cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.6796898
title: Especiación Química y Biodisponibilidad del Fósforo en Sedimentos Recientes del Golfo de Paria, Venezuela

description: En esta investigación se determinaron las fracciones P-adsorbida o lábil (F1), P-autigénica (F2), P-asociada a óxidos (F3), P-detrítica (F4) y P-orgánica (F5), y la biodisponibilidad del fósforo en los sedimentos del Golfo de Paria, Venezuela. La concentración de fósforo total (PT) osciló entre 3,93-4,97 μmol P/g, y se encuentra principalmente en forma detrítica y orgánica. Se evidencian diferentes mecanismos de transporte y mecanismos posdepositacionales de partículas de composición química variable, que inducen a un gradiente decreciente en las concentraciones de las fracciones con respecto al fósforo total: P-detrítico (47,02% - 56,95%) &gt; P-orgánico &gt; (38,87% - 50,74%) &gt; (1,14% - 2,28%) &gt;P-autigénico P-asociados a óxidos (0,25% - 0,62%). Las fuentes principales del fósforo detrítico y orgánico, están asociadas a la apatita litogénica terrestre proveniente de material erosionado de los cinturones orogénicos de las Cordilleras de los Andes, de la Costa, Escudo Guayanés y de los Llanos venezolanos y colombianos. La materia orgánica compuesta de árboles (C3) y gramíneas (C4) provenientes de las sabanas que es transportada por el río Orinoco hasta su Delta y de allí redistribuido hacia el Golfo de Paria. Porcentaje de fósforo entre 0,50 % - 2,64 %, es fácilmente biodisponible para la biota, entre 39,12% y 51,36 % es potencialmente y entre 48,17 % - 58,43 es refractario.
DOI: 10.6084/m9.figshare.6796895
title: Supplementary Material for: Contrasting Rates of LINE-1 Amplification among New World Primates of the Atelidae Family

description: LINE-1 (L1) retrotransposons constitute the dominant category of transposons in mammalian genomes. L1 elements are active in the vast majority of mammals, and only a few cases of L1 extinction have been documented. The only possible case of extinction in primates was suggested for South American spider monkeys. However, these previous studies were based on a single species. We revisited this question with a larger phylogenetic sample, covering all 4 genera of Atelidae and 3 species of spider monkeys. We used an enrichment method to clone recently inserted L1 elements and performed an evolutionary analysis of the sequences. We were able to identify young L1 elements in all taxa, suggesting that L1 is probably still active in all Atelidae examined. However, we also detected considerable variations in the proportion of recent elements indicating that the rate of L1 amplification varies among Atelidae by a 3-fold factor. The extent of L1 amplification in Atelidae remains overall lower than in other New World monkeys. Multiple factors can affect the amplification of L1, such as the demography of the host and the control of transposition. These factors are discussed in the context of host life history.
DOI: 10.6084/m9.figshare.6796895.v1
title: Supplementary Material for: Contrasting Rates of LINE-1 Amplification among New World Primates of the Atelidae Family

description: LINE-1 (L1) retrotransposons constitute the dominant category of transposons in mammalian genomes. L1 elements are active in the vast majority of mammals, and only a few cases of L1 extinction have been documented. The only possible case of extinction in primates was suggested for South American spider monkeys. However, these previous studies were based on a single species. We revisited this question with a larger phylogenetic sample, covering all 4 genera of Atelidae and 3 species of spider monkeys. We used an enrichment method to clone recently inserted L1 elements and performed an evolutionary analysis of the sequences. We were able to identify young L1 elements in all taxa, suggesting that L1 is probably still active in all Atelidae examined. However, we also detected considerable variations in the proportion of recent elements indicating that the rate of L1 amplification varies among Atelidae by a 3-fold factor. The extent of L1 amplification in Atelidae remains overall lower than in other New World monkeys. Multiple factors can affect the amplification of L1, such as the demography of the host and the control of transposition. These factors are discussed in the context of host life history.
DOI: 10.6084/m9.figshare.6796838
title: Supplementary Material for: Low-Frequency Blood Group Antigens in Switzerland

description: Background: High-frequency blood group antigens (HFA) are present in &gt;90% of the human population, according to some reports even in &gt;99% of individuals. Therefore, patients lacking HFA may become challenging for transfusion support because compatible blood is hardly found, and if the patient carries alloantibodies, the crossmatch will be positive with virtual every red cell unit tested. Methods: In this study, we applied high-throughput blood group SNP genotyping on &gt;37,000 Swiss blood donors, intending to identify homozygous carriers of low-frequency blood group antigens (LFA). Results: 326 such individuals were identified and made available to transfusion specialists for future support of patients in need of rare blood products. Conclusion: Thorough comparison of minor allele frequencies using population genetics revealed heterogeneity of allele distributions among Swiss blood donors which may be explained by the topographical and cultural peculiarities of Switzerland. Moreover, geographically localized donor subpopulations are described which contain above-average numbers of individuals carrying rare blood group genotypes.
DOI: 10.6084/m9.figshare.6796838.v1
title: Supplementary Material for: Low-Frequency Blood Group Antigens in Switzerland

description: Background: High-frequency blood group antigens (HFA) are present in &gt;90% of the human population, according to some reports even in &gt;99% of individuals. Therefore, patients lacking HFA may become challenging for transfusion support because compatible blood is hardly found, and if the patient carries alloantibodies, the crossmatch will be positive with virtual every red cell unit tested. Methods: In this study, we applied high-throughput blood group SNP genotyping on &gt;37,000 Swiss blood donors, intending to identify homozygous carriers of low-frequency blood group antigens (LFA). Results: 326 such individuals were identified and made available to transfusion specialists for future support of patients in need of rare blood products. Conclusion: Thorough comparison of minor allele frequencies using population genetics revealed heterogeneity of allele distributions among Swiss blood donors which may be explained by the topographical and cultural peculiarities of Switzerland. Moreover, geographically localized donor subpopulations are described which contain above-average numbers of individuals carrying rare blood group genotypes.
DOI: 10.6084/m9.figshare.6796838.v2
title: Supplementary Material for: Low-Frequency Blood Group Antigens in Switzerland

description: Background: High-frequency blood group antigens (HFA) are present in &gt;90% of the human population, according to some reports even in &gt;99% of individuals. Therefore, patients lacking HFA may become challenging for transfusion support because compatible blood is hardly found, and if the patient carries alloantibodies, the crossmatch will be positive with virtual every red cell unit tested. Methods: In this study, we applied high-throughput blood group SNP genotyping on &gt;37,000 Swiss blood donors, intending to identify homozygous carriers of low-frequency blood group antigens (LFA). Results: 326 such individuals were identified and made available to transfusion specialists for future support of patients in need of rare blood products. Conclusion: Thorough comparison of minor allele frequencies using population genetics revealed heterogeneity of allele distributions among Swiss blood donors which may be explained by the topographical and cultural peculiarities of Switzerland. Moreover, geographically localized donor subpopulations are described which contain above-average numbers of individuals carrying rare blood group genotypes.
DOI: 10.6084/m9.figshare.6796838.v4
title: Supplementary Material for: Low-Frequency Blood Group Antigens in Switzerland

description: Background: High-frequency blood group antigens (HFA) are present in &gt;90% of the human population, according to some reports even in &gt;99% of individuals. Therefore, patients lacking HFA may become challenging for transfusion support because compatible blood is hardly found, and if the patient carries alloantibodies, the crossmatch will be positive with virtual every red cell unit tested. Methods: In this study, we applied high-throughput blood group SNP genotyping on &gt;37,000 Swiss blood donors, intending to identify homozygous carriers of low-frequency blood group antigens (LFA). Results: 326 such individuals were identified and made available to transfusion specialists for future support of patients in need of rare blood products. Conclusion: Thorough comparison of minor allele frequencies using population genetics revealed heterogeneity of allele distributions among Swiss blood donors which may be explained by the topographical and cultural peculiarities of Switzerland. Moreover, geographically localized donor subpopulations are described which contain above-average numbers of individuals carrying rare blood group genotypes.
DOI: 10.6084/m9.figshare.6796838.v3
title: Supplementary Material for: Low-Frequency Blood Group Antigens in Switzerland

description: Background: High-frequency blood group antigens (HFA) are present in &gt;90% of the human population, according to some reports even in &gt;99% of individuals. Therefore, patients lacking HFA may become challenging for transfusion support because compatible blood is hardly found, and if the patient carries alloantibodies, the crossmatch will be positive with virtual every red cell unit tested. Methods: In this study, we applied high-throughput blood group SNP genotyping on &gt;37,000 Swiss blood donors, intending to identify homozygous carriers of low-frequency blood group antigens (LFA). Results: 326 such individuals were identified and made available to transfusion specialists for future support of patients in need of rare blood products. Conclusion: Thorough comparison of minor allele frequencies using population genetics revealed heterogeneity of allele distributions among Swiss blood donors which may be explained by the topographical and cultural peculiarities of Switzerland. Moreover, geographically localized donor subpopulations are described which contain above-average numbers of individuals carrying rare blood group genotypes.
DOI: 10.6084/m9.figshare.6796802.v1
title: supplementary data

description: Various datasets related to manuscript The neonicotinoid, imidicloprid affects gene expression and methylation in the<br>buff-tailed bumblebee Bombus terrestris<br>
DOI: 10.6084/m9.figshare.6796802.v2
title: supplementary data

description: Various datasets related to manuscript "The neonicotinoid, imidicloprid affects gene expression and methylation in the<br>buff-tailed bumblebee Bombus terrestris"<br>
DOI: 10.6084/m9.figshare.6796802.v3
title: supplementary data for manuscript

description: Various datasets related to manuscript "The neonicotinoid, imidicloprid affects gene expression and methylation in the<br>buff-tailed bumblebee Bombus terrestris"<br>
DOI: 10.6084/m9.figshare.6796802
title: supplementary data for manuscript "The neonicotinoid, imidicloprid affects gene expression and methylation in the buff-tailed bumblebee Bombus terrestris"

description: Various datasets related to manuscript "The neonicotinoid, imidicloprid affects gene expression and methylation in the<br>buff-tailed bumblebee Bombus terrestris"<br>
DOI: 10.6084/m9.figshare.6796802.v6
title: supplementary data for manuscript "The neonicotinoid, imidicloprid affects gene expression and methylation in the buff-tailed bumblebee Bombus terrestris"

description: Various datasets related to manuscript "The neonicotinoid, imidicloprid affects gene expression and methylation in the<br>buff-tailed bumblebee Bombus terrestris"<br>
DOI: 10.6084/m9.figshare.6796739
title: Supplementary Material for: Long Non-Coding RNA RP11-789C1.1 Suppresses Epithelial to Mesenchymal Transition in Gastric Cancer Through the RP11-789C1.1/MiR-5003/E-Cadherin Axis

description: <b><i>Background/Aims:</i></b> Gastric cancer (GC) is a common malignancy with a global incidence that ranks fourth among all tumor types. Epithelial-to-mesenchymal transition (EMT) is a tumor biological process with a role in GC cell metastasis. Long non-coding RNAs (lncRNAs) and microRNAs possess important regulatory functions at the cellular level and in diverse pathophysiological processes. This study was conducted to investigate whether lncRNA RP11-789C1.1 regulates EMT in GC by mediating the miR-5003/E-cadherin pathway. <b><i>Methods:</i></b> RP11-789C1.1 and miR-5003 expression was detected in GC specimens and cell lines by quantitative real-time PCR. Western blotting and immunohistochemistry were performed to detect EMT markers in GC. Cell Counting Kit 8 assays were carried out to explore cell proliferation. Wound healing and Transwell assays were conducted to determine the migration and invasion of GC cells. To clarify the correlation between RP11-789C1.1, miR-5003, and E-cadherin, dual-luciferase reporter assays were applied. <b><i>Results:</i></b> LncRNA RP11-789C1.1 was significantly down-regulated in GC patients and cell lines, along with the concomitant up-regulation of miR-5003. Silencing RP11-789C1.1 and over-expressing miR-5003 significantly promoted the tumor behavior of GC cells. Dual-luciferase reporter assays confirmed that miR-5003 was the target of both RP11-789C1.1 and E-cadherin. Furthermore, at both the mRNA and protein level, silencing RP11-789C1.1 remarkably reduced the expression of E-cadherin and promoted EMT, which were reversed by knocking down miR-5003. <b><i>Conclusions:</i></b> LncRNA RP11-789C1.1 inhibited EMT in GC through the RP11-789C1.1/miR-5003/E-cadherin axis, which could be a promising therapeutic target for GC.
DOI: 10.6084/m9.figshare.6796736
title: Supplementary Material for: 5’-AMP-Activated Protein Kinase Regulates Goat Sperm Functions via Energy Metabolism <b><i>In Vitro</i></b>

description: <b><i>Background/Aims:</i></b> ATP is essential for mammalian sperm to survive and maintain fertilizing capacity. AMP-activated protein kinase (AMPK) is a sensor of cellular energy status. The aims of the present study were to explore the localization of AMPK in goat sperm and to investigate whether and how AMPK regulates sperm functions <i>in vitro</i>. <b><i>Methods:</i></b> Sperm were treated with AMPK modulators (AICAR, metformin and Compound C) during incubation. Sperm motility was assessed with a computer-assisted spermatozoa analysis system (CASA). Membrane integrity, acrosome reaction and mitochondrial membrane potentials were detected by SYBR-14/PI, FITC-PNA and JC-1 staining, respectively. And the lactate content, ATP content, AMPK activity, activity of pyruvate kinase (PK) and lactate dehydrogenase (LDH) were also measured with the commercial assay kits. Immunofluorescence staining was used to analyze the distribution of PK, LDH, AMPK and phospho-Thr172-AMPK in sperm. The role of AMPK was further studied during induction of capacitation and acrosome reaction. <b><i>Results:</i></b> We found that AMPKα was localized in the entire acrosomal region, the midpiece and the flagellum, while the phospho-Thr172-AMPK was distributed in the head, the midpiece and flagellum. Activation of AMPK by AICAR and metformin significantly improved sperm motility, membrane integrity and acrosome reaction, largely maintained sperm mitochondrial membrane potentials, lactate content and ATP content, and enhanced the activity of AMPK, PK and LDH, whereas inhibition by Compound C triggered the converse effects. Moreover, PK was localized in the acrosomal area and the midpiece, while LDH was distributed in the tail. Induction of capacitation and acrosome reaction led to AMPK phosphorylation. AMPK phosphorylation regulated the activity of energetic enzymes. <b><i>Conclusion:</i></b> This study for the first time provides evidence that AMPK governs goat sperm functions through energy metabolism <i>in vitro</i>. This finding will help to improve assisted reproductive techniques in goats and the other species.
DOI: 10.6084/m9.figshare.6796721
title: Additional file 1: of Correlation between circulating tumour DNA and metabolic tumour burden in metastatic melanoma patients

description: Detailed list of timing from FDG PET/CT scan to collection of bloods and systemic treatments that patients received after FDG PET/CT and bloods. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.6796721.v1
title: Additional file 1: of Correlation between circulating tumour DNA and metabolic tumour burden in metastatic melanoma patients

description: Detailed list of timing from FDG PET/CT scan to collection of bloods and systemic treatments that patients received after FDG PET/CT and bloods. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.6796682
title: Additional file 3: of Analysis of coastal cod (Gadus morhua L.) sampled on spawning sites reveals a genetic gradient throughout Norway’s coastline

description: Raw data. Genotypes for Dataset 1 (66 samples genotyped at 6 microsatellites) and Dataset 2 (18 samples genotyped at 15 microsatellites). Pan I genotypes, and otolith information is provided for each individual as well. (XLSX 563 kb)
DOI: 10.6084/m9.figshare.6796685
title: Additional file 8: of Sporadic Parkinson’s disease derived neuronal cells show disease-specific mRNA and small RNA signatures with abundant deregulation of piRNAs

description: Table S5. Differential expression analysis for piRNAs/piRNA-like molecules in fibroblasts, iPSCs/ESCs and neurons for the comparison PD vs. CTRL. (XLSX 10389 kb)
DOI: 10.6084/m9.figshare.6796685.v1
title: Additional file 8: of Sporadic Parkinson’s disease derived neuronal cells show disease-specific mRNA and small RNA signatures with abundant deregulation of piRNAs

description: Table S5. Differential expression analysis for piRNAs/piRNA-like molecules in fibroblasts, iPSCs/ESCs and neurons for the comparison PD vs. CTRL. (XLSX 10389 kb)
DOI: 10.6084/m9.figshare.6796679
title: Additional file 7: of Sporadic Parkinson’s disease derived neuronal cells show disease-specific mRNA and small RNA signatures with abundant deregulation of piRNAs

description: Table S4. Differential expression analysis for mature miRNAs in fibroblasts, iPSCs/ESCs and neurons for the comparison PD vs. CTRL. (XLSX 718 kb)
DOI: 10.6084/m9.figshare.6796682.v1
title: Additional file 3: of Analysis of coastal cod (Gadus morhua L.) sampled on spawning sites reveals a genetic gradient throughout Norway’s coastline

description: Raw data. Genotypes for Dataset 1 (66 samples genotyped at 6 microsatellites) and Dataset 2 (18 samples genotyped at 15 microsatellites). Pan I genotypes, and otolith information is provided for each individual as well. (XLSX 563 kb)
DOI: 10.6084/m9.figshare.6796676
title: Additional file 2: of Analysis of coastal cod (Gadus morhua L.) sampled on spawning sites reveals a genetic gradient throughout Norway’s coastline

description: Table S1. Genetic differentiation at Dataset 1 (66 samples genotyped at 6 microsatellite markers): Pairwise FST are shown in the lower diagonal whereas P-values computed after 10,000 permutations are shown in the lower diagonal. (XLSX 77 kb)
DOI: 10.6084/m9.figshare.6796676.v1
title: Additional file 2: of Analysis of coastal cod (Gadus morhua L.) sampled on spawning sites reveals a genetic gradient throughout Norway’s coastline

description: Table S1. Genetic differentiation at Dataset 1 (66 samples genotyped at 6 microsatellite markers): Pairwise FST are shown in the lower diagonal whereas P-values computed after 10,000 permutations are shown in the lower diagonal. (XLSX 77 kb)
DOI: 10.6084/m9.figshare.6796679.v1
title: Additional file 7: of Sporadic Parkinson’s disease derived neuronal cells show disease-specific mRNA and small RNA signatures with abundant deregulation of piRNAs

description: Table S4. Differential expression analysis for mature miRNAs in fibroblasts, iPSCs/ESCs and neurons for the comparison PD vs. CTRL. (XLSX 718 kb)
DOI: 10.6084/m9.figshare.6796670
title: Additional file 1: of Analysis of coastal cod (Gadus morhua L.) sampled on spawning sites reveals a genetic gradient throughout Norway’s coastline

description: Figure S1. Ho and uHe per sampling site for (a) Dataset 1 (66 samples genotyped at 6 microsatellite markers) and (b) Dataset 2 (18 samples genotyped at 15 microsatellite markers). Locations are ordered from north to south along the coastline. In graph a), Ho and uHe experienced significantly increasing N-S trends (τ = 0.363, P = 1.705 e-05, and τ = 0.570, P
DOI: 10.6084/m9.figshare.6796670.v1
title: Additional file 1: of Analysis of coastal cod (Gadus morhua L.) sampled on spawning sites reveals a genetic gradient throughout Norway’s coastline

description: Figure S1. Ho and uHe per sampling site for (a) Dataset 1 (66 samples genotyped at 6 microsatellite markers) and (b) Dataset 2 (18 samples genotyped at 15 microsatellite markers). Locations are ordered from north to south along the coastline. In graph a), Ho and uHe experienced significantly increasing N-S trends (τ = 0.363, P = 1.705 e-05, and τ = 0.570, P
DOI: 10.6084/m9.figshare.6796667
title: Additional file 5: of Sporadic Parkinson’s disease derived neuronal cells show disease-specific mRNA and small RNA signatures with abundant deregulation of piRNAs

description: Table S3. Gene set enrichment analysis in neurons for the comparison PD vs. CTRL (based on mRNA-RPKM data) for Biocarta and KEGG pathways. (XLSX 1121 kb)
DOI: 10.6084/m9.figshare.6796667.v1
title: Additional file 5: of Sporadic Parkinson’s disease derived neuronal cells show disease-specific mRNA and small RNA signatures with abundant deregulation of piRNAs

description: Table S3. Gene set enrichment analysis in neurons for the comparison PD vs. CTRL (based on mRNA-RPKM data) for Biocarta and KEGG pathways. (XLSX 1121 kb)
DOI: 10.6084/m9.figshare.6796661
title: Additional file 4: of Sporadic Parkinson’s disease derived neuronal cells show disease-specific mRNA and small RNA signatures with abundant deregulation of piRNAs

description: Table S2. Differential expression analysis for mRNAs in fibroblasts, iPSCs/ESCs and neurons for the comparison PD vs. CTRL. (XLSX 18407 kb)
DOI: 10.6084/m9.figshare.6796661.v1
title: Additional file 4: of Sporadic Parkinson’s disease derived neuronal cells show disease-specific mRNA and small RNA signatures with abundant deregulation of piRNAs

description: Table S2. Differential expression analysis for mRNAs in fibroblasts, iPSCs/ESCs and neurons for the comparison PD vs. CTRL. (XLSX 18407 kb)
DOI: 10.6084/m9.figshare.6796646
title: Additional file 1: of Sporadic Parkinson’s disease derived neuronal cells show disease-specific mRNA and small RNA signatures with abundant deregulation of piRNAs

description: Table S1. Cohort statistics with details about age, gender and all other covariates used for differential expression models. (XLSX 19 kb)
DOI: 10.6084/m9.figshare.6796646.v1
title: Additional file 1: of Sporadic Parkinson’s disease derived neuronal cells show disease-specific mRNA and small RNA signatures with abundant deregulation of piRNAs

description: Table S1. Cohort statistics with details about age, gender and all other covariates used for differential expression models. (XLSX 19 kb)
DOI: 10.6084/m9.figshare.6796640
title: Additional file 1: of Influence of pterygium size on corneal higher-order aberration evaluated using anterior-segment optical coherence tomography

description: Table S1. Dataset of corneal Zernike aberrations of primary pterygia. (XLSX 260Â kb)
DOI: 10.6084/m9.figshare.6796637
title: Additional file 8: of Temporal transcriptome profiling of developing seeds reveals a concerted gene regulation in relation to oil accumulation in Pongamia (Millettia pinnata)

description: Table S8. List of Pongamia genes involved in FA and TAG metabolism. (XLS 47 kb)