Pesquisa | BVS Educação Profissional em Saúde

1.

kboolnet: a toolkit for the verification, validation, and visualization of reaction-contingency (rxncon) models.

Carretero Chavez, Willow; Krantz, Marcus; Klipp, Edda; Kufareva, Irina.

BMC Bioinformatics ; 24(1): 246, 2023 Jun 12.

Artigo em Inglês | MEDLINE | ID: mdl-37308855

2.

Identification of periodic attractors in Boolean networks using a priori information.

Münzner, Ulrike; Mori, Tomoya; Krantz, Marcus; Klipp, Edda; Akutsu, Tatsuya.

PLoS Comput Biol ; 18(1): e1009702, 2022 01.

Artigo em Inglês | MEDLINE | ID: mdl-35030172

3.

A yeast cell cycle model integrating stress, signaling, and physiology.

Adler, Stephan O; Spiesser, Thomas W; Uschner, Friedemann; Münzner, Ulrike; Hahn, Jens; Krantz, Marcus; Klipp, Edda.

FEMS Yeast Res ; 22(1)2022 06 30.

Artigo em Inglês | MEDLINE | ID: mdl-35617157

4.

Bud-Localization of CLB2 mRNA Can Constitute a Growth Rate Dependent Daughter Sizer.

Spiesser, Thomas W; Kühn, Clemens; Krantz, Marcus; Klipp, Edda.

PLoS Comput Biol ; 11(4): e1004223, 2015 Apr.

Artigo em Inglês | MEDLINE | ID: mdl-25910075

5.

Bridging the gaps in systems biology.

Cvijovic, Marija; Almquist, Joachim; Hagmar, Jonas; Hohmann, Stefan; Kaltenbach, Hans-Michael; Klipp, Edda; Krantz, Marcus; Mendes, Pedro; Nelander, Sven; Nielsen, Jens; Pagnani, Andrea; Przulj, Natasa; Raue, Andreas; Stelling, Jörg; Stoma, Szymon; Tobin, Frank; Wodke, Judith A H; Zecchina, Riccardo; Jirstrand, Mats.

Mol Genet Genomics ; 289(5): 727-34, 2014 Oct.

Artigo em Inglês | MEDLINE | ID: mdl-24728588

6.

Biographer: web-based editing and rendering of SBGN compliant biochemical networks.

Krause, Falko; Schulz, Marvin; Ripkens, Ben; Flöttmann, Max; Krantz, Marcus; Klipp, Edda; Handorf, Thomas.

Bioinformatics ; 29(11): 1467-8, 2013 Jun 01.

Artigo em Inglês | MEDLINE | ID: mdl-23574737

7.

A Monte Carlo evaluation of beam characteristics for total body irradiation at extended treatment distances.

Chakarova, Roumiana; Krantz, Marcus.

J Appl Clin Med Phys ; 15(3): 4708, 2014 May 08.

Artigo em Inglês | MEDLINE | ID: mdl-24892344

8.

A framework for mapping, visualisation and automatic model creation of signal-transduction networks.

Tiger, Carl-Fredrik; Krause, Falko; Cedersund, Gunnar; Palmér, Robert; Klipp, Edda; Hohmann, Stefan; Kitano, Hiroaki; Krantz, Marcus.

Mol Syst Biol ; 8: 578, 2012 Apr 24.

Artigo em Inglês | MEDLINE | ID: mdl-22531118

9.

A detailed molecular network map and model of the NLRP3 inflammasome.

Krantz, Marcus; Eklund, Daniel; Särndahl, Eva; Hedbrant, Alexander.

Front Immunol ; 14: 1233680, 2023.

Artigo em Inglês | MEDLINE | ID: mdl-38077364

10.

Time course gene expression profiling of yeast spore germination reveals a network of transcription factors orchestrating the global response.

Geijer, Cecilia; Pirkov, Ivan; Vongsangnak, Wanwipa; Ericsson, Abraham; Nielsen, Jens; Krantz, Marcus; Hohmann, Stefan.

BMC Genomics ; 13: 554, 2012 Oct 15.

Artigo em Inglês | MEDLINE | ID: mdl-23066959

11.

Robustness and fragility in the yeast high osmolarity glycerol (HOG) signal-transduction pathway.

Krantz, Marcus; Ahmadpour, Doryaneh; Ottosson, Lars-Göran; Warringer, Jonas; Waltermann, Christian; Nordlander, Bodil; Klipp, Edda; Blomberg, Anders; Hohmann, Stefan; Kitano, Hiroaki.

Mol Syst Biol ; 5: 281, 2009.

Artigo em Inglês | MEDLINE | ID: mdl-19536204

12.

A scalable method for parameter-free simulation and validation of mechanistic cellular signal transduction network models.

Romers, Jesper; Thieme, Sebastian; Münzner, Ulrike; Krantz, Marcus.

NPJ Syst Biol Appl ; 6: 2, 2020.

Artigo em Inglês | MEDLINE | ID: mdl-31934349

13.

A comprehensive, mechanistically detailed, and executable model of the cell division cycle in Saccharomyces cerevisiae.

Münzner, Ulrike; Klipp, Edda; Krantz, Marcus.

Nat Commun ; 10(1): 1308, 2019 03 21.

Artigo em Inglês | MEDLINE | ID: mdl-30899000

14.

Using rxncon to Develop Rule-Based Models.

Romers, Jesper; Thieme, Sebastian; Münzner, Ulrike; Krantz, Marcus.

Methods Mol Biol ; 1945: 71-118, 2019.

Artigo em Inglês | MEDLINE | ID: mdl-30945243

15.

Systems biology of microorganisms. Preface.

Krantz, Marcus; Hohmann, Stefan.

Biochim Biophys Acta ; 1810(10): 913, 2011 Oct.

Artigo em Inglês | MEDLINE | ID: mdl-21791236

16.

Yeast osmoregulation.

Hohmann, Stefan; Krantz, Marcus; Nordlander, Bodil.

Methods Enzymol ; 428: 29-45, 2007.

Artigo em Inglês | MEDLINE | ID: mdl-17875410

17.

The MYpop toolbox: Putting yeast stress responses in cellular context on single cell and population scales.

Spiesser, Thomas; Kühn, Clemens; Krantz, Marcus; Klipp, Edda.

Biotechnol J ; 11(9): 1158-68, 2016 Sep.

Artigo em Inglês | MEDLINE | ID: mdl-26952199

18.

Strategies for structuring interdisciplinary education in Systems Biology: an European perspective.

Cvijovic, Marija; Höfer, Thomas; Acimovic, Jure; Alberghina, Lilia; Almaas, Eivind; Besozzi, Daniela; Blomberg, Anders; Bretschneider, Till; Cascante, Marta; Collin, Olivier; de Atauri, Pedro; Depner, Cornelia; Dickinson, Robert; Dobrzynski, Maciej; Fleck, Christian; Garcia-Ojalvo, Jordi; Gonze, Didier; Hahn, Jens; Hess, Heide Marie; Hollmann, Susanne; Krantz, Marcus; Kummer, Ursula; Lundh, Torbjörn; Martial, Gifta; Dos Santos, Vítor Martins; Mauer-Oberthür, Angela; Regierer, Babette; Skene, Barbara; Stalidzans, Egils; Stelling, Jörg; Teusink, Bas; Workman, Christopher T; Hohmann, Stefan.

NPJ Syst Biol Appl ; 2: 16011, 2016.

Artigo em Inglês | MEDLINE | ID: mdl-28725471

19.

Toward Community Standards and Software for Whole-Cell Modeling.

Waltemath, Dagmar; Karr, Jonathan R; Bergmann, Frank T; Chelliah, Vijayalakshmi; Hucka, Michael; Krantz, Marcus; Liebermeister, Wolfram; Mendes, Pedro; Myers, Chris J; Pir, Pinar; Alaybeyoglu, Begum; Aranganathan, Naveen K; Baghalian, Kambiz; Bittig, Arne T; Burke, Paulo E Pinto; Cantarelli, Matteo; Chew, Yin Hoon; Costa, Rafael S; Cursons, Joseph; Czauderna, Tobias; Goldberg, Arthur P; Gomez, Harold F; Hahn, Jens; Hameri, Tuure; Gardiol, Daniel F Hernandez; Kazakiewicz, Denis; Kiselev, Ilya; Knight-Schrijver, Vincent; Knupfer, Christian; Konig, Matthias; Lee, Daewon; Lloret-Villas, Audald; Mandrik, Nikita; Medley, J Kyle; Moreau, Bertrand; Naderi-Meshkin, Hojjat; Palaniappan, Sucheendra K; Priego-Espinosa, Daniel; Scharm, Martin; Sharma, Mahesh; Smallbone, Kieran; Stanford, Natalie J; Song, Je-Hoon; Theile, Tom; Tokic, Milenko; Tomar, Namrata; Toure, Vasundra; Uhlendorf, Jannis; Varusai, Thawfeek M; Watanabe, Leandro H.

IEEE Trans Biomed Eng ; 63(10): 2007-14, 2016 10.

Artigo em Inglês | MEDLINE | ID: mdl-27305665

20.

Stochastic simulation of Boolean rxncon models: towards quantitative analysis of large signaling networks.

Mori, Tomoya; Flöttmann, Max; Krantz, Marcus; Akutsu, Tatsuya; Klipp, Edda.

BMC Syst Biol ; 9: 45, 2015 Aug 11.

Artigo em Inglês | MEDLINE | ID: mdl-26259567

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