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143 results for “DNA extract”
Supplementary material 4 from: Deiner K, Lopez J, Bourne S, Holman LE, Seymour M, Grey EK, Lacoursière-Roussel A, Li Y, Renshaw MA, Pfrender ME, Rius M, Bernatchez L, Lodge DM (2018) Optimising the detection of marine taxonomic richness using environmental DNA metabarcoding: the effects of filter material, pore size and extraction method. Metabarcoding and Metagenomics 2: e28963. https://doi.org/10.3897/mbmg.2.28963
4_NTC :
Supplementary material 2 from: Deiner K, Lopez J, Bourne S, Holman LE, Seymour M, Grey EK, Lacoursière-Roussel A, Li Y, Renshaw MA, Pfrender ME, Rius M, Bernatchez L, Lodge DM (2018) Optimising the detection of marine taxonomic richness using environmental DNA metabarcoding: the effects of filter material, pore size and extraction method. Metabarcoding and Metagenomics 2: e28963. https://doi.org/10.3897/mbmg.2.28963
Bioinformatic pipeline and thresholds :
Supplementary material 3 from: Deiner K, Lopez J, Bourne S, Holman LE, Seymour M, Grey EK, Lacoursière-Roussel A, Li Y, Renshaw MA, Pfrender ME, Rius M, Bernatchez L, Lodge DM (2018) Optimising the detection of marine taxonomic richness using environmental DNA metabarcoding: the effects of filter material, pore size and extraction method. Metabarcoding and Metagenomics 2: e28963. https://doi.org/10.3897/mbmg.2.28963
Profiling tables for all libraries :
Supplementary material 1 from: Deiner K, Lopez J, Bourne S, Holman LE, Seymour M, Grey EK, Lacoursière-Roussel A, Li Y, Renshaw MA, Pfrender ME, Rius M, Bernatchez L, Lodge DM (2018) Optimising the detection of marine taxonomic richness using environmental DNA metabarcoding: the effects of filter material, pore size and extraction method. Metabarcoding and Metagenomics 2: e28963. https://doi.org/10.3897/mbmg.2.28963
Extraction protocols :
Linked collectors and determiners for: NEON Biorepository Zooplankton Collection (DNA Extracts).
Natural history specimen data linked to collectors and determiners held within, "NEON Biorepository Zooplankton Collection (DNA Extracts)". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/f1ed0185-5f58-4c58-bfd7-476b44822158">https://bionomia.net/dataset/f1ed0185-5f58-4c58-bfd7-476b44822158</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/f1ed0185-5f58-4c58-bfd7-476b44822158">https://gbif.org/dataset/f1ed0185-5f58-4c58-bfd7-476b44822158</a>. Formatted as a Frictionless Data package.
Linked collectors and determiners for: NEON Biorepository Carabid Collection (DNA Extracts).
Natural history specimen data linked to collectors and determiners held within, "NEON Biorepository Carabid Collection (DNA Extracts)". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/44262c91-b3fd-48e4-8e47-1ee03ac2d496">https://bionomia.net/dataset/44262c91-b3fd-48e4-8e47-1ee03ac2d496</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/44262c91-b3fd-48e4-8e47-1ee03ac2d496">https://gbif.org/dataset/44262c91-b3fd-48e4-8e47-1ee03ac2d496</a>. Formatted as a Frictionless Data package.
Figure 3 in Successful identification of the final instar nymph of Quintilia carinata (Thunberg) (Hemiptera: Cicadidae) by DNA extraction from the exuvium
Figure 3. Ventral view of terminal segments of abdomen of female nymph.
Supplementary material 1 from: Röder N, Schwenk K (2023) Direct PCR meets high-throughput sequencing – metabarcoding of chironomid communities without DNA extraction. Metabarcoding and Metagenomics 7: e102455. https://doi.org/10.3897/mbmg.7.102455
Overview of chironomid size classes
Supplementary material 2 from: Röder N, Schwenk K (2023) Direct PCR meets high-throughput sequencing – metabarcoding of chironomid communities without DNA extraction. Metabarcoding and Metagenomics 7: e102455. https://doi.org/10.3897/mbmg.7.102455
Composition of the two artificial chironomid communities
Data from: DNA extraction method affects the detection of a fungal pathogen in formalin-fixed specimens using qPCR
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Data from: More than skin and bones: comparing extraction methods and alternative sources of DNA from avian museum specimens
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Data from: Optimizing techniques to capture and extract environmental DNA for detection and quantification of fish
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Data from: Preservation-induced morphological change in salamanders and failed DNA extraction from a decades-old museum specimen: implications for Plethodon ainsworthi
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Comparison of an extracellular vs. total DNA extraction approach for environmental DNA-based monitoring of sediment biota
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Array CGH with DNA extracted from Candida albicans strains and its derivatives, which is monosomic for chromosome 5
GEO Series GSE48093. Candida albicans. 6 samples. Type: Genome variation profiling by genome tiling array.
DNA extracted from saliva for methylation studies of psychiatric traits
GEO Series GSE61653. Homo sapiens. 128 samples. Type: Methylation profiling by genome tiling array.
Methylome-wide comparison of human genomic DNA extracted from whole blood and from EBV-transformed lymphocyte cell lines
GEO Series GSE35204. Homo sapiens. 210 samples. Type: Methylation profiling by genome tiling array.
Array CGH with DNA extracted from Candida albicans strains 3153A and its derivative Sor55, which is monosomic for chromosome 5
GEO Series GSE21616. Candida albicans. 3 samples. Type: Genome variation profiling by genome tiling array.
Assessment of real-time PCR for Helicobacter pylori DNA detection in stool with co-infection of intestinal parasites: a comparative study of DNA extraction methods
<p>Background</p> <p>Many studies reported high prevalence of <em>H. pylori</em> infection among patients co-infected with intestinal parasites. Molecular approach for the DNA detection of those microbes in stool have been proposed. However there are a few reports that evaluated the effect of bead-beating in relation to the <em>H. pylori</em> outcome. Therefore, we developed and evaluated two TaqMan-based real-time PCR (rt-PCR) qualitative assays for the detection of <em>ureC</em> (<em>glmM</em>) and <em>cagA</em> of <em>Helicobacter pylori</em> on DNA extracted by three procedures.</p> <p>Results</p> <p>The two PCRs were analysed on 100 stool samples from patients who were screened for intestinal parasites. Three DNA extraction procedures were used: 1) automation with bead beating, 2) automation without bead beating and 3) hand column. The specificity of the new assays was confirmed by sequencing the PCR products and by the lack of cross-reactivity with other bacteria or pathogens DNA. Rt-PCR assays showed a detection limit of 10^4 bacteria/200 mg stool. The <em>ureC</em>_PCR with bead beating process was compared to conventional stool antigen test (SAT), with 94.12 and 93.75% of respectively sensitivity and specificity. However, the discordant samples were confirmed by DNA sequencing suggesting a potential higher sensitivity and specificity of PCR.</p> <p>Conclusions</p> <p>Our findings showed that the automation with bead-beating –suggested procedure for intestinal parasitic infections- can reach highly sensitive results in <em>H. pylori</em> detection on stool compared also with SAT. Thus, this work can provide new insights into the practice of a clinical microbiology laboratory in order to optimize detection of gastro-intestinal infections. Further studies are needed to better define the clinical value of this technique.</p>
Figure 2 from: Camacho AI, Dorda BA, Chillón BS, Rey I (2017) The collection of Bathynellacea specimens of MNCN (CSIC) Madrid: microscope slices and DNA extract. ZooKeys 678: 31-63. https://doi.org/10.3897/zookeys.678.11543
Figure 2 - Bathynellacea holotypes by families and continents in the MNCN collections.
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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)
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DANDI Archive for NWB datasets
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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.