Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Patient-derived organoids Vumc

ABSTRACT: VUmc_organoids consists of a panel of organoids (three-dimensional cell cultures) of both normal, premalignant and cancer epithelial cells of the colon. These organoids were resected during a colonoscopy procedure or a surgical procedure. These organoids, derived from tumor as well as healthy tissue, can be propagated indefinitely and can be used to answer different research questions.

PROVIDER: EGAS00001005947 | EGA |

REPOSITORIES: EGA

ACCESS DATA

Json Xml

Similar Datasets

Paired healthy & tumor organoid Biobank B16PON

Project description:B16PON consists of a panel of organoids (three-dimensional cell cultures) of premalignant epithelial cells of the colon and rectum. These organoids are derived from adenomas that are resected during a colonoscopy procedure. These can be propagated indefinitely and can be used to answer different research questions.

| EGAS00001005937 | EGA

Paired healthy & tumor organoid Biobank B15PON

Project description:B15PON consists of a panel of organoids (three-dimensional cell cultures) of both normal, premalignant and cancer epithelial cells of the colon. These organoids, derived from tumor as well as healthy tissue, can be propagated indefinitely and can be used to answer different research questions.

| EGAS00001005865 | EGA

Isolation and in vitro expansion of human colonic stem cells [CGH]

Project description:Tissue for normal colonic stem cell isolation was obtained via colectomy from a colorectal cancer patient. It was shown that the resected tissue and the in vitro-cultured organoids grown from tissue-derived adult stem cells do not harbor chromosomal alterations. For that purpose, genomic DNA from resected mucosa or genomic DNA from adult stem cell-derived organoids grown in a 3-dimensional culture system was compared to white blood cell genomic DNA obtained from the same individual. Furthermore, in vitro organoids which were cultured and serially passaged for several weeks did not acquire chromosomal alterations. Analysis of chromosomal stability of colonic tissue or in vitro-cultured organoids via comparison with blood cells derived from the same individual.

2011-11-22 | E-GEOD-31256 | biostudies-arrayexpress

Isolation and in vitro expansion of human colonic stem cells [CGH]

2011-11-22 | GSE31256 | GEO

Blood Gene Expression Profiling in Colorectal Cancer

Project description:In this work, we performed gene expression profiling for twenty-paired blood samples collected from healthy controls before and after colonoscopy, and twenty blood samples collected from<br>colorectal cancer patients after colonoscopy. The aim of this study is to determine how significant the colonoscopy procedure may impact the global gene expression in human peripheral blood, and whether this colonoscopy induced variability would bias the biomarker research for colorectal cancer early detection.

2013-10-01 | E-MEXP-3756 | biostudies-arrayexpress

Expression data from 5 colorectal cancer patients neoadjuvantly treated with Imatinib (ImPACCT study)

Project description:Gene expression profiling of CMS4 colon cancer treated with Imatinib in the ImPACCT study. Fresh-frozen biopsies were taken during diagnostic colonoscopy for CMS4 identification. Five patients gave informed consent for two week of neoadjuvant Imatinib therapy prior to removal of the primary tumor. Fresh-frozen samples were taken from surgically resected colon cancer specimens.

2022-06-01 | GSE196263 | GEO

RNA seq of Primary MPM cell lines grown in 2D and 3D Nichoid

Project description:Our findings reveal that primary mesothelioma cells can be successfully propagated within nichoids, and the three-dimensional growth significantly influences the cells' integrity, impacting the mechanical stability of their structure

2024-03-31 | E-MTAB-13749 | biostudies-arrayexpress

Endoscopic Ultrasound- Guided Hartmann Reversal Procedure

Project description:The goal of this clinical trial is to learn about clinical usefulness endoscopic gastrointestinal anastomoses to restore the gastrointestinal continuity in patients with permanent colostomy after Hartmann procedure. The main questions it aims to answer are: * is the endoscopic restore the gastrointestinal continuity procedure effective? * is this endoscopic procedure safe?

| 107570 | ecrin-mdr-crc

Expression data from Pax7+ satellite cell derived tumors in vitro and in vivo

Project description:Mouse muscle stem cells, defined as Pax7+ satellite cells, can initiate rhabdomyosarcoma when transformed by oncogenic Kras and concomitant loss of p53. Mouse Pax7+ satellite cells were transformed in vitro and in vivo utilizing the Cre-ER/loxp system. We wanted to address two major questions: do the in vitro and in vivo tumors cluster together compared to another mouse to another mouse derived soft-tissue sarcoma AND which human soft-tissue sarcoma do the in vivo derived tumors resemble transcriptionally? Therefore, tumors from cells transformed in vitro and tumors from mice that restrict the oncogenic lesions to Pax7+ satellite cells in vivo were compared to answer these two questions.

2011-06-01 | E-GEOD-22798 | biostudies-arrayexpress

Transcription profiling of undifferentiated human liver-derived intrahepatic cholangiocyte organoids (ICOs)

Project description:3D cell culture systems (organoids), cultured from liver biopsies, resemble biliary epthelium (cholangiocytes) upon culture. These intrahepatic cholangiocyte organoids (ICOs) maintain their gentic stability, transcription profile and can be maintained propagated during long periods of culturing while still maintaining their functional properties. The data presented in this ArrayExpress submission contained micro array results of 6 from 15 different ICO lines that were analyzed for their functional cholangiocyte ion-channels, involved in secreting a protective bicarbonate layer. It was shown that these data closely resemble the expression profiles of extrahepatic cholangiocyte organoids (ECOs), previously described by Sampaziotis et al. and deposited in the EMBL-EBI ArrayExpress repository (E-MTAB-4591)

2020-07-31 | E-MTAB-9044 | biostudies-arrayexpress

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