SysMO SEEK Publications

Inference of dynamical gene-regulatory networks based on time-resolved multi-stimuli multi-experiment data applying NetGenerator V2.0

Authors: Weber Michael, Henkel Sebastian G, Vlaic Sebastian, Guthke Reinhard, van Zoelen Everardus J, Driesch Dominik

PubMed ID: 23280066

Date Published: 02/01/2013

Projects: LINCONET

Journal: BMC Syst Biol

Tags: Not specified

Abstract (Expand)

Inference of gene-regulatory networks (GRNs) is important for understanding behaviour and potential treatment of biological systems. Knowledge about GRNs gained from transcriptome analysis can be ...

Created: 24/07/2013 @ 11:14:14

Data management strategies for multinational large-scale systems biology projects

Authors: Wasco Wruck, Christian Regenbrecht, Peuker Martin

PubMed ID: 23047157

Date Published: 11/10/2012

Projects: livSYSiPS

Journal: Brief. Bioinformatics

Tags: Data Management, data integration, systems biology, standardization, MIBBI

Abstract (Expand)

Good accessibility of publicly funded research data is essential to secure an open scientific system and eventually becomes mandatory [Wellcome Trust will Penalise Scientists Who Don't Embrace Open ...

Created: 15/10/2012 @ 12:24:42

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A Systems Biology Approach to Deciphering the Etiology of Steatosis Employing Patient-Derived Dermal Fibroblasts and iPS Cells

Authors: Justyna Jozefczuk, Karl Kashofer, Ramesh Ummanni, Samrina Rehman, Wasco Wruck, Christian Regenbrecht, Andriani Daskalaki, Christoph Wierling, Paola Turano, Ivano Bertini, Ulrike Korf, Kurt Zatloukal, Hans Westerhoff, Hans Lehrach, James Adjaye, Henjes Frauke, Geenen Suzanne

PubMed ID: 22969728

Date Published: 03/09/2012

Projects: livSYSiPS

Journal: Front Physiol

Tags: Not specified

Abstract (Expand)

Non-alcoholic fatty liver disease comprises a broad spectrum of disease states ranging from simple steatosis to non-alcoholic steatohepatitis. As a result of increases in the prevalences of obesity, ...

Created: 02/10/2012 @ 08:04:35 Last updated: 02/10/2012 @ 08:04:36

Batch correction of microarray data substantially improves the identification of genes differentially expressed in rheumatoid arthritis and osteoarthritis

Authors: Peter Kupfer, Guthke Reinhard, Pohlers Dirk, Huber Rene, Koczan Dirk, Kinne Raimund W

PubMed ID: 22682473

Date Published: 08/06/2012

Projects: LINCONET

Journal: BMC Med Genomics

Tags: Not specified

Abstract (Expand)

Batch effects due to sample preparation or array variation (type, charge, and/or platform) may influence the results of microarray experiments and thus mask and/or confound true biological differences. ...

Created: 24/07/2013 @ 11:13:25

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The current Salmonella-host interactome

Authors: Sylvia Schleker, Leelavati Murthy, Judith Klein-Seetharaman, Sun Jingchun, Raghavan Balachandran, Srnec Matthew, Müller Nicole, Koepfinger Mary, Zhao Zhongming

PubMed ID: 22213674

Date Published: 04/01/2012

Projects: SHIPREC

Journal: Not specified

Tags: Not specified

Abstract (Expand)

Salmonella bacteria cause millions of infections and thousands of deaths every year. This pathogen has an unusually broad host range including humans, animals, and even plants. During infection, ...

Created: 01/03/2012 @ 09:06:22

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Virus interactions with human signal transduction pathways

Authors: Meghana Kshirsagar, Jaime Carbonell, Judith Klein-Seetharaman, Zhao Zhongming, Xia Junfeng, Tastan Oznur, Singh Irtisha

PubMed ID: 21330695

Date Published: 17/02/2011

Projects: SHIPREC

Journal: Int J Comput Biol Drug Des

Tags: Not specified

Abstract (Expand)

Viruses depend on their hosts at every stage of their life cycles and must therefore communicate with them via Protein-Protein Interactions (PPIs). To investigate the mechanisms of communication by ...

Created: 17/05/2011 @ 08:54:13

Analogies between structural and systems biology and systems-of-systems engineering in dynamic environments

Authors: Naveena Yanamala, Judith Klein-Seetharaman, Moitra Subhodeep, Tastan Oznur, Singh Irtisha, Langmead Christopher J.

DOI: 10.1109/SYSOSE.2010.5544104

Date Published: 01/06/2010

Projects: SHIPREC

Conference: 2010 5th International Conference on System of Systems Engineering

Tags: Not specified

Abstract (Expand)

Computer science and biology have inspired each other by drawing analogies. Biological molecules are even used directly as new material building blocks for creating next generation computer hard- and ...

Created: 17/05/2011 @ 09:24:31 Last updated: 17/05/2011 @ 09:26:16