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10 results for “magnetic beads”
Improving the recovery for dissolved eDNA State: A comparative analysis of isopropanol precipitation, magnetic bead extraction, and centrifugal dialysis
<p>Environmental DNA consists of multiple states including but not limited to membrane-bound, adsorbed, and dissolved states. Because of their chemical and physical properties, each of these states may have different degradation and transport potential. Essential to the study of eDNA states is being able to isolate them from an environmental sample. Here we focus on improving the DNA recovery of the dissolved state of eDNA from water. We compared three recovery methods, namely isopropanol precipitation, magnetic bead extraction, and centrifugal dialysis. We evaluated the effectiveness of these methods based on the measured DNA recovery of two different species' DNA of different sizes. DNA recovery was assessed with qPCR. We also checked for the effect of inhibitor removal, and lastly estimated the cost of reagents and consumables (not labor). The DNA recovery varied among extraction methods, with isopropanol precipitation yielding the highest recovery (52.47 ± 19.69%), followed by centrifugal dialysis (12.58 ± 7.15%) and magnetic bead extraction (9.92 ± 3.89%). However, isopropanol precipitation's efficacy was influenced by humic acid concentration in the water matrix. The presence of humic acids significantly affected isopropanol precipitation, with higher humic acid concentrations leading to increased DNA recovery. This suggests that humic acids act as co-precipitators during isopropanol precipitation. We observed that longer DNA fragments (chicken) had lower recovery compared to shorter fragments (salmon) across all extraction methods. Magnetic bead extraction effectively removed inhibitors, while centrifugal dialysis and isopropanol extraction required an additional inhibitor removal step. Isopropanol, magnetic bead extraction, and centrifugal dialysis methods have estimated costs of 7.74, 8.53, and 23.62 USD in 2023 respectively. Overall, isopropanol precipitation was the least expensive and most effective with the highest measured recoveries, but it was dependent on humic acid concentration in the environmental sample.</p>
Improving the recovery for dissolved eDNA State: A comparative analysis of isopropanol precipitation, magnetic bead extraction, and centrifugal dialysis
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Magnetic bead epicPCR sequencing data, December 3 2021
<p>Samples:</p> <p>1. Chilomonas, 16S</p> <p>2. Rhodomonas, 16S</p> <p>3. Chilomonas+Rhodomonas, 16S</p> <p>4. Chilomonas+Rhodomonas+wastewater, 16S</p> <p>5. Wastewater, 16S</p> <p>6. Chilomonas, 18S</p> <p>7. Rhodomonas, 18S</p> <p>8. Chilomonas+Rhodomonas, 18S</p> <p>9. Chilomonas+Rhodomonas+wastewater, 18S</p> <p>10. Wastewater, 18S</p>
Magnetic bead epicPCR with dMLA probes, sequencing data, March 11 2022
<p>Samples:</p> <p>1. Mocks, 16S, 55°C<br> 2. HAMBIs+Mocks, 16S, 55°C<br> 3. HAMBIs, 16S, 55°C<br> 4. Mocks, 16S, 60°C<br> 5. HAMBIs+Mocks, 16S, 60°C<br> 6. HAMBIs, 16S, 60°C<br> 7. Mocks, 16S, 65°C<br> 8. HAMBIs+Mocks, 16S, 65°C<br> 9. HAMBIs, 16S, 65°C<br> 10. Mocks, dMLA, 55°C<br> 11. HAMBIs+Mocks, dMLA, 55°C<br> 12. HAMBIs, dMLA, 55°C<br> 13. Mocks, dMLA, 60°C<br> 14. HAMBIs+Mocks, dMLA, 60°C<br> 15. HAMBIs, dMLA, 60°C<br> 16. Mocks, dMLA, 65°C<br> 17. HAMBIs+Mocks, dMLA, 65°C<br> 18. HAMBIs, dMLA, 65°C<br> 19. Chilomonas, 16S<br> 20. Chilomonas+WW, 16S<br> 21. WW, 16S<br> 22. Chilomonas, 18S<br> 23. Chilomonas+WW, 18S<br> 24. WW, 18S</p>
Magnetic Bead Tracking System and eOPRA Implant System With Bionic Prosthesis for Transtibial Amputees
ClinicalTrials.gov study NCT06391697. IPD Sharing: NO. Countries: 1. Publications: 0.
Feasibility Study Evaluating the Safety and Effectiveness of Magnetic Bead Tracking System When Used With a Bionic External Prosthesis
ClinicalTrials.gov study NCT07195461. IPD Sharing: YES. Countries: 1. Publications: 0.
Safety and Efficacy of Doxorubicin Adsorbed to Magnetic Beads Vs. IV Doxorubicin in Treating Liver Cancer
ClinicalTrials.gov study NCT00034333. IPD Sharing: Not stated. Countries: 8. Publications: 0.
Safety and Efficacy of Doxorubicin Adsorbed to Magnetic Beads
ClinicalTrials.gov study NCT00054951. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Gene expression profile magnetic beads sorted CD8+ T cells from naïve splenocytes and OVA257-264 peptide activated splenocytes from WT and Susd2-/- OT-I mice
GEO Series GSE212179. Mus musculus. 15 samples. Type: Expression profiling by high throughput sequencing.
Magnetic Bead Processing Enables Sensitive Ligation-based Detection of HIV Drug Resistance Mutations [Data Release]
<p>Raw data files for the manuscript "Magnetic Bead Processing Enables Sensitive Ligation-based Detection of HIV Drug Resistance Mutations".</p>
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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.