cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.6993659
title: Data files from Detection of HIV transmission clusters from phylogenetic trees using a multi-state birth–death model

description: Supporting data
DOI: 10.6084/m9.figshare.6993659.v1
title: Data files from Detection of HIV transmission clusters from phylogenetic trees using a multi-state birth–death model

description: Supporting data
DOI: 10.6084/m9.figshare.6993653
title: Is the built environment associated with morbidity and mortality? A systematic review of evidence from Germany

description: The empirical evidence on this relationship mainly comes from Anglo-American countries whereas evidence from Germany is only emerging. Our objective is to provide a narrative overview and critical appraisal of the existing empirical evidence on the relationship between the built environment and morbidity/mortality in Germany. We conducted a systematic literature search where we included all empirical studies that linked the built environment aspects with morbidity or mortality outcomes. Findings were summarized and critically evaluated according to the Newcastle Ottawa Scale. Eighteen studies met the inclusion criteria and underwent in-depth analysis. Findings indicate that traffic exposure and green space tend to be associated with acute respiratory symptoms but not with chronic respiratory conditions. Evidence was inconsistent for the role of infrastructural aspects and urbanicity. Our review confirms the well-established association between traffic and respiratory health. Yet, the consistency between self-reported and objective measures of respiratory health should be investigated in more detail.
DOI: 10.6084/m9.figshare.6993653.v1
title: Is the built environment associated with morbidity and mortality? A systematic review of evidence from Germany

description: The empirical evidence on this relationship mainly comes from Anglo-American countries whereas evidence from Germany is only emerging. Our objective is to provide a narrative overview and critical appraisal of the existing empirical evidence on the relationship between the built environment and morbidity/mortality in Germany. We conducted a systematic literature search where we included all empirical studies that linked the built environment aspects with morbidity or mortality outcomes. Findings were summarized and critically evaluated according to the Newcastle Ottawa Scale. Eighteen studies met the inclusion criteria and underwent in-depth analysis. Findings indicate that traffic exposure and green space tend to be associated with acute respiratory symptoms but not with chronic respiratory conditions. Evidence was inconsistent for the role of infrastructural aspects and urbanicity. Our review confirms the well-established association between traffic and respiratory health. Yet, the consistency between self-reported and objective measures of respiratory health should be investigated in more detail.
DOI: 10.7284/101316
title: Multibeam Echosounder data collected during research cruise KM0317 using a Kongsberg EM120 instrument system onboard the platform RV Kilo Moana
DOI: 10.6084/m9.figshare.6993632
title: Cyanobacterial Genomes

description: Two Cyanobacterial genomes binned from biofilms formed on zinc-coated panels in the subtidal zone of the Red Sea
DOI: 10.6084/m9.figshare.6993632.v1
title: Cyanobacterial Genomes

description: Two Cyanobacterial genomes binned from biofilms formed on zinc-coated panels in the subtidal zone of the Red Sea
DOI: 10.6084/m9.figshare.6993578
title: Supplementary Material for: TDO2 Overexpression Is Associated with Cancer Stem Cells and Poor Prognosis in Esophageal Squamous Cell Carcinoma

description: <b><i>Objective:</i></b> Esophageal cancer is one of the deadliest cancers in the world, and the main subtype is esophageal squamous cell carcinoma (ESCC), which comprises 90% of cases. Expression of tryptophan 2,3-dioxygenase (TDO2), an enzyme involved in tryptophan catabolism, has been linked with tumor survival and poor prognosis of brain and breast cancer. However, no studies have investigated the potential role of TDO2 in esophageal cancer. Here we explored the expression and biological significance of TDO2 in ESCC. <b><i>Methods:</i></b> TDO2 protein expression was evaluated in 90 ESCC tissue samples by immunohistochemistry. TDO2 function in ESCC cell lines and spheroid colony formation were evaluated by RNA interference (RNAi). <b><i>Results:</i></b> TDO2 overexpression was associated with tumor stage, recurrence status, and the CD44 cancer stem cell marker in ESCC. TDO2 overexpression was correlated with poor outcome of ESCC patients. Inhibition of TDO2 expression by RNAi in TE-10 and TE-11 cell lines reduced both the number and the size of spheroid colonies as well as cell proliferation. Knockdown of TDO2 expression also induced inactivation of the epidermal growth factor receptor signaling pathway. <b><i>Conclusion:</i></b> Our results imply that TDO2 could play an important role in the progression of ESCC. Furthermore, TDO2 may be a potential therapeutic target in ESCC.
DOI: 10.6084/m9.figshare.6993578.v1
title: Supplementary Material for: TDO2 Overexpression Is Associated with Cancer Stem Cells and Poor Prognosis in Esophageal Squamous Cell Carcinoma

description: <b><i>Objective:</i></b> Esophageal cancer is one of the deadliest cancers in the world, and the main subtype is esophageal squamous cell carcinoma (ESCC), which comprises 90% of cases. Expression of tryptophan 2,3-dioxygenase (TDO2), an enzyme involved in tryptophan catabolism, has been linked with tumor survival and poor prognosis of brain and breast cancer. However, no studies have investigated the potential role of TDO2 in esophageal cancer. Here we explored the expression and biological significance of TDO2 in ESCC. <b><i>Methods:</i></b> TDO2 protein expression was evaluated in 90 ESCC tissue samples by immunohistochemistry. TDO2 function in ESCC cell lines and spheroid colony formation were evaluated by RNA interference (RNAi). <b><i>Results:</i></b> TDO2 overexpression was associated with tumor stage, recurrence status, and the CD44 cancer stem cell marker in ESCC. TDO2 overexpression was correlated with poor outcome of ESCC patients. Inhibition of TDO2 expression by RNAi in TE-10 and TE-11 cell lines reduced both the number and the size of spheroid colonies as well as cell proliferation. Knockdown of TDO2 expression also induced inactivation of the epidermal growth factor receptor signaling pathway. <b><i>Conclusion:</i></b> Our results imply that TDO2 could play an important role in the progression of ESCC. Furthermore, TDO2 may be a potential therapeutic target in ESCC.
DOI: 10.6084/m9.figshare.6993575
title: Supplementary Material for: Obstructive Sleep Apnoea and Aortic Aneurysm: A Nationwide Population-Based Retrospective Study

description: <b><i>Objective:</i></b> To determine whether patients with obstructive sleep apnoea (OSA) have an increased risk of aortic aneurysm (AA). <b><i>Methods:</i></b> The data for the nationwide population-based retrospective cohort study described here were obtained from the Taiwan National Health Insurance Research Database (NHIRD). We selected adult patients who had been newly diagnosed as having OSA and were followed up between 2000 and 2010. We excluded patients who had been diagnosed as having AA before the date of the new OSA diagnosis. The control cohort consisted of individuals who had no OSA history. The patients and the control cohort were selected by 1: 4 matching according to the following baseline variables: sex, age, index year, and comorbidities. The outcome measure was AA diagnosis. <b><i>Results:</i></b> In total, 31,274 patients diagnosed as having OSA were identified. Compared to patients without OSA, they had no significantly discrepant cumulative risk of developing AA in subsequent years (<i>p</i> from log-rank test = 0.442). We used the Cox proportional-hazards regression model, which found that only male sex, older age, diabetes mellitus, chronic obstructive pulmonary disease (COPD), and coronary artery disease were independently associated with AA occurrence among subjects with an OSA diagnosis. OSA was not associated with AA development. On the other hand, in the subgroup of COPD, patients with OSA had a higher incidence of risk of AA than those without OSA. <b><i>Conclusion:</i></b> When compared to those without OSA, patients with OSA do not have an increased AA risk.
DOI: 10.6084/m9.figshare.6993545
title: Supplementary Material for: miR-146a Mimics Attenuate Allergic Airway Inflammation by Impacted Group 2 Innate Lymphoid Cells in an Ovalbumin-Induced Asthma Mouse Model

description: <b><i>Background:</i></b> The prevalence of allergic asthma has increased dramatically. Previous studies have found that the microRNA 146a (miR-146a) expression in asthma inhibits cell proliferation and promotes apoptosis of bronchial smooth muscle cells. We aimed to investigate the effect of miR-146a mimics on ovalbumin (OVA)-induced asthma in a mouse model. <b><i>Methods:</i></b> Inflammatory cell infiltration in bronchoalveolar lavage fluid (BALF) was measured by flow cytometry. Levels of OVA-specific immunoglobulin E (IgE) in serum and cytokines in BALF were examined by enzyme-linked immunosorbent assay. For monitoring the airway, the Penh value (% baseline) was measured using a whole-body plethysmograph. <b><i>Results:</i></b> In OVA-induced asthmatic mice, miR-146a significantly suppressed the infiltration of inflammatory cells in BALF and decreased the levels of OVA-specific IgE and T helper 2 cell type cytokines. In addition, miR-146a inhibited the OVA-induced airway hyperresponsiveness and the group 2 innate lymphoid cell responses. Moreover, the effects of miR-146a mimics were dependent on interleukin 33 stimulation. <b><i>Conclusions:</i></b> Our results suggest that miR-146a mimics might serve as an attractive candidate for further preclinical studies as an anti-inflammatory treatment of asthma.
DOI: 10.6084/m9.figshare.6993542
title: Data:Influence of Solar Activities on GNSS Broadcast Ionospheric Models

description: TEC,ROT,RD data computed by GPS observations at IGS and COMNOC stations during twelve solar flare events.
DOI: 10.6084/m9.figshare.6993530
title: CleanFileAuswertung_Conjoint_2017-11-16.sav

description: Data was used to conduct a discrete choice experiment, a non-random, cross sectional, and attribute-based survey method, to assess patients’ preferences regarding the treatment process.Variables B001 till B006 describe the choices made by the patients.The other variables describe sociodemografic data.<br><br>
DOI: 10.6084/m9.figshare.6993542.v1
title: Data:Influence of Solar Activities on GNSS Broadcast Ionospheric Models

description: TEC,ROT,RD data computed by GPS observations at IGS and COMNOC stations during twelve solar flare events.
DOI: 10.6084/m9.figshare.6993530.v2
title: CleanFileAuswertung_Conjoint_2017-11-16.sav

description: Data was used to conduct a discrete choice experiment, a non-random, cross sectional, and attribute-based survey method, to assess patients’ preferences regarding the treatment process.Variables B001 till B006 describe the choices made by the patients.The other variables describe sociodemografic data.<br><br>
DOI: 10.6084/m9.figshare.6993530.v1
title: CleanFileAuswertung_Conjoint_2017-11-16.sav

description: Data was used to conduct a discrete choice experiment, a non-random, cross sectional, and attribute-based survey method, to assess patients’ preferences regarding the treatment process.Variables B001 till B006 describe the choices made by the patients.The other variables describe sociodemografic data.<br><br>
DOI: 10.6084/m9.figshare.6993518
title: Alternation of ten-eleven translocation 1, 2, and 3 expression in eutopic endometrium of women with endometriosis-associated infertility

description: Little is known about the differences in ten-eleven translocation 1, 2, and 3 (TET1-3) expression in the endometrial phases in eutopic endometrium from infertile women with endometriosis (IWE) and fertile women without endometriosis (FW). Using RT-qPCR and western blot analysis, we assessed the TET expression in the mid-follicular and mid-luteal phases in eutopic endometrium from IWE (<i>n</i> = 38) and FW (<i>n</i> = 18). Both IWE and FW underwent laparoscopic and histological examinations for endometriosis. In the mid-luteal eutopic endometrium in IWE, compared to that of FW, we found significantly reduced levels of TET1 transcripts and proteins (<i>p</i> = .001 and <i>p</i> = .003, respectively) at the severity stage of I/II (<i>p</i> = .029 and <i>p</i> = .003, respectively) and transcripts only at the severity stage of III/IV (<i>p</i> = .003). In the mid-follicular eutopic endometrium of IWE, compared to that of FW, there was a statistically significant reduction in TET2 transcript levels at the severity stage of III/IV (<i>p</i> = .037). Compared to the mid-follicular endometrium, we found a statistically significant increase in TET3 transcript levels during the mid-luteal phase in the eutopic endometrium of all IWE (<i>p</i> = .034) and in the severity stage of III/IV (<i>p</i> = .025). We observed a change in the expression levels of TET1-3 in the eutopic endometrium of IWE. 我们对有子宫内膜异位症的不孕妇女（IWE）和无子宫内膜异位症的非不孕妇女之间的在位子宫内膜中TET1、2、3表达的差异几无所知。我们用RT-qPCR和免疫印迹分析方法, 评估了IWE（n=38）和FW（n=18）妇女的卵泡中期和黄体中期在位子宫内膜中TET的表达情况。 IWE和FW两组妇女都通过腹腔镜手术和组织学检查对子宫内膜异位症进行了评价。我们发现与FW妇女黄体中期的在位子宫内膜相比, I/II期IWE妇女的黄体中期在位子宫内膜中TET1转录物和蛋白质的水平都显着降低（分别为p=0.001和p=0.003）、（分别为p=0.029和p=0.003）, III/IV期IWE妇女的黄体中期在位子宫内膜中只有TET1转录物的水平显着降低（p=0.003）。IWE妇女与FW妇女的卵泡中期在位子宫内膜进行比较, 在III/IV期的IWE妇女中, TET2转录物的水平有明显降低, 差异有统计学意义（p=0.037）。我们发现与卵泡中期在位子宫内膜相比, 在所有IWE妇女以及在III/IV期的IWE妇女中黄体中期的在位子宫内膜中TET3转录物水平有显着增加, 差异有统计学意义（p=0.034）和（p=0.025）。我们观察到了IWE妇女的在位子宫内膜中TET1-3表达水平的变化。
DOI: 10.6084/m9.figshare.6993518.v1
title: Alternation of ten-eleven translocation 1, 2, and 3 expression in eutopic endometrium of women with endometriosis-associated infertility

description: Little is known about the differences in ten-eleven translocation 1, 2, and 3 (TET1-3) expression in the endometrial phases in eutopic endometrium from infertile women with endometriosis (IWE) and fertile women without endometriosis (FW). Using RT-qPCR and western blot analysis, we assessed the TET expression in the mid-follicular and mid-luteal phases in eutopic endometrium from IWE (<i>n</i> = 38) and FW (<i>n</i> = 18). Both IWE and FW underwent laparoscopic and histological examinations for endometriosis. In the mid-luteal eutopic endometrium in IWE, compared to that of FW, we found significantly reduced levels of TET1 transcripts and proteins (<i>p</i> = .001 and <i>p</i> = .003, respectively) at the severity stage of I/II (<i>p</i> = .029 and <i>p</i> = .003, respectively) and transcripts only at the severity stage of III/IV (<i>p</i> = .003). In the mid-follicular eutopic endometrium of IWE, compared to that of FW, there was a statistically significant reduction in TET2 transcript levels at the severity stage of III/IV (<i>p</i> = .037). Compared to the mid-follicular endometrium, we found a statistically significant increase in TET3 transcript levels during the mid-luteal phase in the eutopic endometrium of all IWE (<i>p</i> = .034) and in the severity stage of III/IV (<i>p</i> = .025). We observed a change in the expression levels of TET1-3 in the eutopic endometrium of IWE. 我们对有子宫内膜异位症的不孕妇女（IWE）和无子宫内膜异位症的非不孕妇女之间的在位子宫内膜中TET1、2、3表达的差异几无所知。我们用RT-qPCR和免疫印迹分析方法, 评估了IWE（n=38）和FW（n=18）妇女的卵泡中期和黄体中期在位子宫内膜中TET的表达情况。 IWE和FW两组妇女都通过腹腔镜手术和组织学检查对子宫内膜异位症进行了评价。我们发现与FW妇女黄体中期的在位子宫内膜相比, I/II期IWE妇女的黄体中期在位子宫内膜中TET1转录物和蛋白质的水平都显着降低（分别为p=0.001和p=0.003）、（分别为p=0.029和p=0.003）, III/IV期IWE妇女的黄体中期在位子宫内膜中只有TET1转录物的水平显着降低（p=0.003）。IWE妇女与FW妇女的卵泡中期在位子宫内膜进行比较, 在III/IV期的IWE妇女中, TET2转录物的水平有明显降低, 差异有统计学意义（p=0.037）。我们发现与卵泡中期在位子宫内膜相比, 在所有IWE妇女以及在III/IV期的IWE妇女中黄体中期的在位子宫内膜中TET3转录物水平有显着增加, 差异有统计学意义（p=0.034）和（p=0.025）。我们观察到了IWE妇女的在位子宫内膜中TET1-3表达水平的变化。
DOI: 10.6084/m9.figshare.6993476
title: Annotation information of the whelk full length transcriptome

description: Annotation information of the whelk full length transcriptome
DOI: 10.6084/m9.figshare.6993476.v1
title: Annotation information of the whelk full length transcriptome

description: Annotation information of the whelk full length transcriptome
DOI: 10.6084/m9.figshare.6993467
title: Changes in the potential distribution of invasive plant species in continental Spain in response to climate change

description: <b>Background</b>: Climate change may increase the risk of biological invasions. However, current knowledge of this interaction is limited. <b>Aims</b>: We aimed to quantify (1) the effect of climate change on the potential distribution of invasive plant species in Spain, (2) the importance of the area of origin of such species and (3) the vulnerability of different biogeographic provinces to future changes in climatic suitability for invaders. <b>Methods</b>: We applied six methods of species distribution modelling to assess the variation of climatically suitable areas for 40 alien plants. We developed a Potential Area Change Index and used it as the response variable in modelling for three future emissions scenarios and three global circulation models over three time periods. The area of origin and biogeographic province in Spain were also considered. <b>Results</b>: We found a highly specific response for each plant species rather than a clear trend for the entire set of species. Predicted climate suitability increased over higher emission scenarios and longer projected time lags. Neotropical species showed the greatest potential climatic range expansion. We detected a strong interaction between the geographic origin of a species and the biogeographic province. <b>Conclusions</b>: Special attention should be given to the areas where aridification of climate is projected and where introduced neotropical species are likely to expand their range. Future work should develop accurate species-specific approaches that allow the management invasive plant species.
DOI: 10.6084/m9.figshare.6993467.v1
title: Changes in the potential distribution of invasive plant species in continental Spain in response to climate change

description: <b>Background</b>: Climate change may increase the risk of biological invasions. However, current knowledge of this interaction is limited. <b>Aims</b>: We aimed to quantify (1) the effect of climate change on the potential distribution of invasive plant species in Spain, (2) the importance of the area of origin of such species and (3) the vulnerability of different biogeographic provinces to future changes in climatic suitability for invaders. <b>Methods</b>: We applied six methods of species distribution modelling to assess the variation of climatically suitable areas for 40 alien plants. We developed a Potential Area Change Index and used it as the response variable in modelling for three future emissions scenarios and three global circulation models over three time periods. The area of origin and biogeographic province in Spain were also considered. <b>Results</b>: We found a highly specific response for each plant species rather than a clear trend for the entire set of species. Predicted climate suitability increased over higher emission scenarios and longer projected time lags. Neotropical species showed the greatest potential climatic range expansion. We detected a strong interaction between the geographic origin of a species and the biogeographic province. <b>Conclusions</b>: Special attention should be given to the areas where aridification of climate is projected and where introduced neotropical species are likely to expand their range. Future work should develop accurate species-specific approaches that allow the management invasive plant species.
DOI: 10.6084/m9.figshare.6993464
title: FL_Transcript.polished_consensus.fasta

description: Consensus reads obtained by Iso-Seq<br>
DOI: 10.6084/m9.figshare.6993464.v1
title: FL_Transcript.polished_consensus.fasta

description: Consensus reads obtained by Iso-Seq<br>
DOI: 10.7284/101320
title: Multibeam Echosounder data collected during research cruise KM0319 using a Kongsberg EM1002 instrument system onboard the platform RV Kilo Moana
DOI: 10.18462/iir.rankine.2020.1156
title: New ISO 17584 standard formulations for Cis-1,1,1,4,4,4-Hexafluorobutene [R1336mzz(Z)] and Trans-1-Chloro-3,3,3-Trifluoropropene [R1233zd(E)].
DOI: 10.6084/m9.figshare.6993059
title: MOESM3 of Field studies reveal a close relative of C. elegans thrives in the fresh figs of Ficus septica and disperses on its Ceratosolen pollinating wasps

description: Additional file 3. Alignment of Ficus septica fig-derived COI sequences plus additional COI sequences from relevant species.
DOI: 10.6084/m9.figshare.6993059.v1
title: MOESM3 of Field studies reveal a close relative of C. elegans thrives in the fresh figs of Ficus septica and disperses on its Ceratosolen pollinating wasps

description: Additional file 3. Alignment of Ficus septica fig-derived COI sequences plus additional COI sequences from relevant species.
DOI: 10.6084/m9.figshare.6993053
title: MOESM2 of Field studies reveal a close relative of C. elegans thrives in the fresh figs of Ficus septica and disperses on its Ceratosolen pollinating wasps

description: Additional file 2. Top BLAST hits for Ficus septica fig-derived COI sequences.
DOI: 10.6084/m9.figshare.6993053.v1
title: MOESM2 of Field studies reveal a close relative of C. elegans thrives in the fresh figs of Ficus septica and disperses on its Ceratosolen pollinating wasps

description: Additional file 2. Top BLAST hits for Ficus septica fig-derived COI sequences.
DOI: 10.6084/m9.figshare.6993044
title: MOESM1 of Field studies reveal a close relative of C. elegans thrives in the fresh figs of Ficus septica and disperses on its Ceratosolen pollinating wasps

description: Additional file 1. 2016 Ficus septica fig field data.
DOI: 10.6084/m9.figshare.6993044.v1
title: MOESM1 of Field studies reveal a close relative of C. elegans thrives in the fresh figs of Ficus septica and disperses on its Ceratosolen pollinating wasps

description: Additional file 1. 2016 Ficus septica fig field data.
DOI: 10.7284/101325
title: Multibeam Echosounder data collected during research cruise KM0322 using a Kongsberg EM120 instrument system onboard the platform RV Kilo Moana
DOI: 10.6084/m9.figshare.6993020
title: Additional file 1: of Mutagenic properties of dimethylaniline isomers in mice as evaluated by comet, micronucleus and transgenic mutation assays

description: Table S1. Types of comet induced by DMAs at 3 and 24Â h after the treatment in bone marrow, liver, kidney and lung of ddY mouse. (XLS 123Â kb)
DOI: 10.6084/m9.figshare.6993020.v1
title: Additional file 1: of Mutagenic properties of dimethylaniline isomers in mice as evaluated by comet, micronucleus and transgenic mutation assays

description: Table S1. Types of comet induced by DMAs at 3 and 24Â h after the treatment in bone marrow, liver, kidney and lung of ddY mouse. (XLS 123Â kb)