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345 results for “DNA typing”
Data from: Correcting for cell-type effects in DNA methylation studies: reference-based method outperforms latent variable approaches in empirical studies
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Data from: Bushmeat genetics: setting up a reference framework for the DNA-typing of African forest bushmeat
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Data underlying RSOS-210474: Mitochondrial DNA sequencing of a wet-collection syntype demonstrates the importance of type material as genetic resource for Lantern Shark taxonomy (Chondrichthyes: Etmopteridae)
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Data from: Disentangling the Pelomedusa complex using type specimens and historical DNA (Testudines: Pelomedusidae)
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Data from: DNA barcodes from century-old type specimens using next generation sequencing
Type specimens have high scientific importance because they provide the only certain connection between the application of a Linnean name and a physical specimen. Many other individuals may have been identified as a particular species, but their linkage to the taxon concept is inferential. Because type specimens are often more than a century old and have experienced conditions unfavorable for DNA preservation, success in sequence recovery has been uncertain. The present study addresses this challenge by employing next generation sequencing (NGS) to recover sequences for the barcode region of the cytochrome c oxidase 1 gene from small amounts of template DNA. DNA quality was first screened in more than 1800 century-old type specimens of Lepidoptera by attempting to recover 164bp and 94bp reads via Sanger sequencing. This analysis permitted the assignment of each specimen to one of three DNA quality categories – high (164bp sequence), medium (94bp sequence), or low (no sequence). Ten specimens from each category were subsequently analyzed via a PCR-based NGS protocol requiring very little template DNA. It recovered sequence information from all specimens with average read lengths ranging from 458bp to 610bp for the three DNA categories. By sequencing ten specimens in each NGS run, costs were similar to Sanger analysis. Future increases in the number of specimens processed in each run promise substantial reductions in cost, making it possible to anticipate a future where barcode sequences are available from most type specimens.
FIGURE 12 in Revision of the Australian Oenochroma vinaria Guenée, 1858 species-complex (Lepidoptera: Geometridae, Oenochrominae): DNA barcoding reveals cryptic diversity and assesses status of type specimen without dissection
FIGURE 12. Egg of Oenochroma barcodificata. sp. nov. freshly laid egg, scale bar 1 mm. (photo CY)
FIGURE 3 in History and historical DNA: Identity of Chelodina intergularis Fry, 1915 and type localities of C. intergularis and C. rugosa Ogilby, 1890
FIGURE 3. Holotype of Chelodina rugosa, Australian Museum, Sydney (AM R6256). Photos: G. Shea.
FIGURE 2 in Taxonomy and DNA barcoding of the dark-winged fungus gnat genus Zygoneura Meigen (Diptera: Sciaridae) from China, with revision of the type materials
FIGURE 2. Neighbor-joining (NJ) tree of Zygoneura Meigen based on COI gene fragment.
Supplementary material 2 from: Landry B, Bilat J, Hayden J, Solis MA, Lees DC, Alvarez N, Léger T, Gauthier J (2023) The identity of Argyria lacteella (Fabricius, 1794) (Lepidoptera, Pyraloidea, Crambinae), synonyms, and related species revealed by morphology and DNA capture in type specimens. ZooKeys 1146: 1-42. https://doi.org/10.3897/zookeys.1146.96099
Species names, code numbers and collecting data
Supplementary material 1 from: Landry B, Bilat J, Hayden J, Solis MA, Lees DC, Alvarez N, Léger T, Gauthier J (2023) The identity of Argyria lacteella (Fabricius, 1794) (Lepidoptera, Pyraloidea, Crambinae), synonyms, and related species revealed by morphology and DNA capture in type specimens. ZooKeys 1146: 1-42. https://doi.org/10.3897/zookeys.1146.96099
Identity of Argyria lacteella (Fabricius) revised
Supplementary material 1 from: Praz CJ, Bénon D (2023) Revision of the leachella group of Megachile subgenus Eutricharaea in the Western Palaearctic (Hymenoptera, Apoidea, Megachilidae): A renewed plea for DNA barcoding type material. Journal of Hymenoptera Research 95: 143-198. https://doi.org/10.3897/jhr.95.96796
List of examined specimens, with BOLD and genbank accession numbers
Serological Response to Porcine Circovirus Type 1 (PCV-1) and PCV-1 DNA in Stools of Infants Following Administration of Rotarix™
ClinicalTrials.gov study NCT01511133. IPD Sharing: Not stated. Countries: 0. Publications: 1.
Data from: Types, levels, and patterns of low-copy DNA sequence divergence, and phylogenetic implications, for Gossypium genome types
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Data from: DNA barcodes from century-old type specimens using next generation sequencing
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Plasma DNA Methylation-Based Biomarkers for MPNST Detection in Patients With Neurofibromatosis Type 1
GEO Series GSE282216. Homo sapiens. 43 samples. Type: Methylation profiling by array.
Th1/17 polarization and potential treatment by an anti-interferon-γ DNA aptamer in Hunner-type interstitial cystitis
GEO Series GSE238208. Homo sapiens. 63 samples. Type: Expression profiling by high throughput sequencing.
Unique cell-type specific patterns of DNA methylation in the root meristem (MethylC-seq)
GEO Series GSE79708. Arabidopsis thaliana. 9 samples. Type: Methylation profiling by high throughput sequencing.
Circulating cell-free, methylated DNA reveals tissue-specific, cellular damage from radiation treatment [Mouse Reference Cell-type MCC-seq]
GEO Series GSE200185. Mus musculus. 8 samples. Type: Methylation profiling by high throughput sequencing.
Unique cell-type specific patterns of DNA methylation in the root meristem (RNA-seq)
GEO Series GSE79709. Arabidopsis thaliana. 6 samples. Type: Expression profiling by high throughput sequencing.
DNA microarray analysis using jejunum from wild-type or IAP knockout (Akp3-/-) mice administered with IIAEK (Ile-Ile-Ala-Glu-Lys)
GEO Series GSE290759. Mus musculus. 12 samples. Type: Expression profiling by array.
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.