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53
datasets available to search
ShareScore release 0.9.0
Dataset results
53 results for “DNA methylation, cell type”
Breast cancer risk factors are associated with DNA methylation in non-diseased breast tissue independent of cell type
GEO Series GSE88883. Homo sapiens. 100 samples. Type: Methylation profiling by array.
Differences in DNA methylation of HAMP in blood cells predicts the development of type 2 diabetes.
GEO Series GSE208630. Mus musculus. 23 samples. Type: Expression profiling by high throughput sequencing; Methylation profiling by high throughput sequencing.
Deconvolution of whole blood DNA methylomes reveals immune cell type-specific differential methylation in Multiple Sclerosis
GEO Series GSE88824. Homo sapiens. 83 samples. Type: Methylation profiling by array.
Cell Type-Specific DNA Methylation at Intragenic CpG Islands in the Immune System
GEO Series GSE25689. Mus musculus. 28 samples. Type: Expression profiling by array; Methylation profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing.
DNA methylation data throughout human muscle cell differentiation in individuals with type 2 diabetes and controls
GEO Series GSE166787. Homo sapiens. 56 samples. Type: Methylation profiling by genome tiling array.
Saliva cell type DNA methylation reference panel for epidemiology studies in children
GEO Series GSE147318. Homo sapiens. 60 samples. Type: Methylation profiling by array.
Cell Type-Specific DNA Methylation at Intragenic CpG Islands in the Immune System (MAP-Seq and ChIP-Seq data)
GEO Series GSE25688. Mus musculus. 10 samples. Type: Genome binding/occupancy profiling by high throughput sequencing; Methylation profiling by high throughput sequencing.
DNA methylation analysis of 293T cells expressing wild-type RUNX1 and a chimera protein RUNX11-299-SPI11-102
GEO Series GSE311367. Homo sapiens. 3 samples. Type: Methylation profiling by high throughput sequencing.
Transcriptome and DNA methylation cell-type deconvolutions produce similar estimates of bulk differential gene expression and differential methylation [bead array]
GEO Series GSE255057. Homo sapiens. 24 samples. Type: Methylation profiling by genome tiling array.
Transcriptome and DNA methylation cell-type deconvolutions produce similar estimates of bulk differential gene expression and differential methylation
GEO Series GSE255062. Homo sapiens. 48 samples. Type: Expression profiling by high throughput sequencing; Methylation profiling by genome tiling array.
DNA methylation in the chromatin landscape of healthy and injured cell types in the human kidney
<p><strong>*** To access this data, please go to <a href="https://www.kpmp.org/doi-collection/10-48698-hhe6-yv15">Kidney Precision Medicine Project (KPMP)</a> <br></strong></p> <p>Whole Genome Bisulfite Sequence WGBS in human kidney tissue. There are 13 nephrectomies, two biopsies each split into two kidney compartments glomerulus (GLOM) and tubule interstitium (TI). One of the nephrectomies was sequenced in the first and second batches to evaluate the sequence quality. Then we had 30 kidney samples plus three blood samples added like controls with 2 negative and 1 positive.<br>Genomic DNA is isolated using the PureLink Pro 96 Genomic DNA Kit (Cat# K182104A). DNA quantity and quality are assessed using the Qubit Fluorometer 4.1 (Invitrogen). Bisulfite conversion was performed using the EpiTect Fast DNA Bisulfite Kit (Qiagen Cat# 59824). An input of 10 ng was used for library prep. Library prep with QIAseq Methyl DNA Library Kit (Cat# 180502) was used to amplify and laminate Illumina adaptors. Library purification was performed using QIAseq Beads. The library quality was assessed using the Agilent Bioanalyzer 2100 and Qubit Fluorometer 4.1. Multiple libraries were pooled in equal molarity. A final concentration of 300 pM was loaded onto the NovaSeq 6000 sequencer (Illumina) for 150 bp paired-end sequencing. Approximately 200 million read pairs (400 million reads total) were generated per library. An EpiTect Unmethylated DNA control (Qiagen Cat# 59568) was used for the first and second batches. The EpiTect Methylated DNA control (Qiagen Cat# 59655) was sequencing run the second batch. Sequencing quality control, mapping, and methylation analysis were performed using the pipeline with FastC 0.11.5, MultiQC v1.8 TrimGalore 0.6.7 to remove Illumina adapter sequences and 10 bp 5' prime and 5bp 3' prime. Bismark 0.23.1 DNA Mapping: Non-directional mapping to the hg38/GRCh38. The data in Zenodo are the bigwig for each experiment 33 (15 GLOM and 15 TI and blood 2 Negative 1 Positive), There are two merged bigwigs for GLOM and TI samples and a metadata file.</p> <p>Published in: DOI: <a href="https://doi.org/10.1038/s41467-023-44467-6" target="_blank" rel="noopener"> 10.1038/s41467-023-44467-6 </a></p>
Transcriptome and DNA methylation cell-type deconvolutions produce similar estimates of bulk differential gene expression and differential methylation [RNA-Seq]
GEO Series GSE255053. Homo sapiens. 24 samples. Type: Expression profiling by high throughput sequencing.
Track normalization and averaging of bislufite-seq DNA methylation data across various cell and tissue types
GEO Series GSE64577. Homo sapiens. 8 samples. Type: Methylation profiling by high throughput sequencing; Third-party reanalysis.
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.