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50 results for “DNA persistence”
Genes_DNA_Persistence
<p>These data were collected as part of a surface-level human decomposition study to better understand the persistence of human mitochondrial and nuclear DNA in soil. These data include quantitative PCR information and envrionemntal data. </p>
Safety and Immunogenicity of a Personalized Polyepitope DNA Vaccine Strategy in Breast Cancer Patients With Persistent Triple-Negative Disease Following Neoadjuvant Chemotherapy
ClinicalTrials.gov study NCT02348320. IPD Sharing: NO. Countries: 1. Publications: 1.
A Single-Arm Pilot Study of Adjuvant Pembrolizumab Plus Trastuzumab in HER2+ Esophagogastric Tumors With Persistent Circulating Tumor DNA Following Curative Resection
ClinicalTrials.gov study NCT04510285. IPD Sharing: YES. Countries: 1. Publications: 0.
Data from: Persistence of marine fish environmental DNA and the influence of sunlight
Harnessing information encoded in environmental DNA (eDNA) in marine waters has the potential to revolutionize marine biomonitoring. Whether using organism-specific quantitative PCR assays or metabarcoding in conjunction with amplicon sequencing, scientists have illustrated that realistic organism censuses can be inferred from eDNA. The next step is establishing ways to link information obtained from eDNA analyses to actual organism abundance. This is only possible by understanding the processes that control eDNA concentrations. The present study uses mesocosm experiments to study the persistence of eDNA in marine waters and explore the role of sunlight in modulating eDNA persistence. We seeded solute-permeable dialysis bags with water containing indigenous eDNA and suspended them in a large tank containing seawater. Bags were subjected to two treatments: half the bags were suspended near the water surface where they received high doses of sunlight, and half at depth where they received lower doses of sunlight. Bags were destructively sampled over the course of 87 hours. eDNA was extracted from water samples and used as template for a Scomber japonicus qPCR assay and a marine fish-specific 12S rRNA PCR assay. The latter was subsequently sequenced using a metabarcoding approach. S. japonicus eDNA, as measured by qPCR, exhibited first order decay with a rate constant ~0.01 hr -1 with no difference in decay rate constants between the two experimental treatments. eDNA metabarcoding identified 190 organizational taxonomic units (OTUs) assigned to varying taxonomic ranks. There was no difference in marine fish communities as measured by eDNA metabarcoding between the two experimental treatments, but there was an effect of time. Given the differences in UVA and UVB fluence received by the two experimental treatments, we conclude that sunlight is not the main driver of fish eDNA decay in the experiments. However, there are clearly temporal effects that need to be considered when interpreting information obtained using eDNA approaches.
Supplementary material 1 from: Homberger L, Xu J, Brandis D, Chan T-Y, Keirsebelik H, Normant-Saremba M, Schoelynck J, Chu KH, Ewers-Saucedo C (2022) Genetic and morphological evidence indicates the persistence of Japanese mitten crab mitochondrial DNA in Europe for over 20 years and its introgression into Chinese mitten crabs. NeoBiota 73: 137-152. https://doi.org/10.3897/neobiota.73.72566
Table S1. Master spreadsheet with morphological and genetic information for each specimen
Nivolumab Maintenance in Newly Diagnosed PCNSL With Persistent CSF Circulating Tumor DNA After Completion of First-Line Chemotherapy
ClinicalTrials.gov study NCT04401774. IPD Sharing: YES. Countries: 1. Publications: 0.
Data from: Detecting an elusive invasive species: a diagnostic PCR to detect Burmese python in Florida waters and an assessment of persistence of environmental DNA
Open the record for dataset details and reuse information.
Data from: Persistence of marine fish environmental DNA and the influence of sunlight
Open the record for dataset details and reuse information.
Human DNA methylation signatures differentiate persistent from resolving MRSA bacteremia
GEO Series GSE150144. Homo sapiens. 270 samples. Type: Methylation profiling by high throughput sequencing.
Persistent gene expression and DNA methylation alterations linked to carcinogenic effects of dichloroacetic acid [RNA-seq]
GEO Series GSE242661. Mus musculus. 78 samples. Type: Expression profiling by high throughput sequencing.
G2/M DNA synthesis at transcription start sites because of RNA transcription persistence during DNA replication [Chr-RNA-seq]
GEO Series GSE136292. Homo sapiens. 12 samples. Type: Expression profiling by high throughput sequencing.
Transient splicing inhibition causes persistent DNA damage and enhances chemotherapy vulnerability in homologous recombination proficient triple-negative breast cancer
GEO Series GSE271749. Homo sapiens. 9 samples. Type: Expression profiling by high throughput sequencing.
G2/M DNA synthesis at transcription start sites because of RNA transcription persistence during DNA replication [ChIP-seq]
GEO Series GSE136291. Homo sapiens. 12 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
G2/M DNA synthesis at transcription start sites because of RNA transcription persistence during DNA replication [Chip-Seq H2AX]
GEO Series GSE160833. Homo sapiens. 3 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
Primary Keratinocyte Model of Actinic Keratosis Reveals UV-Induced DNA Damage Accumulation and Persistent Interferon Signaling
GEO Series GSE305980. Homo sapiens. 42 samples. Type: Expression profiling by high throughput sequencing.
Hippocampal DNA methylation promote memory persistence by facilitating systems consolidation and cortical engram stabilization
GEO Series GSE261404. Mus musculus. 16 samples. Type: Expression profiling by high throughput sequencing.
A KHDC3L mutation resulting in recurrent hydatidiform mole causes genome-wide DNA methylation loss in oocytes and persistent imprinting defects post-fertilisation.
GEO Series GSE138864. Homo sapiens. 6 samples. Type: Methylation profiling by genome tiling array.
Aflatoxin B1 induces persistent epigenomic effects in primary human hepatocytes associated with hepatocellular carcinoma [DNA methylation]
GEO Series GSE71548. Homo sapiens. 6 samples. Type: Methylation profiling by genome tiling array.
G2/M DNA synthesis at transcription start sites because of RNA transcription persistence during DNA replication [BrdU-Seq]
GEO Series GSE136288. Homo sapiens. 24 samples. Type: Other.
Polymerase theta-mediated end-joining repairs persistent G1-induced DNA breaks in S/G2.
GEO Series GSE306291. Mus musculus. 25 samples. Type: Other.
ScienceDex guides
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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.