Works matching AU Klipp, Edda

Results: 100

Fungal Hsp90: a biological transistor that tunes cellular outputs to thermal inputs.

Published in:

Nature Reviews Microbiology, 2012, v. 10, n. 10, p. 693, doi. 10.1038/nrmicro2875

By:

Leach, Michelle D.;
Klipp, Edda;
Cowen, Leah E.;
Brown, Alistair J. P.

Publication type:

Article

SBtab: a flexible table format for data exchange in systems biology.

Published in:

Bioinformatics, 2016, v. 32, n. 16, p. 2559, doi. 10.1093/bioinformatics/btw179

By:

Lubitz, Timo;
Hahn, Jens;
Bergmann, Frank T.;
Noor, Elad;
Klipp, Edda;
Liebermeister, Wolfram

Publication type:

Article

SensA: web-based sensitivity analysis of SBML models.

Published in:

Bioinformatics, 2014, v. 30, n. 19, p. 2830, doi. 10.1093/bioinformatics/btu378

By:

Floettmann, Max;
Uhlendorf, Jannis;
Scharp, Till;
Klipp, Edda;
Spiesser, Thomas W.

Publication type:

Article

BooleSim: an interactive Boolean network simulator.

Published in:

Bioinformatics, 2014, v. 30, n. 1, p. 131, doi. 10.1093/bioinformatics/btt568

By:

Bock, Matthias;
Scharp, Till;
Talnikar, Chaitanya;
Klipp, Edda

Publication type:

Article

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

Published in:

Bioinformatics, 2013, v. 29, n. 11, p. 1467, doi. 10.1093/bioinformatics/btt159

By:

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

Publication type:

Article

Modular rate laws for enzymatic reactions: thermodynamics, elasticities and implementation.

Published in:

Bioinformatics, 2010, v. 26, n. 12, p. 1528, doi. 10.1093/bioinformatics/btq141

By:

Liebermeister, Wolfram;
Uhlendorf, Jannis;
Klipp, Edda

Publication type:

Article

Annotation and merging of SBML models with semanticSBML.

Published in:

Bioinformatics, 2010, v. 26, n. 3, p. 421, doi. 10.1093/bioinformatics/btp642

By:

Krause, Falko;
Uhlendorf, Jannis;
Lubitz, Timo;
Schulz, Marvin;
Klipp, Edda;
Liebermeister, Wolfram

Publication type:

Article

SBML-PET: a Systems Biology Markup Language-based parameter estimation tool.

Published in:

Bioinformatics, 2006, v. 22, n. 21, p. 2704

By:

Edda Klipp

Publication type:

Article

Moonlighting proteins - an approach to systematize the concept.

Published in:

In Silico Biology, 2020, v. 14, n. 1/2, p. 1, doi. 10.3233/ISB-190473

By:

Krantz, Maria;
Klipp, Edda

Publication type:

Article

Moonlighting proteins - an approach to systematize the concept.

Published in:

In Silico Biology, 2019, v. 13, n. 3/4, p. 71, doi. 10.3233/ISB-190473

By:

Krantz, Maria;
Klipp, Edda

Publication type:

Article

Data Management and Modeling in Plant Biology.

Published in:

Frontiers in Plant Science, 2021, v. 12, p. 1, doi. 10.3389/fpls.2021.717958

By:

Krantz, Maria;
Zimmer, David;
Adler, Stephan O.;
Kitashova, Anastasia;
Klipp, Edda;
Mühlhaus, Timo;
Nägele, Thomas

Publication type:

Article

Acclimation in plants – the Green Hub consortium.

Published in:

Plant Journal, 2021, v. 106, n. 1, p. 23, doi. 10.1111/tpj.15144

By:

Kleine, Tatjana;
Nägele, Thomas;
Neuhaus, H. Ekkehard;
Schmitz‐Linneweber, Christian;
Fernie, Alisdair R.;
Geigenberger, Peter;
Grimm, Bernhard;
Kaufmann, Kerstin;
Klipp, Edda;
Meurer, Jörg;
Möhlmann, Torsten;
Mühlhaus, Timo;
Naranjo, Belen;
Nickelsen, Jörg;
Richter, Andreas;
Ruwe, Hannes;
Schroda, Michael;
Schwenkert, Serena;
Trentmann, Oliver;
Willmund, Felix

Publication type:

Article

Identification of small non‐coding RNAs responsive to GUN1 and GUN5 related retrograde signals in Arabidopsis thaliana.

Published in:

Plant Journal, 2020, v. 104, n. 1, p. 138, doi. 10.1111/tpj.14912

By:

Habermann, Kristin;
Tiwari, Bhavika;
Krantz, Maria;
Adler, Stephan O.;
Klipp, Edda;
Arif, M. Asif;
Frank, Wolfgang

Publication type:

Article

Dynamic metabolic models in context: biomass backtracking.

Published in:

Integrative Biology, 2015, v. 7, n. 8, p. 940, doi. 10.1039/c5ib00050e

By:

Tummler, Katja;
Kühn, Clemens;
Klipp, Edda

Publication type:

Article

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

Published in:

BMC Bioinformatics, 2023, v. 24, n. 1, p. 1, doi. 10.1186/s12859-023-05329-6

By:

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

Publication type:

Article

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

Published in:

PLoS Computational Biology, 2022, v. 18, n. 1, p. 1, doi. 10.1371/journal.pcbi.1009702

By:

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

Publication type:

Article

Sperm migration in the genital tract—In silico experiments identify key factors for reproductive success.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 7, p. 1, doi. 10.1371/journal.pcbi.1009109

By:

Diemer, Jorin;
Hahn, Jens;
Goldenbogen, Björn;
Müller, Karin;
Klipp, Edda

Publication type:

Article

Osmolyte homeostasis controls single-cell growth rate and maximum cell size of Saccharomyces cerevisiae.

Published in:

NPJ Systems Biology & Applications, 2019, v. 5, n. 1, p. N.PAG, doi. 10.1038/s41540-019-0111-6

By:

Altenburg, Tom;
Goldenbogen, Björn;
Uhlendorf, Jannis;
Klipp, Edda

Publication type:

Article

A Clb/Cdk1-mediated regulation of Fkh2 synchronizes CLB expression in the budding yeast cell cycle.

Published in:

NPJ Systems Biology & Applications, 2017, v. 3, n. 1, p. N.PAG, doi. 10.1038/s41540-017-0008-1

By:

Linke, Christian;
Chasapi, Anastasia;
González-Novo, Alberto;
Al Sawad, Istabrak;
Tognetti, Silvia;
Klipp, Edda;
Loog, Mart;
Krobitsch, Sylvia;
Posas, Francesc;
Xenarios, Ioannis;
Barberis, Matteo

Publication type:

Article

Transcriptional timing and noise of yeast cell cycle regulators—a single cell and single molecule approach.

Published in:

NPJ Systems Biology & Applications, 2018, v. 4, n. 1, p. N.PAG, doi. 10.1038/s41540-018-0053-4

By:

Amoussouvi, Aouefa;
Teufel, Lotte;
Reis, Matthias;
Seeger, Martin;
Schlichting, Julia Katharina;
Schreiber, Gabriele;
Herrmann, Andreas;
Klipp, Edda

Publication type:

Article

Alteration of Protein Levels during Influenza Virus H1N1 Infection in Host Cells: A Proteomic Survey of Host and Virus Reveals Differential Dynamics.

Published in:

PLoS ONE, 2014, v. 9, n. 4, p. 1, doi. 10.1371/journal.pone.0094257

By:

Kummer, Susann;
Flöttmann, Max;
Schwanhäusser, Björn;
Sieben, Christian;
Veit, Michael;
Selbach, Matthias;
Klipp, Edda;
Herrmann, Andreas

Publication type:

Article

Impact of Acute Metal Stress in Saccharomyces cerevisiae.

Published in:

PLoS ONE, 2014, v. 9, n. 1, p. 1, doi. 10.1371/journal.pone.0083330

By:

Hosiner, Dagmar;
Gerber, Susanne;
Lichtenberg-Fraté, Hella;
Glaser, Walter;
Schüller, Christoph;
Klipp, Edda

Publication type:

Article

Systematic Construction of Kinetic Models from Genome-Scale Metabolic Networks.

Published in:

PLoS ONE, 2013, v. 8, n. 11, p. 1, doi. 10.1371/journal.pone.0079195

By:

Stanford, Natalie J.;
Lubitz, Timo;
Smallbone, Kieran;
Klipp, Edda;
Mendes, Pedro;
Liebermeister, Wolfram

Publication type:

Article

Onset of Immune Senescence Defined by Unbiased Pyrosequencing of Human Immunoglobulin mRNA Repertoires.

Published in:

PLoS ONE, 2012, v. 7, n. 11, p. 1, doi. 10.1371/journal.pone.0049774

By:

Rubelt, Florian;
Sievert, Volker;
Knaust, Florian;
Diener, Christian;
Theam Soon Lim;
Skriner, Karl;
Klipp, Edda;
Reinhardt, Richard;
Lehrach, Hans;
Konthur, Zoltán

Publication type:

Article

Modelling the Regulation of Thermal Adaptation in Candida albicans, a Major Fungal Pathogen of Humans.

Published in:

PLoS ONE, 2012, v. 7, n. 3, p. 1, doi. 10.1371/journal.pone.0032467

By:

Leach, Michelle D.;
Tyc, Katarzyna M.;
Brown, Alistair J. P.;
Klipp, Edda

Publication type:

Article

Molecular Insights into Reprogramming-Initiation Events Mediated by the OSKM Gene Regulatory Network.

Published in:

PLoS ONE, 2011, v. 6, n. 8, p. 1, doi. 10.1371/journal.pone.0024351

By:

Mah, Nancy;
Wang, Ying;
Liao, Mei-Chih;
Prigione, Alessandro;
Jozefczuk, Justyna;
Lichtner, Björn;
Wolfrum, Katharina;
Haltmeier, Manuela;
Flöttmann, Max;
Schaefer, Martin;
Hahn, Alexander;
Mrowka, Ralf;
Klipp, Edda;
Andrade-Navarro, Miguel A.;
Adjaye, James

Publication type:

Article

Automated Ensemble Modeling with modelMaGe: Analyzing Feedback Mechanisms in the Sho1 Branch of the HOG Pathway.

Published in:

PLoS ONE, 2011, v. 6, n. 3, p. 1, doi. 10.1371/journal.pone.0014791

By:

Schaber, Jörg;
Flöttmann, Max;
Jian Li;
Tiger, Carl-Fredrik;
Hohmann, Stefan;
Klipp, Edda

Publication type:

Article

What Influences DNA Replication Rate in Budding Yeast?

Published in:

PLoS ONE, 2010, v. 5, n. 4, p. 1, doi. 10.1371/journal.pone.0010203

By:

Spiesser, Thomas W.;
Diener, Christian;
Barberis, Matteo;
Klipp, Edda

Publication type:

Article

A Quantitative Study of the Hog1 MAPK Response to Fluctuating Osmotic Stress in Saccharomyces cerevisiae.

Published in:

PLoS ONE, 2010, v. 5, n. 3, p. 1, doi. 10.1371/journal.pone.0009522

By:

Zhike Zi;
Liebermeister, Wolfram;
Klipp, Edda

Publication type:

Article

Monomeric α‐synuclein activates the plasma membrane calcium pump.

Published in:

EMBO Journal, 2023, v. 42, n. 23, p. 1, doi. 10.15252/embj.2022111122

By:

Kowalski, Antoni;
Betzer, Cristine;
Larsen, Sigrid Thirup;
Gregersen, Emil;
Newcombe, Estella A;
Bermejo, Montaña Caballero;
Bendtsen, Viktor Wisniewski;
Diemer, Jorin;
Ernstsen, Christina V;
Jain, Shweta;
Bou, Alicia Espiña;
Langkilde, Annette Eva;
Nejsum, Lene N;
Klipp, Edda;
Edwards, Robert;
Kragelund, Birthe B;
Jensen, Poul Henning;
Nissen, Poul

Publication type:

Article

Unraveling interactions of cell cycle-regulating proteins Sic1 and B-type cyclins in living yeast cells: a FLIM-FRET approach.

Published in:

FASEB Journal, 2012, v. 26, n. 2, p. 546, doi. 10.1096/fj.11-192518

By:

Schreiber, Gabriele;
Barberis, Matteo;
Scolari, Silvia;
Klaus, Christine;
Herrmann, Andreas;
Klipp, Edda

Publication type:

Article

Phosphoproteomic analyses reveal novel cross-modulation mechanisms between two signaling pathways in yeast.

Published in:

Molecular Systems Biology, 2014, v. 10, n. 12, p. 1, doi. 10.15252/msb.20145112

By:

Vaga, Stefania;
Bernardo‐Faura, Marti;
Cokelaer, Thomas;
Maiolica, Alessio;
Barnes, Christopher A;
Gillet, Ludovic C;
Hegemann, Björn;
Drogen, Frank;
Sharifian, Hoda;
Klipp, Edda;
Peter, Matthias;
Saez‐Rodriguez, Julio;
Aebersold, Ruedi

Publication type:

Article

Dissecting the energy metabolism in Mycoplasma pneumoniae through genome-scale metabolic modeling.

Published in:

Molecular Systems Biology, 2013, v. 9, n. 1, p. 1, doi. 10.1038/msb.2013.6

By:

Wodke, Judith A. H.;
Puchałka, Jacek;
Lluch-Senar, Maria;
Marcos, Josep;
Yus, Eva;
Godinho, Miguel;
Gutiérrez-Gallego, Ricardo;
Martins dos Santos, Vitor A. P.;
Serrano, Luis;
Klipp, Edda;
Maier, Tobias

Publication type:

Article

Modelling reveals novel roles of two parallel signalling pathways and homeostatic feedbacks in yeast.

Published in:

Molecular Systems Biology, 2012, v. 8, n. 1, p. 1, doi. 10.1038/msb.2012.53

By:

Schaber, Jörg;
Baltanas, Rodrigo;
Bush, Alan;
Klipp, Edda;
Colman‐Lerner, Alejandro

Publication type:

Article

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

Published in:

Molecular Systems Biology, 2012, v. 8, n. 1, p. 578, doi. 10.1038/msb.2012.12

By:

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

Publication type:

Article

Retrieval, alignment, and clustering of computational models based on semantic annotations.

Published in:

Molecular Systems Biology, 2011, v. 7, n. 1, p. 1, doi. 10.1038/msb.2011.41

By:

Schulz, Marvin;
Krause, Falko;
Le Novère, Nicolas;
Klipp, Edda;
Liebermeister, Wolfram

Publication type:

Article

Quantitative analysis of transient and sustained transforming growth factor-β signaling dynamics.

Published in:

Molecular Systems Biology, 2011, v. 7, n. 1, p. 1, doi. 10.1038/msb.2011.22

By:

Zi, Zhike;
Feng, Zipei;
Chapnick, Douglas A;
Dahl, Markus;
Deng, Difan;
Klipp, Edda;
Moustakas, Aristidis;
Liu, Xuedong

Publication type:

Article

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

Published in:

Molecular Systems Biology, 2009, v. 5, n. 1, p. 281, doi. 10.1038/msb.2009.36

By:

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

Publication type:

Article

Differential T cell response against BK virus regulatory and structural antigens: A viral dynamics modelling approach.

Published in:

2018

By:

Blazquez-Navarro, Arturo;
Schachtner, Thomas;
Stervbo, Ulrik;
Sefrin, Anett;
Stein, Maik;
Westhoff, Timm H.;
Reinke, Petra;
Klipp, Edda;
Babel, Nina;
Neumann, Avidan U.;
Or-Guil, Michal

Publication type:

Abstract

Spatial modeling of the membrane-cytosolic interface in protein kinase signal transduction.

Published in:

PLoS Computational Biology, 2018, v. 14, n. 4, p. 1, doi. 10.1371/journal.pcbi.1006075

By:

Giese, Wolfgang;
Milicic, Gregor;
Schröder, Andreas;
Klipp, Edda

Publication type:

Article

Monitoring cytochrome P450 activity in living hepatocytes by chromogenic substrates in response to drug treatment or during cell maturation.

Published in:

Archives of Toxicology, 2018, v. 92, n. 3, p. 1133, doi. 10.1007/s00204-017-2128-1

By:

Theobald, Jannick;
Cheng, Xinlai;
Ghanem, Ali;
Wölfl, Stefan;
Gaitantzi, Haristi;
Breitkopf-Heinlein, Katja;
Dooley, Steven;
Song, Guangqi;
Klipp, Edda;
Wodke, Judith;
Becker, Holger;
Mrowka, Ralf

Publication type:

Article

Time-Dependent Quantitative Multicomponent Control of the G1-S Network by the Stress-Activated Protein Kinase Hog1 upon Osmostress.

Published in:

Science Signaling, 2011, v. 4, n. 197, p. 1, doi. 10.1126/scisignal.2002204

By:

Adrover, Miquel Àngel;
Zi, Zhike;
Duch, Alba;
Schaber, Jörg;
González-Novo, Alberto;
Jimenez, Javier;
Nadal-Ribelles, Mariona;
Clotet, Josep;
Klipp, Edda;
Posas, Francesc

Publication type:

Article

Time-Dependent Quantitative Multicomponent Control of the G1-S Network by the Stress-Activated Protein Kinase Hog1 upon Osmostress.

Published in:

Science Signaling, 2011, v. 4, n. 192, p. 1, doi. 10.1126/scisignal.2002204

By:

Adrover, Miquel Àngel;
Zi, Zhike;
Duch, Alba;
Schaber, Jörg;
González-Novo, Alberto;
Jimenez, Javier;
Nadal-Ribelles, Mariona;
Clotet, Josep;
Klipp, Edda;
Posas, Francesc

Publication type:

Article

Cell Size at S Phase Initiation: An Emergent Property of the G1/S Network.

Published in:

PLoS Computational Biology, 2007, v. 3, n. 4, p. e64, doi. 10.1371/journal.pcbi.0030064

By:

Barberis, Matteo;
Klipp, Edda;
Vanoni, Marco;
Alberghina, Lilia

Publication type:

Article

Systems Level Analysis of the Yeast Osmo-Stat.

Published in:

Scientific Reports, 2016, p. 30950, doi. 10.1038/srep30950

By:

Talemi, Soheil Rastgou;
Tiger, Carl-Fredrik;
Andersson, Mikael;
Babazadeh, Roja;
Welkenhuysen, Niek;
Klipp, Edda;
Hohmann, Stefan;
Schaber, Jörg

Publication type:

Article

Limitation of sucrose biosynthesis shapes carbon partitioning during plant cold acclimation.

Published in:

Plant, Cell & Environment, 2023, v. 46, n. 2, p. 464, doi. 10.1111/pce.14483

By:

Kitashova, Anastasia;
Adler, Stephan O.;
Richter, Andreas S.;
Eberlein, Svenja;
Dziubek, Dejan;
Klipp, Edda;
Nägele, Thomas

Publication type:

Article

Estimation of immune cell content in tumour tissue using single-cell RNA-seq data.

Published in:

Nature Communications, 2017, v. 8, n. 1, p. 1, doi. 10.1038/s41467-017-02289-3

By:

Schelker, Max;
Feau, Sonia;
Jinyan Du;
Ranu, Nav;
Klipp, Edda;
MacBeath, Gavin;
Schoeberl, Birgit;
Raue, Andreas

Publication type:

Article

Systems biology standards—the community speaks.

Published in:

2007

By:

Klipp, Edda;
Liebermeister, Wolfram;
Helbig, Anselm;
Kowald, Axel;
Schaber, Jörg

Publication type:

Letter

Corrigendum: Integrative model of the response of yeast to osmotic shock.

Published in:

2006

By:

Klipp, Edda;
Nordlander, Bodil;
Krüger, Roland;
Gennemark, Peter;
Hohmann, Stefan

Publication type:

Erratum

Minimum information requested in the annotation of biochemical models (MIRIAM).

Published in:

Nature Biotechnology, 2005, v. 23, n. 12, p. 1509, doi. 10.1038/nbt1156

By:

Novère, Nicolas Le;
Finney, Andrew;
Hucka, Michael;
Bhalla, Upinder S.;
Campagne, Fabien;
Collado-Vides, Julio;
Crampin, Edmund J.;
Halstead, Matt;
Klipp, Edda;
Mendes, Pedro;
Nielsen, Poul;
Sauro, Herbert;
Shapiro, Bruce;
Snoep, Jacky L.;
Spence, Hugh D.;
Wanner, Barry L.

Publication type:

Article