Back

An oncoembryology approach uncovers SoxC-driven regulation of colon development and cancer

Dalessi, T.; Valenta, T.; Moro, G.; Brügger, M. D.; Meijs, A.; Szczerba, B. M.; Brunner, T.; Lampart, S.; Nater, M.; van den Broek, M.; Platt, R. J.; Scharl, M.; Fazilaty, H.

2024-10-11 cancer biology
10.1101/2024.10.08.617191 bioRxiv
Show abstract

Reactivated embryonic programs are associated with cancer progression, yet their role and regulatory mechanisms remain poorly understood. In this study, we introduce oncoembryology, an approach that systematically compares embryonic and cancerous tissues to identify shared molecular programs and assess their functional relevance in disease. Applying this strategy to colorectal cancer, we identified SoxC transcription factors (Sox4, Sox11, Sox12) as critical regulators of both embryonic development and tumorigenesis. SoxC transcription factors regulate diverse downstream targets, including Tead2, Mdk, and Klf4, thereby regulating crucial steps of colon development. Abrogating SoxC function in murine models reduced tumor growth and prevented liver metastasis. Concordantly, a SoxC-driven oncoembryonic gene signature correlated with poor survival in colorectal cancer patients, underscoring the therapeutic potential of targeting SoxC-regulated pathways in cancer treatment.

Matching journals

The top 8 journals account for 50% of the predicted probability mass.

1
eLife
● 5828 papers in training set
Top 3%
18.8%
Similar papers in this journal
2
Nature Communications
○ 5641 papers in training set
Top 19%
9.1%
Similar papers in this journal
3
Cell Reports
○ 1498 papers in training set
Top 5%
6.4%
Similar papers in this journal
4
Molecular Systems Biology
○ 162 papers in training set
Top 0.3%
5.6%
Similar papers in this journal
5
EMBO Reports
○ 263 papers in training set
Top 1%
3.3%
6
The EMBO Journal
○ 309 papers in training set
Top 1%
3.3%
Similar papers in this journal
7
Science Advances
● 1243 papers in training set
Top 10%
3.2%
8
Nature Genetics
○ 286 papers in training set
Top 2%
3.2%
50% of probability mass above
9
Genes & Development
● 90 papers in training set
Top 0.4%
2.7%
10
Journal of Experimental Medicine
● 119 papers in training set
Top 1%
2.7%
11
Nature
○ 645 papers in training set
Top 5%
2.4%
12
Communications Biology
○ 993 papers in training set
Top 12%
1.9%
13
Cancer Cell
○ 42 papers in training set
Top 0.7%
1.8%
14
EMBO Molecular Medicine
○ 95 papers in training set
Top 0.8%
1.7%
15
Life Science Alliance
● 285 papers in training set
Top 4%
1.5%
16
iScience
○ 1154 papers in training set
Top 23%
1.4%
17
Developmental Cell
○ 196 papers in training set
Top 3%
1.1%
18
Nucleic Acids Research
◐ 1281 papers in training set
Top 10%
1.1%
19
Cancer Research
● 130 papers in training set
Top 2%
1.1%
20
Cell Death & Differentiation
○ 48 papers in training set
Top 0.9%
1.1%
21
Cell Genomics
○ 172 papers in training set
Top 4%
1.1%
22
Proceedings of the National Academy of Sciences
● 2444 papers in training set
Top 37%
1.1%
23
Cell
○ 431 papers in training set
Top 9%
1.0%
24
Cellular and Molecular Gastroenterology and Hepatology
○ 46 papers in training set
Top 0.8%
1.0%
25
Genome Medicine
○ 183 papers in training set
Top 4%
1.0%
26
Cancers
○ 213 papers in training set
Top 5%
0.9%
27
Molecular Cancer
○ 16 papers in training set
Top 0.3%
0.9%
28
Disease Models & Mechanisms
139 papers in training set
Top 3%
0.9%
29
Cell Death & Disease
147 papers in training set
Top 3%
0.9%
30
Scientific Reports
○ 3612 papers in training set
Top 71%
0.9%

"Similar papers" are the closest papers from that journal in the model's embedding space. They show what the match is built on, but the ranking comes mostly from a classifier over the whole training set, not from these examples alone.