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ShareScore release 0.9.0
Dataset results
92 results for “genomic data integration”
Data from: Integration of genomics and transcriptomics predicts diabetic retinopathy susceptibility genes
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Seminoma and embryonal carcinoma footprints identified by analysis of integrated genome-wide epigenetic and expression profiles of germ cell cancer cell lines (methylation data).
GEO Series GSE56382. Homo sapiens. 2 samples. Type: Methylation profiling by genome tiling array.
Integrative analysis of single cell genomics data by coupled nonnegative matrix factorizations (RNA-Seq)
GEO Series GSE115968. Mus musculus. 464 samples. Type: Expression profiling by high throughput sequencing.
Integration of whole-genome DNA methylation data with RNA sequencing data to identify markers for bull fertility
GEO Series GSE142472. Bos taurus. 10 samples. Type: Methylation profiling by high throughput sequencing.
Integrative analysis of multiple genomic data from intrahepatic cholangiocarcinoma organoids enables tumor subtyping
GEO Series GSE215997. Homo sapiens. 13 samples. Type: Expression profiling by high throughput sequencing.
Identification of a prognostic signature for old-age mortality by integrating genome-wide transcriptomic data with the conventional predictors: the Vitality 90+ Study
GEO Series GSE65218. Homo sapiens. 151 samples. Type: Expression profiling by array.
Integrated analysis of genome-wide copy number and matched expression data reveals novel genes in esophageal adenocarcinoma
GEO Series GSE25201. Homo sapiens. 9 samples. Type: Genome variation profiling by SNP array.
Discordant genome assemblies drastically alter the interpretation of single cell RNA sequencing data which can be mitigated by a novel integration method
GEO Series GSE194093. Astyanax mexicanus. 1 samples. Type: Expression profiling by high throughput sequencing.
Seminoma and embryonal carcinoma footprints identified by analysis of integrated genome-wide epigenetic and expression profiles of germ cell cancer cell lines (ChIP-seq data).
GEO Series GSE56450. Homo sapiens. 4 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
Integrating Large-Scale Functional Genomic Data to Dissect the Complexity of Yeast Regulatory Networks
GEO Series GSE11111. Saccharomyces cerevisiae. 9 samples. Type: Expression profiling by array.
Integrative analysis of single cell genomics data by coupled nonnegative matrix factorizations (ATAC-Seq)
GEO Series GSE115970. Mus musculus. 415 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
Data from: pLARmEB: integration of least angle regression with empirical Bayes for multilocus genome-wide association studies
Multilocus genome-wide association studies (GWAS) have become the state-of-the-art procedure to identify quantitative trait nucleotides (QTNs) associated with complex traits. However, implementation of multilocus model in GWAS is still difficult. In this study, we integrated least angle regression with empirical Bayes to perform multilocus GWAS under polygenic background control. We used an algorithm of model transformation that whitened the covariance matrix of the polygenic matrix K and environmental noise. Markers on one chromosome were included simultaneously in a multilocus model and least angle regression was used to select the most potentially associated single-nucleotide polymorphisms (SNPs), whereas the markers on the other chromosomes were used to calculate kinship matrix as polygenic background control. The selected SNPs in multilocus model were further detected for their association with the trait by empirical Bayes and likelihood ratio test. We herein refer to this method as the pLARmEB (polygenic-background-control-based least angle regression plus empirical Bayes). Results from simulation studies showed that pLARmEB was more powerful in QTN detection and more accurate in QTN effect estimation, had less false positive rate and required less computing time than Bayesian hierarchical generalized linear model, efficient mixed model association (EMMA) and least angle regression plus empirical Bayes. pLARmEB, multilocus random-SNP-effect mixed linear model and fast multilocus random-SNP-effect EMMA methods had almost equal power of QTN detection in simulation experiments. However, only pLARmEB identified 48 previously reported genes for 7 flowering time-related traits in Arabidopsis thaliana.
"A Privacy-protecting Environment for Child Transplants Health Related and Genomic Data Integration in the European Reference Network"
ClinicalTrials.gov study NCT07194057. IPD Sharing: NO. Countries: 3. Publications: 0.
Seminoma and embryonal carcinoma footprints identified by analysis of integrated genome-wide epigenetic and expression profiles of germ cell cancer cell lines (gene expression data).
GEO Series GSE56381. Homo sapiens. 4 samples. Type: Expression profiling by array.
Data from: pLARmEB: integration of least angle regression with empirical Bayes for multilocus genome-wide association studies
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Global transcript structure resolution of high gene density genomes through multi-platform data integration: Illumina RNA-Seq
GEO Series GSE79304. Homo sapiens. 18 samples. Type: Expression profiling by high throughput sequencing.
Integrated Analysis of Whole-Genome ChIP-Seq and RNA-Seq Data of Primary Head and Neck Tumor Samples Associates HPV Integration Sites with Open Chromatin Marks (ChIP-Seq)
GEO Series GSE112021. Homo sapiens. 26 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
Global transcript structure resolution of high gene density genomes through multi-platform data integration
GEO Series GSE79337. Homo sapiens. 23 samples. Type: Expression profiling by high throughput sequencing; Other.
Global transcript structure resolution of high gene density genomes through multi-platform data integration: deepCAGE
GEO Series GSE79293. Homo sapiens. 4 samples. Type: Expression profiling by high throughput sequencing.
Integration of genomic and proteomic data to identify candidate genes in HT-29 cells after incubation with Bifidobacterium bifidum ATCC 29521
GEO Series GSE74119. Homo sapiens. 2 samples. Type: Expression profiling by array.
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.