Multi-cancer computational analysis reveals invasion-associated variant of desmoplastic reaction involving INHBA, THBS2 and COL11A1.
BACKGROUND
Despite extensive research, the details of the biological mechanisms by which cancer cells acquire motility and invasiveness are largely unknown. This study identifies an invasion associated gene signature shedding light on these mechanisms.


METHODS
We analyze data from multiple cancers using a novel computational method identifying sets of genes whose coordinated overexpression indicates the presence of a particular phenotype, in this case high-stage cancer.


RESULTS
We conclude that there is one shared "core" metastasis-associated gene expression signature corresponding to a specific variant of stromal desmoplastic reaction, present in a large subset of samples that have exceeded a threshold of invasive transition specific to each cancer, indicating that the corresponding biological mechanism is triggered at that point. For example this threshold is reached at stage IIIc in ovarian cancer and at stage II in colorectal cancer. Therefore, its presence indicates that the corresponding stage has been reached. It has several features, such as coordinated overexpression of particular collagens, mainly COL11A1 and other genes, mainly THBS2 and INHBA. The composition of the overexpressed genes indicates invasion-facilitating altered proteolysis in the extracellular matrix. The prominent presence in the signature of INHBA in all cancers strongly suggests a biological mechanism centered on activin A induced TGF-β signaling, because activin A is a member of the TGF-β superfamily consisting of an INHBA homodimer. Furthermore, we establish that the signature is predictive of neoadjuvant therapy response in at least one breast cancer data set.


CONCLUSIONS
Therefore, these results can be used for developing high specificity biomarkers sensing cancer invasion and predicting response to neoadjuvant therapy, as well as potential multi-cancer metastasis inhibiting therapeutics targeting the corresponding biological mechanism.
Center for Computational Biology and Bioinformatics and Department of Electrical Engineering, Columbia University, New York, NY, USA.
Hoon
H
Kim
John
J
Watkinson
Vinay
V
Varadan
Dimitris
D
Anastassiou
D024161:Collagen Type XI / Q000235:genetics / Q000378:metabolism*; D019295:Computational Biology / Q000379:methods*; D005347:Fibroblasts / Q000378:metabolism / Q000473:pathology; D006801:Humans; D028322:Inhibin-beta Subunits / Q000235:genetics / Q000378:metabolism*; D008745:Methylation; D035683:MicroRNAs / Q000235:genetics; D009361:Neoplasm Invasiveness; D009362:Neoplasm Metastasis; D009367:Neoplasm Staging; D009369:Neoplasms / Q000235:genetics / Q000378:metabolism* / Q000473:pathology* / Q000628:therapy; D019699:Thrombospondins / Q000235:genetics / Q000378:metabolism*; D016896:Treatment Outcome; D000099262:Thrombospondin 2
D024161:Collagen Type XI; D028322:Inhibin-beta Subunits; D035683:MicroRNAs; D019699:Thrombospondins; D000099262:Thrombospondin 2; C103008:inhibin beta A subunit