Umeå University's logo

umu.sePublications
Operational message
There are currently operational disruptions. Troubleshooting is in progress.
Change search
CiteExportLink to record
Permanent link

Direct link
Cite
Citation style
  • apa
  • ieee
  • vancouver
  • Other style
More styles
Language
  • de-DE
  • en-GB
  • en-US
  • fi-FI
  • nn-NO
  • nn-NB
  • sv-SE
  • Other locale
More languages
Output format
  • html
  • text
  • asciidoc
  • rtf
An immunohistochemistry-based classification of colorectal cancer resembling the consensus molecular subtypes using convolutional neural networks
Department of Surgery, University of Helsinki and Helsinki University Hospital, Haartmaninkatu, Helsinki, Finland; Research Programs Unit, Translational Cancer Medicine, University of Helsinki, Helsinki, Finland.
Department of Pathology, University of Helsinki and Helsinki University Hospital, Helsinki, Finland; Department of Oral Pathology and Radiology, University of Turku, Turku, Finland.
Department of Pathology, University of Helsinki and Helsinki University Hospital, Helsinki, Finland.
Umeå University, Faculty of Medicine, Department of Diagnostics and Intervention.
Show others and affiliations
2025 (English)In: Scientific Reports, E-ISSN 2045-2322, Vol. 15, no 1, article id 19105Article in journal (Refereed) Published
Abstract [en]

Colorectal cancer (CRC) represents a major global disease burden with nearly 1 million cancer-related deaths annually. TNM staging has served as the foundation for predicting patient prognosis, despite variation across staging groups. The consensus molecular subtype (CMS) is a transcriptome-based system classifying CRC tumors into four subtypes with different characteristics: CMS1 (immune), CMS2 (canonical), CMS3 (metabolic), and CMS4 (mesenchymal). Transcriptomics is too complex and expensive for clinical implementation; therefore, an immunohistochemical method is needed. The prognostic impact of the immunohistochemistry-based four CMS-like subtypes remains unclear. Due to the complexity and costs associated with transcriptomics, we developed an immunohistochemistry (IHC)-based method supported by convolutional neural networks (CNNs) to define subgroups that resemble CMS biological characteristics. Building on previous IHC-classifiers and incorporating β-catenin to refine differentiation between CMS2- and CMS3-like profiles, we categorized CRC tumors in a cohort of 538 patients. Classification was successful in 89.4% and 15.9% of tumors were classified as CMS1-like, 35.1% as CMS2-like, 38.7% as CMS3-like, and 11.7% as CMS4-like. CMS2-like patients exhibited the best overall survival (p = 0.018), including when local and metastasized disease were analyzed separately. Our method offers an accessible and clinically feasible CMS-inspired classification, although it does not serve as a replacement for transcriptomic CMS classification.

Place, publisher, year, edition, pages
Nature Publishing Group, 2025. Vol. 15, no 1, article id 19105
Keywords [en]
Colorectal cancer, Consensus molecular subtypes, Convoluted neural network, Immunohistochemistry, Prognosis
National Category
Cancer and Oncology
Identifiers
URN: urn:nbn:se:umu:diva-240984DOI: 10.1038/s41598-025-03618-zISI: 001499627100001PubMedID: 40447758Scopus ID: 2-s2.0-105006917189OAI: oai:DiVA.org:umu-240984DiVA, id: diva2:1976031
Available from: 2025-06-24 Created: 2025-06-24 Last updated: 2025-06-24Bibliographically approved

Open Access in DiVA

fulltext(1833 kB)54 downloads
File information
File name FULLTEXT01.pdfFile size 1833 kBChecksum SHA-512
374d57001fc06c26a5d8886c68ecb80f23885b356bfc69f27020dc813fd012b2698107dda5d450968bf103479a09d01bbe91808f0877f7eb5de2606bd434573b
Type fulltextMimetype application/pdf

Other links

Publisher's full textPubMedScopus

Authority records

Gkekas, IoannisEdin, SofiaStrigård, KarinPalmqvist, RichardGunnarsson, Ulf

Search in DiVA

By author/editor
Gkekas, IoannisEdin, SofiaStrigård, KarinPalmqvist, RichardGunnarsson, Ulf
By organisation
Department of Diagnostics and InterventionPathology
In the same journal
Scientific Reports
Cancer and Oncology

Search outside of DiVA

GoogleGoogle Scholar
Total: 54 downloads
The number of downloads is the sum of all downloads of full texts. It may include eg previous versions that are now no longer available

doi
pubmed
urn-nbn

Altmetric score

doi
pubmed
urn-nbn
Total: 274 hits
CiteExportLink to record
Permanent link

Direct link
Cite
Citation style
  • apa
  • ieee
  • vancouver
  • Other style
More styles
Language
  • de-DE
  • en-GB
  • en-US
  • fi-FI
  • nn-NO
  • nn-NB
  • sv-SE
  • Other locale
More languages
Output format
  • html
  • text
  • asciidoc
  • rtf