Submission guide

In the complex realm of patient-derived cancer models (PDCMs), including PDX, organoids, and cell lines, finding the right model and associated data has been a formidable challenge. Researchers, clinicians, and bioinformaticians have struggled to navigate this vast landscape, hindered by a lack of shared data standards.

CancerModels.Org is here to simplify this process. We harmonise and integrate critical model attributes, offering a unified platform for efficient searching across diverse resources. Building on the success of the PDX Finder resource PMID:30535239 and the PDX Minimal Information standard (PDX-MI, PMID:29092942), we're dedicated to enabling seamless data exchange and accelerating cancer research.

Why Submit Your Models and Data to CancerModels.Org:

  • Increased Visibility: Your models and associated data becomes more discoverable to researchers and other users.
  • Standardisation: Your models adhere to published standards, making it easier for researchers to search and compare them.
  • Adherence to FAIR principles: Your data is structured to adhere to the FAIR data principles, which means it's Findable, Accessible, Interoperable, and Reusable.
  • Attribution: Clear links to production centres are provided, so users can inquire about obtaining your models for their studies.
  • Free Access: CancerModels.Org is a community-driven platform that's free for both model providers and users.

Eligible models and associated data

CancerModels.Org aggregates models from individual researchers, institutional biobanks, contract research organisations, external databases and consortia engaged in cancer research focusing on models from rare cancers and richly annotated models. All models and data should adhere to ethical and legal guidelines related to patient consent, data privacy, and data sharing. Since 1 January 2023 all model and data submissions are made available under CC0.

Data types and formats

Data typeDescriptionFormatSubmission template
MetadataMetadata related to the PDCMs, such as model information, and clinical information .ExcelSheet Icon Metadata template
Molecular metadataMetadata associated with the molecular data.ExcelSheet Icon Molecular metadata template
MutationAll sequencing data including WES, WGS & TGS used to generate mutation data for the PDCMs.MAF, VCFSheet Icon Mutation data template
Copy Number AlterationData related to copy number alterations in PDCMs, which can provide insights into genomic amplifications and deletions.log2 ratio or discrete CNA data (GISTIC, PICNIC)Sheet Icon CNA data template
Gene expressionInformation regarding gene expression patterns in PDCMs, which can shed light on gene activity and regulation.Excel, TXT or CSV: TPM, FPKM,RPKM, Z-scoreSheet Icon Expression data template
BiomarkerInformation related to gene mutations, gene expression levels, protein markers, immune cell populations, chromosomal abnormalities, structural changes in the genome and other molecular characteristics of tumours. This data is derived from genomics, transcriptomics, proteomics, and immunohistochemistry.Excel, TXT or CSV: Biomarker status, Immunohistochemistry results, TMB scoreSheet Icon Biomarker data template
Immune markersInformation related to immune cell populations, chromosomal abnormalities, and other molecular characteristics of tumours. This data is derived from genomics, and immunohistochemistry.Excel, TXT or CSV: MSI status, HLA type, TMB scoreSheet Icon Immune marker template
Drug dosingInformation about drug dosing studies conducted on PDCMs, including drug names, responses and dosage information.Excel, TXT or CSVSheet Icon Drug dosing template
Patient treatmentInformation related to the treatment patient received from whom PDCMs were derived. Include details of therapies administered, drug and regimen names, doses and their outcomes.Excel, TXT or CSVSheet Icon Patient treatment template
Image dataHistology Image data of the PDCMsExcel file with URLs to model images per rowExternal Icon Via BioImage Archive
Sheet Icon Model image sheet part of Metadata template
Definitions and examplesValidate your data
Metadata DictionaryValidator

Have data not mentioned here? Get in touch - we keep working on adding new data types associated with PDCMs.

Submit your PDCM data to CancerModels.Org to increase their visibility

To start the process please contact CancerModels.Org team: submissions Envelope Icon

Frequently Asked Questions

Read our submit process FAQ

Submission process

Learn more about our data submission process and additional resources