cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.24873964.v2
title: Supplementary Data S2. validation of bare part scores from Bare parts in the Galliformes: the evolution of a multifunctional structure

description: A morphological trait can have multiple functions shaped by varying selective forces. Bare parts in birds, such as wattles, casques and combs, are known to function in both signalling and thermoregulation. Studies have demonstrated such structures are targets of sexual selection via female choice in several species of Galliformes (junglefowl, turkeys and grouse), though other studies have shown some role in thermoregulation (guineafowl). Here, we tested fundamental hypotheses regarding the evolution and maintenance of bare parts in Galliformes. Using a phylogeny that included nearly 90% of species in the order, we evaluated the role of both sexual and natural selection in shaping the function of bare parts across different clades. We found a combination of both environmental and putative sexually selected traits strongly predicted the variation of bare parts for both males and females across Galliformes. When the analysis is restricted to the largest family, Phasianidae (pheasants, junglefowl and allies), sexually selected traits were the primary predictors of bare parts. Our results suggest that bare parts are important for both thermoregulation and sexual signalling across Galliformes but are primarily under strong sexual selection within the Phasianidae.
DOI: 10.6084/m9.figshare.24873967.v1
title: Supplementary Data S8 from Bare parts in the Galliformes: the evolution of a multifunctional structure

description: PGLS models - sage-grouse removed
DOI: 10.6084/m9.figshare.14912717.v1
title: Multi-omics landscape of circadian rhythm pathway alterations in Glioma

description: Circadian rhythm pathway was demonstrated pathological functions in glioma on single-gene level. We aim to depict the multi-omics landscape of circadian rhythm pathway alteration in glioma using bioinformatic analyses. Multi-omics data were obtained from “cBioPortal” database. Comparisons were done regarding clinical parameters, differential-expressed genes and functional annotations. A pathway index was generated using the expression data from TCGA and GTEx to quantify the general alteration level of the pathway with clinical association of circadian rhythm pathway index explored. A total of 30 genes were mapped on the circadian rhythm pathway. Genomic profile ofcircadian rhythm pathway genes exhibited distinct characteristics on multiple levels between lower grade glioma (LGG) and glioblastoma multiforme (GBM) patients. LGG patients presented significantly higher frequencies of multi-omics mutations, as well as significant clinical relevance, on single-gene level. Differential-expressed genes between LGG and GBM patients revealed different functions between subtypes that related to the alteration of circadian rhythm pathway. LGG have significantly higher pathway index than normal brain tissue, while GBM significantly lower than normal tissue (P &lt; 0.01), indicating distinctly altered circadian pathway in LGG. Circadian rhythm pathway index correlated with the prognosis of LGG, but not GBM, patients, with higher score indicating better survival outcome (LGG: HR = 0.39, 95% CI: 0.26 − 0.59, P &lt; 0.001). In conclusion, LGG have more multi-omics alterations of circadian rhythm pathway than GBM. Quantification of circadian rhythm pathway using pathway index demonstrated hyperactivated pathway status in LGG and correlated with the prognosis of LGG patients.
DOI: 10.25402/fon.19107047.v1
title: Supplementary Tables – Developing an immune signature for triple‑negative breast cancer to predict prognosis and immune checkpoint inhibitor

description: <b>Supplementary
 Table S1</b>. Developing an immune
 signature for triple‑negative breast cancer to predict prognosis and
 immune checkpoint inhibitor
 <i>R packages in the
 study</i>
 
 <b>Supplementary
 Table S2</b>. Developing an immune
 signature for triple‑negative breast cancer to predict prognosis and
 immune checkpoint inhibitor
 <i>66 prognostic IRGs
 of IPRS</i>
 
 <b>Supplementary
 Table S3</b>. Developing an immune
 signature for triple‑negative breast cancer to predict prognosis and
 immune checkpoint inhibitor
 <i>Multivariate Cox
 regression for IPRS</i>
 
 <b>Supplementary Table
 S4</b>. Developing an immune signature
 for triple‑negative breast cancer to predict prognosis and
 immune checkpoint inhibitor
 <i>Pathway enrichment
 analysis for 66 IRGs including KEGG and GO database</i>
DOI: 10.6084/m9.figshare.8108192
title: A new approach for obtaining precipitation estimates with a finer spatial resolution on a daily scale based on TMPA V7 data over the Tibetan Plateau

description: Precipitation plays vital roles in the worldwide hydrological cycles. Gridded precipitation estimates with finer spatio-temporal resolutions are critical in various application fields. In this study, we focused on obtaining downscaled precipitation estimates (approximately1 km) at daily scale over the Tibetan Plateau (TP), which was considered as a great challenge in previous downscaling studies. To meet this challenge, a new approach, incorporating geographically ratio analysis (GRA) and spatially weighted moving window technique, was proposed. The performances of the downscaled results and those of TRMM Multisatellite Precipitation Analysis (TMPA) data were evaluated against point-based ground observations. The results indicated that: (1) the monthly downscaled results (<i>R</i><sup>2</sup> around 0.70, bias around 10%) outperformed TMPA 3B43 data (<i>R</i><sup>2</sup> around 0.55, bias around 25%) against ground observations; (2) the performances of the daily downscaled results (<i>R</i><sup>2</sup> around 0.65, bias around 10%) were better than those of the TMPA 3B42 data (<i>R</i><sup>2</sup> around 0.50, bias around 28%); and (3) the anomalies in the TMPA data did not exist in the downscaled results based on the proposed approach. Therefore, the proposed approach was suitable for obtaining both monthly and daily downscaled results based on TMPA data over the TP.
DOI: 10.6084/m9.figshare.8108192.v1
title: A new approach for obtaining precipitation estimates with a finer spatial resolution on a daily scale based on TMPA V7 data over the Tibetan Plateau

description: Precipitation plays vital roles in the worldwide hydrological cycles. Gridded precipitation estimates with finer spatio-temporal resolutions are critical in various application fields. In this study, we focused on obtaining downscaled precipitation estimates (approximately1 km) at daily scale over the Tibetan Plateau (TP), which was considered as a great challenge in previous downscaling studies. To meet this challenge, a new approach, incorporating geographically ratio analysis (GRA) and spatially weighted moving window technique, was proposed. The performances of the downscaled results and those of TRMM Multisatellite Precipitation Analysis (TMPA) data were evaluated against point-based ground observations. The results indicated that: (1) the monthly downscaled results (<i>R</i><sup>2</sup> around 0.70, bias around 10%) outperformed TMPA 3B43 data (<i>R</i><sup>2</sup> around 0.55, bias around 25%) against ground observations; (2) the performances of the daily downscaled results (<i>R</i><sup>2</sup> around 0.65, bias around 10%) were better than those of the TMPA 3B42 data (<i>R</i><sup>2</sup> around 0.50, bias around 28%); and (3) the anomalies in the TMPA data did not exist in the downscaled results based on the proposed approach. Therefore, the proposed approach was suitable for obtaining both monthly and daily downscaled results based on TMPA data over the TP.
DOI: 10.6084/m9.figshare.12291368.v1
title: Additional file 3 of The association of MEFV gene mutations with the disease risk and severity of systemic juvenile idiopathic arthritis

description: Additional file 3. Raw data of the sequencing results.
DOI: 10.6084/m9.figshare.13331852.v1
title: Additional file 3 of More public health service providers are experiencing job burnout than clinical care providers in primary care facilities in China

description: Additional file 3. Parameter coefficients and test of goodness-of-fit of multilevel models (null models). Additional file 3 presents a table showing the intra-class correlation coefficient in the null model and the goodness-of-fit indicator for each dependent variable.
DOI: 10.6084/m9.figshare.7048328.v1
title: Association of luteinizing hormone/choriogonadotropin receptor gene polymorphisms with polycystic ovary syndrome risk: a meta-analysis

description: To investigate the association between Luteinizing hormone/choriogonadotropin receptor (LHCGR) gene polymorphisms and polycystic ovary syndrome (PCOS). A systematic literature search and meta-analysis using STATA software for included studies. Fourteen case-control studies containing rs13405728, rs4539842, and rs2293275 of LHCGR gene were included, which was comprised of 11,738 PCOS cases and 35,329 controls. Results of the meta-analysis showed a significant association between PCOS and rs13405728 (for G vs. A: OR = 0.735, 95% CI = 0.699–0.773, <i>p</i>&lt;.001; For GG vs. AG + AA: OR = 0.578, 95% CI = 0.436–0.767, <i>p</i>&lt;.001; For GG + AG vs. AA: OR = 0.817, 95% CI = 0.741–0.901, <i>p</i>&lt;.001) in Asian populations, and rs4539842 (for ins/ins <i>vs</i>. ins/non + non/non: OR = 0.686, 95% CI = 0.483–0.974, <i>p</i>=.035) and rs2293275 (for AA vs. AG + GG: OR = 4.115, 95% CI = 1.033–16.38, <i>p</i>=.045) in Caucasian populations, respectively. LHCGR gene variations are population specifically associated with PCOS, which indicated these SNPs in LHCGR may contribute to the pathogenesis of PCOS and could be used as potential biomarkers to predict the risk of PCOS.
DOI: 10.6084/m9.figshare.19107182
title: The complete mitochondrial genome of <i>Hyalomma rufipes</i> (Acari: Ixodidae) from China and comparative analysis of mitogenomes in genus <i>Hyalomma</i>

description: The coarse-legged tick <i>Hyalomma rufipes</i> (Koch, 1844), a two-host tick and an important vector for multiple pathogens, can cause severe damage to humans and domestic animals. Here, we provide the complete mitochondrial genome (mitogenome) of <i>H. rufipes</i> from China obtained by next-generation sequencing (NGS) methods. The 14,761 bp long mitogenome of <i>H. rufipes</i> had a high A + T content (79.7%) and contained a typical set of 37 genes, with 13 protein-coding genes (PCGs), 22 transfer RNA genes (tRNAs) and 2 ribosomal RNA genes (rRNAs). The genome also included two control regions (CRs) and three tick-boxes. We compared the mitogenomes of <i>H. rufipes</i> from China and South Africa. The results showed that the gene arrangement, CRs location, and incomplete secondary structures of <i>trnC</i> and <i>trnS<sub>1</sub></i> were similar. However, several differences presented in the two isolates, including the gene length and the termination codons of PCGs. Also, the comparison of the mitogenomes of <i>Hyalomma</i> species revealed differences in genome length, A + T content, and initiation and termination codons. Furthermore, gene rearrangement existed in the tick mitogenomes, with a unique arrangement in <i>Amblyomma transversale</i>. Additionally, our phylogenetic analyses clearly clarified the phylogenetic relationships within ticks, <i>H. rufipes</i> being clustered with other <i>Hyalomma</i> species and more closely related to <i>H. marginatum</i>.
DOI: 10.6084/m9.figshare.13331907
title: Additional file 2 of Physiological and transcriptomic analyses reveal the roles of secondary metabolism in the adaptive responses of Stylosanthes to manganese toxicity

description: Additional file 2: Table S1. Summary of stylo leave transcriptomes in control (5 μM) and Mn toxicity (400 μM) libraries.
DOI: 10.6084/m9.figshare.10729694
title: MOESM2 of The genomes of two parasitic wasps that parasitize the diamondback moth

description: Additional file 2: Table S9. miRNAs in C. vestalis and D. collaris.
DOI: 10.6084/m9.figshare.10729694.v1
title: MOESM2 of The genomes of two parasitic wasps that parasitize the diamondback moth

description: Additional file 2: Table S9. miRNAs in C. vestalis and D. collaris.
DOI: 10.6084/m9.figshare.10729697
title: MOESM3 of The genomes of two parasitic wasps that parasitize the diamondback moth

description: Additional file 3: Table S12. Expanded and reduced gene families in C. vestalis and D. collaris relative to other arthropods.
DOI: 10.6084/m9.figshare.10729697.v1
title: MOESM3 of The genomes of two parasitic wasps that parasitize the diamondback moth

description: Additional file 3: Table S12. Expanded and reduced gene families in C. vestalis and D. collaris relative to other arthropods.
DOI: 10.6084/m9.figshare.13331913
title: Additional file 4 of Physiological and transcriptomic analyses reveal the roles of secondary metabolism in the adaptive responses of Stylosanthes to manganese toxicity

description: Additional file 4: Table S3. DEGs involved in secondary metabolism.
DOI: 10.6084/m9.figshare.10729706
title: MOESM4 of The genomes of two parasitic wasps that parasitize the diamondback moth

description: Additional file 4: Table S14. Expression level of immune and detoxification genes in C. vestalis and D. collaris.1. Kanehisa M, Goto S: KEGG: kyoto encyclopedia of genes and genomes. Nucleic Acids Res. 2000; 28(1): 27â€“30.
DOI: 10.6084/m9.figshare.10729706.v1
title: MOESM4 of The genomes of two parasitic wasps that parasitize the diamondback moth

description: Additional file 4: Table S14. Expression level of immune and detoxification genes in C. vestalis and D. collaris.1. Kanehisa M, Goto S: KEGG: kyoto encyclopedia of genes and genomes. Nucleic Acids Res. 2000; 28(1): 27â€“30.
DOI: 10.6084/m9.figshare.10729772
title: MOESM3 of Seasonal and diurnal patterns of non-structural carbohydrates in source and sink tissues in field maize

description: Additional file 3: Table S1. Yield and yield components in the 2015 and 2016 seasons.
DOI: 10.6084/m9.figshare.13331919
title: Additional file 6 of Physiological and transcriptomic analyses reveal the roles of secondary metabolism in the adaptive responses of Stylosanthes to manganese toxicity

description: Additional file 6: Table S5. DEGs involved in defense responses.
DOI: 10.6084/m9.figshare.10729772.v1
title: MOESM3 of Seasonal and diurnal patterns of non-structural carbohydrates in source and sink tissues in field maize

description: Additional file 3: Table S1. Yield and yield components in the 2015 and 2016 seasons.
DOI: 10.6084/m9.figshare.10729784
title: MOESM1 of Whole blood vs PBMC: compartmental differences in gene expression profiling exemplified in asthma

description: Additional file 1. Normalized protein data obtained from healthy controls (HC) and allergic asthmatics (AA). Raw protein values were normalized using total sum scaling and IgG negative controls.
DOI: 10.6084/m9.figshare.10729784.v1
title: MOESM1 of Whole blood vs PBMC: compartmental differences in gene expression profiling exemplified in asthma

description: Additional file 1. Normalized protein data obtained from healthy controls (HC) and allergic asthmatics (AA). Raw protein values were normalized using total sum scaling and IgG negative controls.
DOI: 10.6084/m9.figshare.10729790
title: MOESM5 of Seasonal and diurnal patterns of non-structural carbohydrates in source and sink tissues in field maize

description: Additional file 5: Table S2. Details of soil conditions in the upper 20â€‰cm before sowing, fertilizer application and field management.
DOI: 10.6084/m9.figshare.10729790.v1
title: MOESM5 of Seasonal and diurnal patterns of non-structural carbohydrates in source and sink tissues in field maize

description: Additional file 5: Table S2. Details of soil conditions in the upper 20â€‰cm before sowing, fertilizer application and field management.
DOI: 10.6084/m9.figshare.19642689
title: Accelerating the Lagrangian particle tracking in hydrologic modeling to continental-scale

description: Raw data and figure scripts
DOI: 10.6084/m9.figshare.10729796
title: MOESM6 of Seasonal and diurnal patterns of non-structural carbohydrates in source and sink tissues in field maize

description: Additional file 6: Table S3. Details of the three maize hybrids used in the 2016 season.
DOI: 10.6084/m9.figshare.10729796.v1
title: MOESM6 of Seasonal and diurnal patterns of non-structural carbohydrates in source and sink tissues in field maize

description: Additional file 6: Table S3. Details of the three maize hybrids used in the 2016 season.
DOI: 10.6084/m9.figshare.12291404.v1
title: Additional file 1 of Evolution of Fusarium tricinctum and Fusarium avenaceum mitochondrial genomes is driven by mobility of introns and of a new type of palindromic microsatellite repeats

description: Additional file 1: GenBank formatted annotated sequence of the F. tricinctum strain INRA104 MtDNA.
DOI: 10.6084/m9.figshare.12291404
title: Additional file 1 of Evolution of Fusarium tricinctum and Fusarium avenaceum mitochondrial genomes is driven by mobility of introns and of a new type of palindromic microsatellite repeats

description: Additional file 1: GenBank formatted annotated sequence of the F. tricinctum strain INRA104 MtDNA.
DOI: 10.6084/m9.figshare.12291407
title: Additional file 2 of Evolution of Fusarium tricinctum and Fusarium avenaceum mitochondrial genomes is driven by mobility of introns and of a new type of palindromic microsatellite repeats

description: Additional file 2: GenBank formatted annotated sequence of the F. avenaceum strain FaLH27 MtDNA.
DOI: 10.6084/m9.figshare.19107182.v1
title: The complete mitochondrial genome of <i>Hyalomma rufipes</i> (Acari: Ixodidae) from China and comparative analysis of mitogenomes in genus <i>Hyalomma</i>

description: The coarse-legged tick <i>Hyalomma rufipes</i> (Koch, 1844), a two-host tick and an important vector for multiple pathogens, can cause severe damage to humans and domestic animals. Here, we provide the complete mitochondrial genome (mitogenome) of <i>H. rufipes</i> from China obtained by next-generation sequencing (NGS) methods. The 14,761 bp long mitogenome of <i>H. rufipes</i> had a high A + T content (79.7%) and contained a typical set of 37 genes, with 13 protein-coding genes (PCGs), 22 transfer RNA genes (tRNAs) and 2 ribosomal RNA genes (rRNAs). The genome also included two control regions (CRs) and three tick-boxes. We compared the mitogenomes of <i>H. rufipes</i> from China and South Africa. The results showed that the gene arrangement, CRs location, and incomplete secondary structures of <i>trnC</i> and <i>trnS<sub>1</sub></i> were similar. However, several differences presented in the two isolates, including the gene length and the termination codons of PCGs. Also, the comparison of the mitogenomes of <i>Hyalomma</i> species revealed differences in genome length, A + T content, and initiation and termination codons. Furthermore, gene rearrangement existed in the tick mitogenomes, with a unique arrangement in <i>Amblyomma transversale</i>. Additionally, our phylogenetic analyses clearly clarified the phylogenetic relationships within ticks, <i>H. rufipes</i> being clustered with other <i>Hyalomma</i> species and more closely related to <i>H. marginatum</i>.
DOI: 10.5281/zenodo.10591859
title: ENCHANT Data Türkiye Izmir Public Transport

description: The Izmir Metropolitan Municipality, with a population of about 4.3 million, carried out an intervention from December 2021 to March 2022, spanning a four-month period. During this timeframe, billboards and infographics were strategically placed at public locations and stations in Izmir to encourage residents to use public transportation more frequently. Data on hourly transportation usage across various modes in Izmir was collected, covering multiple years. The sheet labels identify experiment and control groups across various public transportation systems and lines. The Word document explains potential deficiencies in the dataset due to COVID-19 restrictions.
DOI: 10.5281/zenodo.10591860
title: ENCHANT Data Türkiye Izmir Public Transport

description: The Izmir Metropolitan Municipality, with a population of about 4.3 million, carried out an intervention from December 2021 to March 2022, spanning a four-month period. During this timeframe, billboards and infographics were strategically placed at public locations and stations in Izmir to encourage residents to use public transportation more frequently. Data on hourly transportation usage across various modes in Izmir was collected, covering multiple years. The sheet labels identify experiment and control groups across various public transportation systems and lines. The Word document explains potential deficiencies in the dataset due to COVID-19 restrictions.
DOI: 10.6084/m9.figshare.13331925.v1
title: Additional file 8 of Physiological and transcriptomic analyses reveal the roles of secondary metabolism in the adaptive responses of Stylosanthes to manganese toxicity

description: Additional file 8: Table S7. Primers used for qRT-PCR analysis.
DOI: 10.5281/zenodo.10590721
title: ENCHANT Data Austria Energie Kompass

description: In Spring 2023, ENCHANT partner Energie Kompass conducted a newsletter campaign in the Austrian federal state of Burgenland. The aim of the campaign was to test how the framing of energy saving tips influences the energy consumption of the energy communities. Therefore, energy communities were assigned to three distinct groups of approximately equal size. The consumption data set contains the total electricity consumption (kWh) per day and group. Group A received energy-saving tips addressing each community member individually, Group B received tips addressing them as a community, and Group C did not receive any tips, thus serving as control group.  The last newsletter contained a link to a survey. The responses are also attached to this collection.
DOI: 10.5281/zenodo.10590722
title: ENCHANT Data Austria Energie Kompass

description: In Spring 2023, ENCHANT partner Energie Kompass conducted a newsletter campaign in the Austrian federal state of Burgenland. The aim of the campaign was to test how the framing of energy saving tips influences the energy consumption of the energy communities. Therefore, energy communities were assigned to three distinct groups of approximately equal size. The consumption data set contains the total electricity consumption (kWh) per day and group. Group A received energy-saving tips addressing each community member individually, Group B received tips addressing them as a community, and Group C did not receive any tips, thus serving as control group.  The last newsletter contained a link to a survey. The responses are also attached to this collection.
DOI: 10.5281/zenodo.10656907
title: Characterization of long-range conduction in cable bacteria down to cryogenic temperatures

description: Dataset accompanying the manuscript "Characterization of long-range conduction in cable bacteria down to cryogenic temperatures reveals a multi-step hopping mechanism" byJasper R. van der Veen, Silvia Hidalgo Martinez, Albert Wieland, Matteo De Pellegrin, Rick Verweij,Yaroslav M. Blanter, Herre S.J. van der Zant and Filip J.R. Meysman

The dataset is described in the accompanying file:

ReadMe_DatasetDescription.txt
DOI: 10.5281/zenodo.10656908
title: Characterization of long-range conduction in cable bacteria down to cryogenic temperatures

description: Dataset accompanying the manuscript "Characterization of long-range conduction in cable bacteria down to cryogenic temperatures reveals a multi-step hopping mechanism" byJasper R. van der Veen, Silvia Hidalgo Martinez, Albert Wieland, Matteo De Pellegrin, Rick Verweij,Yaroslav M. Blanter, Herre S.J. van der Zant and Filip J.R. Meysman

The dataset is described in the accompanying file:

ReadMe_DatasetDescription.txt
DOI: 10.6084/m9.figshare.13331820
title: Additional file 2 of An optimized base editor with efficient C-to-T base editing in zebrafish

description: Additional file 2: Table S1. Germline transmission rate. Table S2. Sequencing data. Table S3. Original values related to Fig. 3. Table S4. Primer sequences and PCR conditions.