cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.4559380
title: Tweet Sentiments and Stock Market: New Evidence from China

description: The data set comes from our working paper "Tweet Sentiments and Stock Market: New Evidence from China", including the stock prices, number of stock-related tweets with different emotions at different days.<br>It shows the closing price of Shanghai composite index (SHCI), volumes of Tweets with different sentiments and two indices based on the Tweets. The first column shows the time, covering the period of 2014/06/03-2014/12/31. The second column is the SHCI of each trading day. The 3rd-8th columns are the numbers of Tweets with different sentiments, including anger, joyful, disgust, fear and sadness. The 9th column is the number of Tweets with negative sentiments. The last two columns show the indices of Agreement and Bullishness.<br><br>Please cite the paper: Yingying Xu, Zhixin Liu, Jichang Zhao and Chiwei Su. Weibo sentiments and stock return: A time- frequency view. PLoS ONE 12(7): e0180723, 2017.
DOI: 10.6084/m9.figshare.4559374
title: Injury Prevalence and Safety Habits of Boda Bodas in Moshi Tanzania: A Mixed Methods Study

description: Background: Road traffic crashes are a major cause of global morbidity and mortality disproportionately affecting low- and middle-income countries (LMIC). Motorcycle taxi, or boda boda drivers are particularly vulnerable because they are exposed to traffic risks with limited safety equipment. This study aims to characterize injury prevalence and safety habits among boda boda drivers, as well as ways to improve road traffic safety in a LMIC. Methods: A prospective mixed methods interview and safety assessment was administered to 300 boda boda drivers between 24 March and 3 April 2014 in urban Moshi, Tanzania. Participants were chosen randomly from 25 of 58 registered boda boda stands and 2 of 31 unregistered stands. The survey was administered using a computerized and internet based survey tool and tablet computers. Data were analyzed using R, and a thematic analysis was performed and agreed upon by three investigators (MP, TN, CAS). A network analysis was performed to evaluate the association between boda boda characteristics and injury risk. Results: In total, 300 drivers participated of which 148 (49.3%) experienced a lifetime crash, and 114 (77.0%) sustained at least one injury. Only 27 of those injured (23.4%) were hospitalized. 220 participants (73.3%) reported consistent helmet usage despite the fact that 285 participants (95.0%) agree that helmet usage reduces injury severity. Of the 280 helmets observed, 231 (82.5%) were either damaged or fit improperly. A thematic analysis of boda boda drivers’ suggestions to increase road safety identified four intervention areas: 1) roadway infrastructure and traffic regulation, 2) road user attitudes and safe driving behaviors, 3) education and training, and 4) law enforcement.<br>Conclusion: Our study demonstrates a high prevalence of road traffic crashes and injuries amongst boda boda drivers. The study identifies four intervention areas that can be leveraged to increase overall road traffic safety. Unfortunately, while boda boda drivers are aware of ways to improve safety, adherence to safety habits remains low. Successful multi-sectoral interventions are needed to improve road safety for boda boda drivers in Tanzania.
DOI: 10.6084/m9.figshare.4559242
title: Experimental Data.xlsx

description: These data includes the dadissolved oxygen (DO, mg/L), pH , total nitrogen (TN, mg/L), total phosphorus (TP, mg/L) and Chlorophyll a (Chl-a, mg/L) ,phytoplankton biomass (PB) in the Xiaojiang Bay in Three Gorges Reservoir.
DOI: 10.6084/m9.figshare.4559236
title: Indoor Air DNA and RNA Microbiomes

description: Abstract add here
DOI: 10.6084/m9.figshare.4559242.v1
title: Experimental Data.xlsx

description: These data includes the dadissolved oxygen (DO, mg/L), pH , total nitrogen (TN, mg/L), total phosphorus (TP, mg/L) and Chlorophyll a (Chl-a, mg/L) ,phytoplankton biomass (PB) in the Xiaojiang Bay in Three Gorges Reservoir.
DOI: 10.6084/m9.figshare.4559236.v3
title: Indoor Air DNA and RNA Microbiomes

description: Abstract add here
DOI: 10.6084/m9.figshare.4559218.v2
title: ANDROID BASED EDUCATIONAL GAME IN INDONESIAN TEYL

description: This study aims to describe the effectiveness of Android based educational game to improve young learners’ ability in learning English vocabulary. The fourth graders of primary school were pointed as the subjects of this research. Pre-experimental design was applied by using (pre- and post-) test as the main instrument. Based on the statistical analysis of the data, the results show that the use of educational game from Android (App Inventor) improved the students’ English competence in learning vocabulary. The students get in-depth understanding about the topic of animal identified from the better score in post test. Furthermore, the game<br>greatly encourages the students in giving active participation during the classroom activities. <br>
DOI: 10.4225/03/587ea127efb2e
title: intergenic PFEs bed file

description: A bed file containing all intergenic PFEs identified in the paper.
DOI: 10.4225/03/587ea185a0b46
title: intronic PFEs bed file

description: A bed file containing all intronic PFEs identified in the paper.<br>
DOI: 10.6084/m9.figshare.4558459
title: Complex-Valued Wavelet Lifting and Applications

description: Signals with irregular sampling structures arise naturally in many fields. In applications such as spectral decomposition and nonparametric regression, classical methods often assume a regular sampling pattern, thus cannot be applied without prior data processing. This work proposes new complex-valued analysis techniques based on the wavelet lifting scheme that removes “one coefficient at a time.” Our proposed lifting transform can be applied directly to irregularly sampled data and is able to adapt to the signal(s)’ characteristics. As our new lifting scheme produces complex-valued wavelet coefficients, it provides an alternative to the Fourier transform for irregular designs, allowing phase or directional information to be represented. We discuss applications in bivariate time series analysis, where the complex-valued lifting construction allows for coherence and phase quantification. We also demonstrate the potential of this flexible methodology over real-valued analysis in the nonparametric regression context. Supplementary materials for this article are available online.
DOI: 10.6084/m9.figshare.4558459.v2
title: Complex-Valued Wavelet Lifting and Applications

description: Signals with irregular sampling structures arise naturally in many fields. In applications such as spectral decomposition and nonparametric regression, classical methods often assume a regular sampling pattern, thus cannot be applied without prior data processing. This work proposes new complex-valued analysis techniques based on the wavelet lifting scheme that removes “one coefficient at a time.” Our proposed lifting transform can be applied directly to irregularly sampled data and is able to adapt to the signal(s)’ characteristics. As our new lifting scheme produces complex-valued wavelet coefficients, it provides an alternative to the Fourier transform for irregular designs, allowing phase or directional information to be represented. We discuss applications in bivariate time series analysis, where the complex-valued lifting construction allows for coherence and phase quantification. We also demonstrate the potential of this flexible methodology over real-valued analysis in the nonparametric regression context. Supplementary materials for this article are available online.
DOI: 10.6084/m9.figshare.4558456.v2
title: miR-148a and miR-17–5p synergistically regulate milk TAG synthesis via <i>PPARGC1A</i> and <i>PPARA</i> in goat mammary epithelial cells

description: MicroRNA (miRNA) are a class of ‘18–25’ nt RNA molecules which regulate gene expression and play an important role in several biologic processes including fatty acid metabolism. Here we used S-Poly (T) and high-throughput sequencing to evaluate the expression of miRNA and mRNA during early-lactation and in the non-lactating (“dry”) period in goat mammary gland tissue. Results indicated that miR-148a, miR-17–5p, <i>PPARGC1A</i> and <i>PPARA</i> are highly expressed in the goat mammary gland in early-lactation and non-lactating periods. Utilizing a Luciferase reporter assay and Western Blot, <i>PPARA</i>, an important regulator of fatty acid oxidation, and <i>PGC1a (PPARGC1A)</i>, a major regulator of fat metabolism, were demonstrated to be targets of miR-148a and miR-17–5p in goat mammary epithelial cells (GMECs). It was also revealed that miR-148a expression can regulate <i>PPARA</i>, and miR-17–5p represses <i>PPARGC1A</i> in GMECs. Furthermore, the overexpression of miR-148a and miR-17–5p promoted triacylglycerol (TAG) synthesis while the knockdown of miR-148a and miR-17–5p impaired TAG synthesis in GMEC. These findings underscore the importance of miR-148a and miR-17–5p as key components in the regulation of TAG synthesis. In addition, miR-148a cooperates with miR-17–5p to regulate fatty acid metabolism by repressing <i>PPARGC1A</i> and <i>PPARA</i> in GMECs. Further studies on the functional role of miRNAs in lipid metabolism of ruminant mammary cells seem warranted.
DOI: 10.6084/m9.figshare.4558456.v1
title: miR-148a and miR-17-5p synergistically regulate milk TAG synthesis via <i>PPARGC1A</i> and <i>PPARA</i> in goat mammary epithelial cells

description: MicroRNA (miRNA) are a class of ‘18–25’ nt RNA molecules which regulate gene expression and play an important role in several biological processes including fatty acid metabolism. Here we utilized S-Poly (T) and high-throughput sequencing to evaluate the expression of miRNA and mRNA during early-lactation and in the non-lactating (“dry”) period in goat mammary gland tissue. Results indicated that miR-148a, miR-17–5p, <i>PPARGC1A</i> and <i>PPARA</i> are highly expressed in the goat mammary gland in early-lactation and non-lactating periods. Utilizing a Luciferase reporter assay and Western Blot, <i>PPARA</i>, an important regulator of fatty acid oxidation, and <i>PGC1a (PPARGC1A)</i>, a major regulator of fat metabolism, were demonstrated to be targets of miR-148a and miR-17–5p in goat mammary epithelial cells (GMECs). It was also revealed that miR-148a expression can regulate <i>PPARA</i>, and miR-17–5p represses <i>PPARGC1A</i> in GMECs. Furthermore, the over expression of miR-148a and miR-17–5p promoted triacylglycerol (TAG) synthesis while the knockdown of miR-148a and miR-17–5p impaired TAG synthesis in GMEC. These findings underscore the importance of miR-148a and miR-17–5p as key components in the regulation of TAG synthesis. In addition, miR-148a cooperates with miR-17–5p to regulate fatty acid metabolism by repressing <i>PPARGC1A</i> and <i>PPARA</i> in GMECs. Further studies on the functional role of miRNAs in lipid metabolism of ruminant mammary cells seem warranted.
DOI: 10.6084/m9.figshare.4558459.v1
title: Complex-valued wavelet lifting and applications

description: Signals with irregular sampling structures arise naturally in many fields. In applications such as spectral decomposition and nonparametric regression, classical methods often assume a regular sampling pattern, thus cannot be applied without prior data processing. This work proposes new complex-valued analysis techniques based on the wavelet lifting scheme that removes ‘one coefficient at a time’. Our proposed lifting transform can be applied directly to irregularly sampled data and is able to adapt to the signal(s)' characteristics. As our new lifting scheme produces complex-valued wavelet coefficients, it provides an alternative to the Fourier transform for irregular designs, allowing phase or directional information to be represented. We discuss applications in bivariate time series analysis, where the complex-valued lifting construction allows for coherence and phase quantification. We also demonstrate the potential of this flexible methodology over real-valued analysis in the nonparametric regression context.
DOI: 10.6084/m9.figshare.4558297
title: Reduced penetrance in a large Caucasian pedigree with Stickler syndrome

description: <i>Background</i>: In a four-generation Caucasian family variably diagnosed with autosomal dominant (AD) Stickler or Wagner disease, commercial gene screening failed to identify a mutation in <i>COL2A1</i> or <i>VCAN</i>. We utilized linkage mapping and exome sequencing to identify the causal variant. <i>Materials and methods</i>: Genomic DNA samples collected from 40 family members were analyzed. A whole-genome linkage scan was performed using Illumina HumanLinkage-24 BeadChip followed by two-point and multipoint linkage analyses using FASTLINK and MERLIN. Exome sequencing was performed on two affected individuals, followed by co-segregation analysis. <i>Results</i>: Parametric multipoint linkage analysis using an AD inheritance model demonstrated HLOD scores &gt; 2.00 at chromosomes 1p36.13-1p36.11 and 12q12-12q14.1. SIMWALK multipoint analysis replicated the peak in chromosome 12q (peak LOD = 1.975). FASTLINK two-point analysis highlighted several clustered chromosome 12q SNPs with HLOD &gt; 1.0. Exome sequencing revealed a novel nonsense mutation (c.115C&gt;T, p.Gln39*) in exon 2 of <i>COL2A1</i> that is expected to result in nonsense-mediated decay of the RNA transcript. This mutation co-segregated with all clinically affected individuals and seven individuals who were clinically unaffected. <i>Conclusions</i>: The utility of combining traditional linkage mapping and exome sequencing is highlighted to identify gene mutations in large families displaying a Mendelian inheritance of disease. Historically, nonsense mutations in exon 2 of <i>COL2A1</i> have been reported to cause a fully penetrant ocular-only Stickler phenotype with few or no systemic manifestations. We report a novel nonsense mutation in exon 2 of <i>COL2A1</i> that displays incomplete penetrance and/or variable age of onset with extraocular manifestations.
DOI: 10.6084/m9.figshare.4558288
title: Joint association of complement component 3 and CC-cytokine ligand2 (<i>CCL2</i>) or complement component 3 and <i>CFH</i> polymorphisms in age-related macular degeneration

description: <i>Background</i>: To determine the joint effect of complement component 3(C3 R102G) with CC-cytokine ligand2 (<i>CCL2</i>-2518) or complement factor H (<i>CFH</i>) Y402H polymorphisms on advanced age-related macular degeneration (AMD). <i>Methods</i>: In this case-control study, 233 patients with advanced AMD and 159 unrelated healthy controls enrolled for evaluation. Selected polymorphisms were determined by polymerase chain reaction and restriction fragment length polymorphism. <i>Results</i>: A combination of AA <i>CCL2</i> (rs1024611) and GG C3 (R102G) genotypes resulted in a super-additivity of the risks: OR = 10.13, 95% CI 1.04–98.49, <i>p</i> = 0.04, adjusted OR = 7.74, 95% CI 0.71–84.75, <i>p</i> &lt; 0.1, adjusted synergy indices: relative excess risk due to interaction (RERI) = 1.38, the attributable proportion due to interaction (AP) = 24.7% and the synergy index (S) = 1.43. Combination of at-risk genotypes of <i>CFH</i> Y402H and C3 R102G resulted in a strong super-additive risk: adjusted OR = 22.65, 95% CI 2.32–220.91, <i>p</i> = 0.007, adjusted AP = 90.4% and the S = 12.86. Attributable proportion of risk owing to C3-<i>CCL2</i> and C3-<i>CFH</i> interaction calculated at 25% and 90% for advanced AMD. <i>Conclusion</i>: We have previously shown a strong association of C3 (R102G) and <i>CFH</i> Y402H with AMD whereas no association was found for <i>CCL2</i>-2518. This study enclosed strong synergistic association of risk genotypes of C3 and <i>CFH</i> Y402H with AMD. We also revealed synergistic influence of <i>CCL2</i>-2518 and the at-risk genotype of the C3 in AMD with an estimated AP = 50.9% (adjusted AP = 24.7%). Present findings show that <i>CCL2</i>-2518 polymorphism is not an innocent bystander in AMD susceptibility when combined with the at-risk genotype of C3 (R102G).
DOI: 10.6084/m9.figshare.4558297.v1
title: Reduced penetrance in a large Caucasian pedigree with Stickler syndrome

description: <i>Background</i>: In a four-generation Caucasian family variably diagnosed with autosomal dominant (AD) Stickler or Wagner disease, commercial gene screening failed to identify a mutation in <i>COL2A1</i> or <i>VCAN</i>. We utilized linkage mapping and exome sequencing to identify the causal variant. <i>Materials and methods</i>: Genomic DNA samples collected from 40 family members were analyzed. A whole-genome linkage scan was performed using Illumina HumanLinkage-24 BeadChip followed by two-point and multipoint linkage analyses using FASTLINK and MERLIN. Exome sequencing was performed on two affected individuals, followed by co-segregation analysis. <i>Results</i>: Parametric multipoint linkage analysis using an AD inheritance model demonstrated HLOD scores &gt; 2.00 at chromosomes 1p36.13-1p36.11 and 12q12-12q14.1. SIMWALK multipoint analysis replicated the peak in chromosome 12q (peak LOD = 1.975). FASTLINK two-point analysis highlighted several clustered chromosome 12q SNPs with HLOD &gt; 1.0. Exome sequencing revealed a novel nonsense mutation (c.115C&gt;T, p.Gln39*) in exon 2 of <i>COL2A1</i> that is expected to result in nonsense-mediated decay of the RNA transcript. This mutation co-segregated with all clinically affected individuals and seven individuals who were clinically unaffected. <i>Conclusions</i>: The utility of combining traditional linkage mapping and exome sequencing is highlighted to identify gene mutations in large families displaying a Mendelian inheritance of disease. Historically, nonsense mutations in exon 2 of <i>COL2A1</i> have been reported to cause a fully penetrant ocular-only Stickler phenotype with few or no systemic manifestations. We report a novel nonsense mutation in exon 2 of <i>COL2A1</i> that displays incomplete penetrance and/or variable age of onset with extraocular manifestations.
DOI: 10.6084/m9.figshare.4558285
title: SM05_Zp

description: This is the full dataset of the Zp_model index.
DOI: 10.6084/m9.figshare.4558285.v1
title: SM05_Zp

description: This is the full dataset of the Zp_model index.
DOI: 10.6084/m9.figshare.4558267
title: SM04_Zp_dataset_std_values

description: This is the full dataset after standardized based on the SM03_Zp_model_dataset<br>
DOI: 10.6084/m9.figshare.4558288.v2
title: Joint association of complement component 3 and CC-cytokine ligand2 (<i>CCL2</i>) or complement component 3 and <i>CFH</i> polymorphisms in age-related macular degeneration

description: <i>Background</i>: To determine the joint effect of complement component 3(C3 R102G) with CC-cytokine ligand2 (<i>CCL2</i>-2518) or complement factor H (<i>CFH</i>) Y402H polymorphisms on advanced age-related macular degeneration (AMD). <i>Methods</i>: In this case-control study, 233 patients with advanced AMD and 159 unrelated healthy controls enrolled for evaluation. Selected polymorphisms were determined by polymerase chain reaction and restriction fragment length polymorphism. <i>Results</i>: A combination of AA <i>CCL2</i> (rs1024611) and GG C3 (R102G) genotypes resulted in a super-additivity of the risks: OR = 10.13, 95% CI 1.04–98.49, <i>p</i> = 0.04, adjusted OR = 7.74, 95% CI 0.71–84.75, <i>p</i> &lt; 0.1, adjusted synergy indices: relative excess risk due to interaction (RERI) = 1.38, the attributable proportion due to interaction (AP) = 24.7% and the synergy index (S) = 1.43. Combination of at-risk genotypes of <i>CFH</i> Y402H and C3 R102G resulted in a strong super-additive risk: adjusted OR = 22.65, 95% CI 2.32–220.91, <i>p</i> = 0.007, adjusted AP = 90.4% and the S = 12.86. Attributable proportion of risk owing to C3-<i>CCL2</i> and C3-<i>CFH</i> interaction calculated at 25% and 90% for advanced AMD. <i>Conclusion</i>: We have previously shown a strong association of C3 (R102G) and <i>CFH</i> Y402H with AMD whereas no association was found for <i>CCL2</i>-2518. This study enclosed strong synergistic association of risk genotypes of C3 and <i>CFH</i> Y402H with AMD. We also revealed synergistic influence of <i>CCL2</i>-2518 and the at-risk genotype of the C3 in AMD with an estimated AP = 50.9% (adjusted AP = 24.7%). Present findings show that <i>CCL2</i>-2518 polymorphism is not an innocent bystander in AMD susceptibility when combined with the at-risk genotype of C3 (R102G).
DOI: 10.6084/m9.figshare.4558264
title: SM03_Zp_model_dataset

description: This is the full dataset for the Zp predictive model within the corrections (perturbation calculation).
DOI: 10.6084/m9.figshare.4558267.v1
title: SM04_Zp_dataset_std_values

description: This is the full dataset after standardized based on the SM03_Zp_model_dataset<br>
DOI: 10.6084/m9.figshare.4558288.v1
title: Joint association of complement component 3 and CC-cytokine ligand2 (CCL2) or complement component 3 and CFH polymorphisms in age-related macular degeneration

description: <i>Background</i>: To determine the joint effect of complement component 3(C3 R102G) with CC-cytokine ligand2 (CCL2-2518) or complement factor H (CFH) Y402H polymorphisms on advanced age-related macular degeneration (AMD). <i>Methods</i>: In this case-control study, 233 patients with advanced AMD and 159 unrelated healthy controls enrolled for evaluation. Selected polymorphisms were determined by polymerase chain reaction and restriction fragment length polymorphism. <i>Results</i>: A combination of AA CCL2 (rs1024611) and GG C3 (R102G) genotypes resulted in a super-additivity of the risks: OR = 10.13, 95% CI 1.04–98.49, <i>p</i> = 0.04, adjusted OR = 7.74, 95% CI 0.71–84.75, <i>p</i> &lt; 0.1, adjusted synergy indices: relative excess risk due to interaction (RERI) = 1.38, the attributable proportion due to interaction (AP) = 24.7% and the synergy index (S) = 1.43. Combination of at-risk genotypes of CFH Y402H and C3 R102G resulted in a strong super-additive risk: adjusted OR = 22.65, 95% CI 2.32–220.91, <i>p</i> = 0.007, adjusted AP = 90.4% and the S = 12.86. Attributable proportion of risk owing to C3-CCL2 and C3-CFH interaction calculated at 25% and 90% for advanced AMD. <i>Conclusion</i>: We have previously shown a strong association of C3 (R102G) and CFH Y402H with AMD whereas no association was found for CCL2-2518. This study enclosed strong synergistic association of risk genotypes of C3 and CFH Y402H with AMD. We also revealed synergistic influence of CCL2-2518 and the at-risk genotype of the C3 in AMD with an estimated AP = 50.9% (adjusted AP = 24.7%). Present findings show that CCL2-2518 polymorphism is not an innocent bystander in AMD susceptibility when combined with the at-risk genotype of C3 (R102G).
DOI: 10.6084/m9.figshare.4558264.v1
title: SM03_Zp_model_dataset

description: This is the full dataset for the Zp predictive model within the corrections (perturbation calculation).