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Items: 47

1.

Quantitative agent-based modeling reveals mechanical stress response of growing tumor spheroids is predictable over various growth conditions and cell lines.

Van Liedekerke P, Neitsch J, Johann T, Alessandri K, Nassoy P, Drasdo D.

PLoS Comput Biol. 2019 Mar 8;15(3):e1006273. doi: 10.1371/journal.pcbi.1006273. [Epub ahead of print]

2.

Bile Microinfarcts in Cholestasis Are Initiated by Rupture of the Apical Hepatocyte Membrane and Cause Shunting of Bile to Sinusoidal Blood.

Ghallab A, Hofmann U, Sezgin S, Vartak N, Hassan R, Zaza A, Godoy P, Schneider KM, Guenther G, Ahmed YA, Abbas AA, Keitel V, Kuepfer L, Dooley S, Lammert F, Trautwein C, Spiteller M, Drasdo D, Hofmann AF, Jansen PLM, Hengstler JG, Reif R.

Hepatology. 2019 Feb;69(2):666-683. doi: 10.1002/hep.30213. Epub 2018 Nov 19.

PMID:
30102412
3.

Model Prediction and Validation of an Order Mechanism Controlling the Spatiotemporal Phenotype of Early Hepatocellular Carcinoma.

Hoehme S, Bertaux F, Weens W, Grasl-Kraupp B, Hengstler JG, Drasdo D.

Bull Math Biol. 2018 May;80(5):1134-1171. doi: 10.1007/s11538-017-0375-1. Epub 2018 Mar 22.

PMID:
29568983
4.

Quantitative analysis of hepatic macro- and microvascular alterations during cirrhogenesis in the rat.

Peeters G, Debbaut C, Friebel A, Cornillie P, De Vos WH, Favere K, Vander Elst I, Vandecasteele T, Johann T, Van Hoorebeke L, Monbaliu D, Drasdo D, Hoehme S, Laleman W, Segers P.

J Anat. 2018 Mar;232(3):485-496. doi: 10.1111/joa.12760. Epub 2017 Dec 4.

PMID:
29205328
5.

Adverse outcome pathways: opportunities, limitations and open questions.

Leist M, Ghallab A, Graepel R, Marchan R, Hassan R, Bennekou SH, Limonciel A, Vinken M, Schildknecht S, Waldmann T, Danen E, van Ravenzwaay B, Kamp H, Gardner I, Godoy P, Bois FY, Braeuning A, Reif R, Oesch F, Drasdo D, Höhme S, Schwarz M, Hartung T, Braunbeck T, Beltman J, Vrieling H, Sanz F, Forsby A, Gadaleta D, Fisher C, Kelm J, Fluri D, Ecker G, Zdrazil B, Terron A, Jennings P, van der Burg B, Dooley S, Meijer AH, Willighagen E, Martens M, Evelo C, Mombelli E, Taboureau O, Mantovani A, Hardy B, Koch B, Escher S, van Thriel C, Cadenas C, Kroese D, van de Water B, Hengstler JG.

Arch Toxicol. 2017 Nov;91(11):3477-3505. doi: 10.1007/s00204-017-2045-3. Epub 2017 Oct 19. Review.

PMID:
29051992
6.

Tumor Cell Load and Heterogeneity Estimation From Diffusion-Weighted MRI Calibrated With Histological Data: an Example From Lung Cancer.

Yin Y, Sedlaczek O, Muller B, Warth A, Gonzalez-Vallinas M, Lahrmann B, Grabe N, Kauczor HU, Breuhahn K, Vignon-Clementel IE, Drasdo D.

IEEE Trans Med Imaging. 2018 Jan;37(1):35-46. doi: 10.1109/TMI.2017.2698525. Epub 2017 Apr 27.

PMID:
28463188
7.

Modulating Portal Hemodynamics With Vascular Ring Allows Efficient Regeneration After Partial Hepatectomy in a Porcine Model.

Bucur PO, Bekheit M, Audebert C, Othman A, Hammad S, Sebagh M, Allard MA, Decante B, Friebel A, Miquelestorena-Standley E, Drasdo D, Hengstler JG, Vignon-Clementel IE, Vibert E.

Ann Surg. 2018 Jul;268(1):134-142. doi: 10.1097/SLA.0000000000002146.

PMID:
28151798
8.

Creation of Three-Dimensional Liver Tissue Models from Experimental Images for Systems Medicine.

Hoehme S, Friebel A, Hammad S, Drasdo D, Hengstler JG.

Methods Mol Biol. 2017;1506:319-362.

PMID:
27830563
9.

Inferring Growth Control Mechanisms in Growing Multi-cellular Spheroids of NSCLC Cells from Spatial-Temporal Image Data.

Jagiella N, Müller B, Müller M, Vignon-Clementel IE, Drasdo D.

PLoS Comput Biol. 2016 Feb 11;12(2):e1004412. doi: 10.1371/journal.pcbi.1004412. eCollection 2016 Feb.

10.

Model-guided identification of a therapeutic strategy to reduce hyperammonemia in liver diseases.

Ghallab A, Cellière G, Henkel SG, Driesch D, Hoehme S, Hofmann U, Zellmer S, Godoy P, Sachinidis A, Blaszkewicz M, Reif R, Marchan R, Kuepfer L, Häussinger D, Drasdo D, Gebhardt R, Hengstler JG.

J Hepatol. 2016 Apr;64(4):860-71. doi: 10.1016/j.jhep.2015.11.018. Epub 2015 Nov 27.

11.

Concomitant expression of far upstream element (FUSE) binding protein (FBP) interacting repressor (FIR) and its splice variants induce migration and invasion of non-small cell lung cancer (NSCLC) cells.

Müller B, Bovet M, Yin Y, Stichel D, Malz M, González-Vallinas M, Middleton A, Ehemann V, Schmitt J, Muley T, Meister M, Herpel E, Singer S, Warth A, Schirmacher P, Drasdo D, Matthäus F, Breuhahn K.

J Pathol. 2015 Nov;237(3):390-401. doi: 10.1002/path.4588. Epub 2015 Sep 8.

PMID:
26177862
12.

TiQuant: software for tissue analysis, quantification and surface reconstruction.

Friebel A, Neitsch J, Johann T, Hammad S, Hengstler JG, Drasdo D, Hoehme S.

Bioinformatics. 2015 Oct 1;31(19):3234-6. doi: 10.1093/bioinformatics/btv346. Epub 2015 Jun 3.

PMID:
26040455
13.

Unraveling liver complexity from molecular to organ level: challenges and perspectives.

D'Alessandro LA, Hoehme S, Henney A, Drasdo D, Klingmüller U.

Prog Biophys Mol Biol. 2015 Jan;117(1):78-86. doi: 10.1016/j.pbiomolbio.2014.11.005. Epub 2014 Nov 26. Review.

PMID:
25433231
14.

Modeling dynamics of cell-to-cell variability in TRAIL-induced apoptosis explains fractional killing and predicts reversible resistance.

Bertaux F, Stoma S, Drasdo D, Batt G.

PLoS Comput Biol. 2014 Oct 23;10(10):e1003893. doi: 10.1371/journal.pcbi.1003893. eCollection 2014 Oct.

15.

The virtual liver: state of the art and future perspectives.

Drasdo D, Bode J, Dahmen U, Dirsch O, Dooley S, Gebhardt R, Ghallab A, Godoy P, Häussinger D, Hammad S, Hoehme S, Holzhütter HG, Klingmüller U, Kuepfer L, Timmer J, Zerial M, Hengstler JG.

Arch Toxicol. 2014 Dec;88(12):2071-5. doi: 10.1007/s00204-014-1384-6. No abstract available.

PMID:
25331938
16.

Enabling multiscale modeling in systems medicine.

Wolkenhauer O, Auffray C, Brass O, Clairambault J, Deutsch A, Drasdo D, Gervasio F, Preziosi L, Maini P, Marciniak-Czochra A, Kossow C, Kuepfer L, Rateitschak K, Ramis-Conde I, Ribba B, Schuppert A, Smallwood R, Stamatakos G, Winter F, Byrne H.

Genome Med. 2014 Mar 21;6(3):21. doi: 10.1186/gm538. eCollection 2014. No abstract available.

17.

How predictive quantitative modelling of tissue organisation can inform liver disease pathogenesis.

Drasdo D, Hoehme S, Hengstler JG.

J Hepatol. 2014 Oct;61(4):951-6. doi: 10.1016/j.jhep.2014.06.013. Epub 2014 Jun 17.

18.

Protocols for staining of bile canalicular and sinusoidal networks of human, mouse and pig livers, three-dimensional reconstruction and quantification of tissue microarchitecture by image processing and analysis.

Hammad S, Hoehme S, Friebel A, von Recklinghausen I, Othman A, Begher-Tibbe B, Reif R, Godoy P, Johann T, Vartak A, Golka K, Bucur PO, Vibert E, Marchan R, Christ B, Dooley S, Meyer C, Ilkavets I, Dahmen U, Dirsch O, Böttger J, Gebhardt R, Drasdo D, Hengstler JG.

Arch Toxicol. 2014 May;88(5):1161-83. doi: 10.1007/s00204-014-1243-5. Epub 2014 Apr 19.

19.

Integrated metabolic spatial-temporal model for the prediction of ammonia detoxification during liver damage and regeneration.

Schliess F, Hoehme S, Henkel SG, Ghallab A, Driesch D, Böttger J, Guthke R, Pfaff M, Hengstler JG, Gebhardt R, Häussinger D, Drasdo D, Zellmer S.

Hepatology. 2014 Dec;60(6):2040-51. doi: 10.1002/hep.27136. Epub 2014 May 12.

20.

Estimating dose painting effects in radiotherapy: a mathematical model.

Alfonso JC, Jagiella N, Núñez L, Herrero MA, Drasdo D.

PLoS One. 2014 Feb 26;9(2):e89380. doi: 10.1371/journal.pone.0089380. eCollection 2014.

21.

Recent advances in 2D and 3D in vitro systems using primary hepatocytes, alternative hepatocyte sources and non-parenchymal liver cells and their use in investigating mechanisms of hepatotoxicity, cell signaling and ADME.

Godoy P, Hewitt NJ, Albrecht U, Andersen ME, Ansari N, Bhattacharya S, Bode JG, Bolleyn J, Borner C, Böttger J, Braeuning A, Budinsky RA, Burkhardt B, Cameron NR, Camussi G, Cho CS, Choi YJ, Craig Rowlands J, Dahmen U, Damm G, Dirsch O, Donato MT, Dong J, Dooley S, Drasdo D, Eakins R, Ferreira KS, Fonsato V, Fraczek J, Gebhardt R, Gibson A, Glanemann M, Goldring CE, Gómez-Lechón MJ, Groothuis GM, Gustavsson L, Guyot C, Hallifax D, Hammad S, Hayward A, Häussinger D, Hellerbrand C, Hewitt P, Hoehme S, Holzhütter HG, Houston JB, Hrach J, Ito K, Jaeschke H, Keitel V, Kelm JM, Kevin Park B, Kordes C, Kullak-Ublick GA, LeCluyse EL, Lu P, Luebke-Wheeler J, Lutz A, Maltman DJ, Matz-Soja M, McMullen P, Merfort I, Messner S, Meyer C, Mwinyi J, Naisbitt DJ, Nussler AK, Olinga P, Pampaloni F, Pi J, Pluta L, Przyborski SA, Ramachandran A, Rogiers V, Rowe C, Schelcher C, Schmich K, Schwarz M, Singh B, Stelzer EH, Stieger B, Stöber R, Sugiyama Y, Tetta C, Thasler WE, Vanhaecke T, Vinken M, Weiss TS, Widera A, Woods CG, Xu JJ, Yarborough KM, Hengstler JG.

Arch Toxicol. 2013 Aug;87(8):1315-530. doi: 10.1007/s00204-013-1078-5. Epub 2013 Aug 23. Review.

22.

From genotypes to phenotypes: classification of the tumour profiles for different variants of the cadherin adhesion pathway.

Ramis-Conde I, Drasdo D.

Phys Biol. 2012 Jun;9(3):036008. doi: 10.1088/1478-3975/9/3/036008. Epub 2012 Jun 8.

PMID:
22683697
23.

The virtual liver: a multidisciplinary, multilevel challenge for systems biology.

Holzhütter HG, Drasdo D, Preusser T, Lippert J, Henney AM.

Wiley Interdiscip Rev Syst Biol Med. 2012 May-Jun;4(3):221-35. doi: 10.1002/wsbm.1158. Epub 2012 Jan 13.

PMID:
22246674
24.

Phenotype and growth behavior of residual β-catenin-positive hepatocytes in livers of β-catenin-deficient mice.

Braeuning A, Singh Y, Rignall B, Buchmann A, Hammad S, Othman A, von Recklinghausen I, Godoy P, Hoehme S, Drasdo D, Hengstler JG, Schwarz M.

Histochem Cell Biol. 2010 Nov;134(5):469-81. doi: 10.1007/s00418-010-0747-1. Epub 2010 Oct 1.

PMID:
20886225
25.

A cell-based simulation software for multi-cellular systems.

Hoehme S, Drasdo D.

Bioinformatics. 2010 Oct 15;26(20):2641-2. doi: 10.1093/bioinformatics/btq437. Epub 2010 Aug 13.

26.

Individual fates of mesenchymal stem cells in vitro.

Krinner A, Hoffmann M, Loeffler M, Drasdo D, Galle J.

BMC Syst Biol. 2010 May 27;4:73. doi: 10.1186/1752-0509-4-73.

27.

Prediction and validation of cell alignment along microvessels as order principle to restore tissue architecture in liver regeneration.

Hoehme S, Brulport M, Bauer A, Bedawy E, Schormann W, Hermes M, Puppe V, Gebhardt R, Zellmer S, Schwarz M, Bockamp E, Timmel T, Hengstler JG, Drasdo D.

Proc Natl Acad Sci U S A. 2010 Jun 8;107(23):10371-6. doi: 10.1073/pnas.0909374107. Epub 2010 May 19.

28.

Systems biologists seek fuller integration of systems biology approaches in new cancer research programs.

Wolkenhauer O, Auffray C, Baltrusch S, Blüthgen N, Byrne H, Cascante M, Ciliberto A, Dale T, Drasdo D, Fell D, Ferrell JE Jr, Gallahan D, Gatenby R, Günther U, Harms BD, Herzel H, Junghanss C, Kunz M, van Leeuwen I, Lenormand P, Levi F, Linnebacher M, Lowengrub J, Maini PK, Malik A, Rateitschak K, Sansom O, Schäfer R, Schürrle K, Sers C, Schnell S, Shibata D, Tyson J, Vera J, White M, Zhivotovsky B, Jaster R.

Cancer Res. 2010 Jan 1;70(1):12-3. doi: 10.1158/0008-5472.CAN-09-2676. Epub 2009 Dec 22.

29.

Impact of oxygen environment on mesenchymal stem cell expansion and chondrogenic differentiation.

Krinner A, Zscharnack M, Bader A, Drasdo D, Galle J.

Cell Prolif. 2009 Aug;42(4):471-84. doi: 10.1111/j.1365-2184.2009.00621.x.

PMID:
19594581
30.

Comparing the growth kinetics of cell populations in two and three dimensions.

Radszuweit M, Block M, Hengstler JG, Schöll E, Drasdo D.

Phys Rev E Stat Nonlin Soft Matter Phys. 2009 May;79(5 Pt 1):051907. Epub 2009 May 12.

PMID:
19518480
31.

Multi-scale modelling of cancer cell intravasation: the role of cadherins in metastasis.

Ramis-Conde I, Chaplain MA, Anderson AR, Drasdo D.

Phys Biol. 2009 Mar 25;6(1):016008. doi: 10.1088/1478-3975/6/1/016008.

PMID:
19321920
32.

Individual-based and continuum models of growing cell populations: a comparison.

Byrne H, Drasdo D.

J Math Biol. 2009 Apr;58(4-5):657-87. doi: 10.1007/s00285-008-0212-0. Epub 2008 Oct 8.

PMID:
18841363
33.

Modeling the influence of the E-cadherin-beta-catenin pathway in cancer cell invasion: a multiscale approach.

Ramis-Conde I, Drasdo D, Anderson AR, Chaplain MA.

Biophys J. 2008 Jul;95(1):155-65. doi: 10.1529/biophysj.107.114678. Epub 2008 Mar 13.

34.

Classifying the expansion kinetics and critical surface dynamics of growing cell populations.

Block M, Schöll E, Drasdo D.

Phys Rev Lett. 2007 Dec 14;99(24):248101. Epub 2007 Dec 10.

PMID:
18233492
35.

Shape characterization of extracted and simulated tumor samples using topological and geometric measures.

Rohrschneider M, Scheuermann G, Hoehme S, Drasdo D.

Conf Proc IEEE Eng Med Biol Soc. 2007;2007:6272-8.

PMID:
18003455
36.

Mathematical modelling of liver regeneration after intoxication with CCl(4).

Höhme S, Hengstler JG, Brulport M, Schäfer M, Bauer A, Gebhardt R, Drasdo D.

Chem Biol Interact. 2007 May 20;168(1):74-93. Epub 2007 Feb 2.

PMID:
17442287
37.

Individual cell-based models of the spatial-temporal organization of multicellular systems--achievements and limitations.

Galle J, Aust G, Schaller G, Beyer T, Drasdo D.

Cytometry A. 2006 Jul;69(7):704-10. Review.

38.

Gene network inference from incomplete expression data: transcriptional control of hematopoietic commitment.

Missal K, Cross MA, Drasdo D.

Bioinformatics. 2006 Mar 15;22(6):731-8. Epub 2005 Dec 6.

PMID:
16332705
39.

A single-cell-based model of tumor growth in vitro: monolayers and spheroids.

Drasdo D, Höhme S.

Phys Biol. 2005 Jul 12;2(3):133-47.

PMID:
16224119
40.
41.
42.

Buckling instabilities of one-layered growing tissues.

Drasdo D.

Phys Rev Lett. 2000 May 1;84(18):4244-7.

PMID:
10990656
43.

Scaling laws and similarity detection in sequence alignment with gaps.

Drasdo D, Hwa T, Lässig M.

J Comput Biol. 2000 Feb-Apr;7(1-2):115-41.

PMID:
10890391
44.

A statistical theory of sequence alignment with gaps.

Drasdo D, Hwa T, Lässig M.

Proc Int Conf Intell Syst Mol Biol. 1998;6:52-8.

PMID:
9783209
45.

Monte Carlo approach to tissue-cell populations.

Drasdo D, Kree R, McCaskill JS.

Phys Rev E Stat Phys Plasmas Fluids Relat Interdiscip Topics. 1995 Dec;52(6):6635-6657. No abstract available.

PMID:
9964180
46.

Solvation of platinum anti-cancer drugs in methanol-water mixtures.

Burgess J, Drasdo DN, Patel MS.

Biometals. 1995 Apr;8(2):137-41.

PMID:
7734926
47.

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