cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.4910267.v1
title: Wiley Researcher Political Perceptions 2017

description: The Wiley Researcher Political Perceptions Survey was undertaken to understand researcher perceptions of the impact of recent political shifts on global connectedness, international collaboration, and the free communication of scientific results. <br>The data is being shared in an effort to advance the global conversation around the impacts of political shifts on the rapidly evolving landscape of scientific research and communications.<br>
DOI: 10.6084/m9.figshare.4910273.v1
title: StoolSAMdata_Submission_clean_18-04-2017.csv

description: Baseline data in CSV format for StoolSAM study by Voskuijl et al.
DOI: 10.6084/m9.figshare.4910210
title: II.4 - Agrogenom first integration of reconciliation scenarios

description: 10,774 annotated gene trees in phyloXML and serialized Python oblect (pickle) formats, and associated database records describing the duplication and transfer events inferred in these reconciled gene trees.<br>Obtained using Python script rec_to_db.py from pre-reconciled gene trees (see item #II.2) and the results of Prunier HGT inference on unicopy subtrees (see item #II.3). <br>Prunier-inferred transfers are mapped back to the full gene tree, and reconciliations are completed using taxonomic incongruency scoring and DL parsimony to assign transfer or duplication events to the relevant nodes
DOI: 10.6084/m9.figshare.4910210.v1
title: II.4 - Agrogenom first integration of reconciliation scenarios

description: 10,774 annotated gene trees in phyloXML and serialized Python oblect (pickle) formats, and associated database records describing the duplication and transfer events inferred in these reconciled gene trees.<br>Obtained using Python script rec_to_db.py from pre-reconciled gene trees (see item #II.2) and the results of Prunier HGT inference on unicopy subtrees (see item #II.3). <br>Prunier-inferred transfers are mapped back to the full gene tree, and reconciliations are completed using taxonomic incongruency scoring and DL parsimony to assign transfer or duplication events to the relevant nodes
DOI: 10.6084/m9.figshare.4910177
title: II.3 - Agrogenom detection of HGT from statistically supported topological conflict between gene and species trees using Prunier

description: 38,165 Prunier output filesObtained using Prunier 2.0 FastForward with bootstrap support threshold of 0.90 applied to the unicopy subtrees as extracted in item #II.2.
DOI: 10.6084/m9.figshare.4910174
title: Data from: Sexual selection, speciation and constraints on geographical range overlap in birds. Ecology Letters.

description: Dataset 1 and 2 from Cooney <i>et al.</i> (2017) Sexual selection, speciation and constraints on geographical range overlap in birds. Ecology Letters.
DOI: 10.6084/m9.figshare.4910165
title: Data for: Confidence intervals for normalised citation counts: Do they delimit underlying research capability?

description: Data for the figures used in the paper: Confidence intervals for normalised citation counts: Do they delimit underlying research capability?
DOI: 10.6084/m9.figshare.4910174.v1
title: Data from: Sexual selection, speciation and constraints on geographical range overlap in birds. Ecology Letters.

description: Dataset 1 and 2 from Cooney <i>et al.</i> (2017) Sexual selection, speciation and constraints on geographical range overlap in birds. Ecology Letters.
DOI: 10.6084/m9.figshare.4910162
title: Developing alternative income generation activities reduces forest dependency of the poor and enhances their livelihoods: the case of the Chunati Wildlife Sanctuary, Bangladesh

description: Chunati Wildlife Sanctuary (CWS) has undergone a number of biodiversity restoration programs in the last three decades. Yet, its biodiversity degradation could not be fully checked due to people’s tremendous forest-dependency for their livelihoods. A livelihood support program was implemented from January 2012 to June 2015 aiming to reduce households’ forest-dependency through the development of Alternative Income Generating Activities (AIGAs). The treatment households were classed into regular and model households. While both regular and model households got financial and technical supports to start AIGAs, model households also got integrated production and monitoring supports. There was a control group with similar socioeconomic conditions without any project support. The Difference in Difference method was employed to assess the effectiveness of this program. The net monthly income from AIGA sources increased by BDT 2816 and BDT 1932 for regular and model households, respectively. In other non-forestry sources, these figures were BDT 8965 and BDT 8074, respectively. On the contrary, monthly fuelwood collection decreased by 227 kg for a regular household and 251 kg for a model household. We conclude that the livelihood program has significantly increased households’ total income through non-forestry sources while reducing their dependency on forest resources.
DOI: 10.6084/m9.figshare.4910156
title: Knowledge, attitude and behavior of farmers in farmland conservation in China: an application of the structural equation model

description: We analyzed the relationship between the conservation behavior of farmers and their environmental attitude and knowledge, whilst controlling for exogenous socio-economic factors. We employed the structural equation model with cross-sectional data from 442 farmers from the Guanzhong Plain of China. Results showed that local farmers generally possessed a positive environmental attitude and undertook considerable conservation action. Conservation behavior was directly affected by environmental attitude and indirectly by environmental knowledge (via attitude). Social networks, farm size, land rights, age and incentives were significant exogenous explanatory variables. Thus, understanding the importance of socio-behavioral characteristics, including the environmental attitude and knowledge of farmers, is important for the development of farmland conservation policies. Specifically, farmers in this area were found to significantly depend on each other for information on farmland conservation practices. Thus, role model farmer discussions, dissemination of environmentally friendly techniques via social networks and the rewarding of environmentally friendly behavior among farmers should be used to encourage ongoing restoration endeavors, and thereby help mitigate environmental degradation.
DOI: 10.6084/m9.figshare.4910165.v1
title: Data for: Confidence intervals for normalised citation counts: Do they delimit underlying research capability?

description: Data for the figures used in the paper: Confidence intervals for normalised citation counts: Do they delimit underlying research capability?
DOI: 10.6084/m9.figshare.4910141
title: Appendix 1 - A study of the structural properties of sites modified by the O-linked 6-N-acetylglucosamine transferase

description: Sites' properties for SS132 dataset. List of all entries in the SS132 dataset. PDB id, PDB identifier; Chain, PDB chain; Position, residue position within the chain; Cluster id, cluster id in Figure 4. B-factor, site mean C-alpha chain standardised B-factor, RSA, site average relative solvent accessibility; SS, DSSP secondary structure assignments.
DOI: 10.6084/m9.figshare.4910162.v1
title: Developing alternative income generation activities reduces forest dependency of the poor and enhances their livelihoods: the case of the Chunati Wildlife Sanctuary, Bangladesh

description: Chunati Wildlife Sanctuary (CWS) has undergone a number of biodiversity restoration programs in the last three decades. Yet, its biodiversity degradation could not be fully checked due to people’s tremendous forest-dependency for their livelihoods. A livelihood support program was implemented from January 2012 to June 2015 aiming to reduce households’ forest-dependency through the development of Alternative Income Generating Activities (AIGAs). The treatment households were classed into regular and model households. While both regular and model households got financial and technical supports to start AIGAs, model households also got integrated production and monitoring supports. There was a control group with similar socioeconomic conditions without any project support. The Difference in Difference method was employed to assess the effectiveness of this program. The net monthly income from AIGA sources increased by BDT 2816 and BDT 1932 for regular and model households, respectively. In other non-forestry sources, these figures were BDT 8965 and BDT 8074, respectively. On the contrary, monthly fuelwood collection decreased by 227 kg for a regular household and 251 kg for a model household. We conclude that the livelihood program has significantly increased households’ total income through non-forestry sources while reducing their dependency on forest resources.
DOI: 10.6084/m9.figshare.4910177.v1
title: II.3 Agrogenom detection of HGT from statistically supported topological conflict between gene and species trees using Prunier

description: 38,165 Prunier output filesObtained using Prunier 2.0 FastForward with bootstrap support threshold of 0.90 applied to the unicopy subtrees as extracted in item #II.2.
DOI: 10.6084/m9.figshare.4910156.v1
title: Knowledge, attitude and behavior of farmers in farmland conservation in China: an application of the structural equation model

description: We analyzed the relationship between the conservation behavior of farmers and their environmental attitude and knowledge, whilst controlling for exogenous socio-economic factors. We employed the structural equation model with cross-sectional data from 442 farmers from the Guanzhong Plain of China. Results showed that local farmers generally possessed a positive environmental attitude and undertook considerable conservation action. Conservation behavior was directly affected by environmental attitude and indirectly by environmental knowledge (via attitude). Social networks, farm size, land rights, age and incentives were significant exogenous explanatory variables. Thus, understanding the importance of socio-behavioral characteristics, including the environmental attitude and knowledge of farmers, is important for the development of farmland conservation policies. Specifically, farmers in this area were found to significantly depend on each other for information on farmland conservation practices. Thus, role model farmer discussions, dissemination of environmentally friendly techniques via social networks and the rewarding of environmentally friendly behavior among farmers should be used to encourage ongoing restoration endeavors, and thereby help mitigate environmental degradation.
DOI: 10.6084/m9.figshare.4910141.v2
title: Appendix 1 - A study of the structural properties of sites modified by the O-linked 6-N-acetylglucosamine transferase

description: Sites' properties for SS132 dataset. List of all entries in the SS132 dataset. PDB id, PDB identifier; Chain, PDB chain; Position, residue position within the chain; Cluster id, cluster id in Figure 4. B-factor, site mean C-alpha chain standardised B-factor, RSA, site average relative solvent accessibility; SS, DSSP secondary structure assignments.
DOI: 10.6084/m9.figshare.4910099
title: Combining Disparate Data Sources for Improved Poverty Prediction and Mapping - Environment Data

description: Environmental Data from the paper 'Combining Disparate Data Sources for Improved Poverty Prediction and Mapping' (Pokhriyal and Jacques, 2017, www.pnas.org/cgi/doi/10.1073/pnas.1700319114).<br>For data sources, see Table S1 in the supplementray information provided with the paper.<br>LEGEND<br> LC11 Post-flooding or irrigated croplands (or aquatic) LC14 Rainfed croplands LC20 Mosaic cropland (50-70%) / vegetation (grassland/shrubland/forest) (20-50%) LC30 Mosaic vegetation (grassland/shrubland/forest) (50-70%) / cropland (20-50%) LC40 Closed to open (&gt;15%) broadleaved evergreen or semi-deciduous forest (&gt;5m) LC50 Closed (&gt;40%) broadleaved deciduous forest (&gt;5m) LC60 Open (15-40%) broadleaved deciduous forest/woodland (&gt;5m) LC70 Closed (&gt;40%) needleleaved evergreen forest (&gt;5m) LC90 Open (15-40%) needleleaved deciduous or evergreen forest (&gt;5m) LC100 Closed to open (&gt;15%) mixed broadleaved and needleleaved forest (&gt;5m) LC110 Mosaic forest or shrubland (50-70%) / grassland (20-50%) LC120 Mosaic grassland (50-70%) / forest or shrubland (20-50%) LC130 Closed to open (&gt;15%) (broadleaved or needleleaved, evergreen or deciduous) shrubland (&lt;5m) LC140 Closed to open (&gt;15%) herbaceous vegetation (grassland, savannas or lichens/mosses) LC150 Sparse (&lt;15%) vegetation LC160 Closed to open (&gt;15%) broadleaved forest regularly flooded (semi-permanently or temporarily) - Fresh or brackish water LC170 Closed (&gt;40%) broadleaved forest or shrubland permanently flooded - Saline or brackish water LC180 Closed to open (&gt;15%) grassland or woody vegetation on regularly flooded or waterlogged soil - Fresh, brackish or saline water LC190 Artificial surfaces and associated areas (Urban areas &gt;50%) LC200 Bare areas LC210 Water bodies LC220 Permanent snow and ice LC230 No data (burnt areas, clouds,…) <br> <br> Bio_10 Mean Temperature of Warmest Quarter Bio_11 Mean Temperature of Coldest Quarter Bio_12 Annual Precipitation Bio_13 Precipitation of Wettest Month Bio_14 Precipitation of Driest Month Bio_15 Precipitation Seasonality (Coefficient of Variation) Bio_16 Precipitation of Wettest Quarter Bio_17 Precipitation of Driest Quarter Bio_18 Precipitation of Warmest Quarter Bio_19 Precipitation of Coldest Quarter Bio_1 Annual Mean Temperature Bio_2 Mean Diurnal Range (Mean of monthly (max temp - min temp)) Bio_3 Isothermality (BIO2/BIO7) (* 100) Bio_5 Max Temperature of Warmest Month Bio_6 Min Temperature of Coldest Month Bio_7 Temperature Annual Range (BIO5-BIO6) Bio_8 Mean Temperature of Wettest Quarter Bio_9 Mean Temperature of Driest Quarter
DOI: 10.6084/m9.figshare.4910096
title: Lowered PON1 activities are strongly associated with depression and bipolar disorder, recurrence of (hypo)mania and depression, increased disability and lowered quality of life

description: <b>Objectives:</b> Mood disorders (MDs) frequently co-exist with cardiovascular disease (CVD) and immune-inflammatory and oxidative stress are important shared pathophysiological pathways. Even though there has been an extensive investigation of the enzyme paraoxonase 1 (PON1) as a biomarker of susceptibility for CVD, there are few reports studying PON1 in MDs. The aim of this study was to determine the association between PON1 activities as well as functional genotypes and MD diagnosis, clinical characteristics and outcomes. <b>Methods:</b> PON1 activities and functional genotypes were assayed in 58 bipolar disorder (BD) and 32 major depressed patients (MDD) and compared with 59 controls. <b>Results:</b> Our findings show significantly lower PON1 total and CMPAase activities in MDs, which are partly related to the number of previous depressive and manic episodes. Lowered CMPAase activity is associated with a worse outcome of MDs as indicated by lowered quality of life (WHOQoL-BREF scale) and increased disability in the Sheeham scale. <b>Conclusions:</b> We hypothesise that lowered PON1 total and CMPAase activities may play a role in the pathophysiology of MDs by lowering antioxidant defences thereby increasing the risk of lipid peroxidation and inflammation; lowered inhibition of quorum-sensing lactones thereby increasing bacterial proliferation; and attenuated homocysteine thiolactone catabolism which may trigger immune-inflammatory response and/or induce neurotoxicity.
DOI: 10.6084/m9.figshare.4910141.v1
title: Appendix 1 to "A study of the structural properties of sites modified by the O-linked 6-N-acetylglucosamine transferase"

description: Sites' properties for "); background-size: calc(100% + 1px) 100%; animation: gr__appear_critical 0.4s ease forwards; font-family: Calibri, Arial, Helvetica, sans-serif; background-color: rgb(255, 255, 255);"&gt;SS132 dataset. List of all entries in the SS132 dataset. PDB id, PDB identifier; Chain, PDB chain; Position, residue position within the chain; Cluster id, cluster id in Figure 4. B-factor, site mean C-alpha chain standardised B-factor, RSA, site average relative solvent accessibility; SS, DSSP secondary structure assignments.
DOI: 10.6084/m9.figshare.4910081
title: Mycorrhizae and plant metal uptake

description: File “Dietterich et al myco-metal data for figshare 170521.csv” contains data on plant and soil metal concentrations and plant root colonization by arbuscular mycorrhizal fungi (AMF). Samples were collected in 2012 in portions of the Palmerton Zinc Superfund Site (Palmerton, PA, USA) owned and managed by the Lehigh Gap Nature or the National Park Service (Dietterich et al. <i>in press</i>). File “Dietterich et al myco-metal metadata for figshare 170521.csv” contains definitions of column headings for the above dataset. Reference: Dietterich, L. H., Gonneau, C. and Casper, B. B. <i>in press</i>. Arbuscular mycorrhizal colonization has little consequence for plant heavy metal uptake in contaminated field soils. <i>Ecological Applications</i> doi:10.1002/eap.1573
DOI: 10.6084/m9.figshare.4910096.v2
title: Lowered PON1 activities are strongly associated with depression and bipolar disorder, recurrence of (hypo)mania and depression, increased disability and lowered quality of life

description: <b>Objectives:</b> Mood disorders (MDs) frequently co-exist with cardiovascular disease (CVD) and immune-inflammatory and oxidative stress are important shared pathophysiological pathways. Even though there has been an extensive investigation of the enzyme paraoxonase 1 (PON1) as a biomarker of susceptibility for CVD, there are few reports studying PON1 in MDs. The aim of this study was to determine the association between PON1 activities as well as functional genotypes and MD diagnosis, clinical characteristics and outcomes. <b>Methods:</b> PON1 activities and functional genotypes were assayed in 58 bipolar disorder (BD) and 32 major depressed patients (MDD) and compared with 59 controls. <b>Results:</b> Our findings show significantly lower PON1 total and CMPAase activities in MDs, which are partly related to the number of previous depressive and manic episodes. Lowered CMPAase activity is associated with a worse outcome of MDs as indicated by lowered quality of life (WHOQoL-BREF scale) and increased disability in the Sheeham scale. <b>Conclusions:</b> We hypothesise that lowered PON1 total and CMPAase activities may play a role in the pathophysiology of MDs by lowering antioxidant defences thereby increasing the risk of lipid peroxidation and inflammation; lowered inhibition of quorum-sensing lactones thereby increasing bacterial proliferation; and attenuated homocysteine thiolactone catabolism which may trigger immune-inflammatory response and/or induce neurotoxicity.
DOI: 10.6084/m9.figshare.4910096.v1
title: Lowered PON1 activities are strongly associated with depression and bipolar disorder, recurrence of (hypo)mania and depression, increased disability and lowered quality of life.

description: Background: Mood disorders (MD) frequently co-exist with cardiovascular disease (CVD) and immune-inflammatory and oxidative stress are important shared pathophysiological pathways. Even though there is an extensive investigation of the enzyme paraoxonase 1 (PON1) as a biomarker of susceptibility for CVD, there are only few reports studying PON1 in MD. Objectives: To determine the association between PON1 activities as well as functional genotypes and MD diagnosis, clinical characteristics and outcomes. Methods: PON1 activities and functional genotypes were assayed in 58 bipolar (BD) and 32 major depressed patients (MDD) and compared to 59 controls. Results: Our findings show significantly lower PON1 total and CMPAase activities in MD, which are partly related to the number of previous depressive and manic episodes. Lowered CMPAase activity is associated with a worse outcome of MD as indicated by lowered quality of life (WHOQoL-BREF scale) and increased disability in the Sheeham scale. Conclusions: We hypothesize that lowered PON1 total and CMPAase activities may play a role in the pathophysiology of MD by lowering antioxidant defences thereby increasing the risk towards lipid peroxidation and inflammation; lowered inhibition of quorum sensing lactones thereby increasing bacterial proliferation; and attenuated homocysteine thiolactone catabolism which may trigger immune-inflammatory response and/or induce neurotoxicity.
DOI: 10.6084/m9.figshare.4910039.v1
title: Gene Function Expression Profile of Faba bean (Vicia faba) Seeds

description: <strong>These were Faba bean (Vicia faba L) genome assembly data</strong>.<strong>Total All-Unique genes number = 47621, Max length = 6656, Total length = 27605508, Average length = 579, Number&gt;1000bp = 7092, Number&gt;2000bp = 1350.</strong> <br>
DOI: 10.4225/03/590032c579306
title: Genetic architecture of Wolbachia-mediated dengue virus blocking in Aedes aegypti

description: Here we demonstrate family level variation in Wolbachia-mediated blocking of dengue virus.
DOI: 10.6084/m9.figshare.4909973
title: Internet addiction, psychological distress, and coping: Adult and adolescent populations

description: This data set covers 449 participants aged from 16 to 71 years of age from a wide range of English speaking Internet forums including social media, and self-help groups. Of these participants, 68.9% were classified as non-problematic users, 24.4% as problematic users, and 6.7% as addictive Internet users. The results indicated that among adolescents the main contributing factors to Internet addiction (IA) were: high use of discussion forums, high rumination levels, and low levels of self-care. For adults, IA was mainly predicted by: engagement in online video gaming and sexual activity, low email use, as well as high anxiety and high avoidant coping. Furthermore, problematic adult Internet users scored higher on emotion and avoidance coping responses while problematic adolescent Internet users scored higher on rumination and lower on self-care. Avoidance coping responses mediated the relationship between psychological distress and Internet addiction.
DOI: 10.6084/m9.figshare.4909532
title: The response of mesophyll conductance and Rubisco activity to water stress vary with the rice supplied nitrogen nutrition

description: <b>Figure 1</b> Rice xylem sap amount (A), root secretion rate (B) and water use efficiency (C) under different N forms and water conditions. The data refer to the mean ±SE (<i>n</i>=4). N, NP, A, AP, NA and NAP represent the nitrate (NO<sub>3</sub><sup>-</sup>), NO<sub>3</sub><sup>-</sup>+PEG6000, ammonium (NH<sub>4</sub><sup>+</sup>), NH<sub>4</sub><sup>+</sup>+PEG6000, mixture of ammonium and nitrate (NO<sub>3</sub><sup>-</sup>+NH<sub>4</sub><sup>+</sup>) and NO<sub>3</sub><sup>-</sup>+NH<sub>4</sub><sup>+</sup>+PEG6000 treatments, respectively. Significant differences (<i>p</i>&lt;5%) between treatments of rice are indicated by different letters. The same as below. <b>Figure 2</b> Rice leaf Chl (A), total N (B) and Rubisco (C) contents under the different N forms and water conditions. <b>Figure 3</b> The relationships of net photosynthesis (<i>A</i>) and water use efficiency (WUE) to the mesophyll conductance (<i>g<sub>m</sub></i>), stomatal conductance (<i>g<sub>s</sub></i>) and ratio of g<sub>m</sub>/g<sub>s</sub> in rice leaves.