The primary data consist of allele or haplotype frequencies for N=1036 anonymized U.S. population samples. Additional files are supplements to the associated publications. Any changes to spreadsheets are listed in the "Change Log" tab within each spreadsheet. DOI numbers for associated publications are listed below, under "References".
Premium B2C Consumer Database - 269+ Million US Records
Supercharge your B2C marketing campaigns with comprehensive consumer database, featuring over 269 million verified US consumer records. Our 20+ year data expertise delivers higher quality and more extensive coverage than competitors.
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Targeting Categories Available
Demographics: Age ranges, education levels, occupation types, household composition, marital status, presence of children, income brackets, and gender (where legally permitted)
Geographic: Nationwide, state-level, MSA (Metropolitan Service Area), zip code radius, city, county, and SCF range targeting options
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Heterozygosity–fitness correlations (HFCs) are often used to link individual genetic variation to differences in fitness. However, most studies examining HFCs find weak or no correlations. Here, we derive broad theoretical predictions about how many loci are needed to adequately measure genomic heterozygosity assuming different levels of identity disequilibrium (ID), a proxy for inbreeding. We then evaluate the expected ability to detect HFCs using an empirical data set of 200 microsatellites and 412 single nucleotide polymorphisms (SNPs) genotyped in two populations of bighorn sheep (Ovis canadensis), with different demographic histories. In both populations, heterozygosity was significantly correlated across marker types, although the strength of the correlation was weaker in a native population compared with one founded via translocation and later supplemented with additional individuals. Despite being bi-allelic, SNPs had similar correlations to genome-wide heterozygosity as microsatellites in both populations. For both marker types, this association became stronger and less variable as more markers were considered. Both populations had significant levels of ID; however, estimates were an order of magnitude lower in the native population. As with heterozygosity, SNPs performed similarly to microsatellites, and precision and accuracy of the estimates of ID increased as more loci were considered. Although dependent on the demographic history of the population considered, these results illustrate that genome-wide heterozygosity, and therefore HFCs, are best measured by a large number of markers, a feat now more realistically accomplished with SNPs than microsatellites.
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SARS-CoV-2 infections lead to a wide-range of outcomes from mild or asymptomatic illness to serious complications and death. While many studies have characterized hospitalized SARS-CoV-2 patient immune responses, we were interested in whether serious complications of SARS-CoV-2 infection could be predicted early in ambulatory subjects. To that end, we used samples from SARS-CoV-2-infected individuals from the placebo arm of the BLAZE-1 clinical trial who progressed to hospitalization or death compared to individuals in the same study who did not require medical intervention and investigated whether baseline serum cytokines and chemokines could predict severe outcome. High-risk demographic factors at baseline, including age, nasal pharyngeal viral load, duration from symptom onset, and BMI provide significant predictive capacity for a hospitalization or death with an AUC of ROC = 0.77. The predictive performance of our outcome modeling increased when baseline serum protein markers were included. In fact, the one-marker model indicated that there were 51 individual proteins (including known markers of inflammation like IL-6, MCP-3, CXCL10, IL-1Ra, and PTX3) that significantly increased the AUC of ROC beyond high-risk patient demographics alone to range between 0.78 to 0.88. Moreover, a two-marker model incorporating levels of both IL-6 and PTX3 further improved the prediction over the addition of a single protein marker to an AUC of ROC = 0.91. While the analytes identified in this study have been well-documented to be altered in SARS-CoV-2 infection, this analysis demonstrates the potential value of their use in predicting hospitalization or death in ambulatory participants infected with SARS-CoV-2 and could guide early treatment decisions.
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SARS-CoV-2 infections lead to a wide-range of outcomes from mild or asymptomatic illness to serious complications and death. While many studies have characterized hospitalized SARS-CoV-2 patient immune responses, we were interested in whether serious complications of SARS-CoV-2 infection could be predicted early in ambulatory subjects. To that end, we used samples from SARS-CoV-2-infected individuals from the placebo arm of the BLAZE-1 clinical trial who progressed to hospitalization or death compared to individuals in the same study who did not require medical intervention and investigated whether baseline serum cytokines and chemokines could predict severe outcome. High-risk demographic factors at baseline, including age, nasal pharyngeal viral load, duration from symptom onset, and BMI provide significant predictive capacity for a hospitalization or death with an AUC of ROC = 0.77. The predictive performance of our outcome modeling increased when baseline serum protein markers were included. In fact, the one-marker model indicated that there were 51 individual proteins (including known markers of inflammation like IL-6, MCP-3, CXCL10, IL-1Ra, and PTX3) that significantly increased the AUC of ROC beyond high-risk patient demographics alone to range between 0.78 to 0.88. Moreover, a two-marker model incorporating levels of both IL-6 and PTX3 further improved the prediction over the addition of a single protein marker to an AUC of ROC = 0.91. While the analytes identified in this study have been well-documented to be altered in SARS-CoV-2 infection, this analysis demonstrates the potential value of their use in predicting hospitalization or death in ambulatory participants infected with SARS-CoV-2 and could guide early treatment decisions.
Many coral reef fishes display remarkable genetic and phenotypic variation across their geographic ranges. Understanding how historical and contemporary processes have shaped these patterns remains a focal question in evolutionary biology since they reveal how diversity is generated and how it may respond to future environmental change. Here we compare the population genomics and demographic histories of a commercially and ecologically important coral reef fish, the common coral grouper (Plectropomus leopardus [Lacépède 1802]), across two adjoining regions (the Great Barrier Reef; GBR, and the Coral Sea, Australia) spanning approximately 14 degrees of latitude and 9 degrees of longitude. We analysed 4,548 single nucleotide polymorphism (SNP) markers across 11 sites and show that genetic connectivity between regions is low, despite their relative proximity (~ 100 km) and an absence of any obvious geographic barrier. Inferred demographic histories using 10,479 markers suggest that the Cor..., , radiator_data_20220330_1452.vcf contains the dataset with neutral markers radiator_data_20220225_1456.vcf contains the dataset with outlier markers radiator_data_20220225_1927.vcf contains the dataset with markers used for demographic inference strata.filtered.tsv contains individual population metadata
Filtering parameters and quality control are discussed in detail in Payet et al. (2022), Evolutionary Applications
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IntroductionContinued discovery of “mismatch” patterns between population size and genetic diversity, involving wild species such as insects, amphibians, birds, mammals, and others, has raised issues about how population history, especially recent dynamics under human disturbance, affects currently standing genetic variation. Previous studies have revealed high genetic diversity in endangered Jankowski’s Bunting. However, it is unclear how the demographic history and recent habitat changes shape the genetic variation of Jankowski’s Bunting.MethodsTo explore the formation and maintenance of high genetic diversity in endangered Jankowski’s Bunting, we used a mitochondrial control region (partial mtDNA CR) and 15 nuclear microsatellite markers to explore the recent demographic history of Jankowski’s Bunting, and we compared the historical and contemporary gene flows between populations to reveal the impact of habitat change on population connectivity. Specifically, we aimed to test the following hypotheses: (1) Jankowski’s Bunting has a large historical Ne and a moderate demographic history; and (2) recent habitat change might have no significant impact on the species’ population connectivity.ResultsThe results suggested that large historical effective population size, as well as severe but slow population decline, may partially explain the high observable genetic diversity. Comparison of historical (over the past 4Ne generations) and contemporary (1–3 generations) gene flow indicated that the connectivity between five local populations was only marginally affected by landscape changes.DiscussionOur results suggest that high population connectivity and a moderate history of demographic decline are powerful explanations for the rich genetic variation in Jankowski’s Bunting. Although there is no evidence that the genetic health of Jankowski’s Bunting is threatened, the time-lag effects on the genetic response to recent environmental changes is a reminder to be cautious about the current genetic characteristics of this species. Where possible, factors influencing genetic variation should be integrated into a systematic framework for conducting robust population health assessments. Given the small contemporary population size, inbreeding, and ecological specialization, we recommend that habitat protection be maintained to maximize the genetic diversity and population connectivity of Jankowski’s Bunting.
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Estimates of inbreeding and relatedness are commonly calculated using molecular markers, although the accuracy of such estimates has been questioned. As a further complication, in many situations, such estimates are required in populations with reduced genetic diversity, which is likely to affect their accuracy. We investigated the correlation between microsatellite- and pedigree-based coefficients of inbreeding and relatedness in laboratory populations of Drosophila melanogaster that had passed through bottlenecks to manipulate their genetic diversity. We also used simulations to predict expected correlations between marker- and pedigree-based estimates and to investigate the influence of linkage between loci and null alleles. Our empirical data showed lower correlations between marker- and pedigree-based estimates in our control (nonbottleneck) population than were predicted by our simulations or those found in similar studies. Correlations were weaker in bottleneck populations, confirming that extreme reductions in diversity can compromise the ability of molecular estimates to detect recent inbreeding events. However, this result was highly dependent on the strength of the bottleneck and we did not observe or predict any reduction in correlations in our population that went through a relatively severe bottleneck of N = 10 for one generation. Our results are therefore encouraging, as molecular estimates appeared robust to quite severe reductions in genetic diversity. It should also be remembered that pedigree-based estimates may not capture realized identity-by-decent and that marker-based estimates may actually be more useful in certain situations.
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Distribution of household population by infection marker, by sex and age group.
The primary data consist of allele or haplotype frequencies for N=1036 anonymized U.S. population samples. Additional files are supplements to the associated publications. Any changes to spreadsheets are listed in the "Change Log" tab within each spreadsheet. DOI numbers for associated publications are listed below, under "References".
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The pen shell, Atrina pectinata, is one of the commercial bivalves in East Asia and thought to be recently affected by anthropogenic pressure (habitat destruction and/or fishing pressure). Information on its population genetic structure is crucial for the conservation of A. pectinata. Considering its long pelagic larval duration and iteroparity with high fecundity, the genetic structure for A. pectinata could be expected to be weak at a fine scale. However, the unusual oceanography in the coasts of China and Korea suggests potential for restricted dispersal of pelagic larvae and geographical differentiation. In addition, environmental changes associated with Pleistocene sea level fluctuations on the East China Sea continental shelf may also have strongly influenced historical population demography and genetic diversity of marine organisms. Here, partial sequences of the mitochondrial Cytochrome c oxidase subunit I (COI) gene and seven microsatellite loci were used to estimate population genetic structure and demographic history of seven samples from Northern China coast and one sample from North Korea coast. Despite high levels of genetic diversity within samples, there was no genetic differentiation among samples from Northern China coast and low but significant genetic differentiation between some of the Chinese samples and the North Korean sample. A late Pleistocene population expansion, probably after the Last Glacial Maximum, was also demonstrated for A. pectinata samples. No recent genetic bottleneck was detected in any of the eight samples. We concluded that both historical recolonization (through population range expansion and demographic expansion in the late Pleistocene) and current gene flow (through larval dispersal) were responsible for the weak level of genetic structure detected in A. pectinata.
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IntroductionContinued discovery of “mismatch” patterns between population size and genetic diversity, involving wild species such as insects, amphibians, birds, mammals, and others, has raised issues about how population history, especially recent dynamics under human disturbance, affects currently standing genetic variation. Previous studies have revealed high genetic diversity in endangered Jankowski’s Bunting. However, it is unclear how the demographic history and recent habitat changes shape the genetic variation of Jankowski’s Bunting.MethodsTo explore the formation and maintenance of high genetic diversity in endangered Jankowski’s Bunting, we used a mitochondrial control region (partial mtDNA CR) and 15 nuclear microsatellite markers to explore the recent demographic history of Jankowski’s Bunting, and we compared the historical and contemporary gene flows between populations to reveal the impact of habitat change on population connectivity. Specifically, we aimed to test the following hypotheses: (1) Jankowski’s Bunting has a large historical Ne and a moderate demographic history; and (2) recent habitat change might have no significant impact on the species’ population connectivity.ResultsThe results suggested that large historical effective population size, as well as severe but slow population decline, may partially explain the high observable genetic diversity. Comparison of historical (over the past 4Ne generations) and contemporary (1–3 generations) gene flow indicated that the connectivity between five local populations was only marginally affected by landscape changes.DiscussionOur results suggest that high population connectivity and a moderate history of demographic decline are powerful explanations for the rich genetic variation in Jankowski’s Bunting. Although there is no evidence that the genetic health of Jankowski’s Bunting is threatened, the time-lag effects on the genetic response to recent environmental changes is a reminder to be cautious about the current genetic characteristics of this species. Where possible, factors influencing genetic variation should be integrated into a systematic framework for conducting robust population health assessments. Given the small contemporary population size, inbreeding, and ecological specialization, we recommend that habitat protection be maintained to maximize the genetic diversity and population connectivity of Jankowski’s Bunting.
Currently there exists a limited knowledge on the extent of temporal variation in population genetic parameters of natural populations. Here we study the extent of temporal variation in population genetics by genotyping 151 genome-wide SNP markers polymorphic in 466 individuals collected from nine populations of the annual plant Arabidopsis thaliana during four years. Populations are located along an altitudinal climatic gradient from Mediterranean to subalpine environments in NE Spain, which has been shown to influence key demographic attributes and life-cycle adaptations. Genetically, A. thaliana populations were more variable across space than over time. Common multilocus genotypes were detected several years in the same population, whereas low-frequency multilocus genotypes appeared only one year. High-elevation populations were genetically poorer and more variable over time than low-elevation populations, which might be caused by a higher overall demographic instability at higher a...
REVISED_ dataThe attached file is in ped format consists of 43421 markers of 848 animals after QC mentioned in the paper.REVISED_ dataMap file of the 43421 markers mentioned in the ped file.BioPed file of one population which consists of 44230 markers from 31 animals.BioMap file the 44230 markers ped file.
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Effective conservation and species management requires an understanding of the causes of poor population growth. Conservation physiology uses biomarkers to identify factors that contribute to low individual fitness and population declines. Building on this, macrophysiology can use the same markers to assess how individual physiology varies with different ecological or demographic factors over large temporal and spatial scales. Here, we use a macrophysiological approach to identify the ecological and demographic correlates of poor population growth rates in the Cape mountain zebra metapopulation. We use two non-invasive biomarkers: faecal glucocorticoids as a measure of chronic stress, and faecal androgens as an indicator of male physiological status. We found that faecal glucocorticoid concentrations were highest in the spring prior to summer rainfall, and were elevated in individuals from populations associated with low quality habitat (lower grass abundance). In addition, faecal androgen concentrations were higher in populations with a high proportion of non-breeding stallions (where male:female adult sex ratios exceed 2:1) suggesting sex ratio imbalances may intensify male competition. Finally, population growth rate was negatively associated with faecal glucocorticoid concentrations and female fecundity was negatively associated with faecal androgens, indicating a relationship between hormone profiles and fitness. Together, our results provide cross population evidence for how poor population growth rates in Cape mountain zebra can be linked to individual physiological biomarkers. More broadly, we advocate physiological biomarkers as indicators of population viability, and as a way to evaluate the impact of variable ecological and demographic factors. In addition, conservation physiology can be used to assess the efficacy of management interventions for this subspecies, and this approach could inform models of species’ responses to future environmental change.
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Advancing technologies have facilitated the ever-widening application of genetic markers such as microsatellites into new systems and research questions in biology. In light of the data and experience accumulated from several years of using microsatellites, we present here a literature review that synthesizes the limitations of microsatellites in population genetic studies. With a focus on population structure, we review the widely used fixation (FST) statistics and Bayesian clustering algorithms and find that the former can be confusing and problematic for microsatellites and that the latter may be confounded by complex population models and lack power in certain cases. Clustering, multivariate analyses, and diversity-based statistics are increasingly being applied to infer population structure, but in some instances these methods lack formalization with microsatellites. Migration-specific methods perform well only under narrow constraints. We also examine the use of microsatellites for inferring effective population size, changes in population size, and deeper demographic history, and find that these methods are untested and/or highly context-dependent. Overall, each method possesses important weaknesses for use with microsatellites, and there are significant constraints on inferences commonly made using microsatellite markers in the areas of population structure, admixture, and effective population size. To ameliorate and better understand these constraints, researchers are encouraged to analyze simulated datasets both prior to and following data collection and analysis, the latter of which is formalized within the approximate Bayesian computation framework. We also examine trends in the literature and show that microsatellites continue to be widely used, especially in non-human subject areas. This review assists with study design and molecular marker selection, facilitates sound interpretation of microsatellite data while fostering respect for their practical limitations, and identifies lessons that could be applied toward emerging markers and high-throughput technologies in population genetics.
This proposal aims to extend an existing collaboration between AHRI and UCL. As part of the iSense project, teams from AHRI and UCL have successfully developed a dashboard that integrates information from mobile computers used for TasP field visits with data from the clinics to display spatial coverage of homestead visits, highlighting those that require follow-up visits to ensure linkage to care. The dashboard provides a broad snapshot of the state of the study, spatially aggregating geographical zones in order to preserve the privacy of trial participants. The aim of this proposal is to extend this framework to visualise presence and prevalence of drug resistance mutations (DRMs) within the study area. A higher prevalence of DRMs than expected may be linked to several factors, e.g. poor drug adherence, and thus of value to clinicians and healthcare workers in terms of focusing efforts and resource allocation.
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Single cell RNA-sequencing (scRNA-seq) provides gene expression profiles of individual cells from complex samples, facilitating the detection of cell type-specific marker genes. In scRNA-seq experiments with multiple donors, the population level variation brings an extra layer of complexity in cell type-specific gene detection, for example, they may not appear in all donors. Motivated by this observation, we develop a statistical model named scCTS to identify cell type-specific genes from population-level scRNA-seq data. Extensive data analyses demonstrate that the proposed method identifies more biologically meaningful cell type-specific genes compared to traditional methods.
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The global fiducial markers market is poised to experience significant growth, with the market size estimated to reach USD 140 million by 2023 and projected to expand to USD 300 million by 2032, reflecting a robust compound annual growth rate (CAGR) of 8.5% throughout the forecast period. The growth of the fiducial markers market is primarily driven by the increasing adoption of advanced imaging techniques in medical procedures and the rising prevalence of cancer, necessitating precise radiotherapy and image-guided surgeries. As healthcare systems worldwide prioritize precision in treatment modalities, the demand for fiducial markers is anticipated to witness a steady rise.
One of the primary growth drivers in the fiducial markers market is the escalating incidence of cancer globally. With cancer being one of the leading causes of mortality, there is an urgent need for accurate and effective diagnostic and therapeutic solutions. Fiducial markers play a crucial role in enhancing the precision of radiotherapy and image-guided surgeries, ensuring targeted treatment and minimizing damage to surrounding healthy tissues. This precision is particularly vital in treating cancers located near critical organs where precision is paramount. Additionally, advancements in imaging technologies such as MRI, CT, and PET scans have further bolstered the demand for fiducial markers, as these markers facilitate enhanced visibility and accuracy in imaging.
The increasing geriatric population is another significant factor contributing to market growth. As the global population ages, there is a corresponding rise in the incidence of age-related diseases, including various types of cancer. This demographic shift is anticipated to fuel the demand for fiducial markers, as older patients often require more precise and targeted therapeutic interventions. Furthermore, the growing preference for minimally invasive procedures is also driving the adoption of fiducial markers. Minimally invasive techniques, which rely heavily on accurate imaging, have become the standard of care in many surgical and therapeutic settings, further stimulating market expansion.
The fiducial markers market is also benefiting from increased healthcare spending and technological advancements. Governments and private sectors around the world are investing heavily in healthcare infrastructure, technology, and research to improve patient outcomes. This investment is fostering the development of advanced fiducial markers with enhanced properties such as biocompatibility and stability. The integration of fiducial markers with other advanced medical technologies, such as robotic surgery and artificial intelligence, is expected to create new opportunities for market growth. Additionally, the growing awareness among healthcare professionals and patients regarding the benefits of precise treatment planning is further propelling the market forward.
Medical Skin Markers are increasingly being recognized as essential tools in the field of precision medicine. These markers are specifically designed for use on the skin, providing clear and accurate reference points for various medical procedures. In the context of radiotherapy and image-guided surgeries, Medical Skin Markers help in delineating treatment areas, ensuring that radiation or surgical interventions are precisely targeted. Their application is particularly beneficial in cases where external markers are preferred over implanted ones, offering a non-invasive option for patient care. The development of advanced Medical Skin Markers with improved visibility and durability is further enhancing their utility in clinical settings.
Regionally, North America holds a substantial share of the fiducial markers market, driven by the presence of advanced healthcare infrastructure, a high prevalence of cancer, and significant investment in research and development. Europe also represents a significant market, with countries like Germany, France, and the UK leading in the adoption of advanced medical technologies. The Asia Pacific region is expected to witness the fastest growth, attributed to the rapidly improving healthcare infrastructure, increasing healthcare expenditure, and a rising incidence of cancer. The Middle East & Africa, along with Latin America, are also anticipated to contribute to market expansion, albeit at a slower pace, due to developing healthcare systems and increasing awareness.
Fidu
The de novo assembly of the red fox (Vulpes vulpes) genome has facilitated the development of genomic tools for the species. Efforts to identify the population history of red foxes in North America have previously been limited by a lack of information about the red fox Y-chromosome sequence. However, a megabase of red fox Y-chromosome sequence was recently identified over 2 scaffolds in the reference genome. Here, these scaffolds were scanned for repeated motifs, revealing 194 likely microsatellites. Twenty-three of these loci were selected for primer development and, after testing, produced a panel of 11 novel markers that were analyzed alongside 2 markers previously developed for the red fox from dog Y-chromosome sequence. The markers were genotyped in 76 male red foxes from 4 populations: 7 foxes from Newfoundland (eastern Canada), 12 from Maryland (eastern United States), and 9 from the island of Great Britain, as well as 48 foxes of known North American origin maintained on an expe...
The primary data consist of allele or haplotype frequencies for N=1036 anonymized U.S. population samples. Additional files are supplements to the associated publications. Any changes to spreadsheets are listed in the "Change Log" tab within each spreadsheet. DOI numbers for associated publications are listed below, under "References".