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69 results for “eRNA”
Environmental nucleic acids: a field-based comparison for monitoring freshwater habitats using eDNA and eRNA
<p>Nucleic acids released by organisms and isolated from environmental substrates are increasingly being used for molecular biomonitoring. While environmental DNA (eDNA) has received attention recently, the potential of environmental RNA as a biomonitoring tool remains less explored. Several recent studies using paired DNA and RNA metabarcoding of bulk samples suggest that RNA might better reflect "metabolically active" parts of the community. However, such studies mainly capture organismal eDNA and eRNA. For larger eukaryotes, isolation of extra-organismal RNA will be important, but viability needs to be examined in a field-based setting. In this study we evaluate (a) whether extra-organismal eRNA release from macroeukaryotes can be detected given its supposedly rapid degradation, and (b) if the same field collection methods for eDNA can be applied to eRNA. We collected eDNA and eRNA from water in lakes where fish community composition is well documented, enabling a comparison between the two nucleic acids in two different seasons with monitoring using conventional methods. We found that eRNA is released from macroeukaryotes and can be filtered from water and metabarcoded in a similar manner as eDNA to reliably provide species composition information. eRNA had a small but significantly greater true positive rate than eDNA, indicating that it correctly detects more species known to exist in the lakes. Given relatively small differences between the two molecules in describing fish community composition, we conclude that if eRNA provides significant advantages in terms of lability, it is a strong candidate to add to the suite of molecular monitoring tools.</p>
Dataset: Eterna Therapeutics Inc. (ERNA) Stock Performance
This dataset provides historical stock market performance data for specific companies. It enables users to analyze and understand the past trends and fluctuations in stock prices over time. This information can be utilized for various purposes such as investment analysis, financial research, and market trend forecasting.
Environmental nucleic acids: a field-based comparison for monitoring freshwater habitats using eDNA and eRNA
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Supplementary datasets for eRNA community and Functional annotations
<p>Changes in land use and agricultural intensification threaten biodiversity and ecosystem functioning of small water bodies. We studied 67 kettle holes (KH) in an agricultural landscape in northeastern Germany using landscape-scale metatranscriptomics, to understand the responses of active bacterial, archaeal, and eukaryotic communities, to land-use type. These KH are proxies of the millions of small standing water bodies of glacial origin spread across the northern hemisphere. Like other landscapes in Europe, the study area has been used for intensive agriculture since the 1950s. In contrast to a parallel eDNA study which revealed the homogenization of biodiversity across KH conceivably resulting from long-lasting intensive agriculture, land-use type affected the structure of the active KH communities during spring crop fertilization, but not a month later. This effect was more pronounced in eukaryotes than in bacteria. In contrast, gene expression patterns did not differ between months or across land-use type, suggesting a high degree of functional redundancy across the KH communities. Variability in gene expression was best explained by active bacterial and eukaryotic community structures, suggesting that these changes in functioning are primarily driven by interactions between organisms. Our results show that influences of the surrounding landscape result in temporary changes in the activity of different community members. Thus, even in KH where biodiversity has been homogenized, communities continue to respond to land management. This needs to be considered when developing sustainable management options for restoration purposes and for successful mitigation of further biodiversity loss in agricultural landscapes.</p>
Supplementary datasets for eRNA community and Functional annotations
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Data from: Comparative patterns of temporal decay and detectability of eDNA and eRNA across molecular markers in connected and isolated freshwater mesocosms using digital PCR
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Validation of the Gated Blood Pool SPECT: ERNA vs 3D Echo
ClinicalTrials.gov study NCT00576186. IPD Sharing: Not stated. Countries: 1. Publications: 8.
FIGURE 1. Dirrhagofarsus ernae n in Description of Dirrhagofarsus ernae n. sp. with a key to the known Dirrhagofarsus species (Coleoptera: Eucnemidae)
FIGURE 1. Dirrhagofarsus ernae n. sp., male. Scale 5 mm.
The naturally occurring ∆40p53 isoform inhibits eRNA transcription and enables context-specific regulatory inputs during p53 activation [RNA_Nutlin]
GEO Series GSE147701. Homo sapiens. 12 samples. Type: Expression profiling by high throughput sequencing.
PAX3-FOXO1 coordinates enhancer architecture, eRNA transcription, and controls RNA polymerase pause release at select gene targets [RNA-Seq]
GEO Series GSE183297. Homo sapiens. 30 samples. Type: Expression profiling by high throughput sequencing.
The naturally occurring ∆40p53 isoform inhibits eRNA transcription and enables context-specific regulatory inputs during p53 activation [PRO-seq]
GEO Series GSE147699. Homo sapiens. 12 samples. Type: Expression profiling by high throughput sequencing.
PAX3-FOXO1 coordinates enhancer architecture, eRNA transcription, and controls RNA polymerase pause release at select gene targets [ATAC-Seq II]
GEO Series GSE188668. Homo sapiens. 4 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
PAX3-FOXO1 coordinates enhancer architecture, eRNA transcription, and controls RNA polymerase pause release at select gene targets
GEO Series GSE183281. Homo sapiens. 209 samples. Type: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing; Other.
New roles for DNA cytosine modification, eRNA, anchors and super-anchors in developing B cell progenitors
GEO Series GSE72670. Mus musculus. 2 samples. Type: Methylation profiling by high throughput sequencing.
The naturally occurring ∆40p53 isoform inhibits eRNA transcription and enables context-specific regulatory inputs during p53 activation [5FU_RNA]
GEO Series GSE147702. Homo sapiens. 12 samples. Type: Expression profiling by high throughput sequencing.
eRNAs Promote Transcription by Establishing Chromatin Accessibility at Defined Genomic Loci
GEO Series GSE49313. Mus musculus. 11 samples. Type: Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing.
The corepressors GPS2 and SMRT control enhancer and silencer function linked to eRNA transcription during inflammatory activation of macrophages
GEO Series GSE130383. Mus musculus. 247 samples. Type: Genome binding/occupancy profiling by high throughput sequencing; Other; Expression profiling by high throughput sequencing.
PAX3-FOXO1 coordinates enhancer architecture, eRNA transcription, and controls RNA polymerase pause release at select gene targets [Cut & Run II]
GEO Series GSE188671. Homo sapiens. 7 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
eRNA: A graphic user interface-based tool for RNA sequencing data analysis [microRNA-Seq]
GEO Series GSE53451. Homo sapiens. 14 samples. Type: Non-coding RNA profiling by high throughput sequencing.
The naturally occurring ∆40p53 isoform inhibits eRNA transcription and enables context-specific regulatory inputs during p53 activation.
GEO Series GSE147703. Homo sapiens. 68 samples. Type: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing.
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.