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1.
1705 Accesses
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Inference of dynamical gene-regulatory networks based on time-resolved multi-stimuli multi-experiment data applying NetGenerator V2.0
Michael Weber, Sebastian G Henkel, Sebastian Vlaic, Reinhard Guthke, Everardus J van Zoelen, Dominik Driesch BMC Systems Biology 2013, 7:1 (2 January 2013)
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2.
1481 Accesses
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Time-resolved metabolomics reveals metabolic modulation in rice foliage
Shigeru Sato, Masanori Arita, Tomoyoshi Soga, Takaaki Nishioka, Masaru Tomita BMC Systems Biology 2008, 2:51 (18 June 2008)
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| PubMed | Cited on BioMed Central
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3.
1373 Accesses
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Understanding network concepts in modules
Jun Dong, Steve Horvath BMC Systems Biology 2007, 1:24 (4 June 2007)
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4.
1262 Accesses
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Models of sequestration and receptor cross-talk for explaining multiple mutants in plant stem cell regulation
Patrik Sahlin, Pontus Melke, Henrik Jönsson BMC Systems Biology 2011, 5:2 (5 January 2011)
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5.
821 Accesses
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AlzPathway: a comprehensive map of signaling pathways of Alzheimer’s disease
Satoshi Mizuno, Risa Iijima, Soichi Ogishima, Masataka Kikuchi, Yukiko Matsuoka, Samik Ghosh, Tadashi Miyamoto, Akinori Miyashita, Ryozo Kuwano, Hiroshi Tanaka BMC Systems Biology 2012, 6:52 (30 May 2012)
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| PubMed | Cited on BioMed Central
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Editor’s summary
AlzPathway is a publicly available database collating known Alzheimer's disease intra, inter and extra cellular signalling pathways into a comprehensive pathway map, providing a useful resource in deciphering Alzheimer's disease pathogenesis.
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6.
811 Accesses
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Identification of ovarian cancer associated genes using an integrated approach in a Boolean framework
Gaurav Kumar, Edmond J Breen, Shoba Ranganathan BMC Systems Biology 2013, 7:12 (6 February 2013)
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7.
798 Accesses
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Signaling dynamics of palmitate-induced ER stress responses mediated by ATF4 in HepG2 cells
Hyunju Cho, Ming Wu, Linxia Zhang, Ryan Thompson, Aritro Nath, Christina Chan BMC Systems Biology 2013, 7:9 (22 January 2013)
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8.
746 Accesses
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Prioritizing cancer-related genes with aberrant methylation based on a weighted protein-protein interaction network
Hui Liu, Jianzhong Su, Junhua Li, Hongbo Liu, Jie Lv, Boyan Li, Hong Qiao, Yan Zhang BMC Systems Biology 2011, 5:158 (11 October 2011)
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9.
703 Accesses
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Precise generation of systems biology models from KEGG pathways
Clemens Wrzodek, Finja Büchel, Manuel Ruff, Andreas Dräger, Andreas Zell BMC Systems Biology 2013, 7:15 (21 February 2013)
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10.
698 Accesses
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Multilevel omic data integration in cancer cell
lines: advanced annotation and emergent
properties
Yuanhua Liu, Valentina Devescovi, Suning Chen, Christine Nardini BMC Systems Biology 2013, 7:14 (19 February 2013)
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11.
686 Accesses
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Systematic Comparison of C3 and C4 Plants Based on Metabolic Network Analysis
Chuanli Wang, Longyun Guo, Yixue Li, Zhuo Wang BMC Systems Biology 2012, 6(Suppl 2):S9 (12 December 2012)
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12.
640 Accesses
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Crosstalk between transcription factors and microRNAs in human protein interaction network
Chen-Ching Lin, Ya-Jen Chen, Cho-Yi Chen, Yen-Jen Oyang, Hsueh-Fen Juan, Hsuan-Cheng Huang BMC Systems Biology 2012, 6:18 (13 March 2012)
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| PubMed | Cited on BioMed Central
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13.
631 Accesses
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A mathematical model of the unfolded protein stress response reveals the decision mechanism for recovery, adaptation and apoptosis
Kamil Erguler, Myrtani Pieri, Constantinos Deltas BMC Systems Biology 2013, 7:16 (21 February 2013)
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14.
572 Accesses
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A review of imaging techniques for systems biology
Armen R Kherlopian, Ting Song, Qi Duan, Mathew A Neimark, Ming J Po, John K Gohagan, Andrew F Laine BMC Systems Biology 2008, 2:74 (12 August 2008)
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15.
571 Accesses
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Reconstruction and analysis of genome-scale metabolic model of a photosynthetic bacterium
Arnau Montagud, Emilio Navarro, Pedro Fernández de Córdoba, Javier F Urchueguía, Kiran Patil BMC Systems Biology 2010, 4:156 (17 November 2010)
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16.
553 Accesses
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Simulations of stressosome activation emphasize allosteric interactions between RsbR and RsbT
Ulf W Liebal, Thomas Millat, Jon Marles-Wright, Richard J Lewis, Olaf Wolkenhauer BMC Systems Biology 2013, 7:3 (15 January 2013)
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17.
515 Accesses
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Model composition through model reduction: a combined model of CD95 and NF-kappaB signaling pathways
Elena Kutumova, Andrei Zinovyev, Ruslan Sharipov, Fedor Kolpakov BMC Systems Biology 2013, 7:13 (15 February 2013)
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18.
513 Accesses
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Low-complexity regions within protein sequences have position-dependent roles
Alain Coletta, John W Pinney, David Solís, James Marsh, Steve R Pettifer, Teresa K Attwood BMC Systems Biology 2010, 4:43 (13 April 2010)
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19.
507 Accesses
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Reconstruction of genome-scale metabolic models for 126 human tissues using mCADRE
Yuliang Wang, James A Eddy, Nathan D Price BMC Systems Biology 2012, 6:153 (13 December 2012)
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20.
500 Accesses
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Computational codon optimization of synthetic gene for protein expression
Bevan Chung, Dong-Yup Lee BMC Systems Biology 2012, 6:134 (20 October 2012)
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Editor’s summary
A novel method for codon usage optimization in artificial gene synthesis, optimizing use of both individual codon usage and codon context approaches, is predicted to lead to improved in vitro heterologous protein expression in biotechnology applications.
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21.
495 Accesses
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A Novel microRNA and transcription factor mediated regulatory network in schizophrenia
An-Yuan Guo, Jingchun Sun, Peilin Jia, Zhongming Zhao BMC Systems Biology 2010, 4:10 (15 February 2010)
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22.
491 Accesses
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An investigation of spatial signal transduction in cellular networks
Aiman Alam-Nazki, J Krishnan BMC Systems Biology 2012, 6:83 (5 July 2012)
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23.
483 Accesses
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A model of estrogen-related gene expression reveals non-linear effects in transcriptional response to tamoxifen
Galina Lebedeva, Azusa Yamaguchi, Simon P Langdon, Kenneth Macleod, David J Harrison BMC Systems Biology 2012, 6:138 (8 November 2012)
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Editor’s summary
A minimal mechanistic model of estrogen receptor alpha-dependent gene expression, predicts complex non-linear effects in transcriptional response to natural hormone 17 beta-estradiol and its external competitor tamoxifen under a range of biologically plausible parameter values.
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24.
479 Accesses
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A reconfigurable NAND/NOR genetic logic gate
Angel Goñi-Moreno, Martyn Amos BMC Systems Biology 2012, 6:126 (18 September 2012)
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Editor’s summary
A novel genetic circuit is proposed and computationally tested that can be dynamically reconfigured to serve as either a NAND or NOR genetic logic gate in either single cells or cell populations.
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25.
465 Accesses
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Genome-scale reconstruction and system level investigation of the metabolic network of Methylobacterium extorquens AM1
Rémi Peyraud, Kathrin Schneider, Patrick Kiefer, Stéphane Massou, Julia A Vorholt, Jean-Charles Portais BMC Systems Biology 2011, 5:189 (10 November 2011)
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