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181
datasets available to search
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Dataset results
181 results for “de novo assembly”
Native single molecule sequencing and de novo assembly of Hepatitis B Virus to detect 5mCpG
GEO Series GSE162518. Homo sapiens. 6 samples. Type: Methylation profiling by high throughput sequencing.
De novo transcriptome assembly of the plant Helianthemum marifolium for the study of adaptive mechanisms
GEO Series GSE291935. Helianthemum marifolium subsp. andalusicum; Helianthemum marifolium subsp. molle; Helianthemum origanifolium; Helianthemum marifolium subsp. marifolium. 16 samples. Type: Expression profiling by high throughput sequencing.
Unraveling the dataset transcriptomic response of Hydrangea macrophylla stem to mechanical stimulation: de novo assembly and functional annotation
GEO Series GSE238196. Hydrangea macrophylla. 27 samples. Type: Expression profiling by high throughput sequencing.
De novo assembly and analysis of Artemisia argyi transcriptome and identification of genes involved in terpenoid biosynthesis
GEO Series GSE102404. Artemisia argyi. 3 samples. Type: Expression profiling by high throughput sequencing.
De Novo assembly and transcriptome analysis of Atlantic salmon macrophage/dendritic-like TO cells following type I IFN treatment and Salmonid alphavirus subtype-3 infection
GEO Series GSE64095. Salmo salar. 3 samples. Type: Expression profiling by high throughput sequencing.
De novo metatranscriptome assembly and coral gene expression profile of Montipora capitata with growth anomaly
GEO Series GSE97888. coral metagenome. 27 samples. Type: Expression profiling by high throughput sequencing.
De Novo Genome Assembly of Guinea Grass Exposed to Elevated CO2 and Temperature
GEO Series GSE122194. Megathyrsus maximus. 33 samples. Type: Expression profiling by high throughput sequencing.
De novo transcriptome assembly and characterization of nine tissues of Lonicera japonica to identify potential candidate genes involved in chlorogenic acid, luteolosides, and secoiridoid biosynthesis
GEO Series GSE81949. Lonicera japonica. 9 samples. Type: Expression profiling by high throughput sequencing.
De novo transcriptome assembly of the five major organs of Zanthoxylum armatum and the identification of genes involved in terpenoid compounds and fatty acids metabolism
GEO Series GSE142491. Zanthoxylum armatum. 15 samples. Type: Expression profiling by high throughput sequencing.
De novo assembly in defense against pests in Pinus massoniana
GEO Series GSE72294. Pinus massoniana. 2 samples. Type: Expression profiling by high throughput sequencing.
De novo transcriptome assembly and annotation of the semi-wild Gayal (Bos frontalis)
GEO Series GSE289623. Bos frontalis. 30 samples. Type: Expression profiling by high throughput sequencing.
De novo assembly and analysis of tartary buckwheat (Fagopyrum tataricum Garetn.) transcriptome discloses key regulators involved in salt-stress response
GEO Series GSE104167. Fagopyrum tataricum. 2 samples. Type: Expression profiling by high throughput sequencing.
De novo Assembly of Royal Iris (Iris atropurpurea, section Oncocyclus) transcriptome
GEO Series GSE121786. Iris atropurpurea. 8 samples. Type: Expression profiling by high throughput sequencing.
De novo Assembly and Characterization of Swertia japonica Transcriptome for the Identification of Candidate Genes Involved in the Biosynthesis of Therapeutic Metabolites
GEO Series GSE80057. Swertia japonica. 2 samples. Type: Expression profiling by high throughput sequencing.
Oncofusion driven de novo enhancer assembly promotes malignancy in Ewing sarcoma via aberrant expression of the stereociliary protein LOXHD1 [hypoxia]
GEO Series GSE163333. Homo sapiens. 8 samples. Type: Expression profiling by high throughput sequencing.
De novo transcriptome assembly of the tree swallow (Tachycineta bicolor): tissue-specific expression profiles and positive selection analysis
GEO Series GSE126210. Tachycineta bicolor. 12 samples. Type: Expression profiling by high throughput sequencing.
Data from: De novo transcriptome assembly and analysis of differential gene expression in response to drought in European beech
Despite the ecological and economic importance of European beech (Fagus sylvatica L.) genomic resources of this species are still limited. This hampers an understanding of the molecular basis of adaptation to stress. Since beech will most likely be threatened by the consequences of climate change, an understanding of adaptive processes to climate change-related drought stress is of major importance. Here, we used RNA-seq to provide the first drought stress-related transcriptome of beech. In a drought stress trial with beech saplings, 50 samples were taken for RNA extraction at five points in time during a soil desiccation experiment. De novo transcriptome assembly and analysis of differential gene expression revealed 44,335 contigs, and 662 differentially expressed genes between the stress and normally watered control group. Gene expression was specific to the different time points, and only five genes were significantly differentially expressed between the stress and control group on all five sampling days. GO term enrichment showed that mostly genes involved in lipid- and homeostasis-related processes were upregulated, whereas genes involved in oxidative stress response were downregulated in the stressed seedlings. This study gives first insights into the genomic drought stress response of European beech, and provides new genetic resources for adaptation research in this species.
De novo assembly of the polyhydroxybutyrate (PHB) producer Azohydromonas lata strain H1 (Pelleroni and Pelleroni, 1978) genome and genomic analysis of PHB production machinery
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De novo transcriptome assembly of a lipoxygenase knock-down strain in the diatom Pseudo-nitzschia arenysensis
<p>We generated knock-down mutants for the LOX gene of the diatom <em>Pseudo-nitzschia arenysensis</em> to alter the synthesis of oxylipins and functionally investigate the mechanism of action of these metabolites in diatoms (as described in Sabatino et al., New Phyt. (2021) <a href="https://nph.onlinelibrary.wiley.com/doi/full/10.1111/nph.17739">doi: 10.1111/NPH.17739</a>). Here, we present the <em>de novo</em> assembly of RNA-seq data obtained both from the silenced and wild-type <em>P. arenysensis </em>strains and the related functional classification of the transcript sequences (Marotta et al., Sci Data. submission #SDATA-23-01949, in revision)</p>
Data from: De novo transcriptome assembly and analysis of differential gene expression in response to drought in European beech
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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.