Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

3D Genomic Mapping of Human Pancreatic Precancers

ABSTRACT: 3D Genomic Mapping of Human Pancreatic Precancers

PROVIDER: PRJNA1074924 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Similar Datasets

3D Genomic Mapping of Human Pancreatic Precancers

Project description:3D Genomic Mapping of Human Pancreatic Precancers

| PRJNA1074925 | ENA

Expression Analysis of 2D, 3D Quiescent, and 3D Activated Pancreatic Stellate Cells

Project description:This study used Illumina single-end RNA-sequencing to examine gene expression differences between 2 mouse-derived pancreatic stellate cell lines (PSC4, PSC5) grown either in 2D monolayers, as 3D quiescent cultures, or as 3D activated transwell cocultures with 2 mouse tumor-derived pancreatic ductal organoid lines (T4, T5). Mouse pancreatic stellate cell (PSC) lines were derived from the pancreata of wild-type C57Bl/6J mice. Mouse tumor organoid lines were derived from mouse pancreata containing pancreatic ductal adenocarcinoma (PDAC) from the KrasLSL-G12D; Trp53LSL-R162H; Pdx1-Cre mouse model. We measured genes differentially expressed among 2D, quiescent, and 3D activated PSCs that may reflect the expression changes of heterogeneous CAF population in pancreatic tumors.

2017-02-03 | GSE93313 | GEO

Multimodal Mapping of the Immune Landscape in Human Pancreatic Cancer

Project description:Multimodal Mapping of the Immune Landscape in Human Pancreatic Cancer

| PRJNA649823 | ENA

Multimodal Mapping of the Immune Landscape in Human Pancreatic Cancer

Project description:Multimodal Mapping of the Immune Landscape in Human Pancreatic Cancer

| PRJNA649824 | ENA

3D chromatin organizations of human pancreatic cells reveal cell-type specific regulatory architectures of diabetes risk

Project description:To understand the cell-type specific regulatory architectures of diabetes risk, we generated transcriptomic and 3D epigenomic profiles from sorted human pancreatic acinar, alpha, and beta cells using Arima Hi-C.

2022-09-06 | GSE188311 | GEO

Dynamic interplay between structural variation and 3D chromosome organization in pancreatic cancer

Project description:We investigate the spectrum of SVs and three-dimensional (3D) chromatin architecture in human pancreatic ductal epithelial cell carcinogenesis by using the state of art long-read single molecular real time (SMRT) and high-throughput chromosome conformation capture (Hi-C) sequencing techniques. Systematic integration of matched SMRT, in situ Hi-C, and RNA-seq datasets revealed the complicated dynamic interplay of SVs and 3D chromosome organization and their impacts on gene expression. Our studies identify and focus remodeling of chromatin folding domains associated with cross boundary SVs enabling aberrant interactions between regulatory elements. Moreover, our data also demonstrate the existence of complex genomic rearrangements associated with two key driver genes CDKN2A and SMAD4, and characterize their influence on cancer related gene expression from linear view to 3D perspective.

2022-05-01 | GSE185069 | GEO

Temporal transcriptomic analysis of human pancreatic exocrine cells in 3D suspension culture

Project description:Temporal transcriptomic analysis of human pancreatic exocrine cells in 3D suspension culture

| PRJNA646916 | ENA

Genome wide analysis of pancreatic cancer cell gene expresison exposed to stromal pancreatic stellate cells in 3D gel matrix

Project description:Capan1 (well differentiated pancreatic cancer cell line) was co-cultured with pancreatic stellate cell line (PS1) embedded in a 3D organotypic model and gene expression was analysed in comparison to cancer cells cultured alone without stellate cells. Pancreatic stellate cells were embedded within a gel matrix composing collagen type I and Matrigel, and cancer cells were seeded on top. The gel was lifted on to metal grid after 24 hour and fed from below. Gels were harvested on day 10 and frozen sections obtained. The cancer cell layer on top of the gel was captured by laser microdissection for RNA extraction.

2013-03-23 | E-GEOD-36775 | biostudies-arrayexpress

Human pancreatic cancer

Project description:Human pancreatic cancer

2025-12-09 | OEX00032765 | NODE

Mapping the 3D genome and epigenome in SARS-CoV-2 infected human cells

Project description:Mapping the 3D genome and epigenome in SARS-CoV-2 infected human cells

| PRJNA742664 | ENA