Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

TF overexpression assay in PDA cell lines (Bulk RNA-Seq)

ABSTRACT: In this study the top Lineage Master Regulators of PDA were overexpressed in the KP4 Morphogenic cell line to study their reprogramming effect

ORGANISM(S): Homo sapiens

PROVIDER: GSE161368 | GEO | 2026/01/16

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

In vitro arrayed OVOL2 overexpression in PDA Cell Lines (bulk RNA-Seq)

Project description:In this assay OVOL2 was overexpressed in 3 Morphogenic PDA cell lines to investigate its ability to repgram cells toward the Lineage subtype.

2026-01-16 | GSE280160 | GEO

In Vivo pooled CRISPRko screens in PDA Cell Lines

Project description:We tested the essentiality of PDA state-specific Master Regulators in vivo by transducing a sgRNA library targeting 93 regulatory proteins into Cas9 expressing KP4 and HPAFII human cell lines. Cells were then injected into immunocompromised mice for genomic sequencing.

2026-01-16 | GSE270853 | GEO

Single-Cell Barcoded Lineage Tracing in KP4 PDA Cell Line

Project description:The KP4 PDA cell line was used to experimentally assess cross-lineage plasticiyty between different states of Pancreatic Malignant Cells

2026-01-16 | GSE268229 | GEO

Human PDA Cell Lines: single cell RNA-Sequencing in nomral versus serum-free media

Project description:Six Human PDA Cell Lines (KP4, Miapaca2, Panc1, Patu8902, PK45H, SW1990) were cultured in both normal and serum-free media conditions and then were subjected to Single-Cell RNA Sequqncing.

2026-01-16 | GSE266034 | GEO

Single-Cell Barcoded Lineage Tracing using KP4 PDA Cell Line - Pre and Post Drug Treatment with Trametinib

Project description:The KP4 PDA cell line (Untreated, DMSO-Treated and Trametinib-Treated) was used to experimentally assess plasticity between MAPK-Positive and MAPK-Negative states of Pancreatic Malignant Cells

2026-01-16 | GSE292402 | GEO

Human PDA Cell Lines: single cell RNA-Sequencing after treatment with Trametinib (TRAM) and/or Hydroxychloroquine (HCQ)

Project description:Several Human PDA Cell Lines (ASPC1, PANC1, KP4, HPAFII, PATU8988S, PK45H, S2013, CAPAN1, BXPC3, HPAC, SW1990, MIAPACA2) were cultured and treated with DMSO, Trametinib (TRAM), Hydroxychloroquine (HCQ) and the combination of them before being prepared for Single-Cell RNA Sequencing

2026-01-16 | GSE310584 | GEO

The immunological comparison of control PDA tumors and Krt19-edited PDA tumors

Project description:Our studies indicate that cancer cells of carcinomas are coated with CXCL12 chemokine in covalent conjugation with keratin-19 (KRT19). Murine pancreatic ductal adenocarcinomas (PDA) formed with Krt19-edited cancer cells lack the CXCL12-coating and are infiltrated with T cells, compared to tumors formed with control sgScramble PDA cells. To probe the immunological role of this CXCL12-coating thoroughly, bulk RNA sequencing of subcutaneous (s/c) murine sgScramble PDA tumors and Krt19-edited PDA tumors were conducted. As comparison, an immunogenic tumor model was also assessed. To do so, s/c sgScramble PDA tumors and PDA tumors formed with sgScramble cells exppressing doxcycline-inducible ovalbumin (icOVA) were harvested and processed for bulk RNA sequencing.

2022-01-04 | GSE192853 | GEO

RNA-Seq Samples of siTFE3 in 8988T PDA Cell Line to Investigate Transcriptional Control of the Autophagy-Lysosome System

Project description:The activation of cellular quality control pathways to maintain metabolic homeostasis and mitigate diverse cellular stresses is emerging as a critical growth and survival mechanism in many cancers. Autophagy, a highly conserved cellular self-degradative process, is a key player in the initiation and maintenance of pancreatic ductal adenocarcinoma (PDA). However, the regulatory circuits that activate autophagy, and how they enable reprogramming of PDA cell metabolism are unknown. We now show that autophagy regulation in PDA occurs as part of a broader program that coordinates activation of lysosome biogenesis, function and nutrient scavenging, through constitutive activation of the MiT/TFE family of bHLH transcription factors. In PDA cells, the MiT/TFE proteins - MITF, TFE3 and TFEB - override a regulatory mechanism that controls their nuclear translocation, resulting in their constitutive activation. By orchestrating the expression of a coherent network of genes that induce high levels of lysosomal catabolic function, the MiT/TFE factors are required for proliferation and tumorigenicity of PDA cells. Importantly, unbiased global metabolite profiling reveals that MiT/TFE-dependent autophagy-lysosomal activation is specifically required to maintain intracellular AA pools in PDA. This AA flux is part of a program that is essential for metabolic homeostasis and bioenergetics of PDA but not for their non-transformed counterparts. These results identify the MiT/TFE transcription factors as master regulators of the autophagy-lysosomal system in PDA and demonstrate a central role of the autophagosome-lysosome compartment in maintaining tumor cell metabolism through alternative amino acid acquisition and utilization. Examination of mRNA levels in pancreatic ductal adenocarcinoma (PDA) cell line 8988T after treatment with siRNA for control or TFE3

2015-04-03 | E-GEOD-62077 | biostudies-arrayexpress

The immunological comparison of control PDA tumors and Krt19-edited PDA tumors

2022-01-07 | GSE193027 | GEO

Multi-ome profiles of KP4 cells, a Pancreatic Ductal adenocarcinoma cell line

Project description:Cells from the KP4 cell line were subjected to single-cell ATAC-seq and scRNA-seq to question whether the PDA MAPK positive and negative states represent stable and epigenetically distinct cell states.

2026-01-16 | GSE312315 | 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