but just updated data.<br>If you use this data in your research, please cite this data set, and the BridgeDb, ChEBI, and HMDB articles.
DOI: 10.6084/m9.figshare.5809491.v3
title: Metabolite BridgeDb ID Mapping Database (20180111)

description: BridgeDb ID mapping database for metabolites, using HMDB 4.0 (11 January 2018), ChEBI 159, and Wikidata (11 January 2018) as data sources. No significant changes but just updated data.<br>If you use this data in your research, please cite this data set, and the BridgeDb, ChEBI, and HMDB articles.
DOI: 10.6084/m9.figshare.5809491.v2
title: Metabolite BridgeDb ID Mapping Database (20180111)

description: BridgeDb ID mapping database for metabolites, using HMDB 4.0 (11 January 2018), ChEBI 159, and Wikidata (11 January 2018) as data sources. No significant changes but just updated data.<br>If you use this data in your research, please cite this data set, and the BridgeDb, ChEBI, and HMDB articles.
DOI: 10.6084/m9.figshare.5809449
title: ‘Sound, listening and the queer art of history’

description: This article explores the role of the museum audioguide as a relational, sensorially driven mode of making and communicating diverse histories. It argues that the artist Benny Nemerofsky Ramsay’s use of voice, storytelling, gesture, movement, and sound helps create conditions for empathic listening, bridging the past and present and widening the spectrum of possibilities for new and diverse knowledge formations. This use of aesthetic and historical registers, the blending of fact with fiction, stresses multivalence and possibility over a singular narrative truth. The act of listening promotes a shared though subjective experience, one that challenges the exclusionary function of traditional museum displays, which turn on objective, documentary claims, while actually reflecting a hegemonic vision of the past. In this way, Nemerofsky offers a queer historical practice for how we might (re)present the diversity of past pasts.
DOI: 10.6084/m9.figshare.5809449.v1
title: ‘Sound, listening and the queer art of history’

description: This article explores the role of the museum audioguide as a relational, sensorially driven mode of making and communicating diverse histories. It argues that the artist Benny Nemerofsky Ramsay’s use of voice, storytelling, gesture, movement, and sound helps create conditions for empathic listening, bridging the past and present and widening the spectrum of possibilities for new and diverse knowledge formations. This use of aesthetic and historical registers, the blending of fact with fiction, stresses multivalence and possibility over a singular narrative truth. The act of listening promotes a shared though subjective experience, one that challenges the exclusionary function of traditional museum displays, which turn on objective, documentary claims, while actually reflecting a hegemonic vision of the past. In this way, Nemerofsky offers a queer historical practice for how we might (re)present the diversity of past pasts.
DOI: 10.6084/m9.figshare.5809386
title: Evaluation of the impact of reducing national emissions of SO2 and metals in Poland on background pollution using a bioindication method

description: The measurements were performed in the Chojnowskie Forests, a region recognized as a background area for central Poland. <br>Changes in environmental pollution by S, Cd, Cu, Pb and Zn in 2006–2014 were evaluated using a bioindication method. This method was based on measurements of pollutants in Scots pine (Pinus sylvestris L.) needles.<br><br><br>The datasets contains:<br><br>Data set with content of S, Cd, Cu, Pb and Zn in Scots pine needles in sampling points with geographical coordinates (shp and kml files) are avalable.
DOI: 10.6084/m9.figshare.5809386.v1
title: Evaluation of the impact of reducing national emissions of SO2 and metals in Poland on background pollution using a bioindication method

description: The measurements were performed in the Chojnowskie Forests, a region recognized as a background area for central Poland. <br>Changes in environmental pollution by S, Cd, Cu, Pb and Zn in 2006–2014 were evaluated using a bioindication method. This method was based on measurements of pollutants in Scots pine (Pinus sylvestris L.) needles.<br><br><br>The datasets contains:<br><br>Data set with content of S, Cd, Cu, Pb and Zn in Scots pine needles in sampling points with geographical coordinates (shp and kml files) are avalable.
DOI: 10.6084/m9.figshare.5809365
title: Table S1 from The chronology of reindeer hunting on Norway's highest ice patches

description: Radiocarbon dates and associated data for artefacts from ice patches in Oppland. Note that two horse bones are likely to be from the same animal; their radiocarbon assays have been combined, leaving a sample of 153 independent dates.
DOI: 10.6084/m9.figshare.5809365.v1
title: Table S1 from The chronology of reindeer hunting on Norway's highest ice patches

description: Radiocarbon dates and associated data for artefacts from ice patches in Oppland. Note that two horse bones are likely to be from the same animal; their radiocarbon assays have been combined, leaving a sample of 153 independent dates.
DOI: 10.6084/m9.figshare.5809323
title: Feeding assay dataNo-choice feeding assay - Ampithoe valida on Gracilaria vermiculophylla

description: Results of no-choice feeding assays using the amphipod Ampithoe valida when offered a thallus of native or introduced populations of the red seaweed Gracilaria vermiculophylla. <br>Plant_IDControl_Initial_Weight_mgControl_Final_Weight_mgControl_Amphipod_Size_mmNo.Choice_Initial_Weight_mgNo.Choice_Final_Weight_mgNo.Choice_Amphipod_Size_mmorder - to sorttrt.ctrl.ratio - ratio of treatment to autogenic control mg.wm - consumption mg.wm.corr - corrected for amphipod lengthdm.wm.ratio - amount of drymass to wetness ratioafdm.wm.ratio - amount of ash-free-dry-mass to wetness ratio<br><br>
DOI: 10.6084/m9.figshare.5809323.v1
title: Feeding assay data

description: Results of no-choice feeding assays using the amphipod Ampithoe valida when offered a thallus of native or introduced populations of the red seaweed Gracilaria vermiculophylla. <br>Plant_IDControl_Initial_Weight_mgControl_Final_Weight_mgControl_Amphipod_Size_mmNo.Choice_Initial_Weight_mgNo.Choice_Final_Weight_mgNo.Choice_Amphipod_Size_mmorder - to sorttrt.ctrl.ratio - ratio of treatment to autogenic control mg.wm - consumption mg.wm.corr - corrected for amphipod lengthdm.wm.ratio - amount of drymass to wetness ratioafdm.wm.ratio - amount of ash-free-dry-mass to wetness ratio<br><br>
DOI: 10.6084/m9.figshare.5809281
title: RAW DATA from Imitation of novel conspecific and human speech sounds in the killer whale (<i>Orcinus orca</i>)

description: RAW DATA Killer Whale Vocal Imitation Z. Abramson et al RSPB­2017­2171
DOI: 10.6084/m9.figshare.5809281.v1
title: RAW DATA from Imitation of novel conspecific and human speech sounds in the killer whale (<i>Orcinus orca</i>)

description: RAW DATA Killer Whale Vocal Imitation Z. Abramson et al RSPB­2017­2171
DOI: 10.6084/m9.figshare.5809272
title: Suplementary materials for the 2017JB013962

description: This fileset includes figures S1 to S4, and a KML file including the detailed map of the 1905 T-B EQs surface rupture. To open the KML file, change the (.txt) extension of the file name to (.kml).
DOI: 10.6084/m9.figshare.5809206
title: Table S2 from Identification of allosteric disulfides from labile bonds in X-ray structures

description: Excel spreadsheet of labile disulphide bonds present in some molecules of a protein crystal but absent in others (same PDB, sheet 1), or present in some structures of a protein but absent in others (different PDB, sheet 2).
DOI: 10.6084/m9.figshare.5809206.v1
title: Table S2 from Identification of allosteric disulfides from labile bonds in X-ray structures

description: Excel spreadsheet of labile disulphide bonds present in some molecules of a protein crystal but absent in others (same PDB, sheet 1), or present in some structures of a protein but absent in others (different PDB, sheet 2).
DOI: 10.6084/m9.figshare.5809200
title: Table S1 from Identification of allosteric disulfides from labile bonds in X-ray structures

description: Excel spreadsheet of unique disulphides in a culled set of X-ray structures described by G. Wang and R. Dunbrack, Jr. (file pdbaanr).
DOI: 10.6084/m9.figshare.5809200.v1
title: Table S1 from Identification of allosteric disulfides from labile bonds in X-ray structures

description: Excel spreadsheet of unique disulphides in a culled set of X-ray structures described by G. Wang and R. Dunbrack, Jr. (file pdbaanr).
DOI: 10.6084/m9.figshare.5809101
title: Remotely sensed agricultural modification improves prediction of suitable habitat for a threatened lizard

description: The geographical distribution of a species is limited by factors such as climate, resources, disturbances and species interactions. Environmental niche models attempt to encapsulate these limits and represent them spatially but do not always incorporate disturbance factors. We constructed MaxEnt models derived from a remotely sensed vegetation classification with, and without, an agricultural modification variable. Including agricultural modification improved model performance and led to more sites with native vegetation and fewer sites with exotic or degraded native vegetation being predicted suitable for A. <i>parapulchella</i>. Analysis of a relatively well-surveyed sub-area indicated that including agricultural modification led to slightly higher omission rates but markedly fewer likely false positives. Expert assessment of the model based on mapped habitat also suggested that including agricultural modification improved predictions. We estimate that agricultural modification has led to the destruction or decline of approximately 30–35% of the most suitable habitat in the sub-area studied and approximately 20–25% of suitable habitat across the entire study area, located in the Australian Capital Territory, Australia. Environmental niche models for a range of species, particularly habitat specialists, are likely to benefit from incorporating agricultural modification. Our findings are therefore relevant to threatened species planning and management, particularly at finer spatial scales.
DOI: 10.6084/m9.figshare.5809101.v1
title: Remotely sensed agricultural modification improves prediction of suitable habitat for a threatened lizard

description: The geographical distribution of a species is limited by factors such as climate, resources, disturbances and species interactions. Environmental niche models attempt to encapsulate these limits and represent them spatially but do not always incorporate disturbance factors. We constructed MaxEnt models derived from a remotely sensed vegetation classification with, and without, an agricultural modification variable. Including agricultural modification improved model performance and led to more sites with native vegetation and fewer sites with exotic or degraded native vegetation being predicted suitable for A. <i>parapulchella</i>. Analysis of a relatively well-surveyed sub-area indicated that including agricultural modification led to slightly higher omission rates but markedly fewer likely false positives. Expert assessment of the model based on mapped habitat also suggested that including agricultural modification improved predictions. We estimate that agricultural modification has led to the destruction or decline of approximately 30–35% of the most suitable habitat in the sub-area studied and approximately 20–25% of suitable habitat across the entire study area, located in the Australian Capital Territory, Australia. Environmental niche models for a range of species, particularly habitat specialists, are likely to benefit from incorporating agricultural modification. Our findings are therefore relevant to threatened species planning and management, particularly at finer spatial scales.