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37 results for “extraction optimization”
Data from: “Direct PCR” optimization yields a rapid, cost-effective, non-destructive, and efficient method for obtaining DNA barcodes without DNA extraction
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Data from: Optimizing techniques to capture and extract environmental DNA for detection and quantification of fish
Few studies have examined capture and extraction methods for environmental DNA (eDNA) to identify techniques optimal for detection and quantification. In this study, precipitation, centrifugation and filtration eDNA capture methods and six commercially available DNA extraction kits were evaluated for their ability to detect and quantify common carp (Cyprinus carpio) mitochondrial DNA using quantitative PCR in a series of laboratory experiments. Filtration methods yielded the most carp eDNA, and a glass fibre (GF) filter performed better than a similar pore size polycarbonate (PC) filter. Smaller pore sized filters had higher regression slopes of biomass to eDNA, indicating that they were potentially more sensitive to changes in biomass. Comparison of DNA extraction kits showed that the MP Biomedicals FastDNA SPIN Kit yielded the most carp eDNA and was the most sensitive for detection purposes, despite minor inhibition. The MoBio PowerSoil DNA Isolation Kit had the lowest coefficient of variation in extraction efficiency between lake and well water and had no detectable inhibition, making it most suitable for comparisons across aquatic environments. Of the methods tested, we recommend using a 1.5 μm GF filter, followed by extraction with the MP Biomedicals FastDNA SPIN Kit for detection. For quantification of eDNA, filtration through a 0.2–0.6 μm pore size PC filter, followed by extraction with MoBio PowerSoil DNA Isolation Kit was optimal. These results are broadly applicable for laboratory studies on carps and potentially other cyprinids. The recommendations can also be used to inform choice of methodology for field studies.
Figure 3 from: Nguyen N-VT, Nguyen CV, Duong NT, Dai X-TT, Nguyen KT, Le C-TT (2024) Optimization of ultrasound-assisted extraction using response surface methodology and quantification of polyphenol compounds in Avicennia officinalis L. from Vietnam. Pharmacia 71: 1-9. https://doi.org/10.3897/pharmacia.71.e115528
Figure 3 3D response surface curve showing the influences of independent variables on the TFC (A–F).
Figure 2 from: Nguyen N-VT, Nguyen CV, Duong NT, Dai X-TT, Nguyen KT, Le C-TT (2024) Optimization of ultrasound-assisted extraction using response surface methodology and quantification of polyphenol compounds in Avicennia officinalis L. from Vietnam. Pharmacia 71: 1-9. https://doi.org/10.3897/pharmacia.71.e115528
Figure 2 3D response surface curve showing the influences of independent variables on the TPC (A–F).
Figure 4 from: Nguyen N-VT, Nguyen CV, Duong NT, Dai X-TT, Nguyen KT, Le C-TT (2024) Optimization of ultrasound-assisted extraction using response surface methodology and quantification of polyphenol compounds in Avicennia officinalis L. from Vietnam. Pharmacia 71: 1-9. https://doi.org/10.3897/pharmacia.71.e115528
Figure 4 HPLC chromatogram of A. officinalis leaves extract. a Mobile phase solvent; b Solute sovent; c Extraction solvent; d Spiked sample; e Mixed standards solution; f Standard addition. (C1: Chlorogenic acid, C2: p-coumaric acid, C3: Sinapic acid, C4: Taxifolin, C5: Luteolin -7-O-glucoside, C6: Cinnamic acid).
Figure 1 from: Nguyen N-VT, Nguyen CV, Duong NT, Dai X-TT, Nguyen KT, Le C-TT (2024) Optimization of ultrasound-assisted extraction using response surface methodology and quantification of polyphenol compounds in Avicennia officinalis L. from Vietnam. Pharmacia 71: 1-9. https://doi.org/10.3897/pharmacia.71.e115528
Figure 1 Influence of methanol concentration, ratio of solid to liquid, temperature and time ultrasonic on the extration of TPC and TFC from A. officinalis leave extracts.
MySQL dump for finding optimal parameters for data augmentation techniques in publication "Leveraging Data Augmentation for Process Information Extraction"
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Fig. 3 in Protocol Optimization For Genomic Dna Extraction And Rapd-Pcr Of Alien Ponto-Caspian Amphipod Pontogammarus Robustoides
Fig. 3. RAPD fingerprints results from different samples of Pontogammarus robustoides with primers OPA-02 (M- marker, 1-15 runners- different samples of Pontogammarus robustoides; K- control) using RAPD-PCR 10 × Taq buffer with (NH4)2SO4.
Data from: Optimizing techniques to capture and extract environmental DNA for detection and quantification of fish
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Data from: Comparison of capture and storage methods for aqueous macrobial eDNA using an optimized extraction protocol: advantage of enclosed filter
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Detection of Azole Resistance Inducing Mutations on DNA Extracted Directly From Serum or Plasma of Immunocompromised Patients With an Invasive Aspergillus Infection Azole Resistance PCR Optimalization
ClinicalTrials.gov study NCT06069505. IPD Sharing: UNDECIDED. Countries: 1. Publications: 0.
Optimal Concentration of Dermatophagoides Pteronyssinus (Dp) Allergen Extract for Skin Prick Test (SPT) of Thai Population
ClinicalTrials.gov study NCT01172613. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Non-invasive Sampling Method for Skin Test: Optimization of Sample Collection and Extraction
ClinicalTrials.gov study NCT07117747. IPD Sharing: NO. Countries: 1. Publications: 0.
Optimizing RNA Extraction Methods for High Throughput Transcriptome Sequencing of Fresh Frozen and Formalin-Fixed Paraffin-Embedded Cardiac Tissues Specimens
GEO Series GSE267659. Macaca mulatta. 16 samples. Type: Expression profiling by high throughput sequencing.
Pomegranate Flower Extract—The Health-Promoting Properties Optimized by Application of the Box–Behnken Design
<p>Data includes source data and the publication to which it is related</p>
An optimized method for high-quality RNA extraction from distinctive intrinsic laryngeal muscles in the rat model
GEO Series GSE217027. Rattus norvegicus. 90 samples. Type: Expression profiling by high throughput sequencing.
A versatile nuclei extraction protocol for single nucleus sequencing in non-model species - optimization in various Atlantic salmon tissues
GEO Series GSE231945. Salmo salar. 4 samples. Type: Expression profiling by high throughput sequencing.
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)
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.