cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.9604247
title: Diversity of practitioners publishing in five leading international journals of applied ecology and conservation biology, 1987–2015 relative to global biodiversity hotspots

description: Between 1987 and 1995, research papers published in five leading journals of applied ecology and conservation biology (AECB) were overwhelmingly produced by American and British authors. A significant proportion of overall variation in research productivity among nations could be explained by differences in gross national product (GNP). Here, we used bibliometric analyses for a comparative assessment to determine if geographical patterns of research changed or remained consistent between the periods, 1987–1995 and 2007–2015. Our results revealed an absence of a marked increase in geographical diversity of research. Imbalances persisted in global research efforts in five leading journals, with research productivity remaining significantly correlated to national differences in wealth. There is a disparity between where scientific research continues to be conducted and where hotspots of biodiversity are known to exist as indicated by our study and several other recent papers. This is an alarming finding as research is needed to establish conservation status, and work by others shows that the level of conservation spending is significantly correlated with mitigating biodiversity loss and improving species at risk status.
DOI: 10.6084/m9.figshare.9604247.v1
title: Diversity of practitioners publishing in five leading international journals of applied ecology and conservation biology, 1987–2015 relative to global biodiversity hotspots

description: Between 1987 and 1995, research papers published in five leading journals of applied ecology and conservation biology (AECB) were overwhelmingly produced by American and British authors. A significant proportion of overall variation in research productivity among nations could be explained by differences in gross national product (GNP). Here, we used bibliometric analyses for a comparative assessment to determine if geographical patterns of research changed or remained consistent between the periods, 1987–1995 and 2007–2015. Our results revealed an absence of a marked increase in geographical diversity of research. Imbalances persisted in global research efforts in five leading journals, with research productivity remaining significantly correlated to national differences in wealth. There is a disparity between where scientific research continues to be conducted and where hotspots of biodiversity are known to exist as indicated by our study and several other recent papers. This is an alarming finding as research is needed to establish conservation status, and work by others shows that the level of conservation spending is significantly correlated with mitigating biodiversity loss and improving species at risk status.
DOI: 10.6084/m9.figshare.9601265
title: GPS data from Long seed dispersal distances by an inquisitive flightless rail (<i>Gallirallus australis</i>) are reduced by interaction with humans

description: All GPS data used in the mechanistic models
DOI: 10.6084/m9.figshare.9601262
title: Seed retention time data from Long seed dispersal distances by an inquisitive flightless rail (<i>Gallirallus australis</i>) are reduced by interaction with humans

description: All seed retention data, based on scans of birds containing seeds implanted with RFID tags.
DOI: 10.6084/m9.figshare.9601265.v1
title: GPS data from Long seed dispersal distances by an inquisitive flightless rail (<i>Gallirallus australis</i>) are reduced by interaction with humans

description: All GPS data used in the mechanistic models
DOI: 10.6084/m9.figshare.9601262.v1
title: Seed retention time data from Long seed dispersal distances by an inquisitive flightless rail (<i>Gallirallus australis</i>) are reduced by interaction with humans

description: All seed retention data, based on scans of birds containing seeds implanted with RFID tags.
DOI: 10.6084/m9.figshare.9600683
title: Datasets, model output and code for "A global synthesis of soil incubation experiments indicated a high temperature sensitivity of deep permafrost soil carbon release"

description: <br>
DOI: 10.6084/m9.figshare.9600689
title: Supplemental Tables.docx

description: <b>Supplementary Table S1. </b>Primer sequences for validation of selected lncRNAs and mRNAs by real-time PCR (The primer sequences are listed from 5' to 3')<br><b>Supplementary Table S2.</b> List of ELISA kits information<b>Supplementary Table S3. </b>Upstream factor list according to Ingenuity Pathway Analysis<b>Supplementary Table S4.</b> Network list according to Ingenuity Pathway Analysis<b>Supplementary Table S5.</b> mRNA-lncRNA coanalysis<br><b>Supplementary Table S6.</b> Top ten differentially expressed up-regulated and down-regulated lincRNAs and their nearby coding genes<b>Supplementary</b><b> Table S7. </b>Top ten differentially expressed enhancer-like lncRNAs and their nearby coding genes
DOI: 10.6084/m9.figshare.9600425
title: Sedimentological responses to the Hunter–Bowen Orogeny (eastern Australia): evidence from the northern Gympie Terrane

description: The volcano-sedimentary succession of the Gympie Terrane is an important record of the eastern Gondwana subduction boundary during the Permian and Triassic. Previous work in this region has focused mainly on the geology of the Gympie Goldfields in the southern part of the Gympie Terrane, whereas the northern part has remained relatively understudied. Here we present sedimentological and structural observations from the northern Gympie Terrane, complemented by new U–Pb detrital zircon data from key stratigraphic units. The stratigraphic succession comprises deep-marine lower Permian mudstones and volcaniclastic rocks derived from a distal volcanic source, overlain by shallow-marine middle–upper Permian carbonate and siliciclastic rocks. The Lower Triassic rocks are dominated by terrestrial alluvial fan deposits, which are overlain by Middle Triassic shallow-marine facies rocks. Our new detrital zircon data show that the cessation of deep-marine sedimentation had occurred prior to <i>ca</i> 263 Ma, possibly in response to the onset of the Hunter–Bowen Orogeny. Deformation and uplift associated with the Hunter–Bowen Orogeny led to an increasing proportion of recycled detritus in the sediments, as indicated by the detrital zircon data. The second phase of Hunter–Bowen Orogeny, at <i>ca</i> 250 Ma, likely led to the transition to a terrestrial depositional setting, and the increased input of recycled continental material into the sedimentary basin. The uppermost units in the Gympie Terrane are Middle Triassic marine successions, which were deposited in a period of tectonic relaxation prior to the last phase of the Hunter–Bowen Orogeny at 235–230 Ma.HighlightsThe geology of the Gympie Terrane provides an insight into the evolution of the eastern Gondwanan subduction boundary during the Permian and Triassic.A broadly correlative stratigraphy is recognised in the northern and southern parts of the Gympie Terrane.The cessation of deep-water deposition in the Gympie Terrane coincides with the first phase of Hunter–Bowen Orogeny.Changes in detrital zircon provenance in the Gympie Terrane correspond to the timing of tectonic switches along the convergent plate boundary of eastern Gondwana. The geology of the Gympie Terrane provides an insight into the evolution of the eastern Gondwanan subduction boundary during the Permian and Triassic. A broadly correlative stratigraphy is recognised in the northern and southern parts of the Gympie Terrane. The cessation of deep-water deposition in the Gympie Terrane coincides with the first phase of Hunter–Bowen Orogeny. Changes in detrital zircon provenance in the Gympie Terrane correspond to the timing of tectonic switches along the convergent plate boundary of eastern Gondwana.
DOI: 10.6084/m9.figshare.9600689.v1
title: Supplemental Tables.docx

description: <b>Supplementary Table S1. </b>Primer sequences for validation of selected lncRNAs and mRNAs by real-time PCR (The primer sequences are listed from 5' to 3')<br><b>Supplementary Table S2.</b> List of ELISA kits information<b>Supplementary Table S3. </b>Upstream factor list according to Ingenuity Pathway Analysis<b>Supplementary Table S4.</b> Network list according to Ingenuity Pathway Analysis<b>Supplementary Table S5.</b> mRNA-lncRNA coanalysis<br><b>Supplementary Table S6.</b> Top ten differentially expressed up-regulated and down-regulated lincRNAs and their nearby coding genes<b>Supplementary</b><b> Table S7. </b>Top ten differentially expressed enhancer-like lncRNAs and their nearby coding genes
DOI: 10.6084/m9.figshare.9600425.v1
title: Sedimentological responses to the Hunter–Bowen Orogeny (eastern Australia): evidence from the northern Gympie Terrane

description: The volcano-sedimentary succession of the Gympie Terrane is an important record of the eastern Gondwana subduction boundary during the Permian and Triassic. Previous work in this region has focused mainly on the geology of the Gympie Goldfields in the southern part of the Gympie Terrane, whereas the northern part has remained relatively understudied. Here we present sedimentological and structural observations from the northern Gympie Terrane, complemented by new U–Pb detrital zircon data from key stratigraphic units. The stratigraphic succession comprises deep-marine lower Permian mudstones and volcaniclastic rocks derived from a distal volcanic source, overlain by shallow-marine middle–upper Permian carbonate and siliciclastic rocks. The Lower Triassic rocks are dominated by terrestrial alluvial fan deposits, which are overlain by Middle Triassic shallow-marine facies rocks. Our new detrital zircon data show that the cessation of deep-marine sedimentation had occurred prior to <i>ca</i> 263 Ma, possibly in response to the onset of the Hunter–Bowen Orogeny. Deformation and uplift associated with the Hunter–Bowen Orogeny led to an increasing proportion of recycled detritus in the sediments, as indicated by the detrital zircon data. The second phase of Hunter–Bowen Orogeny, at <i>ca</i> 250 Ma, likely led to the transition to a terrestrial depositional setting, and the increased input of recycled continental material into the sedimentary basin. The uppermost units in the Gympie Terrane are Middle Triassic marine successions, which were deposited in a period of tectonic relaxation prior to the last phase of the Hunter–Bowen Orogeny at 235–230 Ma.HighlightsThe geology of the Gympie Terrane provides an insight into the evolution of the eastern Gondwanan subduction boundary during the Permian and Triassic.A broadly correlative stratigraphy is recognised in the northern and southern parts of the Gympie Terrane.The cessation of deep-water deposition in the Gympie Terrane coincides with the first phase of Hunter–Bowen Orogeny.Changes in detrital zircon provenance in the Gympie Terrane correspond to the timing of tectonic switches along the convergent plate boundary of eastern Gondwana. The geology of the Gympie Terrane provides an insight into the evolution of the eastern Gondwanan subduction boundary during the Permian and Triassic. A broadly correlative stratigraphy is recognised in the northern and southern parts of the Gympie Terrane. The cessation of deep-water deposition in the Gympie Terrane coincides with the first phase of Hunter–Bowen Orogeny. Changes in detrital zircon provenance in the Gympie Terrane correspond to the timing of tectonic switches along the convergent plate boundary of eastern Gondwana.
DOI: 10.6084/m9.figshare.9600683.v2
title: Datasets, model output and code of "A global synthesis of soil incubation experiments indicated a high temperature sensitivity of deep permafrost soil carbon release"

description: Dataset:Raw Q10 dataset of topsoil and subsoil in this study.<br>Model output:The model outputs of Multimodel inference method and MTE<br>Code:Text S1. The code of multimodel inference method in R.
DOI: 10.6084/m9.figshare.9600683.v1
title: Datasets, model output and code of "A global synthesis of soil incubation experiments indicated a high temperature sensitivity of deep permafrost soil carbon release"

description: Dataset:Table S1. Raw dataset of topsoil and subsoil in this study.<br>Text S1. References<br>Model output:The model outputs of Multimodel inference method and MTE<br>Code:Text S1. The code of multimodel inference method in R.
DOI: 10.6084/m9.figshare.9600257
title: Additional file 7: of Guide for library design and bias correction for large-scale transcriptome studies using highly multiplexed RNAseq methods

description: Raw read counts of THP-1 libraries after the library bias correction (TXT 2536 kb)
DOI: 10.6084/m9.figshare.9600251
title: Additional file 6: of Guide for library design and bias correction for large-scale transcriptome studies using highly multiplexed RNAseq methods

description: Raw read counts of BEAS-2B libraries after the library bias correction (TXT 3574 kb)
DOI: 10.6084/m9.figshare.9600251.v1
title: Additional file 6: of Guide for library design and bias correction for large-scale transcriptome studies using highly multiplexed RNAseq methods

description: Raw read counts of BEAS-2B libraries after the library bias correction (TXT 3574 kb)
DOI: 10.6084/m9.figshare.9600233
title: Additional file 3: of Guide for library design and bias correction for large-scale transcriptome studies using highly multiplexed RNAseq methods

description: Raw read counts of BEAS-2B libraries before the library bias correction (TXT 3580 kb)
DOI: 10.6084/m9.figshare.9600236
title: Additional file 4: of Guide for library design and bias correction for large-scale transcriptome studies using highly multiplexed RNAseq methods

description: Raw read counts of THP-1 libraries before the library bias correction (TXT 2541 kb)
DOI: 10.6084/m9.figshare.9600227
title: Additional file 2: of Guide for library design and bias correction for large-scale transcriptome studies using highly multiplexed RNAseq methods

description: Layout of reference samples and the qualities. There are seven quality measures provided in the STRTprep pipeline; (i) TOTAL_READS is a read count after the redundant read exclusion based on UMI; (ii) REDUNDANCY is redundancy based on UMI; (iii) MAPPED_RATE is the rate of mapped reads; (iv) SPIKEIN_5END_RATE is the 5′-end capture rate of spike-in molecules; (v) CODING_5END_RATE is the 5′-end capture rate of protein coding genes; (vi) CODING_READS is reads that were aligned to exons of protein coding genes; and (vii) CODING_RATE is calculated by CODING_READS/(TOTAL_READS*MAPPED_RATE). See also detailed instruction at https://github.com/shka/STRTprep/blob/v3dev/doc/result.md#outbygenesamples_allcsv . (TXT 16 kb)
DOI: 10.6084/m9.figshare.9600233.v1
title: Additional file 3: of Guide for library design and bias correction for large-scale transcriptome studies using highly multiplexed RNAseq methods

description: Raw read counts of BEAS-2B libraries before the library bias correction (TXT 3580 kb)
DOI: 10.6084/m9.figshare.9600224
title: Additional file 1: of Guide for library design and bias correction for large-scale transcriptome studies using highly multiplexed RNAseq methods

description: Sample script. This script demonstrates the library bias correction by NBGLM-LBC, performs the simulation experiments for Fig. 3, and draws Figs. 1b, 2a, c and 3 bottoms. Before running this script using R, LBC-additionalFile2.txt (Additional file 2) and LBC-additionalFile3.txt (Additional file 3) must be placed within the working directory, and the preprocessCore, DESeq2 and factoextra packages must be installed. (R 10 kb)
DOI: 10.6084/m9.figshare.9600227.v1
title: Additional file 2: of Guide for library design and bias correction for large-scale transcriptome studies using highly multiplexed RNAseq methods

description: Layout of reference samples and the qualities. There are seven quality measures provided in the STRTprep pipeline; (i) TOTAL_READS is a read count after the redundant read exclusion based on UMI; (ii) REDUNDANCY is redundancy based on UMI; (iii) MAPPED_RATE is the rate of mapped reads; (iv) SPIKEIN_5END_RATE is the 5′-end capture rate of spike-in molecules; (v) CODING_5END_RATE is the 5′-end capture rate of protein coding genes; (vi) CODING_READS is reads that were aligned to exons of protein coding genes; and (vii) CODING_RATE is calculated by CODING_READS/(TOTAL_READS*MAPPED_RATE). See also detailed instruction at https://github.com/shka/STRTprep/blob/v3dev/doc/result.md#outbygenesamples_allcsv . (TXT 16 kb)
DOI: 10.6084/m9.figshare.9600224.v1
title: Additional file 1: of Guide for library design and bias correction for large-scale transcriptome studies using highly multiplexed RNAseq methods

description: Sample script. This script demonstrates the library bias correction by NBGLM-LBC, performs the simulation experiments for Fig. 3, and draws Figs. 1b, 2a, c and 3 bottoms. Before running this script using R, LBC-additionalFile2.txt (Additional file 2) and LBC-additionalFile3.txt (Additional file 3) must be placed within the working directory, and the preprocessCore, DESeq2 and factoextra packages must be installed. (R 10 kb)
DOI: 10.6084/m9.figshare.9600119
title: MOESM1 of Serologic responses to the PfEMP1 DBL-CIDR head structure may be a better indicator of malaria exposure than those to the DBL-Îą tag

description: Additional file 1. Sequences, classifications, and domains of the PfEMP1 antigens used to populate the custom protein microarray.
DOI: 10.6084/m9.figshare.9600119.v1
title: MOESM1 of Serologic responses to the PfEMP1 DBL-CIDR head structure may be a better indicator of malaria exposure than those to the DBL-Îą tag

description: Additional file 1. Sequences, classifications, and domains of the PfEMP1 antigens used to populate the custom protein microarray.
DOI: 10.6084/m9.figshare.9600107
title: MOESM1 of Age structure of bed bug (Heteroptera: Cimicidae) aggregations affects the nymphal feeding success

description: Additional file 1: Table S1. Raw data of feeding success of experimental groups.
DOI: 10.6084/m9.figshare.9600107.v1
title: MOESM1 of Age structure of bed bug (Heteroptera: Cimicidae) aggregations affects the nymphal feeding success

description: Additional file 1: Table S1. Raw data of feeding success of experimental groups.
DOI: 10.6084/m9.figshare.9600086
title: Additional file 1: of Comparison of ingesting a food bar containing whey protein and isomalto-oligosaccharides to carbohydrate on performance and recovery from an acute bout of resistance-exercise and sprint conditioning: an open label, randomized, counterbalanced, crossover pilot study

description: Table S1. Energy and macronutrient intake, Table S2. Resistance exercise lifting volume, Table S3. Sprint performance, Table S4. Isokinetic testing results, Table S5. Perception of quadriceps muscle soreness, Table S6. Markers of catabolism, Table S7. Stress and sex hormone response, Table S8. Inflammatory marker panel, Table S9. Symptoms of hypoglycemia inventory, Table S10. Appetite and eating satisfaction inventory, Table S11. Readiness to perform questionnaire. (XLSX 39 kb)
DOI: 10.6084/m9.figshare.9600086.v1
title: Additional file 1: of Comparison of ingesting a food bar containing whey protein and isomalto-oligosaccharides to carbohydrate on performance and recovery from an acute bout of resistance-exercise and sprint conditioning: an open label, randomized, counterbalanced, crossover pilot study

description: Table S1. Energy and macronutrient intake, Table S2. Resistance exercise lifting volume, Table S3. Sprint performance, Table S4. Isokinetic testing results, Table S5. Perception of quadriceps muscle soreness, Table S6. Markers of catabolism, Table S7. Stress and sex hormone response, Table S8. Inflammatory marker panel, Table S9. Symptoms of hypoglycemia inventory, Table S10. Appetite and eating satisfaction inventory, Table S11. Readiness to perform questionnaire. (XLSX 39 kb)
DOI: 10.6084/m9.figshare.9600071
title: Additional file 1: of DNA methylation signature is prognostic of choroid plexus tumor aggressiveness

description: Table S1. Patient information for samples used in DNA methylation experiment. Table S2. Patient information for samples in replication cohort used in sensitivity testing of the CPC DNA methylation signature. Table S3. Multivariate factor analysis. Table S4. Primer sets for quantitative sodium bisulfite pyrosequencing. Table S5. GABA receptor DNA methylation status in CPTs. Table S6. Differentially methylated genes in cpc vs cpp showing differential expression and reverse correlation with DNA methylation in the promoter region of the gene. Table S7. Differentially methylated genes in cpc vs cpp showing differential expression and positive correlation with DNA methylation in the body of the gene. Table S8. 39 variables (encompassing 33 single genes) segregating CPCs and CPPs. Table S9. Comparison between CPC-specific DNAm signature classification and the Heidelberg classifier. (XLSX 108 kb)
DOI: 10.6084/m9.figshare.9600071.v1
title: Additional file 1: of DNA methylation signature is prognostic of choroid plexus tumor aggressiveness

description: Table S1. Patient information for samples used in DNA methylation experiment. Table S2. Patient information for samples in replication cohort used in sensitivity testing of the CPC DNA methylation signature. Table S3. Multivariate factor analysis. Table S4. Primer sets for quantitative sodium bisulfite pyrosequencing. Table S5. GABA receptor DNA methylation status in CPTs. Table S6. Differentially methylated genes in cpc vs cpp showing differential expression and reverse correlation with DNA methylation in the promoter region of the gene. Table S7. Differentially methylated genes in cpc vs cpp showing differential expression and positive correlation with DNA methylation in the body of the gene. Table S8. 39 variables (encompassing 33 single genes) segregating CPCs and CPPs. Table S9. Comparison between CPC-specific DNAm signature classification and the Heidelberg classifier. (XLSX 108 kb)
DOI: 10.6084/m9.figshare.9599966
title: FTMS DATA

description: Data from a research project regarding the motor evoked potential (MEP) before and after a fatigue protocol of the infraspinatus muscle.
DOI: 10.6084/m9.figshare.9599966.v1
title: FTMS DATA

description: Data from a research project regarding the motor evoked potential (MEP) before and after a fatigue protocol of the infraspinatus muscle.
DOI: 10.6084/m9.figshare.9599948
title: Additional file 6: of Early-life gut microbiome modulation reduces the abundance of antibiotic-resistant bacteria

description: Table S4. Nucleotide sequence analysis of ORFs. Global alignment results of selected open reading frames (ORFs) from Illumina reads assembly. BLASTX and BLASTN scores of selected ORFs identified among ARGs are reported.Â (XLSX 11 kb)
DOI: 10.6084/m9.figshare.9599942
title: Additional file 5: of Early-life gut microbiome modulation reduces the abundance of antibiotic-resistant bacteria

description: Table S6. Kruskal-Wallis test with post-hoc corrections for every ARG identified according to treatment status.Â (XLSX 51 kb)
DOI: 10.6084/m9.figshare.9599948.v1
title: Additional file 6: of Early-life gut microbiome modulation reduces the abundance of antibiotic-resistant bacteria

description: Table S4. Nucleotide sequence analysis of ORFs. Global alignment results of selected open reading frames (ORFs) from Illumina reads assembly. BLASTX and BLASTN scores of selected ORFs identified among ARGs are reported.Â (XLSX 11 kb)
DOI: 10.6084/m9.figshare.9599936
title: Additional file 4: of Early-life gut microbiome modulation reduces the abundance of antibiotic-resistant bacteria

description: Table S3. Global ARG profile by sample. Number of quality filtered hits for every sample against the CARD database. First column reports the annotation in the following order: protein ID based on NCBI reference sequence database; antibiotic resistance gene ID according to the CARD database and protein name.Â (XLS 312 kb)