cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.2542571
title: Ortholog data from the tuatara genome project

description: This record contains orthology predictions based on the Maker gene annotation<br>
of the tuatara (Sphenodon punctatus) and a set of 25 other species, using the<br>
Ensembl methodology.

See http://doi.org/10.5281/zenodo.1489354 for the Maker annotation in GFF<br>
format.

The files all_trees.emf.gz and all_homologies.tsv.gz contain the phylogenetic<br>
trees (all_trees.emf.gz, in the EMF alignment format) and the derived pairwise<br>
orthologies and paralogies (all_homologies.tsv.gz, in tabular format).

From the phylogenetic trees, sets of 1-to-1 orthologues across all 26 species<br>
were extracted (pure_one2one_orthologies.txt).  Sets of orthologues that span<br>
all the species but include paralogues were reduced to 1 copy per species<br>
using gene order conservation and sequence similarity. This extra dataset is<br>
available in promoted_one2one_orthologies.txt

The main Ensembl entry point for tuatara is:<br>
  http://www.ensembl.org/Sphenodon_punctatus/

This work is supported by Ngatiwai iwi, Allan Wilson Centre, University of<br>
Otago, New Zealand Genomics Limited, Illumina, National eScience<br>
Infrastructure (NeSI NZ).
DOI: 10.5281/zenodo.2547850
title: HISMACITY pro Dataset Framework

description: The tool targets small municipalities in Europe. Through the award-winning certification system, the Protocol supports the fulfillment of best practices. Such practices can enhance town attractiveness to counteract excessive land use due to urban growth and to reduce demographic decline in internal areas. The research methodology is grounded on building a dynamic dataset using Geo Big Data, Local Data, Mobile Data (via ICT), and Real Time Data through sensors. This tool aims at building algorithms to calculate indicators measuring the quality standards of integrated interventions. The reason is to reach specific goals within the defined Priority Areas of the Historical Small Smart City. Being highly adaptive, the framework follows Urban Responsive Design principles based on weighted suitability models that can be calibrated by changing the input data and the weights of the linear combinations formula. The research results highlight varying framework data, including the tool’s development procedures and practicality.
DOI: 10.5281/zenodo.2547851
title: HISMACITY pro Dataset Framework

description: The tool targets small municipalities in Europe. Through the award-winning certification system, the Protocol supports the fulfillment of best practices. Such practices can enhance town attractiveness to counteract excessive land use due to urban growth and to reduce demographic decline in internal areas. The research methodology is grounded on building a dynamic dataset using Geo Big Data, Local Data, Mobile Data (via ICT), and Real Time Data through sensors. This tool aims at building algorithms to calculate indicators measuring the quality standards of integrated interventions. The reason is to reach specific goals within the defined Priority Areas of the Historical Small Smart City. Being highly adaptive, the framework follows Urban Responsive Design principles based on weighted suitability models that can be calibrated by changing the input data and the weights of the linear combinations formula. The research results highlight varying framework data, including the tool’s development procedures and practicality.
DOI: 10.17632/h3tdwyv4j2.1
title: Data for: Lateral Crustal Variation and Post-rift Magmatism in the Northeastern South China Sea Determined by Wide-angle Seismic Data

description: In May 2014, a deep seismic survey was carried out in Dongsha area, the northeastern South China Sea. The R/V Shiyan II of the South China Sea Institute of Oceanology provide a four BOLT airguns array with a total nominal volume of 6000 in3 (~98.3L) towed at 10 m depth below the sea surface. When airguns shooting, the refraction survey with 53 OBSs and the reflection survey with 4 channel steamer was carried out in the same time. The single channel seismic data was recorded for 12 s for each trace, with a 2-ms sample interval. Only band-pass filtering (10-20-60-100 Hz) and amplitude correction were applied to each channel’s data. All new acquired single channel seismic data are presented in Datasets01 (PDF format, named dataset01_Single Chanel Seismic Profiles.pdf).The OBS data were converted into SEG-Y and stored in common receiver gathers with a reduced velocity of 6.0 km/s. Band-pass filters (2-3-8-10 Hz) were applied to all OBS data. Only the vertical component or the hydrophone component was chosen for plotting. OBS profiles and rays tracing for NS5 are presented in Datasets02 (PDF format, named dataset02_OBS Profiles and Rays Tracing along NS5.pdf). Rays tracings, rays coverages, and traveltime fittings are presented in Datasets03 (PDF format, named dataset03_Rays Tracing and Traveltime calculations.pdf). Data Set S1: The single channel seismic profiles with plain interpretation. The light blue denote the Tg (lower boundaries of Cenozoic strata). The black lines show normal faults and the orange crosshairs show intruded volcanic bodies. (PDF format) Data Set S2: Seismic phases, travel time picking and travel ray tracing from the OBS profiles. (top in each page) Travel ray tracing and coverage for OBSs. (bottom in each page) The seismic record profile of the vertical component of OBSs, plotted with a reduction velocity of 6 km/s. The short vertical bars with colors denote the manually picked traveltimes, and the thin black lines denote the traveltimes predicted by the final velocity model. (PDF format) Data Set S3: Travel ray tracings, rays coverages (top in each page), and traveltime fittings for each survey line (bottom in each page). The short vertical bars with colors denote the manually picked traveltimes, and the thin black lines denote the traveltimes predicted by the final velocity model. Note the calculated traveltimes fit well with the picked traveltimes. (PDF format)
DOI: 10.17632/n8j9hyj6hk.1
title: Data for: Mammalian Faunas, Ecological Indices, and Machine-Learning Regression for the Purpose of Paleoenvironment Reconstruction in the Miocene of South America

description: Data sets containing presence/absence and richness data for modern mammalian faunas across Central and South America, as well as Australia. Also included is similar data for two fossil localities from the Miocene of South America; the Monkey Beds unit of La Venta, Colombia and the Puesto Estancia La Costa unit from Santa Cruz, Argentina.
DOI: 10.6073/pasta/4fabab3846113a1866b06f1b3d6d52a3
title: Surface carbon, water and energy fluxes measured by eddy covariance at 3 sites within the Alaska Peatlands Experiment and Bonanza Creek Experimental Forest 2013-2016

description: These data are simultaneous and continuous measurements of carbon, water and energy fluxes of the terrestrial landscape.  These fluxes are major regulatory drivers of the boreal climate system and form key linkages and feedbacks between the land surface, the atmosphere and the oceans. At the APEX project site, within Bonanza Creek Experimental Forest, this monitoring is repeated across a chronosequence of permafrost degradation;  the Black Spruce site is an area of stable permafrost with intact black spruce forest (APEX gamma site), the Thermokarst site is an active thermokarst zone with considerable tree mortality (APEX betaSW site), the Fen site is within a stable treeless fen with deep active layer depth (APEX apexcon,low, and ele sites).  The main variables being monitored are the instananeous fluxes of CO2, water vapor and surface energy (shortwave, longwave and net radiation), secondary variables included photosynthetically active radiation (PAR), air and soil temperatures, rainfall, snow depth, soil moisture content, wind direction and speed, and average atmospheric concentrations of CO2 and H2O through the year.  Our site naming scheme is as follows:  1) gamma = Black Spruce site = YF_2472,  2) betaSW = Thermokarst site= BC_5166, 3) (apexcon+apexele+apexlow) = Fen site = BC_FEN
DOI: 10.17632/2rc3jjvhz6.1
title: Data for: The similarity of stable isotope ratio in larval Pacific lamprey tissues and larval nutritional sources when fed a mixed diet

description: These data are stable isotope data as well as basic physical data collected on larval lamprey reared in captivity and their food sources.
DOI: 10.17632/jcf2g7nj4z.1
title: d18O data

description: d18O data from prior studies used within the paper to generate the linear relationship in the paper.
DOI: 10.17632/xjtfsb65yb.1
title: Data for: Pair-bonding, Fatherhood, and the Role of Testosterone: A Meta-Analytic Review

description: Dataset of effects included in meta-analysis from Grebe, Sarafin, Strenth, and Zilioli (2018). Questions can be directed to Nicholas Grebe at nicholas.grebe@gmail.com
DOI: 10.5281/zenodo.2548036
title: R code for modeling indexical fields using MSTs

description: R code for modeling indexical fields using Minimum Spanning Trees
DOI: 10.5281/zenodo.2548037
title: R code for modeling indexical fields using MSTs

description: R code for modeling indexical fields using Minimum Spanning Trees
DOI: 10.6073/pasta/a340601149f1c55fe402188b7578ea69
title: MCR LTER: Coral Reef: Conspecific aggregation mitigation of OA on calcification of the coral Pocillopora verrucosa, JEXBIO 2017

description: The study was conducted in April 2015 in Moorea, French Polynesia, using colonies of Pocillopora verrucosa (~ 4 cm in planar diameter) collected from the outer reef of the north shore at 10–12 m depth.
        Corals were collected from multiple sites separated by 100-200 m on the outer reef to maximize the likelihood that the selected coral colonies were genetically unique, and transferred directly to an acclimation tank. 
        The experiment used a sequential design, in which corals first were incubated under 130 ambient or elevated pCO2 in flow-through tanks, and then were incubated in a recirculating flume under the same pCO2 crossed with a contrast of two colony densities (Fig. S1). Two
        response variables were measured in the light (calcification and net photosynthesis at a single irradiance), two response variables were measured in the dark (aerobic respiration and calcification), and two response variables were calculated from these values (gross
        135 photosynthesis, and calcification integrated over 24 h). Aerobic respiration was measured as oxygen uptake, and net photosynthesis was measured as the flux of oxygen at a constant irradiance, and in both cases, oxygen uptake was given a negative notation and oxygen evolution a positive notation; gross photosynthesis was obtained by subtracting respiration from net photosynthesis. Daily calcification was calculated by integrating calcification in the 
        140 light over 12 h, calcification in the dark over 12 h, and summing the two values assuming each day consisted of 12 h of light at a constant intensity. The six response variables were measured for aggregates of a fixed number (n = 12) of similar-sized colonies placed in the flume in either high or low density arrays. With this design, it was not possible to measure the physiology of individual colonies in each aggregate, and therefore our results describe the
        145 performance corals averaged across each aggregate. 
        These data support the publication Evensen & Edmunds, 
        'Conspecific aggregations mitigte the effects of ocean acidification on calcification of the coral Pocillopora verrucosa', JEXBIO 2017, doi:10.1242/jeb.152488.
      
      
        This material is based upon work supported by the U.S. National Science Foundation under
        Grant No. OCE 16-37396 (and earlier awards) as well as a generous gift from the Gordon and
        Betty Moore Foundation. Research was completed under permits issued by the French Polynesian
        Government (Délégation à la Recherche) and the Haut-commissariat de la République en
        Polynésie Francaise (DTRT) (Protocole d'Accueil 2005-2018). This work represents a
        contribution of the Moorea Coral Reef (MCR) LTER Site.
DOI: 10.5517/ccdc.csd.cc1kmp1x
title: CCDC 1448879: Experimental Crystal Structure Determination

description: Related Article: Hui Xu, Bo-Yu Zhou, Kai Yu, Zhan-Hua Su, Bai-Bin Zhou, Zhong-Min Su|2019|CrystEngComm|21|1242|doi:10.1039/C8CE01769G
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc1kmp2y
title: CCDC 1448880: Experimental Crystal Structure Determination

description: Related Article: Hui Xu, Bo-Yu Zhou, Kai Yu, Zhan-Hua Su, Bai-Bin Zhou, Zhong-Min Su|2019|CrystEngComm|21|1242|doi:10.1039/C8CE01769G
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc1kmp3z
title: CCDC 1448881: Experimental Crystal Structure Determination

description: Related Article: Hui Xu, Bo-Yu Zhou, Kai Yu, Zhan-Hua Su, Bai-Bin Zhou, Zhong-Min Su|2019|CrystEngComm|21|1242|doi:10.1039/C8CE01769G
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc1lg9s4
title: CCDC 1473516: Experimental Crystal Structure Determination

description: Related Article: Adedamola A. Opalade, Carlos J. Gomez-Garcia, Nikolay Gerasimchuk|2019|Cryst.Growth Des.|19|678|doi:10.1021/acs.cgd.8b01262
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc1lg9v6
title: CCDC 1473518: Experimental Crystal Structure Determination

description: Related Article: Adedamola A. Opalade, Carlos J. Gomez-Garcia, Nikolay Gerasimchuk|2019|Cryst.Growth Des.|19|678|doi:10.1021/acs.cgd.8b01262
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc1lg9x8
title: CCDC 1473520: Experimental Crystal Structure Determination

description: Related Article: Adedamola A. Opalade, Carlos J. Gomez-Garcia, Nikolay Gerasimchuk|2019|Cryst.Growth Des.|19|678|doi:10.1021/acs.cgd.8b01262
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc1lg9zb
title: CCDC 1473522: Experimental Crystal Structure Determination

description: Related Article: Adedamola A. Opalade, Carlos J. Gomez-Garcia, Nikolay Gerasimchuk|2019|Cryst.Growth Des.|19|678|doi:10.1021/acs.cgd.8b01262
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.25919/5c49097bf27de
title: Parkes observations for project P789 semester 2018OCTS_07

description: Recently there has been great success at Parkes discovering millisecond pulsars (MSPs), a class that includes some of the most interesting and scientifically valuable pulsars known. In the last few years, we have discovered more than 40 MSPs though the High Time Resolution Universe Survey (P630) and Fermi searches (P675/P814). Here we propose to carry out precision timing of these sources to fully exploit these discoveries. Additionally, we continue to study the most significant of the discoveries from the Parkes Multibeam Pulsar Survey (P268). 
To maximise scientific impact, we have combined the most important sources from various previous proposals into this project, reducing total observation time required and easing the burden on the scheduler.
DOI: 10.25919/5c4909e925913
title: Parkes observations for project P789 semester 2018OCTS_08

description: Recently there has been great success at Parkes discovering millisecond pulsars (MSPs), a class that includes some of the most interesting and scientifically valuable pulsars known. In the last few years, we have discovered more than 40 MSPs though the High Time Resolution Universe Survey (P630) and Fermi searches (P675/P814). Here we propose to carry out precision timing of these sources to fully exploit these discoveries. Additionally, we continue to study the most significant of the discoveries from the Parkes Multibeam Pulsar Survey (P268). 
To maximise scientific impact, we have combined the most important sources from various previous proposals into this project, reducing total observation time required and easing the burden on the scheduler.
DOI: 10.25919/5c490bb42e533
title: Parkes observations for project P789 semester 2018OCTS_09

description: Recently there has been great success at Parkes discovering millisecond pulsars (MSPs), a class that includes some of the most interesting and scientifically valuable pulsars known. In the last few years, we have discovered more than 40 MSPs though the High Time Resolution Universe Survey (P630) and Fermi searches (P675/P814). Here we propose to carry out precision timing of these sources to fully exploit these discoveries. Additionally, we continue to study the most significant of the discoveries from the Parkes Multibeam Pulsar Survey (P268). 
To maximise scientific impact, we have combined the most important sources from various previous proposals into this project, reducing total observation time required and easing the burden on the scheduler.
DOI: 10.6073/pasta/357e8ab96a224d37940504f97f834325
title: Plant aboveground biomass data: BAC: Biodiversity and Climate (Reformatted to ecocomDP Design Pattern)

description: This data package is formatted according to the "ecocomDP", a data package design pattern for ecological community surveys, and data from studies of composition and biodiversity. For more information on the ecocomDP project see https://github.com/EDIorg/ecocomDP/tree/master, or contact EDI https://environmentaldatainitiative.org.

This Level 1 data package was derived from the Level 0 data package found here: https://portal.edirepository.org/nis/mapbrowse?scope=knb-lter-cdr&identifier=386&revision=8

The abstract below was extracted from the Level 0 data package and is included for context:

Climate changes forecast for our region by GCM???s and shifts in biodiversity and composition each have the potential to alter ecosystem functioning; their interactive effects are unknown. The "BAC" experiment is designed to determine the direct and interactive effects of plant species numbers, plant community composition, temperature, and precipitation on 11 productivity, C and N dynamics, stability, and plant, microbe, and insect species abundances in CDR grassland ecosystems.
DOI: 10.25919/5c490ede38ace
title: Parkes observations for project P789 semester 2018OCTS_10

description: Recently there has been great success at Parkes discovering millisecond pulsars (MSPs), a class that includes some of the most interesting and scientifically valuable pulsars known. In the last few years, we have discovered more than 40 MSPs though the High Time Resolution Universe Survey (P630) and Fermi searches (P675/P814). Here we propose to carry out precision timing of these sources to fully exploit these discoveries. Additionally, we continue to study the most significant of the discoveries from the Parkes Multibeam Pulsar Survey (P268). 
To maximise scientific impact, we have combined the most important sources from various previous proposals into this project, reducing total observation time required and easing the burden on the scheduler.
DOI: 10.25919/5c49129fad7d8
title: Parkes observations for project PX501 semester 2018OCTS_30

description: This proposal relates to time purchased by the Chinese Academy of Sciences for Parkes follow-up confirmation and timing of FAST discoveries.  As the observing time has been purchased this proposal (and the related PX500) does not require TAC grading.  The primary reason for submitting a proposal is to ensure an outreach statement and that the proposal is entered into OPAL for the data archive to access. The Chinese team have two time requests. The time scheduled for the first (PX500) will be allocated in blocks of 24 hours and the data will become available in the data archive with an 18 month embargo period.  The second type of time (relating to this proposal) will be scheduled in shorter blocks and the data archived with a 10 year embargo.
DOI: 10.5517/ccdc.csd.cc1lgb0d
title: CCDC 1473523: Experimental Crystal Structure Determination

description: Related Article: Adedamola A. Opalade, Carlos J. Gomez-Garcia, Nikolay Gerasimchuk|2019|Cryst.Growth Des.|19|678|doi:10.1021/acs.cgd.8b01262
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc1lgb1f
title: CCDC 1473524: Experimental Crystal Structure Determination

description: Related Article: Adedamola A. Opalade, Carlos J. Gomez-Garcia, Nikolay Gerasimchuk|2019|Cryst.Growth Des.|19|678|doi:10.1021/acs.cgd.8b01262
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc1lhlm9
title: CCDC 1474751: Experimental Crystal Structure Determination

description: Related Article: Hui Xu, Bo-Yu Zhou, Kai Yu, Zhan-Hua Su, Bai-Bin Zhou, Zhong-Min Su|2019|CrystEngComm|21|1242|doi:10.1039/C8CE01769G
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.