PXD012650

PXD012650 is an original dataset announced via ProteomeXchange.

Title	Human colon organoids reveal distinct physiologic and oncogenic Wnt responses
Description	Constitutive Wnt activation upon loss of Adenoma polyposis coli (APC) acts as main driver of colorectal cancers (CRC). Targeting Wnt signaling has proven difficult because the pathway is crucial for homeostasis and stem cell renewal. To distinguish oncogenic from physiologic Wnt activity, we have performed transcriptome and proteome profiling in isogenic human colon organoids. Culture in the presence or absence of exogenous ligand allowed us to discriminate receptor-mediated signaling from the effects of CRISPR/Cas9 induced APC loss. We could catalogue two non-overlapping molecular signatures that were stable at distinct levels of stimulation. Newly identified markers for normal stem/progenitor cells and adenomas were validated by immunohistochemistry and flow cytometry. We found that oncogenic Wnt signals are associated with good prognosis in tumors of the consensus molecular subtype 2 (CMS2). In contrast, receptor-mediated signaling was linked to CMS4 tumors and poor prognosis. Together, our data represent a valuable resource for biomarkers that allow more precise stratification of Wnt responses in CRC.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:52:56.466.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Henner Farin
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive Plus

Revision	Datetime	Status	ChangeLog Entry
0	2019-02-08 09:14:32	ID requested
1	2019-02-28 08:04:03	announced
⏵ 2	2024-10-22 04:53:04	announced	2024-10-22: Updated project metadata.

10.1084/jem.20180823;

Michels BE, Mosa MH, Grebbin BM, Yepes D, Darvishi T, Hausmann J, Urlaub H, Zeuzem S, Kvasnicka HM, Oellerich T, Farin HF, Human colon organoids reveal distinct physiologic and oncogenic Wnt responses. J Exp Med, 216(3):704-720(2019) [pubmed]

curator keyword: Biomedical

submitter keyword: Human colon, Isogenic lines,Organoids, Label free quantification, CRISPR/Cas9, Wnt signaling, APC mutation

Henner F Farin
contact affiliation	German Cancer Consortium (DKTK), Germany Georg-Speyer-Haus, Institute for Tumor Biology and Experimental Therapy, Frankfurt am Main, Germany German Cancer Research Center (DKFZ), Heidelberg, Germany Frankfurt Cancer Institute, Goethe University Frankfurt, Germany
contact email	farin@gsh.uni-frankfurt.de
lab head
Henner Farin
contact affiliation	DKFZ
contact email	farin@gsh.uni-frankfurt.de
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2019/02/PXD012650

PRIDE project URI

• PRIDE
  1. PXD012650
     1. Label: PRIDE project
     2. Name: Human colon organoids reveal distinct physiologic and oncogenic Wnt responses