Publication Name	World Journal of Hepatology
Manuscript ID	125493
DOI	10.4254/wjh.125493
Country	United States

Category	Gastroenterology & Hepatology
Manuscript Type	Translational Research
Article Title	Weighted gene co-expression network of tumor and normal liver transcriptomes identifies prognostic signature in hepatocellular carcinoma
Manuscript Source	Unsolicited Manuscript
All Author List	Jun-Long Wang, Linda L Wong, Jian-Min Yuan, Jaideep Behari, Scott K Kuwada, Shao-Qiu Chen, Li Ma, You-Ping Deng, Chuong Tran and Herbert Yu
Funding Agency and Grant Number	Funding Agency Grant Number National Institutes of Health (NIH) R01CA255809, R01CA255809-4S
Corresponding Author	Herbert Yu, MD, PhD, University of Hawaiʻi Cancer Center, University of Hawaiʻi at Mānoa, 701 Ilalo Street Room 519, Honolulu, HI 96813, United States. hyu@cc.hawaii.edu
Key Words	Hepatocellular carcinoma; Weighted gene co-expression network analysis; The Cancer Genome Atlas; Genotype-Tissue Expression; Toil recompute; Co-expression network; Prognostic signature; MMP1; KIF2C; HOXD10
Core Tip	Most transcriptome-based prognostic signatures for hepatocellular carcinoma show limited reproducibility across external cohorts. Using harmonized The Cancer Genome Atlas-Genotype-Tissue Expression transcriptomic data and weighted gene co-expression network analysis, we identified biologically coherent tumor- and normal-associated modules and developed a candidate 3-gene prognostic signature. The model remained independently associated with overall survival after multivariable adjustment in The Cancer Genome Atlas and showed adverse prognostic associations in the same direction across six external cohorts, supporting further prospective evaluation.
Citation	Wang JL, Wong LL, Yuan JM, Behari J, Kuwada SK, Chen SQ, Ma L, Deng YP, Tran C, Yu H. Weighted gene co-expression network of tumor and normal liver transcriptomes identifies prognostic signature in hepatocellular carcinoma. World J Hepatol 2026; In press DOI: https://doi.org/10.4254/wjh.125493
PDF	125493-in-press.pdf

Received	2026-07-09 06:12
Peer-Review Started	2026-07-09 06:13
First Decision by Editorial Office Director
Return for Revision	2026-08-05 17:18
Revised	2026-08-19 11:23
Publication Fee Transferred	2026-09-24 15:12
Second Decision by Editor	2026-11-13 03:30
Second Decision by Editor-in-Chief
Final Decision by Editorial Office Director	2026-11-13 10:23
Articles in Press	2026-11-13 10:23
Edit the Manuscript by Language Editor
Typeset the Manuscript

ISSN	1948-5182 (online)
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