publication . Article . 2018

pathobiochemical signatures of cholestatic liver disease in bile duct ligated mice

Abshagen Kerstin; König Matthias; Hoppe Andreas; Müller Isabell; Ebert Matthias; Weng Honglei; Holzhütter Herrmann-Georg; Zanger Ulrich M.; Bode Johannes; Vollmar Brigitte; ...
Open Access
  • Published: 13 Nov 2018 Journal: BMC Systems Biology, volume 9 (eissn: 1752-0509, Copyright policy)
  • Publisher: Springer Science and Business Media LLC
  • Country: United States
Abstract
Background Disrupted bile secretion leads to liver damage characterized by inflammation, fibrosis, eventually cirrhosis, and hepatocellular cancer. As obstructive cholestasis often progresses insidiously, markers for the diagnosis and staging of the disease are urgently needed. To this end, we compiled a comprehensive data set of serum markers, histological parameters and transcript profiles at 8 time points of disease progression after bile duct ligation (BDL) in mice, aiming at identifying a set of parameters that could be used as robust biomarkers for transition of different disease progression phases. Results Statistical analysis of the more than 6,000 data ...
Subjects
free text keywords: 570, 570 Life sciences, 610, 610 Medical sciences Medicine, Modelling and Simulation, Applied Mathematics, Molecular Biology, Structural Biology, Computer Science Applications, TIMP1, Cholestasis, medicine.disease, medicine, Bile duct, medicine.anatomical_structure, Disease, Fibrosis, Bioinformatics, Cirrhosis, Liver injury, Immunology, Biomarker (medicine), Biology, Pathology, medicine.medical_specialty, Research Article, Mouse, Systems biology, Cell proliferation, Bile duct ligation, Morphological profiling, Virtual liver network
45 references, page 1 of 3

Wang, H, Vohra, BPS, Zhang, Y, Heuckeroth, RO. Transcriptional profiling after bile duct ligation identifies PAI-1 as a contributor to cholestatic injury in mice. Hepatology. 2005; 42 (5): 1099-1108 [OpenAIRE] [PubMed] [DOI]

Woolbright, BL, Antoine, DJ, Jenkins, RE, Bajt, ML, Park, BK, Jaeschke, H. Plasma biomarkers of liver injury and inflammation demonstrate a lack of apoptosis during obstructive cholestasis in mice. Toxicol Appl Pharmacol. 2013; 273 (3): 524-531 [OpenAIRE] [PubMed] [DOI]

Lindblad, L, Lundholm, K, Schersten, T. Bile acid concentrations in systemic and portal serum in presumably normal man and in cholestatic and cirrhotic conditions. Scand J Gastroenterol. 1977; 12 (4): 395-400 [OpenAIRE] [PubMed] [DOI]

Trauner, M, Meier, PJ, Boyer, JL. Molecular pathogenesis of cholestasis. N Engl J Med. 1998; 339 (17): 1217-27 [OpenAIRE] [PubMed] [DOI]

Nguyen, KD, Sundaram, V, Ayoub, WS. Atypical causes of cholestasis. World J Gastroenterol. 2014; 20 (28): 9418-9426 [OpenAIRE] [PubMed]

6.Tag CG, Sauer-Lehnen S, Weiskirchen S, Borkham-Kamphorst E, Tolba RH, Tacke F, et al. Bile duct ligation in mice: induction of inflammatory liver injury and fibrosis by obstructive cholestasis. J Vis Exp. 2015;96.

Georgiev, P, Jochum, W, Heinrich, S, Jang, JH, Nocito, A, Dahm, F, Clavien, P-A. Characterization of time-related changes after experimental bile duct ligation. Br J Surg. 2008; 95 (5): 646-656 [OpenAIRE] [PubMed] [DOI]

Huss, S, Schmitz, J, Goltz, D, Fischer, H-P, Büttner, R, Weiskirchen, R. Development and evaluation of an open source Delphi-based software for morphometric quantification of liver fibrosis. Fibrogenesis Tissue Repair. 2010; 3 (1): 10 [OpenAIRE] [PubMed] [DOI]

Tanaka, A, Tsuneyama, K, Mikami, M, Uegaki, S, Aiso, M, Takikawa, H. Gene expression profiling in whole liver of bile duct ligated rats: VEGF-A expression is up-regulated in hepatocytes adjacent to the portal tracts. J Gastroenterol Hepatol. 2007; 22 (11): 1993-2000 [OpenAIRE] [PubMed] [DOI]

Spurgeon, SL, Jones, RC, Ramakrishnan, R. High throughput gene expression measurement with real time PCR in a microfluidic dynamic array. PLoS One. 2008; 3 (2) [OpenAIRE] [PubMed] [DOI]

11.Holm S. A simple sequentially rejective multiple test procedure. Scand J Stat. 1979.

Son, YS, Baek, J. A modified correlation coefficient based similarity measure for clustering time-course gene expression data. Pattern Recogn Lett. 2008; 29 (3): 232-242 [OpenAIRE] [DOI]

Jaskowiak, PA, Campello, RJGB, Costa, IG. On the selection of appropriate distances for gene expression data clustering. BMC Bioinforma. 2014; 15 (2): S2 [OpenAIRE] [DOI]

Jaskowiak, PA, Campello, RJGB, Costa, IG. Proximity measures for clustering gene expression microarray data: a validation methodology and a comparative analysis. IEEE/ACM Trans Comput Biol Bioinform. 2013; 10 (4): 845-857 [PubMed] [DOI]

15.Breiman L, Friedman J, Stone CJ, Olshen RA. Classification and regression trees. CRC press; 1984.

45 references, page 1 of 3
Abstract
Background Disrupted bile secretion leads to liver damage characterized by inflammation, fibrosis, eventually cirrhosis, and hepatocellular cancer. As obstructive cholestasis often progresses insidiously, markers for the diagnosis and staging of the disease are urgently needed. To this end, we compiled a comprehensive data set of serum markers, histological parameters and transcript profiles at 8 time points of disease progression after bile duct ligation (BDL) in mice, aiming at identifying a set of parameters that could be used as robust biomarkers for transition of different disease progression phases. Results Statistical analysis of the more than 6,000 data ...
Subjects
free text keywords: 570, 570 Life sciences, 610, 610 Medical sciences Medicine, Modelling and Simulation, Applied Mathematics, Molecular Biology, Structural Biology, Computer Science Applications, TIMP1, Cholestasis, medicine.disease, medicine, Bile duct, medicine.anatomical_structure, Disease, Fibrosis, Bioinformatics, Cirrhosis, Liver injury, Immunology, Biomarker (medicine), Biology, Pathology, medicine.medical_specialty, Research Article, Mouse, Systems biology, Cell proliferation, Bile duct ligation, Morphological profiling, Virtual liver network
45 references, page 1 of 3

Wang, H, Vohra, BPS, Zhang, Y, Heuckeroth, RO. Transcriptional profiling after bile duct ligation identifies PAI-1 as a contributor to cholestatic injury in mice. Hepatology. 2005; 42 (5): 1099-1108 [OpenAIRE] [PubMed] [DOI]

Woolbright, BL, Antoine, DJ, Jenkins, RE, Bajt, ML, Park, BK, Jaeschke, H. Plasma biomarkers of liver injury and inflammation demonstrate a lack of apoptosis during obstructive cholestasis in mice. Toxicol Appl Pharmacol. 2013; 273 (3): 524-531 [OpenAIRE] [PubMed] [DOI]

Lindblad, L, Lundholm, K, Schersten, T. Bile acid concentrations in systemic and portal serum in presumably normal man and in cholestatic and cirrhotic conditions. Scand J Gastroenterol. 1977; 12 (4): 395-400 [OpenAIRE] [PubMed] [DOI]

Trauner, M, Meier, PJ, Boyer, JL. Molecular pathogenesis of cholestasis. N Engl J Med. 1998; 339 (17): 1217-27 [OpenAIRE] [PubMed] [DOI]

Nguyen, KD, Sundaram, V, Ayoub, WS. Atypical causes of cholestasis. World J Gastroenterol. 2014; 20 (28): 9418-9426 [OpenAIRE] [PubMed]

6.Tag CG, Sauer-Lehnen S, Weiskirchen S, Borkham-Kamphorst E, Tolba RH, Tacke F, et al. Bile duct ligation in mice: induction of inflammatory liver injury and fibrosis by obstructive cholestasis. J Vis Exp. 2015;96.

Georgiev, P, Jochum, W, Heinrich, S, Jang, JH, Nocito, A, Dahm, F, Clavien, P-A. Characterization of time-related changes after experimental bile duct ligation. Br J Surg. 2008; 95 (5): 646-656 [OpenAIRE] [PubMed] [DOI]

Huss, S, Schmitz, J, Goltz, D, Fischer, H-P, Büttner, R, Weiskirchen, R. Development and evaluation of an open source Delphi-based software for morphometric quantification of liver fibrosis. Fibrogenesis Tissue Repair. 2010; 3 (1): 10 [OpenAIRE] [PubMed] [DOI]

Tanaka, A, Tsuneyama, K, Mikami, M, Uegaki, S, Aiso, M, Takikawa, H. Gene expression profiling in whole liver of bile duct ligated rats: VEGF-A expression is up-regulated in hepatocytes adjacent to the portal tracts. J Gastroenterol Hepatol. 2007; 22 (11): 1993-2000 [OpenAIRE] [PubMed] [DOI]

Spurgeon, SL, Jones, RC, Ramakrishnan, R. High throughput gene expression measurement with real time PCR in a microfluidic dynamic array. PLoS One. 2008; 3 (2) [OpenAIRE] [PubMed] [DOI]

11.Holm S. A simple sequentially rejective multiple test procedure. Scand J Stat. 1979.

Son, YS, Baek, J. A modified correlation coefficient based similarity measure for clustering time-course gene expression data. Pattern Recogn Lett. 2008; 29 (3): 232-242 [OpenAIRE] [DOI]

Jaskowiak, PA, Campello, RJGB, Costa, IG. On the selection of appropriate distances for gene expression data clustering. BMC Bioinforma. 2014; 15 (2): S2 [OpenAIRE] [DOI]

Jaskowiak, PA, Campello, RJGB, Costa, IG. Proximity measures for clustering gene expression microarray data: a validation methodology and a comparative analysis. IEEE/ACM Trans Comput Biol Bioinform. 2013; 10 (4): 845-857 [PubMed] [DOI]

15.Breiman L, Friedman J, Stone CJ, Olshen RA. Classification and regression trees. CRC press; 1984.

45 references, page 1 of 3
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publication . Article . 2018

pathobiochemical signatures of cholestatic liver disease in bile duct ligated mice

Abshagen Kerstin; König Matthias; Hoppe Andreas; Müller Isabell; Ebert Matthias; Weng Honglei; Holzhütter Herrmann-Georg; Zanger Ulrich M.; Bode Johannes; Vollmar Brigitte; ...