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15 results on '"Qian, Tongqi"'

1. Peroxidasin Deficiency Re-programs Macrophages Toward Pro-fibrolysis Function and Promotes Collagen Resolution in Liver

Author

Sojoodi, Mozhdeh, Erstad, Derek J., Barrett, Stephen C., Salloum, Shadi, Zhu, Shijia, Qian, Tongqi, Colon, Selene, Gale, Eric M., Jordan, Veronica Clavijo, Wang, Yongtao, Li, Shen, Ataeinia, Bahar, Jalilifiroozinezhad, Sasan, Lanuti, Michael, Zukerberg, Lawrence, Caravan, Peter, Hoshida, Yujin, Chung, Raymond T., Bhave, Gautam, Lauer, Georg M., Fuchs, Bryan C., and Tanabe, Kenneth K.

Published
2022
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2. A blood-based prognostic liver secretome signature and long-term hepatocellular carcinoma risk in advanced liver fibrosis

Author

Fujiwara, Naoto, Kobayashi, Masahiro, Fobar, Austin J., Hoshida, Ayaka, Marquez, Cesia A., Koneru, Bhuvaneswari, Panda, Gayatri, Taguri, Masataka, Qian, Tongqi, Raman, Indu, Li, Quan-Zhen, Hoshida, Hiroki, Sezaki, Hitomi, Kumada, Hiromitsu, Tateishi, Ryosuke, Yokoo, Takeshi, Yopp, Adam C., Chung, Raymond T., Fuchs, Bryan C., Baumert, Thomas F., Marrero, Jorge A., Parikh, Neehar D., Zhu, Shijia, Singal, Amit G., and Hoshida, Yujin

Published
2021
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3. A human liver cell-based system modeling a clinical prognostic liver signature for therapeutic discovery

Author

Crouchet, Emilie, Bandiera, Simonetta, Fujiwara, Naoto, Li, Shen, El Saghire, Hussein, Fernández-Vaquero, Mirian, Riedl, Tobias, Sun, Xiaochen, Hirschfield, Hadassa, Jühling, Frank, Zhu, Shijia, Roehlen, Natascha, Ponsolles, Clara, Heydmann, Laura, Saviano, Antonio, Qian, Tongqi, Venkatesh, Anu, Lupberger, Joachim, Verrier, Eloi R., Sojoodi, Mozhdeh, Oudot, Marine A., Duong, François H. T., Masia, Ricard, Wei, Lan, Thumann, Christine, Durand, Sarah C., González-Motos, Victor, Heide, Danijela, Hetzer, Jenny, Nakagawa, Shigeki, Ono, Atsushi, Song, Won-Min, Higashi, Takaaki, Sanchez, Roberto, Kim, Rosa S., Bian, C. Billie, Kiani, Karun, Croonenborghs, Tom, Subramanian, Aravind, Chung, Raymond T., Straub, Beate K., Schuppan, Detlef, Ankavay, Maliki, Cocquerel, Laurence, Schaeffer, Evelyne, Goossens, Nicolas, Koh, Anna P., Mahajan, Milind, Nair, Venugopalan D., Gunasekaran, Ganesh, Schwartz, Myron E., Bardeesy, Nabeel, Shalek, Alex K., Rozenblatt-Rosen, Orit, Regev, Aviv, Felli, Emanuele, Pessaux, Patrick, Tanabe, Kenneth K., Heikenwälder, Mathias, Schuster, Catherine, Pochet, Nathalie, Zeisel, Mirjam B., Fuchs, Bryan C., Hoshida, Yujin, and Baumert, Thomas F.

Published
2021
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4. Hepatocellular carcinoma chemoprevention by targeting the angiotensin-converting enzyme and EGFR transactivation

Author

Crouchet, Emilie, primary, Li, Shen, additional, Sojoodi, Mozhdeh, additional, Bandiera, Simonetta, additional, Fujiwara, Naoto, additional, El Saghire, Hussein, additional, Zhu, Shijia, additional, Qian, Tongqi, additional, Rasha, Fahmida Akter, additional, Del Zompo, Fabio, additional, Barrett, Stephen C., additional, Schaeffer, Eugénie, additional, Oudot, Marine A., additional, Ponsolles, Clara, additional, Durand, Sarah C., additional, Ghoshal, Sarani, additional, Arora, Gunisha, additional, Giannone, Fabio, additional, Chung, Raymond T., additional, Slovic, Nevena, additional, Van Renne, Nicolaas, additional, Felli, Emanuele, additional, Pessaux, Patrick, additional, Lupberger, Joachim, additional, Pochet, Nathalie, additional, Schuster, Catherine, additional, Tanabe, Kenneth K., additional, Hoshida, Yujin, additional, Fuchs, Bryan C., additional, and Baumert, Thomas F., additional

Published
2022
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5. Peroxidasin deficiency re-programs macrophages toward pro-fibrolysis function and promotes collagen resolution in liver

Author

Sojoodi, Mozhdeh, primary, Erstad, Derek J., additional, Barrett, Stephen, additional, Salloum, Shadi, additional, Zhu, Shijia, additional, Qian, Tongqi, additional, Gale, Eric, additional, Jordan, Veronica Clavijo, additional, Wang, Yongtao, additional, Li, Shen, additional, Lanuti, Michael, additional, Caravan, Peter, additional, Hoshida, Yujin, additional, Chung, Raymond, additional, Bhave, Gautam, additional, Lauer, Georg, additional, Fuchs, Bryan C., additional, and Tanabe, Kenneth K., additional

Published
2022
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6. Molecular signatures of long-term hepatocellular carcinoma risk in nonalcoholic fatty liver disease

Author

Fujiwara, Naoto, primary, Kubota, Naoto, additional, Crouchet, Emilie, additional, Koneru, Bhuvaneswari, additional, Marquez, Cesia A., additional, Jajoriya, Arun K., additional, Panda, Gayatri, additional, Qian, Tongqi, additional, Zhu, Shijia, additional, Goossens, Nicolas, additional, Wang, Xiaochen, additional, Liang, Shuang, additional, Zhong, Zhenyu, additional, Lewis, Sara, additional, Taouli, Bachir, additional, Schwartz, Myron E., additional, Fiel, Maria Isabel, additional, Singal, Amit G., additional, Marrero, Jorge A., additional, Fobar, Austin J., additional, Parikh, Neehar D., additional, Raman, Indu, additional, Li, Quan-Zhen, additional, Taguri, Masataka, additional, Ono, Atsushi, additional, Aikata, Hiroshi, additional, Nakahara, Takashi, additional, Nakagawa, Hayato, additional, Matsushita, Yuki, additional, Tateishi, Ryosuke, additional, Koike, Kazuhiko, additional, Kobayashi, Masahiro, additional, Higashi, Takaaki, additional, Nakagawa, Shigeki, additional, Yamashita, Yo-ichi, additional, Beppu, Toru, additional, Baba, Hideo, additional, Kumada, Hiromitsu, additional, Chayama, Kazuaki, additional, Baumert, Thomas F., additional, and Hoshida, Yujin, additional

Published
2022
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7. Atorvastatin favorably modulates a clinical hepatocellular carcinoma risk gene signature

Author

Kim, Myung‐Ho, primary, Kim, Mi‐Young, additional, Salloum, Shadi, additional, Qian, Tongqi, additional, Wong, Lai Ping, additional, Xu, Min, additional, Lee, Yoojin, additional, Shroff, Stuti G., additional, Sadreyev, Ruslan I., additional, Corey, Kathleen E., additional, Baumert, Thomas F., additional, Hoshida, Yujin, additional, and Chung, Raymond T., additional

Published
2022
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8. Abstract 255: Peroxidasin deficiency recruits pro-healing macrophages into the liver and inhibits NAFLD progression to HCC

Author

Sojoodi, Mozhdeh, primary, Barrett, Stephen C., additional, Erstad, Derek J., additional, Salloum, Shadi, additional, Zhu, Shijia, additional, Qian, Tongqi, additional, Colon, Selene, additional, Gale, Eric, additional, Jordan, Veronica Clavijo, additional, Wang, Yongtao, additional, Li, Shen, additional, Lanuti, Michael, additional, Zukerberg, Lawrence, additional, Caravan, Peter, additional, Hoshida, Yujin, additional, Chung, Raymond T., additional, Bhave, Gautam, additional, Lauer, Georg M., additional, Fuchs, Bryan C., additional, and Tanabe, Kenneth K., additional

Published
2022
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9. Molecular Signature Predictive of Long-Term Liver Fibrosis Progression to Inform Antifibrotic Drug Development.

Author

Qian, Tongqi, Fujiwara, Naoto, Koneru, Bhuvaneswari, Ono, Atsushi, Kubota, Naoto, Jajoriya, Arun K., Tung, Matthew G., Crouchet, Emilie, Song, Won-Min, Marquez, Cesia Ammi, Panda, Gayatri, Hoshida, Ayaka, Raman, Indu, Li, Quan-Zhen, Lewis, Cheryl, Yopp, Adam, Rich, Nicole E., Singal, Amit G., Nakagawa, Shigeki, and Goossens, Nicolas

Abstract

There is a major unmet need to assess the prognostic impact of antifibrotics in clinical trials because of the slow rate of liver fibrosis progression. We aimed to develop a surrogate biomarker to predict future fibrosis progression. A fibrosis progression signature (FPS) was defined to predict fibrosis progression within 5 years in patients with hepatitis C virus and nonalcoholic fatty liver disease (NAFLD) with no to minimal fibrosis at baseline (n = 421) and was validated in an independent NAFLD cohort (n = 78). The FPS was used to assess response to 13 candidate antifibrotics in organotypic ex vivo cultures of clinical fibrotic liver tissues (n = 78) and cenicriviroc in patients with nonalcoholic steatohepatitis enrolled in a clinical trial (n = 19, NCT02217475). A serum protein–based surrogate FPS was developed and tested in a cohort of compensated cirrhosis patients (n = 122). A 20-gene FPS was defined and validated in an independent NAFLD cohort (adjusted odds ratio, 10.93; area under the receiver operating characteristic curve, 0.86). Among computationally inferred fibrosis-driving FPS genes, BCL2 was confirmed as a potential pharmacologic target using clinical liver tissues. Systematic ex vivo evaluation of 13 candidate antifibrotics identified rational combination therapies based on epigallocatechin gallate, which were validated for enhanced antifibrotic effect in ex vivo culture of clinical liver tissues. In patients with nonalcoholic steatohepatitis treated with cenicriviroc, FPS modulation was associated with 1-year fibrosis improvement accompanied by suppression of the E2F pathway. Induction of the PPARα pathway was absent in patients without fibrosis improvement, suggesting a benefit of combining PPARα agonism to improve the antifibrotic efficacy of cenicriviroc. A 7-protein serum protein–based surrogate FPS was associated with the development of decompensation in cirrhosis patients. The FPS predicts long-term fibrosis progression in an etiology-agnostic manner, which can inform antifibrotic drug development. [Display omitted] Liver- and serum-based fibrosis progression signature assays were developed to predict future liver fibrosis progression and monitor response to antifibrotic therapies in patients with chronic liver disease. [ABSTRACT FROM AUTHOR]

Published
2022
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15. GIGSEA: genotype imputed gene set enrichment analysis using GWAS summary level data.

Author

Zhu, Shijia, Qian, Tongqi, Hoshida, Yujin, Shen, Yuan, Yu, Jing, and Hao, Ke

Subjects
*GENOMES, *DATA analysis, *STATISTICAL methods in gene expression, *GENOTYPES, *REGRESSION analysis, *PERMUTATIONS
Abstract

Summary Summary level data of GWAS becomes increasingly important in post-GWAS data mining. Here, we present GIGSEA (G enotype I mputed G ene S et E nrichment A nalysis), a novel method that uses GWAS summary statistics and eQTL to infer differential gene expression and interrogate gene set enrichment for the trait-associated SNPs. By incorporating empirical eQTL of the disease relevant tissue, GIGSEA naturally accounts for factors such as gene size, gene boundary, SNP distal regulation and multiple-marker regulation. The weighted linear regression model was used to perform the enrichment test, properly adjusting for imputation accuracy, model incompleteness and redundancy in different gene sets. The significance level of enrichment is assessed by the permutation test, where matrix operation was employed to dramatically improve computation speed. GIGSEA has appropriate type I error rates, and discovers the plausible biological findings on the real data set. Availability and implementation GIGSEA is implemented in R, and freely available at www.github.com/zhushijia/GIGSEA. Supplementary information Supplementary data are available at Bioinformatics online. [ABSTRACT FROM AUTHOR]

Published
2019
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