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118 results for “qPCR”
Data from: Bromodomain-containing protein 4 regulates innate inflammation via modulation of alternative splicing (images and qPCR data)
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CocciEnv qPCR data and accompanying metadata from soil and settled dust in the San Joaquin Valley
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qPCR results from design and partial validation of three novel eDNA qPCR assays for several common North American tick (Arachnida: Ixodida) species
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A multiplex qPCR followed by high resolution melting analysis for the detection of blood-feeding sources in Culex sp. (Diptera: Culicidae) mosquitoes
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Identification and selection of optimal reference genes for qPCR-based gene expression analysis in Fucus distichus under various abiotic stresses
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Data from: Functional antibodies against Plasmodium falciparum sporozoites are associated with a longer time to qPCR-detected infection among schoolchildren in Burkina Faso
Background: Individuals living in malaria-endemic regions develop naturally acquired immunity against severe malarial disease, but it is unclear whether immunity that affects the establishment of infections develops following continuous natural exposure. Methods: We cleared schoolchildren in Burkina Faso of possible sub-patent infections and examined them weekly for incident infections by PCR. Plasma samples collected at enrolment were used to quantify antibodies to the pre-eryhrocytic-stage antigens circumsporozoite protein (CSP) and liver stage antigen. Sporozoite gliding inhibition by naturally acquired antibodies was assessed using Plasmodium falciparum NF54 sporozoites; hepatocyte invasion was assessed using the human HC-04 hepatoma cell line and NF54 sporozoites. The associations between these functional pre-erythrocytic immunity phenotypes and time to PCR-detected infection were studied. Results: A total of 51 children were monitored; the median time to first detection of infection by PCR or development of clinical symptoms was 28 days. Anti-CSP antibody titres showed a strong positive association with sporozoite gliding motility inhibition (P<0.0001, Spearman's ρ=0.76). In vitro hepatocyte invasion was inhibited by naturally acquired antibodies (median invasion inhibition, 19.4% [IQR 15.2-40.9%]), and there was a positive correlation between gliding and invasion inhibition (P=0.02, Spearman's ρ=0.60). Survival analysis indicated longer time to infection in individuals displaying higher-than-median sporozoite gliding inhibition activity (P=0.01). Conclusions: In summary, functional antibodies against the pre-erythrocytic stages of malaria infection are acquired in children who are repeatedly exposed to Plasmodium parasites. This immune response does not prevent them from becoming infected during a malaria transmission season, but might delay the appearance of blood stage parasitaemia and consequently needs to be considered in the evaluation of malaria vaccines.
Data from: Seasonal dynamics and co-occurrence patterns of honey bee pathogens revealed by high-throughput RT-qPCR analysis
The health of the honey bee Apis mellifera is challenged by introduced parasites that interact with its inherent pathogens and cause elevated rates of colony losses. To elucidate co-occurrence, population dynamics and synergistic interactions of honey bee pathogens, we established an array of diagnostic assays for a high-throughput qPCR platform. Assuming that interaction of pathogens requires co-occurrence within the same individual, single worker bees were analyzed instead of collective samples. Eleven viruses, four parasites and three pathogenic bacteria were quantified in more than one thousand single bees sampled from sixteen disease-free apiaries in Southwest Germany. The most abundant viruses were Black Queen Cell Virus (84%), Lake Sinai Virus 1 (42%), and Deformed Wing Virus B (35%). Forager bees from asymptomatic colonies were infected with two different viruses in average, and simultaneous infection with four to six viruses was common (14%). Also the intestinal parasites Nosema ceranae (96%) and Crithidia mellificae/Lotmaria passim (52%) occurred very frequently. These results indicate that low-level infections in honey bees are more common than previously assumed. All viruses showed seasonal variation, while N. ceranae did not. The foulbrood bacteria Paenibacillus larvae and Melissococcus plutonius were regionally distributed. Spearman's correlations and multiple regression analysis indicated possible synergistic interactions between the common pathogens, particularly for Black Queen Cell Virus. Beyond its suitability for further studies on honey bees, this targeted approach may be, due to its precision, capacity and flexibility, a viable alternative to more expensive, sequencing-based approaches in non-model systems.
Sequences of primers used for RT-qPCR assay
<p>the detailed sequences of the primers of tsRNAs and mRNAs used for RT-qPCR assay</p>
Data on the Weather and Habitat and Representative results of qPCR and PCR
<p>We used weather and habitat characteristics, which collected from studied 49 sampling sites, to know how those affect ranavirus infection rate in amphibian larvae of Dryophytes japonicus (Japanese tree frog), Pelophylax nigromaculatus (Black-spotted pond frog), and Lithobates catesbeianus (American bullfrog) in South Korea.</p> <p>Description on the method section: To investigate the relationship between the ranavirus infection rate and habitat characteristics, we analyzed 16 habitat characteristics at each sampling location. The land cover rate (urban area, agricultural area, forest area, grass area, wetland area, bare area, hydrosphere area) within a radius of 3 km2 from the mid-sampling point was calculated on the 2020 South Korean land cover map(http://egis.me.go.kr ). From the land cover data, greenhouse cultivation areas within agricultural areas, salt fields and tidal flat areas within wetland areas, and sea areas within hydrosphere areas were excluded during data handling because these areas are inhabitable for amphibians. Additionally, the shortest distance from the mid-sampling point to agricultural land, mountains, water bodies, and urban areas was calculated in units of 1 m. When a sampling point was located within a specific coverage area, the distance was set to 2 m. All land cover rates, distance data, and altitude values of each sampling point were calculated using QGIS (ver. 3.4.7, QGIS.org 2021). Furthermore, the average air temperature, lowest air temperature, highest air temperature, and average precipitation for the immediately preceding quarter, based on the sampling date of the tadpoles used in the qPCR experiment, were obtained from the local meteorological station closest to the sampling point.</p> <p>We also provided the igures of representative positive qPCR results of D. japonicus (A, B) collected at Haenam, P. nigromaculatus (C, D) collected at Pohang, and L. catesbeianus (E, F) collected at Gmchoen, which showing positive ranavirus detection from the samples, and the Photographs of representative gel electrophoresis of the MCP fragment (~500bp), which confirmed the qPCR result again by sequencing the fragment (G, H) in the further study.</p>
Gene expression data from qPCR analysis of molting relevant genes in Calanus finmarchicus utilizing double delta-Ct method
<p>Gene expression data from qPCR analysis of molting relevant genes in Calanus finmarchicus utilizing double delta-Ct method for calculations of fold change and mean fold change. </p>
Raw Data of Polymerase Chain Reaction (qPCR) results of SCUBE3 and TGF-B expression
<p>This raw data presents the qPCR results of SCUBE3 and TGF-B expression from each sample taken from the patient's pleural tissue. Each sample was divided into 14 groups consisting of two main control groups (control group with 1x1 cm preparation and 2x2 cm preparation) and 12 groups divided based on the length of incubation time (group incubated for 24 hours and group incubated for 72 hours). Each of these groups consisted of two groups divided by preparation size, namely the group with 1x1 cm preparation and 2x2 preparation. Each preparation group was further divided into three small groups based on treatment, namely the control group, the group with 50 µg EGCG administration, and 100 µg EGCG administration. </p>
Dataset qPCR and sequencing of BSF larvae gut regions
<p>Sequencing data available from <a href="https://www.ncbi.nlm.nih.gov/bioproject/PRJNA706185/" target="_blank" rel="noopener">BioProject PRJNA706185</a></p>
qPCR data for "An innovative passive sampling approach for the detection of cyanobacterial gene targets in freshwater sources"
<p>qPCR data to accompany the manuscript "An innovative passive sampling approach for the detection of cyanobacterial gene targets in freshwater sources"</p>
A Open One-Step RT-qPCR for SARS-CoV-2 detection
<p>Sequences of the plasmids needed to purify the required enzymes for a standardized One-Step open RT-qPCR protocol to detect SARS-CoV-2 RNA in clinical samples. Supplementary Information</p>
COVID-19 Tests: Nasopharyngeal Swab vs Saliva Collected With Salivette® Cortisol for Viral RNA Sampling for RT-qPCR
ClinicalTrials.gov study NCT04599959. IPD Sharing: NO. Countries: 1. Publications: 1.
Evaluating a New Stool Based qPCR for Diagnosis of Tuberculosis in Children and People Living With HIV
ClinicalTrials.gov study NCT05047315. IPD Sharing: UNDECIDED. Countries: 3. Publications: 2.
HCMV-miRNA Monitoring After Allogeneic Hematopoietic Stem Cell Transplantation Using PSTM-qPCR
ClinicalTrials.gov study NCT07210242. IPD Sharing: NO. Countries: 0. Publications: 5.
Data on the Weather and Habitat and Representative results of qPCR and PCR
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Analytical validation and field testing of a specific qPCR assay for environmental DNA detection of invasive European green crab - Collected and Generated Data
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Different qPCR master mixes influence telomere primer binding within and between bird species
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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)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
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.