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170
datasets available to search
ShareScore release 0.9.0
Dataset results
170 results for “phenotypic change”
Cryptic variation fuels plant phenotypic change through hierarchical epistasis
GEO Series GSE289537. Solanum lycopersicum. 8 samples. Type: Expression profiling by high throughput sequencing.
Graded Expression Changes Determine Phenotype Severity In Mouse Models of CRX-Associated Retinopathy
GEO Series GSE65506. Mus musculus. 30 samples. Type: Expression profiling by high throughput sequencing.
An allelic series of spontaneous Rorb mutant mice exhibit a gait phenotype, changes in retina morphology and behavior, and gene expression signatures associated with the unfolded protein response
GEO Series GSE229218. Mus musculus. 66 samples. Type: Expression profiling by high throughput sequencing.
Caloric restriction mimetic 2-deoxyglucose alters metabolic and transcriptomic phenotype in association with changes in chromatin accessibility in human astrocytes [RNA-Seq]
GEO Series GSE290343. Homo sapiens. 8 samples. Type: Expression profiling by high throughput sequencing.
HBV-driven host chromatin accessibility changes affect liver metabolic pathways, iron homeostasis and promote a preneoplastic phenotype [RNA-seq]
GEO Series GSE239860. Homo sapiens. 18 samples. Type: Expression profiling by high throughput sequencing.
Matrix stiffness induces a tumorigenic phenotype in mammary epithelium through changes in chromatin accessibility
GEO Series GSE131968. Homo sapiens. 20 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
Cancer Associated Fibroblasts are defined by a core set of epigenome changes that contribute to the tumor phenotype [RNA-seq]
GEO Series GSE85606. Homo sapiens. 8 samples. Type: Expression profiling by high throughput sequencing.
T cell phenotype changes associated with oncolytic virotherapy combined with Nivolumab
GEO Series GSE276366. Homo sapiens. 39 samples. Type: Expression profiling by high throughput sequencing.
Experimental DNA demethylation associates with changes in phenotype and gene expression of tree seedlings
GEO Series GSE138108. Quercus lobata. 12 samples. Type: Expression profiling by high throughput sequencing.
The stem cell pluripotency genes Klf4 and Oct4 regulate complex SMC phenotypic changes critical in late-stage atherosclerotic lesion pathogenesis
GEO Series GSE150644. Mus musculus. 22 samples. Type: Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing.
Exercise Training Ameliorates Myocardial Phenotypes in Heart Failure with Preserved Ejection Fraction by Changing N6-methyladenosine Modification in Mice Mode
GEO Series GSE208354. Mus musculus. 12 samples. Type: Expression profiling by high throughput sequencing; Other.
Phenotypic changes in PMN in Periodontits patients
GEO Series GSE43525. Homo sapiens. 23 samples. Type: Expression profiling by array.
Cancer Associated Fibroblasts are defined by a core set of epigenome changes that contribute to the tumor phenotype [Illumina HM450]
GEO Series GSE86258. Homo sapiens. 14 samples. Type: Methylation profiling by genome tiling array.
Chronic compression recapitulates transcriptional, metabolic, and functional state changes in macrophages associated with pro-tumor phenotypes
GEO Series GSE304867. Mus musculus. 12 samples. Type: Expression profiling by high throughput sequencing.
Data from: Phenotypic interactions between tree hosts and invasive forest pathogens in the light of globalization and climate change
Invasive pathogens can cause considerable damage to forest ecosystems. Lack of coevolution is generally thought to enable invasive pathogens to bypass the defence and/or recognition systems in the host. Although mostly true, this argument fails to predict intermittent outcomes in space and time, underlining the need to include the roles of the environment and the phenotype in host–pathogen interactions when predicting disease impacts. We emphasize the need to consider host–tree imbalances from a phenotypic perspective, considering the lack of coevolutionary and evolutionary history with the pathogen and the environment, respectively. We describe how phenotypic plasticity and plastic responses to environmental shifts may become maladaptive when hosts are faced with novel pathogens. The lack of host–pathogen and environmental coevolution are aligned with two global processes currently driving forest damage: globalization and climate change, respectively. We suggest that globalization and climate change act synergistically, increasing the chances of both genotypic and phenotypic imbalances. Short moves on the same continent are more likely to be in balance than if the move is from another part of the world. We use Gremmeniella abietina outbreaks in Sweden to exemplify how host–pathogen phenotypic interactions can help to predict the impacts of specific invasive and emergent diseases. This article is part of the themed issue 'Tackling emerging fungal threats to animal health, food security and ecosystem resilience'.
Rapid phenotypic and genotypic change in a laboratory schistosome population
<p>The present dataset contains all phenotype data and input files, as well as shell and R scripts used for data analysis and generation of figures (1-5, S1-S2) present in the manuscript entitled "Rapid phenotypic and genotypic change in a laboratory schistosome population."</p> <p><strong><span>Abstract</span></strong></p> <p><strong><span>Background:</span></strong><span> Genomic analysis has revealed extensive contamination among laboratory-maintained microbes including malaria parasites, <em>Mycobacterium tuberculosis</em> and <em>Salmonella </em>spp. Here, we provide direct evidence for recent contamination of a laboratory schistosome parasite population, and we investigate its genomic consequences. The Brazilian <em>Schistosoma mansoni</em> population SmBRE has several distinctive phenotypes, showing poor infectivity, reduced sporocysts number, low levels of cercarial shedding and low virulence in the intermediate snail host, and low worm burden and low fecundity in the vertebrate rodent host. In 2021 we observed a rapid change in SmBRE parasite phenotypes, with a ~10x increase in cercarial production and ~4x increase in worm burden. </span></p> <p><strong><span>Methods:</span></strong><span> To determine the underlying genomic cause of these changes, </span><span>we sequenced pools of SmBRE adults collected during parasite maintenance between 2015 and 2023. We also sequenced another parasite population (SmLE) maintained alongside </span><span>SmBRE without phenotypic changes. </span></p> <p><strong><span>Results:</span></strong><span> While SmLE allele frequencies remained stable over the eight-year period, we observed sudden changes in allele frequency across the genome in SmBRE between July 2021 and February 2023, consistent with expectations of laboratory contamination. (i) SmLE-specific alleles rose in the SmBRE population from 0 to 41-46% across the genome between </span><span>September and October 2021, documenting the timing and magnitude of the contamination event.</span><span> (ii) After contamination, strong selection (<em>s</em> = ~0.23) drove replacement of low fitness SmBRE with high fitness SmLE alleles. (iii) Allele frequency changed rapidly across the whole genome, except for a region on chromosome 4 where SmBRE alleles remained at high frequency. </span></p> <p><strong><span>Conclusions:</span></strong><span> We were able to detect contamination in this case because SmBRE shows distinctive phenotypes. However, this would likely have been missed with phenotypically similar parasites. These results provide a cautionary tale about the importance of tracking the identity of parasite populations, but also showcase a simple approach to monitor changes within populations using molecular profiling of pooled population samples to characterize fixed single nucleotide polymorphisms. We also show that genetic drift results in continuous change even in the absence of contamination, causing parasites maintained in different labs (or sampled from the same lab at different times) to diverge.</span></p>
Molecular Phenotype Changes and Personalized Treatment for CRPC
ClinicalTrials.gov study NCT02208583. IPD Sharing: Not stated. Countries: 1. Publications: 0.
INCHANGE - Nintedanib for Changes in Cough and Dyspnea in Patients Suffering From Chronic Fibrosing Interstitial Lung Disease With a Progressive Phenotype in Everyday Clinical Practice: a Real-world E
ClinicalTrials.gov study NCT05151640. IPD Sharing: YES. Countries: 5. Publications: 0.
Single-cell transcriptome analysis revealed continuous changes in molecular phenotypes during epithelial-to-mesenchymal transition
GEO Series GSE143607. Homo sapiens. 1 samples. Type: Expression profiling by high throughput sequencing.
Changes in Environmental Stress over COVID-19 Pandemic Likely Contributed to Failure to Replicate Adiposity Phenotype Associated with Krtcap3
GEO Series GSE236873. Rattus norvegicus. 16 samples. Type: Expression profiling by high throughput sequencing.
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)
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.