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Dataset results
26 results for “linkage analysis”
Dataset and code from the ATLAS phone survey to replicate analysis of HIVST positivity rates and linkage to confirmatory testing
<p>This dataset and code allow to replicate the analysis presented in the paper entitled "HIV self-testing positivity rate and linkage to confirmatory testing and care: a telephone survey in Côte d'Ivoire, Mali and Senegal" by Arsène Kra Kouassi et al. Preprint available at <a href="https://doi.org/10.1101/2023.06.10.23291206">https://doi.org/10.1101/2023.06.10.23291206</a></p><p>The data was collected within the ATLAS project, funded by Unitaid and coordinated by Solthis and IRD.</p><p>ATLAS website: <a href="https://atlas.solthis.org/">https://atlas.solthis.org/</a></p><p>ATLAS presentation on Ceped website: <a href="https://www.ceped.org/atlas">https://www.ceped.org/atlas</a></p><p>ATLAS publications portal: <a href="https://hal.science/ATLAS_ADVIH/">https://hal.science/ATLAS_ADVIH/</a></p><p> </p><p> </p>
Fig. 2 in Enhanced understanding of ectoparasite-host trophic linkages on coral reefs through stable isotope analysis
Fig. 2. Stable carbon and nitrogen isotope data for Haemulon flavolineatum blood vs. P3 (A and B), blood vs. adult gnathiids (C and D), and P3 vs. adult gnathiids (E and F). Solid triangles represent males and P3s, open triangles represent females. Error bars represent 1 SE of N = 5 individual P3 gnathiids analysed from each fish. Dashed line represents 1:1 linear relationship.
Fig. 1 in Enhanced understanding of ectoparasite-host trophic linkages on coral reefs through stable isotope analysis
Fig. 1. Mean δ13C and δ15N (±1 Standard Error) values of gnathiids (open squares), (A) Haemulon flavolineatum heart (grey diamond), blood (white diamond), and muscle (black diamond), Pederson shrimp (Ancylomenes pedersoni, open triangle), and Anilocra isopods (cross), (B) Stegastes diencaeus heart (grey diamond), and muscle (black diamond), and Pederson shrimp (open triangle), and (c) Holocentrus adscenscionis heart (grey diamond), and muscle (black diamond), and Anilocra isopods (cross).
Data - Quantifying dynamic linkages between precipitation, groundwater recharge, and streamflow using ensemble rainfall‐runoff analysis
<p>The data support the analysis conducted in "Quantifying Dynamic Linkages Between Precipitation, Groundwater Recharge, and Streamflow Using Ensemble Rainfall‐Runoff Analysis", accepted for publication in Water Resources Research (https://doi.org/10.1029/2024WR037821) by Huibin Gao, Qin Ju, Dawei Zhang, Zhenlong Wang, Zhenchun Hao, and James Kirchner.</p> <p> </p>
Data from: Molecular analysis of parasitoid linkages (MAPL): gut contents of adult parasitoid wasps reveal larval host
Metamorphosing insects often have complex and poorly known life-histories. In particular, what they feed on during their larval stages remains unknown for the vast majority of species and its documentation only results from difficult and time-intensive field observations, rearing or dissections. Through the application of a DNA analysis of gut contents in adult parasitoid wasps, we were able to selectively sequence a diagnostic DNA marker that permitted the identification of the host used by these wasps during their larval stages. By reproducing these results in species with different life-histories, we excluded other potential sources of host DNA, confirming that after ingestion by the parasitoid larva the host DNA can persist through metamorphosis in the abdominal contents of the adult wasp. Our discovery considerably extends the applicability of molecular analysis of gut contents by enabling documentation of the food used by insects during their larval stages and thus increasing the accuracy and precision of food web-studies. The 24% success rate of our approach is surprisingly high considering the challenging context for host DNA preservation, and we discuss the factors possibly affecting this rate. We propose Molecular Analysis of Parasitoid Linkages (MAPL) as a new method to document host-parasitoid associations at a faster pace and with unrivalled precision. Because of the key regulatory role of parasitoid wasps in ecosystems, which makes them the most commonly used biological control agents, MAPL will have immediate applications in both basic and applied biological sciences.
Application of Linkage Analysis in the Identification of Novel Hereditary Factors in Familial Aneurysms
ClinicalTrials.gov study NCT06783803. IPD Sharing: NO. Countries: 1. Publications: 2.
Linkage Analysis in Interstitial Cystitis
ClinicalTrials.gov study NCT00675298. IPD Sharing: Not stated. Countries: 1. Publications: 4.
Data from: Molecular analysis of parasitoid linkages (MAPL): gut contents of adult parasitoid wasps reveal larval host
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Data from: A linkage map and QTL analysis for pyrethroid resistance in the bed bug Cimex lectularius
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Data from: CLIP test: a new fast, simple and powerful method to distinguish between linked or pleiotropic quantitative trait loci in linkage disequilibria analysis
An important question arises when mapping quantitative trait loci (QTLs) for genetically correlated traits: is the correlation due to pleiotropy (a single QTL affecting more than one trait) and/or close linkage (different QTLs that are physically close to each other and influence the traits)? In this article, we propose the Close Linkage versus Pleiotropism (CLIP) test, a fast, simple and powerful method to distinguish between these two situations. The CLIP test is based on the comparison of the square of the observed correlation between a combination of apparent effects at the marker level to the minimal value it can take under the pleiotropic assumption. A simulation study was performed to estimate the power and alpha risk of the CLIP test and compare it to a test that evaluated whether the confidence intervals of the two QTLs overlapped or not (CI test). On average, the CLIP test showed a higher power (68%) to detect close-linked QTLs than the CI test (43%) and a same alpha risk (4%).
Data from: Linkage disequilibrium network analysis (LDna) gives a global view of chromosomal inversions, local adaptation and geographic structure
Recent advances in sequencing allow population-genomic data to be generated for virtually any species. However, approaches to analyse such data lag behind the ability to generate it, particularly in nonmodel species. Linkage disequilibrium (LD, the nonrandom association of alleles from different loci) is a highly sensitive indicator of many evolutionary phenomena including chromosomal inversions, local adaptation and geographical structure. Here, we present linkage disequilibrium network analysis (LDna), which accesses information on LD shared between multiple loci genomewide. In LD networks, vertices represent loci, and connections between vertices represent the LD between them. We analysed such networks in two test cases: a new restriction-site-associated DNA sequence (RAD-seq) data set for Anopheles baimaii, a Southeast Asian malaria vector; and a well-characterized single nucleotide polymorphism (SNP) data set from 21 three-spined stickleback individuals. In each case, we readily identified five distinct LD network clusters (single-outlier clusters, SOCs), each comprising many loci connected by high LD. In A. baimaii, further population-genetic analyses supported the inference that each SOC corresponds to a large inversion, consistent with previous cytological studies. For sticklebacks, we inferred that each SOC was associated with a distinct evolutionary phenomenon: two chromosomal inversions, local adaptation, population-demographic history and geographic structure. LDna is thus a useful exploratory tool, able to give a global overview of LD associated with diverse evolutionary phenomena and identify loci potentially involved. LDna does not require a linkage map or reference genome, so it is applicable to any population-genomic data set, making it especially valuable for nonmodel species.
Data from: Shared genomic regions between derivatives of a large segregating population of maize identified using bulked segregant analysis sequencing and traditional linkage analysis
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Data from: Linkage disequilibrium network analysis (LDna) gives a global view of chromosomal inversions, local adaptation and geographic structure
Open the record for dataset details and reuse information.
Data from: CLIP test: a new fast, simple and powerful method to distinguish between linked or pleiotropic quantitative trait loci in linkage disequilibria analysis
Open the record for dataset details and reuse information.
Genome-wide linkage analysis in Spanish melanoma-prone families [Round2]
GEO Series GSE109207. Homo sapiens. 15 samples. Type: Genome variation profiling by SNP array; SNP genotyping by SNP array.
A Whole Transcriptional Linkage Analysis of Gene Co-Regulation in Insecticide Resistant House Flies, Musca domestica
GEO Series GSE39327. Musca domestica. 4 samples. Type: Expression profiling by high throughput sequencing.
Genome Wide Linkage analysis of large family with coronary artery disease
GEO Series GSE42137. Homo sapiens. 8 samples. Type: SNP genotyping by SNP array.
Genome-wide linkage analysis in Spanish melanoma-prone families [Round1]
GEO Series GSE109206. Homo sapiens. 53 samples. Type: Genome variation profiling by SNP array; SNP genotyping by SNP array.
PST Linkage Based Analysis in the Family of More Than Two Members With Type 1 Diabetes in Taiwan
ClinicalTrials.gov study NCT01955746. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Hidradenitis - an Analysis of Genetic Traits and Linkages in Families
ClinicalTrials.gov study NCT05710393. IPD Sharing: NO. Countries: 1. Publications: 0.
ScienceDex guides
Understand access before you commit
These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
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DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.