Liver-fibrosis-activated transcriptional networks govern hepatocyte reprogramming and intra-hepatic communication
Open accessAbstract
Liver fibrosis is a strong predictor of long-term mortality in individuals with metabolic-associated fatty liver disease; yet, the mechanisms underlying the progression from the comparatively benign fatty liver state to advanced non-alcoholic steatohepatitis (NASH) and liver fibrosis are incompletely understood. Using cell-type-resolved genomics, we show that comprehensive alterations in hepatocyte genomic and transcriptional settings during NASH progression, led to a loss of hepatocyte identity. The hepatocyte reprogramming was under tight cooperative control of a network of fibrosis-activated transcription factors, as exemplified by the transcription factor Elf-3 (ELF3) and zinc finger protein GLIS2 (GLIS2). Indeed, ELF3- and GLIS2-controlled fibrosis-dependent hepatokine genes targeting disease-associated hepatic stellate cell gene programs. Thus, interconnected transcription factor networks not only promoted hepatocyte dysfunction but also directed the intra-hepatic crosstalk necessary for NASH and fibrosis progression, implying that molecular "hub-centered" targeting strategies are superior to existing mono-target approaches as currently used in NASH therapy.
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Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2
Love, M. I., Huber, W., & Anders, S. (2014) · Genome Biology · doi:10.1186/s13059-014-0550-8 · Cited by 95,106 · see citing works
The Sequence Alignment/Map format and SAMtools
Li, H., Handsaker, B., Wysoker, A., Fennell, T., Ruan, J., Homer, N., Marth, G., Abecasis, G., Durbin, R., & 1000 Genome Project Data Processing Subgroup (2009) · Bioinformatics · doi:10.1093/bioinformatics/btp352 · Cited by 62,041 · see citing works
Fast and accurate short read alignment with Burrows-Wheeler transform
Li, H., & Durbin, R. (2009) · Bioinformatics · doi:10.1093/bioinformatics/btp324 · Cited by 58,607 · see citing works
STAR: ultrafast universal RNA-seq aligner
Dobin, A., Davis, C. A., Schlesinger, F., Drenkow, J., Zaleski, C., Jha, S., Batut, P., Chaisson, M., & Gingeras, T. R. (2013) · Bioinformatics · doi:10.1093/bioinformatics/bts635 · Cited by 51,709 · see citing works
Cox, J., & Mann, M. (2008) · Nature Biotechnology · doi:10.1038/nbt.1511 · Cited by 14,855 · see citing works
Heinz, S., Benner, C., Spann, N., Bertolino, E., Lin, Y. C., Laslo, P., Cheng, J. X., Murre, C., Singh, H., & Glass, C. K. (2010) · Molecular Cell · doi:10.1016/j.molcel.2010.05.004 · Cited by 13,382 · see citing works
Integrating single-cell transcriptomic data across different conditions, technologies, and species
Butler, A., Hoffman, P., Smibert, P., Papalexi, E., & Satija, R. (2018) · Nature Biotechnology · doi:10.1038/nbt.4096 · Cited by 13,174 · see citing works
Gene ontology analysis for RNA-seq: accounting for selection bias
Young, M. D., Wakefield, M. J., Smyth, G. K., & Oshlack, A. (2010) · Genome Biology · doi:10.1186/gb-2010-11-2-r14 · Cited by 7,107 · see citing works
Pérez-Riverol, Y., Csordas, A., Bai, J.-W., Bernal-Llinares, M., Hewapathirana, S., Kundu, D. J., Inuganti, A., Griss, J., Mayer, G., Eisenacher, M., et al. (2018) · Nucleic Acids Res. · doi:10.1093/nar/gky1106 · Cited by 6,216 · see citing works
Global burden of NAFLD and NASH: trends, predictions, risk factors and prevention
Younossi, Z., Anstee, Q. M., Marietti, M., Hardy, T., Henry, L., Eslam, M., George, J., & Bugianesi, E. (2018) · Nature Reviews Gastroenterology & Hepatology · doi:10.1038/nrgastro.2017.109 · Cited by 5,249 · see citing works
Skyline: an open source document editor for creating and analyzing targeted proteomics experiments
MacLean, B., Tomazela, D. M., Shulman, N., Chambers, M., Finney, G. L., Frewen, B., Kern, R., Tabb, D. L., Liebler, D. C., & MacCoss, M. J. (2010) · Bioinformatics · doi:10.1093/bioinformatics/btq054 · Cited by 4,697 · see citing works
Mechanisms of NAFLD development and therapeutic strategies
Friedman, S. L., Neuschwander-Tetri, B. A., Rinella, M., & Sanyal, A. J. (2018) · Nature Medicine · doi:10.1038/s41591-018-0104-9 · Cited by 4,354 · see citing works
circlize implements and enhances circular visualization in R
Gu, Z., Gu, L., Eils, R., Schlesner, M., & Brors, B. (2014) · Bioinformatics · doi:10.1093/bioinformatics/btu393 · Cited by 4,290 · see citing works
Master Transcription Factors and Mediator Establish Super-Enhancers at Key Cell Identity Genes
Whyte, W. A., Orlando, D. A., Hnisz, D., Abraham, B. J., Lin, C. Y., Kagey, M. H., Rahl, P. B., Lee, T. I., & Young, R. A. (2013) · Cell · doi:10.1016/j.cell.2013.03.035 · Cited by 4,143 · see citing works
Angulo, P., Kleiner, D. E., Dam-Larsen, S., Adams, L. A., Bjornsson, E. S., Charatcharoenwitthaya, P., Mills, P. R., Keach, J. C., Lafferty, H. D., Stahler, A., et al. (2015) · Gastroenterology · doi:10.1053/j.gastro.2015.04.043 · Cited by 2,987 · see citing works
NicheNet: Modeling intercellular communication by linking ligands to target genes
Browaeys, R., Saelens, W., & Saeys, Y. (2020) · Nature Methods · doi:10.1038/s41592-019-0667-5 · Cited by 2,192 · see citing works
New approach for understanding genome variations in KEGG
Kanehisa, M. I., Sato, Y., Furumichi, M., Morishima, K., & Tanabe, M. (2018) · Nucleic Acids Research · doi:10.1093/nar/gky962 · Cited by 1,845 · see citing works
Resolving the fibrotic niche of human liver cirrhosis at single-cell level
Ramachandran, P., Dobie, R., Wilson-Kanamori, J. R., Dora, E. F., Henderson, B. E. P., Luu, N. T., Portman, J. R., Matchett, K. P., Brice, M., Marwick, J. A., et al. (2019) · Nature · doi:10.1038/s41586-019-1631-3 · Cited by 1,784 · see citing works
Selected reaction monitoring for quantitative proteomics: a tutorial
Lange, V., Picotti, P., Domon, B., & Aebersold, R. H. (2008) · Molecular Systems Biology · doi:10.1038/msb.2008.61 · Cited by 1,396 · see citing works
Postic, C., Shiota, M., Niswender, K. D., Jetton, T. L., Chen, Y., Moates, J. M., Shelton, K. D., Lindner, J., Cherrington, A. D., & Magnuson, M. A. (1999) · Journal of Biological Chemistry · doi:10.1074/jbc.274.1.305 · Cited by 1,302 · see citing works
Peterson, A. C., Russell, J. D., Bailey, D. J., Westphall, M. S., & Coon, J. J. (2012) · Molecular & Cellular Proteomics · doi:10.1074/mcp.o112.020131 · Cited by 1,288 · see citing works
Liver Cancer Cell of Origin, Molecular Class, and Effects on Patient Prognosis
Sia, D., Villanueva, A., Friedman, S., & Llovet, J. (2016) · Gastroenterology · doi:10.1053/j.gastro.2016.11.048 · Cited by 1,051 · see citing works
Organogenesis and development of the liver
Si-Tayeb, K., Lemaigre, F. P., & Duncan, S. A. (2010) · Developmental Cell · doi:10.1016/j.devcel.2010.01.011 · Cited by 800 · see citing works
Xiong, X., Kuang, H., Ansari, S., Liu, T., Gong, J., Wang, S., Zhao, X.-Y., Ji, Y., Li, C., Guo, L., et al. (2019) · Molecular Cell · doi:10.1016/j.molcel.2019.07.028 · Cited by 784 · see citing works
Epigenomic Signatures of Neuronal Diversity in the Mammalian Brain
Mo, A., Mukamel, E. A., Davis, F. P., Luo, C., Henry, G. L., Picard, S., Urich, M. A., Nery, J. R., Sejnowski, T. J., Lister, R., et al. (2015) · Neuron · doi:10.1016/j.neuron.2015.05.018 · Cited by 739 · see citing works
Mechanisms of Fibrosis Development in Nonalcoholic Steatohepatitis
Schwabe, R. F., Tabas, I., & Pajvani, U. B. (2020) · Gastroenterology · doi:10.1053/j.gastro.2019.11.311 · Cited by 671 · see citing works
Hepatokines: Linking nonalcoholic fatty liver disease and insulin resistance
Meex, R. C. R., & Watt, M. J. (2017) · Nature Reviews Endocrinology · doi:10.1038/nrendo.2017.56 · Cited by 631 · see citing works
Baeck, C., Wehr, A., Karlmark, K. R., Heymann, F., Vucur, M., Gassler, N., Huss, S., Klussmann, S., Eulberg, D., Luedde, T., et al. (2012) · Gut · doi:10.1136/gutjnl-2011-300304 · Cited by 609 · see citing works
Remmerie, A., Martens, L., Thoné, T., Castoldi, A., Seurinck, R., Pavie, B., Roels, J., Vanneste, B., De Prijck, S., Vanhockerhout, M., et al. (2020) · Immunity · doi:10.1016/j.immuni.2020.08.004 · Cited by 592 · see citing works
Tsuchida, T., Lee, Y. A., Fujiwara, N., Ybanez, M., Allen, B., Martins, S., Fiel, M. I., Goossens, N., Chou, H.-I., Hoshida, Y., et al. (2018) · Journal of Hepatology · doi:10.1016/j.jhep.2018.03.011 · Cited by 583 · see citing works
Target analysis by integration of transcriptome and ChIP-seq data with BETA
Wang, S., Sun, H., Ma, J., Zang, C., Wang, C., Wang, J., Tang, Q., Meyer, C. A., Zhang, Y., & Liu, X. S. (2013) · Nature Protocols · doi:10.1038/nprot.2013.150 · Cited by 544 · see citing works
H3K4me3 breadth is linked to cell identity and transcriptional consistency
Benayoun, B. A., Pollina, E. A., Ucar, D., Mahmoudi, S., Karra, K., Wong, E. D., Devarajan, K., Daugherty, A. C., Kundaje, A. B., Mancini, E., et al. (2014) · Cell · doi:10.1016/j.cell.2014.06.027 · Cited by 536 · see citing works
Ahrens, M., Ammerpohl, O., von Schönfels, W., Kolarova, J., Bens, S., Itzel, T., Teufel, A., Herrmann, A., Brosch, M., Hinrichsen, H., et al. (2013) · Cell Metabolism · doi:10.1016/j.cmet.2013.07.004 · Cited by 528 · see citing works
An improved mouse model that rapidly develops fibrosis in non‐alcoholic steatohepatitis
Matsumoto, M., Hada, N., Sakamaki, Y., Uno, A., Shiga, T., Tanaka, C., Ito, T., Katsume, A., & Sudoh, M. (2013) · International Journal of Experimental Pathology · doi:10.1111/iep.12008 · Cited by 523 · see citing works
The role of hepatokines in metabolism
Stefan, N., & Häring, H.-U. (2013) · Nature Reviews Endocrinology · doi:10.1038/nrendo.2012.258 · Cited by 500 · see citing works
Protein Aggregation Capture on Microparticles Enables Multipurpose Proteomics Sample Preparation*
Batth, T. S., Tollenaere, M. A. X., Rüther, P. L., González-Franquesa, A., Prabhakar, B. S., Bekker‐Jensen, S., Deshmukh, A. S., & Olsen, J. V. (2019) · Molecular & Cellular Proteomics · doi:10.1074/mcp.tir118.001270 · Cited by 448 · see citing works
Seidman, J. S., Troutman, T. D., Sakai, M., Gola, A., Spann, N. J., Bennett, H., Bruni, C. M., Ouyang, Z., Li, R. Z., Sun, X., et al. (2020) · Immunity · doi:10.1016/j.immuni.2020.04.001 · Cited by 443 · see citing works
Nathwani, A. C., Gray, J. T., Ng, C. Y., Zhou, J., Spence, Y., Waddington, S. N., Tuddenham, E. G. D., Kemball‐Cook, G., McIntosh, J., Boon‐Spijker, M., et al. (2005) · Blood · doi:10.1182/blood-2005-10-4035 · Cited by 421 · see citing works
Single-cell transcriptomics uncovers zonation of function in the mesenchyme during liver fibrosis
Dobie, R., Wilson-Kanamori, J. R., Henderson, B. E. P., Smith, J. R., Matchett, K. P., Portman, J. R., Wallenborg, K., Picelli, S., Zagorska, A., Pendem, S. V., et al. (2019) · Cell Reports · doi:10.1016/j.celrep.2019.10.024 · Cited by 420 · see citing works
Hepatocyte TAZ/WWTR1 Promotes Inflammation and Fibrosis in Nonalcoholic Steatohepatitis
Wang, X., Zheng, Z., Caviglia, J. M., Corey, K. E., Herfel, T. M., Cai, B., Masia, R., Chung, R. T., Lefkowitch, J. H., Schwabe, R. F., et al. (2016) · Cell Metabolism · doi:10.1016/j.cmet.2016.09.016 · Cited by 413 · see citing works
A Simple Method for Gene Expression and Chromatin Profiling of Individual Cell Types within a Tissue
Deal, R. B., & Henikoff, S. (2010) · Developmental Cell · doi:10.1016/j.devcel.2010.05.013 · Cited by 379 · see citing works
Fujii, M., Shibazaki, Y., Wakamatsu, K., Honda, Y., Kawauchi, Y., Suzuki, K., Arumugam, S., Watanabe, K., Ichida, T., Asakura, H., et al. (2013) · Medical Molecular Morphology · doi:10.1007/s00795-013-0016-1 · Cited by 355 · see citing works
du Plessis, J., van Pelt, J. F., Korf, H., Mathieu, C., der Schueren, B. V., Lannoo, M., Oyen, T., Topal, B., Fetter, G., Nayler, S., et al. (2015) · Gastroenterology · doi:10.1053/j.gastro.2015.05.044 · Cited by 324 · see citing works
Moylan, C. A., Pang, H., Dellinger, A. E., Suzuki, A., Garrett, M. E., Guy, C. D., Murphy, S. K., Ashley‐Koch, A. E., Choi, S. S., Michelotti, G. A., et al. (2013) · Hepatology · doi:10.1002/hep.26661 · Cited by 316 · see citing works
ISMARA: automated modeling of genomic signals as a democracy of regulatory motifsPreprint
Balwierz, P. J., Pachkov, M. V., Arnold, P., Gruber, A. J., Zavolan, M., & van Nimwegen, E. (2014) · Genome Research · doi:10.1101/gr.169508.113 · Cited by 299 · see citing works
Clapper, J. R., Hendricks, M. D., Gu, G., Wittmer, C., Dolman, C. S., Herich, J., Athanacio, J., Villescaz, C., Ghosh, S. S., Heilig, J. S., et al. (2013) · American Journal of Physiology-Gastrointestinal and Liver Physiology · doi:10.1152/ajpgi.00079.2013 · Cited by 294 · see citing works
Single-cell technologies in hepatology: new insights into liver biology and disease pathogenesis
Ramachandran, P., Matchett, K. P., Dobie, R., Wilson-Kanamori, J. R., & Henderson, N. C. (2020) · Nature Reviews Gastroenterology & Hepatology · doi:10.1038/s41575-020-0304-x · Cited by 253 · see citing works
Hepatocyte Notch activation induces liver fibrosis in nonalcoholic steatohepatitis
Zhu, C., Kim, K., Wang, X., Bartolome, A., Salomao, M., Dongiovanni, P., Meroni, M., Graham, M. J., Yates, K. P., Diehl, A. M., et al. (2018) · Science Translational Medicine · doi:10.1126/scitranslmed.aat0344 · Cited by 250 · see citing works
Loss of GLIS2 causes nephronophthisis in humans and mice by increased apoptosis and fibrosis
Attanasio, M., Uhlenhaut, N. H., Sousa, V. H., O’Toole, J. F., Otto, E. A., Anlag, K., Klugmann, C., Treier, A.-C., Helou, J., Sayer, J. A., et al. (2007) · Nature Genetics · doi:10.1038/ng2072 · Cited by 240 · see citing works
Krenkel, O., Hundertmark, J., Abdallah, A. T., Kohlhepp, M., Puengel, T., Roth, T., Branco, D. P. P., Mossanen, J. C., Luedde, T., Trautwein, C., et al. (2020) · Gut · doi:10.1136/gutjnl-2019-318382 · Cited by 220 · see citing works
Cholesterol Stabilizes TAZ in Hepatocytes to Promote Experimental Non-alcoholic Steatohepatitis
Wang, X., Cai, B., Yang, X., Sonubi, O. O., Zheng, Z., Ramakrishnan, R., Shi, H., Valenti, L., Pajvani, U. B., Sandhu, J., et al. (2020) · Cell Metabolism · doi:10.1016/j.cmet.2020.03.010 · Cited by 204 · see citing works
Rauch, A., Haakonsson, A., Madsen, J., Larsen, M., Forss, I., Madsen, M. R., Hauwaert, E. L. V., Wiwie, C., Jespersen, N., Tencerova, M., et al. (2019) · Nature Genetics · doi:10.1038/s41588-019-0359-1 · Cited by 202 · see citing works
GIGGLE: a search engine for large-scale integrated genome analysis
Layer, R. M., Pedersen, B. S., DiSera, T., Marth, G., Gertz, J., & Quinlan, A. R. (2018) · Nature Methods · doi:10.1038/nmeth.4556 · Cited by 197 · see citing works
Kita, Y., Takamura, T., Misu, H., Ota, T., Kurita, S., Takeshita, Y., Uno, M., Nagata, N., Kato, K., Ando, H., et al. (2012) · PLoS ONE · doi:10.1371/journal.pone.0043056 · Cited by 153 · see citing works
Arriazu, E., Ge, X., Leung, T.-M., Magdaleno, F., Lopategi, A., Lu, Y., Kitamura, N., Urtasun, R., Theise, N., Antoine, D. J., et al. (2017) · Gut · doi:10.1136/gutjnl-2015-310752 · Cited by 144 · see citing works
Regulation of Steatohepatitis and PPARγ Signaling by Distinct AP-1 Dimers
Hasenfuss, S. C., Bakiri, L., Thomsen, M. K., Williams, E. G., Auwerx, J. H., & Wagner, E. F. (2014) · Cell Metabolism · doi:10.1016/j.cmet.2013.11.018 · Cited by 140 · see citing works
Gressner, O. A., Lahme, B., Demirci, I., Gressner, A. M., & Weiskirchen, R. (2007) · Journal of Hepatology · doi:10.1016/j.jhep.2007.05.015 · Cited by 140 · see citing works
Lefebvre, P., Lalloyer, F., Baugé, E., Pawlak, M., Gheeraert, C., Dehondt, H., Vanhoutte, J., Woitrain, E., Hennuyer, N., Mazuy, C., et al. (2017) · JCI Insight · doi:10.1172/jci.insight.92264 · Cited by 117 · see citing works
Zheng, L., Xu, M., Xu, J., Wu, K., Fang, Q., Liang, Y., Zhou, S., Cen, D., Ji, L., Han, W., et al. (2018) · Cell Death and Disease · doi:10.1038/s41419-018-0399-y · Cited by 106 · see citing works
Transcriptional Dynamics of Hepatic Sinusoid‐Associated Cells After Liver Injury
Terkelsen, M. K., Bendixen, S. M., Hansen, D., Scott, E. A. H., Moeller, A. F., Nielsen, R., Mandrup, S., Schlosser, A. G., Andersen, T. L., Sørensen, G. L., et al. (2020) · Hepatology · doi:10.1002/hep.31215 · Cited by 104 · see citing works
Self-citationMapping the molecular signatures of diet-induced NASH and its regulation by the hepatokine Tsukushi
Xiong, X., Wang, Q., Wang, S., Zhang, J., Liu, T., Guo, L., Yu, Y., & Lin, J. D. (2019) · Molecular Metabolism · doi:10.1016/j.molmet.2018.12.004 · Cited by 100 · see citing works
Siersbæk, M. S., Varticovski, L., Yang, S., Baek, S., Nielsen, R., Mandrup, S., Hager, G. L., Chung, J. H., & Grøntved, L. (2017) · Scientific Reports · doi:10.1038/srep40220 · Cited by 96 · see citing works
Glass, O., Henao, R., Patel, K., Guy, C. D., Gruss, H. J., Syn, W., Moylan, C. A., Streilein, R. D., Hall, R. P., Diehl, A. M., et al. (2018) · Hepatology Communications · doi:10.1002/hep4.1237 · Cited by 95 · see citing works
Molecular Control of Systemic Bile Acid Homeostasis by the Liver Glucocorticoid Receptor
Rose, A. J., Díaz, M. B., Reimann, A., Klement, J., Walcher, T., Krones, A., Strobel, O., Werner, J. M., Peters, A., Kleyman, A., et al. (2011) · Cell Metabolism · doi:10.1016/j.cmet.2011.04.010 · Cited by 94 · see citing works
Self-citationFrades, I., Andréasson, E., Mato, J. M., Alexandersson, E., Matthiesen, R., & Martínez‐Chantar, M. L. (2015) · PLoS ONE · doi:10.1371/journal.pone.0124544 · Cited by 86 · see citing works
Madsen, J., Schmidt, S., Larsen, B. D., Loft, A., Nielsen, R., & Mandrup, S. (2015) · Nucleic Acids Research · doi:10.1093/nar/gku1365 · Cited by 74 · see citing works
Self-citationDong, Q., Zhu, X., Dai, C., Zhang, X., Gao, X., Wei, J., Sheng, Y., Zheng, Y., Yu, J., Xie, L., et al. (2016) · Oncotarget · doi:10.18632/oncotarget.7016 · Cited by 72 · see citing works
Integrated analysis of motif activity and gene expression changes of transcription factorsPreprint
Madsen, J. G. S., Rauch, A., Hauwaert, E. L. V., Schmidt, S. F., Winnefeld, M., & Mandrup, S. (2017) · Genome Research · doi:10.1101/gr.227231.117 · Cited by 72 · see citing works
Self-citationKrüppel-Like Zinc Finger Protein Glis2 Is Essential for the Maintenance of Normal Renal Functions
Kim, Y., Kang, H. S., Herbert, R., Beak, J. Y., Collins, J. B., Grissom, S. F., & Jetten, A. M. (2008) · Molecular and Cellular Biology · doi:10.1128/mcb.01722-07 · Cited by 70 · see citing works
TSC22D4 is a molecular output of hepatic wasting metabolism
Jones, A., Friedrich, K., Rohm, M., Schäfer, M., Algire, C., Kulozik, P., Seibert, O., Müller‐Decker, K., Sijmonsma, T., Strzoda, D., et al. (2013) · EMBO Molecular Medicine · doi:10.1002/emmm.201201869 · Cited by 63 · see citing works
Self-citationKulozik, P., Jones, A., Mattijssen, F., Rose, A. J., Reimann, A., Strzoda, D., Kleinsorg, S., Raupp, C., Kleinschmidt, J. A., Müller‐Decker, K., et al. (2011) · Cell Metabolism · doi:10.1016/j.cmet.2011.02.011 · Cited by 60 · see citing works
Self-citationFeuchtinger, A., Stiehler, T., Jütting, U., Marjanović, G., Luber, B., Langer, R., & Walch, A. K. (2014) · Histochemistry and Cell Biology · doi:10.1007/s00418-014-1258-2 · Cited by 57 · see citing works
Self-citationMulti-omics characterization of a diet-induced obese model of non-alcoholic steatohepatitis
Ægidius, H. M., Veidal, S. S., Feigh, M., Hallenborg, P., Puglia, M., Pers, T. H., Vrang, N., Jelsing, J., Kornum, B. R., Blagoev, B., et al. (2020) · Scientific Reports · doi:10.1038/s41598-020-58059-7 · Cited by 51 · see citing works
Self-citationEndoplasmic reticulum stress actively suppresses hepatic molecular identity in damaged liver
Dubois, V., Gheeraert, C., Vankrunkelsven, W., Dubois‐Chevalier, J., Dehondt, H., Bobowski‐Gerard, M., Vinod, M., Zummo, F. P., Güiza, F., Ploton, M., et al. (2020) · Molecular Systems Biology · doi:10.15252/msb.20199156 · Cited by 46 · see citing works
Dynamic Transcriptional and Epigenetic Changes Drive Cellular Plasticity in the Liver
Merrell, A. J., Peng, T., Li, J., Sun, K., Li, B., Katsuda, T., Grompe, M., Tan, K., & Stanger, B. Z. (2021) · Hepatology · doi:10.1002/hep.31704 · Cited by 42 · see citing works
Xia, J., Yuan, J., Xin, L., Zhang, Y., Kong, S., Chen, Y., Yang, S., & Li, K. (2014) · PLoS ONE · doi:10.1371/journal.pone.0113724 · Cited by 34 · see citing works
Genome-Wide Insights into the Development and Function of Thermogenic Adipocytes
Loft, A., Forss, I., & Mandrup, S. (2016) · Trends in Endocrinology and Metabolism · doi:10.1016/j.tem.2016.11.005 · Cited by 28 · see citing works
Self-citationSachs, S., Niu, L., Geyer, P. E., Jall, S., Kleinert, M., Feuchtinger, A., Stemmer, K., Brielmeier, M., Finan, B., DiMarchi, R. D., et al. (2020) · Diabetes Obesity and Metabolism · doi:10.1111/dom.14215 · Cited by 21 · see citing works
Self-citationSánchez‐Quiles, V., Akimov, V., Osinalde, N., Francavilla, C., Puglia, M., Barrio‐Hernandez, I., Kratchmarova, I., Olsen, J. V., & Blagoev, B. (2017) · Molecular & Cellular Proteomics · doi:10.1074/mcp.m116.066423 · Cited by 15 · see citing works
Self-citationNiu, L., Thiele, M. S., Geyer, P. E., Rasmussen, D. N., Webel, H. E., Santos, A., Gupta, R., Meier, F., Strauss, M. T., Kjærgaard, M., et al. (2020) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2020.10.16.337592 · Cited by 12 · see citing works
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Youssef, K. K., & Nieto, M. A. (2024) · Nature Reviews Molecular Cell Biology · doi:10.1038/s41580-024-00733-z · Cited by 162 · see citing works
Found in translation—Fibrosis in metabolic dysfunction–associated steatohepatitis (MASH)
Wang, S., & Friedman, S. L. (2023) · Science Translational Medicine · doi:10.1126/scitranslmed.adi0759 · Cited by 158 · see citing works
Loss of liver function in chronic liver disease: An identity crisis
Berasain, C., Arechederra, M., Argemí, J., Fernández-Barrena, M. G., & Avila, M. A. (2023) · Journal of Hepatology · doi:10.1016/j.jhep.2022.09.001 · Cited by 99 · see citing works
A macrophage-hepatocyte glucocorticoid receptor axis coordinates fasting ketogenesis
Loft, A., Schmidt, S. F., Caratti, G., Stifel, U., Havelund, J., Sekar, R., Kwon, Y., Sulaj, A., Chow, K. K., Alfaro, A. J., et al. (2022) · Cell Metabolism · doi:10.1016/j.cmet.2022.01.004 · Cited by 76 · see citing works
Self-citationLiu, J., Liu, J., Mu, W., Ma, Q., Zhai, X., Jin, B., Liu, Y., & Zhang, N. (2024) · ACS Nano · doi:10.1021/acsnano.4c02380 · Cited by 74 · see citing works
Hepatocytes demarcated by EphB2 contribute to the progression of nonalcoholic steatohepatitis
Xiao, Y., Batmanov, K., Hu, W., Zhu, K., Tom, A. Y., Guan, D., Jiang, C., Cheng, L., McCright, S. J., Yang, E. C., et al. (2023) · Science Translational Medicine · doi:10.1126/scitranslmed.adc9653 · Cited by 69 · see citing works
Liver regeneration: Cellular origin and molecular mechanisms
Huang, R. C. C., Zhang, X., Gracia‐Sancho, J., & Xie, W. (2022) · Liver International · doi:10.1111/liv.15174 · Cited by 68 · see citing works
Talamantes, S., Lisjak, M., Gilglioni, E. H., Llamoza-Torres, C. J., Ramos‐Molina, B., & Gurzov, E. N. (2023) · JHEP Reports · doi:10.1016/j.jhepr.2023.100811 · Cited by 60 · see citing works
Greatorex, S., Kaur, S., Xirouchaki, C. E., Goh, P. K., Wiede, F., Genders, A., Tran, M., Jia, Y., Raajendiran, A., Brown, W., et al. (2023) · Journal of Clinical Investigation · doi:10.1172/jci162533 · Cited by 50 · see citing works
Gong, L., Wei, F., Gonzalez, F. J., & Li, G. (2023) · Hepatology · doi:10.1097/hep.0000000000000182 · Cited by 58 · see citing works
Xie, W., Gan, J., Zhou, X., Tian, H., Pan, X., Liu, W., Li, X., Du, J., Xu, A., Zheng, M., et al. (2024) · Cell Metabolism · doi:10.1016/j.cmet.2024.04.020 · Cited by 55 · see citing works
Li, Z., Zhang, H., Li, Q., Feng, W., Jia, X., Zhou, R., Huang, Y., Li, Y., Hu, Z., Hu, X., et al. (2023) · Scientific Data · doi:10.1038/s41597-023-02257-1 · Cited by 54 · see citing works
The role of N-glycosylation modification in the pathogenesis of liver cancer
Hu, M., Zhang, R., Yang, J., Zhao, C., Liu, W., Huang, Y., Lyu, H., Xiao, S., Guo, D. S., Zhou, C., et al. (2023) · Cell Death and Disease · doi:10.1038/s41419-023-05733-z · Cited by 53 · see citing works
Spatial genomics: mapping human steatotic liver disease
Matchett, K. P., Paris, J., Teichmann, S. A., & Henderson, N. C. (2024) · Nature Reviews Gastroenterology & Hepatology · doi:10.1038/s41575-024-00915-2 · Cited by 52 · see citing works
HNF4A modulates glucocorticoid action in the liver
Hunter, A. L., Poolman, T. M., Kim, D., Gonzalez, F. J., Bechtold, D. A., Loudon, A. S. I., Iqbal, M., & Ray, D. W. (2022) · Cell Reports · doi:10.1016/j.celrep.2022.110697 · Cited by 49 · see citing works
Zhang, L., Deng, W., Huang, Q., Zhang, J., Wang, Y., Zhou, T., Xing, L., & Jiang, H. (2024) · Advanced Materials · doi:10.1002/adma.202311474 · Cited by 47 · see citing works
Liver-specific actions of GH and IGF1 that protect against MASLD
Kineman, R. D., del Río-Moreno, M., & Waxman, D. J. (2024) · Nature Reviews Endocrinology · doi:10.1038/s41574-024-01037-0 · Cited by 39 · see citing works
IL6 supports long-term expansion of hepatocytes in vitro
Guo, R., Jiang, M., Wang, G., Li, B., Jia, X., Ai, Y., Chen, S., Tang, P., Liu, A., Yuan, Q., et al. (2022) · Nature Communications · doi:10.1038/s41467-022-35167-8 · Cited by 36 · see citing works
Pellegata, N. S., Berriel Diaz, M., Rohm, M., & Herzig, S. (2022) · Cancer and Metastasis Reviews · doi:10.1007/s10555-022-10058-y · Cited by 33 · see citing works
Self-citationWang, G., Duan, J., Pu, G., Ye, C., Li, Y., Xiu, W., Xu, J., Liu, B., Zhu, Y., & Wang, C. (2022) · Biochimica et Biophysica Acta (BBA) - Molecular Basis of Disease · doi:10.1016/j.bbadis.2022.166413 · Cited by 33 · see citing works
Aguilar‐Bravo, B., Ariño, S., Blaya, D., Pose, E., de la Torre, R. A. M. G., Latasa, M. U., Martínez–Sánchez, C., Zanatto, L., Sererols-Viñas, L., Vilà, P. C., et al. (2023) · Journal of Hepatology · doi:10.1016/j.jhep.2023.04.013 · Cited by 32 · see citing works
Regulation of systemic metabolism by tissue-resident immune cell circuits
Li, J. H., Hepworth, M. R., & O’Sullivan, T. E. (2023) · Immunity · doi:10.1016/j.immuni.2023.05.001 · Cited by 34 · see citing works
Deep proteome profiling of metabolic dysfunction-associated steatotic liver disease
Pedersen, F. B., Akimov, V., Teuchler, M., Terkelsen, M. K., Wernberg, C. W., Larsen, F. T., Hallenborg, P., Lauridsen, M. M., Krag, A. A., Mandrup, S., et al. (2025) · Communications Medicine · doi:10.1038/s43856-025-00780-3 · Cited by 30 · see citing works
Self-citationDistinct hepatocyte identities in liver homeostasis and regeneration
Chen, F., Schönberger, K., & Tchorz, J. S. (2023) · JHEP Reports · doi:10.1016/j.jhepr.2023.100779 · Cited by 30 · see citing works
Zhang, C., Rehman, M., Tian, X., Pei, S. L. C., Gu, J., Bell, T. A., Dong, K., Tham, M. S., Cai, Y., Wei, Z., et al. (2024) · Nature Communications · doi:10.1038/s41467-024-48025-6 · Cited by 30 · see citing works
Zhang, J., Shen, Y., Chen, X.-Y., Jiang, M.-L., Yuan, F.-H., Xie, S.-L., Zhang, J., & Xu, F. (2023) · Frontiers in Endocrinology · doi:10.3389/fendo.2023.1115890 · Cited by 30 · see citing works
Pan, C., Liu, J., Gao, Y., Yang, M., Hu, H., Liu, C., Qian, M., Yuan, H.-Y., Yang, S., Zheng, M.-H., et al. (2023) · Cell Metabolism · doi:10.1016/j.cmet.2023.10.018 · Cited by 27 · see citing works
Gene body DNA hydroxymethylation restricts the magnitude of transcriptional changes during aging
Occean, J. R., Yang, N., Sun, Y., Dawkins, M. S., Munk, R. B., Belair, C., Dar, S. A., Anerillas, C., Wang, L., Shi, C., et al. (2024) · Nature Communications · doi:10.1038/s41467-024-50725-y · Cited by 27 · see citing works
Das, S. R., Finney, A. C., Anand, S. K., Rohilla, S., Liu, Y., Pandey, N. O., Ghrayeb, A., Kumar, D., Núñez, K., Liu, Z., et al. (2024) · Nature Metabolism · doi:10.1038/s42255-024-01134-4 · Cited by 26 · see citing works
Geervliet, E., Terstappen, L. W. M. M., & Bansal, R. (2023) · Biomedicine & Pharmacotherapy · doi:10.1016/j.biopha.2023.115612 · Cited by 26 · see citing works
EHBP1 suppresses liver fibrosis in metabolic dysfunction-associated steatohepatitis
Ma, F., Longo, M., Meroni, M., Bhattacharya, D., Paolini, E., Mughal, S., Hussain, S., Anand, S. K., Gupta, N., Zhu, Y., et al. (2025) · Cell Metabolism · doi:10.1016/j.cmet.2025.01.020 · Cited by 29 · see citing works
Lactate and lactylation: novel perspectives on fibrosis pathogenesis and therapeutic directions
Liang, H., Xu, L., & Yang, Y. A. (2025) · Journal of Translational Medicine · doi:10.1186/s12967-025-06748-0 · Cited by 29 · see citing works
Banerjee, A., & Farci, P. (2024) · International Journal of Molecular Sciences · doi:10.3390/ijms25168641 · Cited by 24 · see citing works
Li, Y., Xiu, W., Xu, J., Chen, X., Wang, G., Duan, J., Sun, L., Liu, B., Xie, W., Pu, G., et al. (2022) · JCI Insight · doi:10.1172/jci.insight.162402 · Cited by 23 · see citing works
Functional liver genomics identifies hepatokines promoting wasting in cancer cachexia
Kaltenecker, D., Schmidt, S. F., Weber, P., Loft, A., Morigny, P., Machado, J., Geppert, J., Saul, K. B., Benedikt, P., Molocea, C., et al. (2025) · Cell · doi:10.1016/j.cell.2025.06.039 · Cited by 23 · see citing works
Self-citationChemPert: mapping between chemical perturbation and transcriptional response for non-cancer cells
Zheng, M., Okawa, S., Bravo, M., Chen, F., Martínez‐Chantar, M. L., & del Sol, A. (2022) · Nucleic Acids Research · doi:10.1093/nar/gkac862 · Cited by 23 · see citing works
Liver receptor homolog-1 (NR5A2) orchestrates hepatic inflammation and TNF-induced cell death
Lambrecht, R., Delgado, M. E., Gloe, V., Schuetz, K., Plazzo, A. P., Franke, B., Phan, T. S., Fleming, J. R., Mayans, O. M., & Brunner, T. (2023) · Cell Reports · doi:10.1016/j.celrep.2023.113513 · Cited by 23 · see citing works
The Nr4a family regulates intrahepatic Treg proliferation and liver fibrosis in MASLD models
Aki, D., Hayakawa, T., Srirat, T., Shichino, S., Ito, M., Saitoh, S.-I., Mise-Omata, S., & Yoshimura, A. (2024) · Journal of Clinical Investigation · doi:10.1172/jci175305 · Cited by 22 · see citing works
GSNOR deficiency promotes tumor growth via FAK1 S-nitrosylation
Rizza, S., Leo, L. D., Pecorari, C., Giglio, P., Faienza, F., Montagna, C., Maiani, E., Puglia, M., Bosisio, F. M., Petersen, T. S., et al. (2023) · Cell Reports · doi:10.1016/j.celrep.2023.111997 · Cited by 20 · see citing works
Self-citationInterrogating mechanisms of liver fibrosis with omics
Oakley, F. (2021) · Nature Reviews Gastroenterology & Hepatology · doi:10.1038/s41575-021-00567-6 · Cited by 19 · see citing works
Sokal-Dembowska, A., Jarmakiewicz-Czaja, S., Ferenc, K., & Filip, R. (2024) · International Journal of Molecular Sciences · doi:10.3390/ijms25105238 · Cited by 19 · see citing works
Wen, Y., Zou, Z.-Y., Zhao, G., Zhang, M., Zhang, Y., Wang, G., Shi, J., Wang, Y.-Y., Song, Y.-Y., Wang, H., et al. (2024) · Acta Pharmacologica Sinica · doi:10.1038/s41401-024-01329-1 · Cited by 18 · see citing works
Role of PNPLA3 in Hepatic Stellate Cells and Hepatic Cellular Crosstalk
Martins, M. C., Dixon, E. D., Lupo, G., Claudel, T., Trauner, M., & Rombouts, K. (2024) · Liver International · doi:10.1111/liv.16117 · Cited by 20 · see citing works
Cell competition in primary and metastatic colorectal cancer
van Luyk, M. E., García, A. K., Λάμπρου, Μ., & Suijkerbuijk, S. J. E. (2024) · Oncogenesis · doi:10.1038/s41389-024-00530-5 · Cited by 18 · see citing works
GLIS1-3: Links to Primary Cilium, Reprogramming, Stem Cell Renewal, and Disease
Jetten, A. M., Scoville, D. W., & Kang, H. S. (2022) · Cells · doi:10.3390/cells11111833 · Cited by 17 · see citing works
Nuclear receptors: pathophysiological mechanisms and drug targets in liver disease
Dubois, V., Lefèbvre, P., Staels, B., & Eeckhoute, J. (2024) · Gut · doi:10.1136/gutjnl-2023-331741 · Cited by 17 · see citing works
Xin, J., Zhou, C., Wang, Y., Chen, H., Yin, K., Gao, L., & Shao, S. (2025) · Ecotoxicology and Environmental Safety · doi:10.1016/j.ecoenv.2025.118305 · Cited by 16 · see citing works
Ariño, S., Ferrer‐Lorente, R., Serrano, G., Zanatto, L., de la Torre, R. A. M. G., Gratacós‐Ginès, J., Rubio, A. B., Pérez-Guasch, M., Mateos-Sánchez, C., Aguilar‐Bravo, B., et al. (2025) · Journal of Hepatology · doi:10.1016/j.jhep.2025.07.014 · Cited by 17 · see citing works
Zhang, H., Zhou, P., Xing, W., Chen, L., Zhou, Y., Yang, H., Fu, K., & Liu, Z. (2022) · Cellular and Molecular Gastroenterology and Hepatology · doi:10.1016/j.jcmgh.2022.10.015 · Cited by 15 · see citing works
Fu, Y., Wang, Z., & Qin, H. (2024) · Metabolites · doi:10.3390/metabo14040218 · Cited by 15 · see citing works
Rho, H. K., Kim, S., Kim, S. U., Kim, J. W., Lee, S. H., Park, S., Escorcia, F. E., Chung, J., & Song, J. (2024) · Nature Communications · doi:10.1038/s41467-024-53002-0 · Cited by 15 · see citing works
Huerta, M., Franco-Serrano, L., Amela, I., Perez-Pons, J. A., Piñol, J., Mozo-Villarias, Á., Querol, E., & Cedano, J. A. (2023) · Cells · doi:10.3390/cells12020235 · Cited by 14 · see citing works
Karri, K., & Waxman, D. J. (2023) · RNA · doi:10.1261/rna.079580.123 · Cited by 14 · see citing works
López‐Alcántara, N., Oelkrug, R., Sentis, S. C., Kirchner, H., & Mittag, J. (2023) · iScience · doi:10.1016/j.isci.2023.108064 · Cited by 14 · see citing works
Yang, Y., Liu, X., Chen, H., Wang, P., Yao, S., Zhou, B., Yin, R., Li, C., Wu, C., Yang, X., et al. (2022) · FEBS Journal · doi:10.1111/febs.16430 · Cited by 14 · see citing works
Sun, Y.-D., Zhang, H., Li, Y., & Han, J. (2024) · Biochimica et Biophysica Acta (BBA) - Reviews on Cancer · doi:10.1016/j.bbcan.2024.189086 · Cited by 13 · see citing works
Mahmood, S., Morrice, N., Thompson, D., Milanizadeh, S., Wilson, S., Whitfield, P. D., Mcilroy, G. D., Rochford, J. J., & Mody, N. (2025) · Experimental Physiology · doi:10.1113/ep092535 · Cited by 13 · see citing works
Liu, T., Wang, Q., Zhou, L., Zhang, P., Mi, L., Qiu, X., Chen, Z., Kuang, H., Li, S., & Lin, J. D. (2022) · Hepatology · doi:10.1002/hep.32719 · Cited by 13 · see citing works
Beyoğlu, D., Huang, P., Skelton-Badlani, D., Zong, C., Popov, Y. V., & Idle, J. R. (2023) · Cells · doi:10.3390/cells12030485 · Cited by 12 · see citing works
Metabolism and bioenergetics in the pathophysiology of organ fibrosis
Miguel, V., Alcalde‐Estévez, E., Sirera, B., Rodríguez‐Pascual, F., & Lamas, S. (2024) · Free Radical Biology and Medicine · doi:10.1016/j.freeradbiomed.2024.06.001 · Cited by 12 · see citing works
Gonzalez‐Sanchez, E., Vaquero, J., Caballero‐Díaz, D., Grzelak, J., Fusté, N. P., Bertrán, E., Amengual, J., García‐Sáez, J., Martín‐Mur, B., Gut, M. O., et al. (2024) · The Journal of Pathology · doi:10.1002/path.6299 · Cited by 12 · see citing works
Chemically induced revitalization of damaged hepatocytes for regenerative liver repair
Lin, P., Bai, Y., Nian, X.-X., Chi, J., Chen, T., Zhang, J., Zhang, W., Zhou, B., Liu, Y., & Zhao, Y. (2023) · iScience · doi:10.1016/j.isci.2023.108532 · Cited by 11 · see citing works
Purification of GFP-tagged nuclei from frozen livers of INTACT mice for RNA- and ATAC-sequencing
Loft, A., Herzig, S., & Schmidt, S. F. (2021) · STAR Protocols · doi:10.1016/j.xpro.2021.100805 · Cited by 11 · see citing works
Self-citationWolff, G., Sakurai, M., Mhamane, A., Troullinaki, M., Maida, A., Deligiannis, I. K., Yin, K., Weber, P., Morgenstern, J., Wieder, A., et al. (2022) · Molecular Metabolism · doi:10.1016/j.molmet.2022.101487 · Cited by 12 · see citing works
Self-citationQuitete, F. T., Teixeira, A. V. S., Peixoto, T. C., Martins, B. C., Atella, G. C., Resende, Â. C., Mucci, D. D. B., Martins, F. F., & Daleprane, J. B. (2024) · PLoS ONE · doi:10.1371/journal.pone.0308334 · Cited by 10 · see citing works
Skytthe, M. K., Pedersen, F. B., Wernberg, C. W., Chandran, V. I., Krag, A. A., Caterino, T. D., Mandacaru, S. C., Blagoev, B., Lauridsen, M. M., Detlefsen, S., et al. (2023) · Gastro Hep Advances · doi:10.1016/j.gastha.2023.03.006 · Cited by 9 · see citing works
Self-citationEmerging roles of RNA‐binding proteins in fatty liver disease
Adesanya, O. A., Das, D., & Kalsotra, A. (2024) · Wiley Interdisciplinary Reviews - RNA · doi:10.1002/wrna.1840 · Cited by 9 · see citing works
TSC22D4 promotes TGFβ1-induced activation of hepatic stellate cells
Sakurai, M., Weber, P., Wolff, G., Wieder, A., Szendroedi, J., Herzig, S., & Üstünel, B. E. (2022) · Biochemical and Biophysical Research Communications · doi:10.1016/j.bbrc.2022.05.100 · Cited by 9 · see citing works
Self-citationCalixto-Tlacomulco, S., Luna-Reyes, I., Delgado‐Coello, B., Gutiérrez‐Vidal, R., Reyes‐Grajeda, J. P., & Mas‐Oliva, J. (2024) · Archives of Medical Research · doi:10.1016/j.arcmed.2023.102937 · Cited by 9 · see citing works
Lutsiv, T., McGinley, J. N., Neil, E. S., Foster, M. T., & Thompson, H. J. (2023) · Nutrients · doi:10.3390/nu15030526 · Cited by 9 · see citing works
Interdisciplinary advances reshape the delivery tools for effective NASH treatment
Chen, L., & Wang, Y. (2023) · Molecular Metabolism · doi:10.1016/j.molmet.2023.101730 · Cited by 9 · see citing works
Sonkar, R., Ma, H., & Waxman, D. J. (2024) · Toxicological Sciences · doi:10.1093/toxsci/kfae057 · Cited by 7 · see citing works
Shen, T. K., Vignane, T., Gilglioni, E. H., Traini, L., Kalaitsidou, E., Conan, P., Li, A., St‐Pierre‐Wijckmans, W., Herranz, J. M., Elvira, B., et al. (2025) · Redox Biology · doi:10.1016/j.redox.2025.103809 · Cited by 8 · see citing works
Role of PDLIM1 in hepatic stellate cell activation and liver fibrosis progression
Ye, B., Yu, M., Yue, M., Yin, M., Zhang, C., Wang, Q., Ding, X., Shen, W., & Zhao, Z. (2023) · Scientific Reports · doi:10.1038/s41598-023-38144-3 · Cited by 8 · see citing works
Hong, W., Zhu, Y., Lin, Y., Tang, S., Chen, J., Xu, L., Jiang, J., Zong, Y., Zhang, Y., Sun, A., et al. (2024) · Life Sciences · doi:10.1016/j.lfs.2023.122320 · Cited by 8 · see citing works
Ntambi, J.-N., Kalyesubula, M., Cootway, D., Lewis, S. A., Phang, Y. X., Liu, Z., O’Neill, L. M., Lefers, L., Huff, H., Miller, J. R., et al. (2024) · Biochimica et Biophysica Acta (BBA) - Molecular and Cell Biology of Lipids · doi:10.1016/j.bbalip.2024.159538 · Cited by 9 · see citing works
Dynamic enhancer interactome promotes senescence and agingPreprint
Wang, L., Donahue, G., Zhang, C., Havas, A. P., Lei, X., Xu, C., Wang, W., Vahedi, G., Adams, P. D., & Berger, S. L. (2023) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2023.05.22.541769 · Cited by 8 · see citing works
Characterization of regulatory transcriptional mechanisms in hepatocyte lipotoxicity
Pérez‐Schindler, J., Vargas‐Fernández, E., Karrer‐Cardel, B., Ritz, D., Schmidt, A., & Handschin, C. (2022) · Scientific Reports · doi:10.1038/s41598-022-15731-4 · Cited by 7 · see citing works
An extended transcription factor regulatory network controls hepatocyte identity
Dubois‐Chevalier, J., Gheeraert, C., Berthier, A., Boulet, C., Dubois, V., Guille, L., Fourcot, M., Marot, G., Gauthier, K., Dubuquoy, L., et al. (2023) · EMBO Reports · doi:10.15252/embr.202357020 · Cited by 6 · see citing works
“Calling of super-enhancers (SE) and target gene assignation, essentially performed as in (Loven et al , 2013; Whyte et al , 2013), was previously described (Dubois-Chevalier et al , 2020).”
Mesenchymal drift: A convergent framework for the hallmarks of aging
Lu, J. Y., Tu, W. B., Ma, S., Ma, Z., Imaz-Rosshandler, I., Weng, M., Qu, J., Esteban, C. R., Reddy, P., Liu, G.-H., et al. (2026) · Cell · doi:10.1016/j.cell.2026.04.020 · Cited by 10 · see citing works
Alterations in the hepatocyte epigenetic landscape in steatosis
Maji, R. K., Czepukojc, B., Scherer, M., Tierling, S., Cadenas, C., Gianmoena, K., Gasparoni, N., Nordström, K. J. V., Gasparoni, G., Laggai, S., et al. (2023) · Epigenetics & Chromatin · doi:10.1186/s13072-023-00504-8 · Cited by 6 · see citing works
NHE1 regulation in NAFLD in vitro contributes to hepatocyte injury and HSC crosstalk
Sjøgaard-Frich, L. M., Henriksen, M. S., Lam, S., Birkbak, F. J., Czaplińska, D., Flinck, M., & Pedersen, S. F. (2024) · Journal of Endocrinology · doi:10.1530/joe-24-0099 · Cited by 6 · see citing works
Altered hepatic metabolic landscape and insulin sensitivity in response to pulmonary tuberculosis
Das, M., Savidge, B. O., Pearl, J. E., Yates, T. E., Miles, G. J., Pareek, M., Haldar, P., & Cooper, A. M. (2024) · PLoS Pathogens · doi:10.1371/journal.ppat.1012565 · Cited by 6 · see citing works
Cell-Type Resolved Insights into the Cis-Regulatory Genome of NAFLD
Dam, T. V., Toft, N. I., & Grøntved, L. (2022) · Cells · doi:10.3390/cells11050870 · Cited by 6 · see citing works
Modelling the Sorafenib-resistant Liver Cancer Microenvironment by Using 3-D Spheroids
Sarıyar, E., & Karagonlar, Z. F. (2023) · Alternatives to Laboratory Animals · doi:10.1177/02611929231193421 · Cited by 6 · see citing works
Taguchi, D., Shirakami, Y., Sakai, H., Maeda, T., Miwa, T., Kubota, M., Imai, K., Ibuka, T., & Shimizu, M. (2024) · Nutrients · doi:10.3390/nu16152506 · Cited by 5 · see citing works
Wang, G., Garcia, V., Lee, J., Yanum, J. A., Lin, J., Jiang, H., & Dai, G. (2022) · PLoS ONE · doi:10.1371/journal.pone.0269383 · Cited by 5 · see citing works
Ma, M., Wang, X., Liu, X., Han, Y., Chu, Y., Guan, Y., & Liu, H. (2023) · Archives of Pharmacal Research · doi:10.1007/s12272-023-01435-4 · Cited by 5 · see citing works
Sun, J., Shen, Y., Wang, X., Men, R., Xing, X., Lv, L., Yang, F., Shen, M., Zheng, Y., Fan, X., et al. (2025) · Journal of Nanobiotechnology · doi:10.1186/s12951-025-03940-8 · Cited by 4 · see citing works
Lipid-induced granules in hepatocytes alleviate liver fibrosis.
Li, Y., Lei, T., Nie, W., Ma, M.-R., Zhao, W., Zhou, Y., Liu, Y., Wang, M.-J., Jia, K.-W., Liu, S., et al. (2026) · Cell Metabolism · doi:10.1016/j.cmet.2025.12.015 · Cited by 4 · see citing works
Hung, Y.-H., Sritharan, R., Vohl, M., Ilkayeva, O., Biertho, L. D., Tchernof, A., White, P. J., & Sethupathy, P. (2021) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2021.08.20.457162 · Cited by 4 · see citing works
Indirubin alleviates CCl4-induced liver fibrosis by regulation of TGF-β-mediated signaling pathways.
Li, X., Yao, Y., & Lin, W. (2023) · PubMed Central · doi:10.22038/ijbms.2023.70476.15319 · Cited by 3 · see citing works
Wada, T., Takeda, Y., Okekawa, A., Komatsu, G., Iwasa, Y., Onogi, Y., Takasaki, I., Hamashima, T., Sasahara, M., Tsuneki, H., et al. (2024) · Scientific Reports · doi:10.1038/s41598-024-75713-6 · Cited by 3 · see citing works
Grandt, J., Johansen, C. D., Jensen, A. H., Werge, M. P., Rashu, E. B., Møller, A., Junker, A. E., Hobolth, L., Mortensen, C., Vyberg, M., et al. (2025) · PLoS ONE · doi:10.1371/journal.pone.0307345 · Cited by 3 · see citing works
Komiya, Y., Sugiyama, M., Koyama, C., Kameshima, S., Ochiai, M., Adachi, Y., Yokoyama, I., Fukasawa, H., Yoshioka, K., & Arihara, K. (2023) · Nutrition Research · doi:10.1016/j.nutres.2023.02.001 · Cited by 3 · see citing works
Wang, Y., Yu, H., Cen, Z., Zhu, Y., & Wu, W. (2023) · Metabolism Open · doi:10.1016/j.metop.2023.100267 · Cited by 3 · see citing works
In Silico Treatment: a computational framework for animal model selection and drug assessmentPreprint
Picart‐Armada, S., Becker, K., Kästle, M., Krenkel, O., Simon, E. S., Tenbaum, S. P., Strobel, B., Geillinger‐Kästle, K. E., Fundel‐Clemens, K., Matera, D., et al. (2024) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2024.06.17.599264 · Cited by 3 · see citing works
Transcriptional factor RUNX1: A potential therapeutic target for fibrotic pulmonary disease
LIU, J., WANG, F., YUAN, B., & Luo, F. (2023) · Biocell · doi:10.32604/biocell.2023.026148 · Cited by 2 · see citing works
- Authors
- Loft, A., Alfaro, A. J., Schmidt, S. F., Pedersen, F. B., Terkelsen, M. K., Puglia, M., Chow, K. K., Feuchtinger, A., Troullinaki, M., Maida, A., Wolff, G., Sakurai, M., Berutti, R., Ekim Üstünel, B., Nawroth, P., Ravnskjaer, K., Diaz, M. B., Blagoev, B., & Herzig, S.
- Affiliations
- University of Southern Denmark (DK)
- Heidelberg University (DE)
- Helmholtz Munich (DE)
- University Hospital Heidelberg (DE)
- Corresponding author
- Loft, Anne
- Herzig, Stephan
- ORCID
- Venue
- Cell Metabolism
- Publisher
- Elsevier BV
- Published
- 2021-08
- Volume
- 33
- Issue
- 8
- Pages
- 1685-1700.e9
- ISSN
- 1550-4131 (ISSN-L)
- OpenAlex
- W3180909105
- Cited by
- 129
- References
- 80
- Citations by year
- 2026: 12 · 2025: 17 · 2024: 38 · 2023: 36 · 2022: 22 · 2021: 4
- FWCI
- 18.02
- Type
- journal article
- Language
- en
- Open access
- bronze
- doi.org
- Licence
- www.elsevier.com/tdm/userlicense/1.0/ (tdm)
- www.elsevier.com/legal/tdmrep-license (tdm)
- www.elsevier.com/open-access/userlicense/1.0/ (vor, 367 d)
- doi.org/10.15223/policy-017 (stm-asf)
- doi.org/10.15223/policy-037 (stm-asf)
- doi.org/10.15223/policy-012 (stm-asf)
- doi.org/10.15223/policy-029 (stm-asf)
- doi.org/10.15223/policy-004 (stm-asf)
- Locations
- Cell Metabolism (publishedVersion)
- PubMed (publishedVersion)
- mediaTUM (Technical University of Munich) (submittedVersion)
- Site cant be reached (submittedVersion, other-oa)
- University of Southern Denmark Research Portal (University of Southern Denmark) (submittedVersion)
- Funders
- International Design Centre
- Deutsche Forschungsgemeinschaft (CRC) 1118)
- Exploratory Research Center on Life and Living Systems, National Institutes of Natural Sciences (DFF-6110-00265)
- Danmarks Grundforskningsfond (DNRF141)
- Shanxi Datong University
- Danmarks Frie Forskningsfond
- Novo Nordisk Fonden (NNF16OC0020742, NNF18OC0052768, NNFOC150019050)
- European Molecular Biology Organization (ALTF 897-2015)
- Topics
- Health Sciences › Medicine › Epidemiology › Liver Disease Diagnosis and Treatment
- Health Sciences › Medicine › Hepatology › Liver physiology and pathology
- Health Sciences › Medicine › Hepatology › Liver Diseases and Immunity
- Keywords
- liver fibrosis, nonalcoholic steatohepatitis, metabolic-associated fatty liver disease, hepatocyte reprogramming, ELF3, GLIS2, transcriptional regulatory networks, hepatokines, hepatic stellate cells
- MeSH terms
- Communication, Humans, Liver, Liver Cirrhosis, Hepatocytes, Gene Regulatory Networks, Non-alcoholic Fatty Liver Disease
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