Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

C735afd1-8cb8-4eca-8f0e-5708100705a2 - samples

ABSTRACT: This dataset includes RNA-seq data of samples from our paper titled "Dynamic phenotypic heterogeneity and the evolution of multiple RNA subtypes in Hepatocellular Carcinoma: The PLANET study." (National Science Review, nwab192. https://doi.org/10.1093/nsr/nwab192)

PROVIDER: EGAD00001008648 | EGA |

REPOSITORIES: EGA

ACCESS DATA

Json Xml

Similar Datasets

06cfcd21-f659-465c-b089-a6c2281cd66f - samples

Project description:This dataset includes WGS data of samples from our paper titled "Dynamic phenotypic heterogeneity and the evolution of multiple RNA subtypes in Hepatocellular Carcinoma: The PLANET study." (National Science Review, nwab192. https://doi.org/10.1093/nsr/nwab192)

| EGAD00001008647 | EGA

Evolution of conserved noncoding sequences (CNS) in Arabidopsis thaliana

Project description:We report ATAC-seq for several A. thaliana accessions in healthy leaf tissue. As part of an investigation into the evolution of conserved noncoding sequences, our goal was to identify overlaps between regions of accessible chromatin and CNS. Manuscript in review. Biorxiv preprint doi: https://doi.org/10.1101/727669

2021-01-04 | GSE164159 | GEO

Short Tandem Repeats - Targeted-Sequencing of human cells for Lineage tracing

Project description:Raw sequencing data used in the paper \"A biological-computational cell lineage discovery platform based on duplex MIPs\" (doi: https://doi.org/10.1101/191296) involving single cells from the YUCLAT melanoma patient and DU145 cell line which cultured in standart condition as recommend. The single cells were prepared by CellCellector for DU145 and FACS for YUCLAT, amplified by RepliG WGA kit . Targeting sequencing library is cronstructed with duplex Molecular Inversion Probes wtih the protocol as described in the paper. Illumina NextSeq is used to sequence these libraries.

2018-03-01 | E-MTAB-6411 | biostudies-arrayexpress

Deciphering cell states and genealogies of human hematopoiesis with single-cell multi-omics

Project description:This SuperSeries is composed of the SubSeries listed below. The main processed data are organized in the following two Figshare links: Seurat objects: https://doi.org/10.6084/m9.figshare.23290004 ReDeeM-V output: https://doi.org/10.6084/m9.figshare.24418966.v1

2023-11-18 | GSE219015 | GEO

ARID1B loss drives sorafenib resistance through transcriptional reprogramming in hepatocellular carcinoma

Project description:mRNA-seq was performed in HepG2 hepatocellular carcinoma cells to characterize transcriptional changes driven by ARID1B loss under sorafenib treatment. Wild-type (WT) and ARID1B-knockout (ARID1B-KO) HepG2 cells were treated with sorafenib (5 µM, 48 h) or DMSO vehicle, with three biological replicates per condition. DESeq2 interaction model identified ARID1B-dependent transcriptional responses to sorafenib. Preprint: https://doi.org/10.64898/2026.06.11.731725

2026-06-19 | GSE335769 | GEO

Expression quantification from the AmarylOmicBase study (multiple species)

Project description:To facilitate new studies in the Amaryllidoideae subfamily, we present AmarylOmicBase, a unified transcriptomic database that integrates assemblies, annotations, and expression profiles from 39 studies, covering 27 Amaryllidoideae species and 4 hybrid cultivars across 13 genera of Amaryllidoideae. The AmarylOmicBase (v2, https://doi.org/10.5281/zenodo.20349158) includes de novo assemblies generated from published raw data using Trinity or IsoSeq workflows and provides standardized functional annotation (trinotate) and quantitative expression datasets. Preprint - https://doi.org/10.1101/2025.11.24.690262

2026-06-03 | GSE331457 | GEO

Crinum x powellii - expression quantification from the AmarylOmicBase study

Project description:To facilitate new studies in the Amaryllidoideae subfamily, we present AmarylOmicBase, a unified transcriptomic database that integrates assemblies, annotations, and expression profiles from 39 studies, covering 27 species and 4 hybrid cultivars across 13 genera of Amaryllidoideae. The AmarylOmicBase (v2, https://doi.org/10.5281/zenodo.20349158) consists of de novo assemblies generated from published raw data using Trinity or IsoSeq workflows and provides standardized functional annotation and quantitative expression datasets. Preprint - https://doi.org/10.1101/2025.11.24.690262

2026-06-03 | GSE329951 | GEO

Leucojum aestivum - expression quantification from the AmarylOmicBase study

Project description:To facilitate new studies in the Amaryllidoideae subfamily, we present AmarylOmicBase, a unified transcriptomic database that integrates assemblies, annotations, and expression profiles from 39 studies, covering 27 species and 4 hybrid cultivars across 13 genera of Amaryllidoideae. The AmarylOmicBase (v2, https://doi.org/10.5281/zenodo.20349158) consists of de novo assemblies generated from published raw data using Trinity or IsoSeq workflows and provides standardized functional annotation and quantitative expression datasets. Preprint - https://doi.org/10.1101/2025.11.24.690262

2026-06-03 | GSE329957 | GEO

Narcissus papyraceus - expression quantification from the AmarylOmicBase study

Project description:To facilitate new studies in the Amaryllidoideae subfamily, we present AmarylOmicBase, a unified transcriptomic database that integrates assemblies, annotations, and expression profiles from 39 studies, covering 27 species and 4 hybrid cultivars across 13 genera of Amaryllidoideae. The AmarylOmicBase (v2, https://doi.org/10.5281/zenodo.20349158) consists of de novo assemblies generated from published raw data using Trinity or IsoSeq workflows and provides standardized functional annotation and quantitative expression datasets. Preprint - https://doi.org/10.1101/2025.11.24.690262

2026-06-03 | GSE330014 | GEO

Constitutive Piezo 1 knock out in mouse brain development

Project description:E10.5 whole brain were isolated from WT and Piezo1-KO mice (C57BL/6J strain backgound) described in Ranade et al 2014. https://doi.org/10.1073/pnas.1409233111

2022-08-20 | GSE193099 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data