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Items: 1 to 20 of 55

1.

Construction of a computable network model for DNA damage, autophagy, cell death, and senescence.

Gebel S, Lichtner RB, Frushour B, Schlage WK, Hoang V, Talikka M, Hengstermann A, Mathis C, Veljkovic E, Peck M, Peitsch MC, Deehan R, Hoeng J, Westra JW.

Bioinform Biol Insights. 2013;7:97-117. doi: 10.4137/BBI.S11154.

2.

Construction of a computable cell proliferation network focused on non-diseased lung cells.

Westra JW, Schlage WK, Frushour BP, Gebel S, Catlett NL, Han W, Eddy SF, Hengstermann A, Matthews AL, Mathis C, Lichtner RB, Poussin C, Talikka M, Veljkovic E, Van Hooser AA, Wong B, Maria MJ, Peitsch MC, Deehan R, Hoeng J.

BMC Syst Biol. 2011 Jul 2;5:105. doi: 10.1186/1752-0509-5-105.

3.

A computable cellular stress network model for non-diseased pulmonary and cardiovascular tissue.

Schlage WK, Westra JW, Gebel S, Catlett NL, Mathis C, Frushour BP, Hengstermann A, Van Hooser A, Poussin C, Wong B, Lietz M, Park J, Drubin D, Veljkovic E, Peitsch MC, Hoeng J, Deehan R.

BMC Syst Biol. 2011 Oct 19;5:168. doi: 10.1186/1752-0509-5-168.

4.

Construction of biological networks from unstructured information based on a semi-automated curation workflow.

Szostak J, Ansari S, Madan S, Fluck J, Talikka M, Iskandar A, De Leon H, Hofmann-Apitius M, Peitsch MC, Hoeng J.

Database (Oxford). 2015 Jun 17;2015:bav057. doi: 10.1093/database/bav057.

PMID:
26200752
5.

Causal biological network database: a comprehensive platform of causal biological network models focused on the pulmonary and vascular systems.

Boué S, Talikka M, Westra JW, Hayes W, Di Fabio A, Park J, Schlage WK, Sewer A, Fields B, Ansari S, Martin F, Veljkovic E, Kenney R, Peitsch MC, Hoeng J.

Database (Oxford). 2015 Apr 17;2015:bav030. doi: 10.1093/database/bav030.

6.

A modular cell-type focused inflammatory process network model for non-diseased pulmonary tissue.

Westra JW, Schlage WK, Hengstermann A, Gebel S, Mathis C, Thomson T, Wong B, Hoang V, Veljkovic E, Peck M, Lichtner RB, Weisensee D, Talikka M, Deehan R, Hoeng J, Peitsch MC.

Bioinform Biol Insights. 2013 Jun 20;7:167-92. doi: 10.4137/BBI.S11509.

7.

Systematic verification of upstream regulators of a computable cellular proliferation network model on non-diseased lung cells using a dedicated dataset.

Belcastro V, Poussin C, Gebel S, Mathis C, Schlage WK, Lichtner RB, Quadt-Humme S, Wagner S, Hoeng J, Peitsch MC.

Bioinform Biol Insights. 2013 Jul 23;7:217-30. doi: 10.4137/BBI.S12167.

8.

Systems biology approach for evaluating the biological impact of environmental toxicants in vitro.

Gonzalez-Suarez I, Sewer A, Walker P, Mathis C, Ellis S, Woodhouse H, Guedj E, Dulize R, Marescotti D, Acali S, Martin F, Ivanov NV, Hoeng J, Peitsch MC.

Chem Res Toxicol. 2014 Mar 17;27(3):367-76. doi: 10.1021/tx400405s.

PMID:
24428674
9.

Community-Reviewed Biological Network Models for Toxicology and Drug Discovery Applications.

sbv IMPROVER project team and challenge best performers., Namasivayam AA, Morales AF, Lacave ÁM, Tallam A, Simovic B, Alfaro DG, Bobbili DR, Martin F, Androsova G, Shvydchenko I, Park J, Calvo JV, Hoeng J, Peitsch MC, Racero MG, Biryukov M, Talikka M, Pérez MB, Rohatgi N, Díaz-Díaz N, Mandarapu R, Ruiz RA, Davidyan S, Narayanasamy S, Boué S, Guryanova S, Arbas SM, Menon S, Xiang Y.

Gene Regul Syst Bio. 2016 Jul 12;10:51-66. doi: 10.4137/GRSB.S39076.

10.

A systems biology case study of ovarian cancer drug resistance.

Chen JY, Shen C, Yan Z, Brown DP, Wang M.

Comput Syst Bioinformatics Conf. 2006:389-98.

11.

Flexible network reconstruction from relational databases with Cytoscape and CytoSQL.

Laukens K, Hollunder J, Dang TH, De Jaeger G, Kuiper M, Witters E, Verschoren A, Van Leemput K.

BMC Bioinformatics. 2010 Jul 1;11:360. doi: 10.1186/1471-2105-11-360.

12.

Next generation testing strategy for assessment of genomic damage: A conceptual framework and considerations.

Dearfield KL, Gollapudi BB, Bemis JC, Benz RD, Douglas GR, Elespuru RK, Johnson GE, Kirkland DJ, LeBaron MJ, Li AP, Marchetti F, Pottenger LH, Rorije E, Tanir JY, Thybaud V, van Benthem J, Yauk CL, Zeiger E, Luijten M.

Environ Mol Mutagen. 2016 Sep 21. doi: 10.1002/em.22045. [Epub ahead of print] Review.

PMID:
27650663
13.

DNA-damage response network at the crossroads of cell-cycle checkpoints, cellular senescence and apoptosis.

Schmitt E, Paquet C, Beauchemin M, Bertrand R.

J Zhejiang Univ Sci B. 2007 Jun;8(6):377-97. Review.

14.

Implementing Toxicity Testing in the 21st Century (TT21C): Making safety decisions using toxicity pathways, and progress in a prototype risk assessment.

Adeleye Y, Andersen M, Clewell R, Davies M, Dent M, Edwards S, Fowler P, Malcomber S, Nicol B, Scott A, Scott S, Sun B, Westmoreland C, White A, Zhang Q, Carmichael PL.

Toxicology. 2015 Jun 5;332:102-11. doi: 10.1016/j.tox.2014.02.007.

15.

Translational Metabolomics of Head Injury: Exploring Dysfunctional Cerebral Metabolism with Ex Vivo NMR Spectroscopy-Based Metabolite Quantification.

Wolahan SM, Hirt D, Glenn TC.

In: Kobeissy FH, editor. Brain Neurotrauma: Molecular, Neuropsychological, and Rehabilitation Aspects. Boca Raton (FL): CRC Press/Taylor & Francis; 2015. Chapter 25.

16.

Biological Network Inference and analysis using SEBINI and CABIN.

Taylor R, Singhal M.

Methods Mol Biol. 2009;541:551-76. doi: 10.1007/978-1-59745-243-4_24. Review.

PMID:
19381531
17.

Signaling network of dendritic cells in response to pathogens: a community-input supported knowledgebase.

Patil S, Pincas H, Seto J, Nudelman G, Nudelman I, Sealfon SC.

BMC Syst Biol. 2010 Oct 7;4:137. doi: 10.1186/1752-0509-4-137.

18.

A 28-day rat inhalation study with an integrated molecular toxicology endpoint demonstrates reduced exposure effects for a prototypic modified risk tobacco product compared with conventional cigarettes.

Kogel U, Schlage WK, Martin F, Xiang Y, Ansari S, Leroy P, Vanscheeuwijck P, Gebel S, Buettner A, Wyss C, Esposito M, Hoeng J, Peitsch MC.

Food Chem Toxicol. 2014 Jun;68:204-17. doi: 10.1016/j.fct.2014.02.034.

19.

Epidemiologic evidence of relationships between reproductive and child health outcomes and environmental chemical contaminants.

Wigle DT, Arbuckle TE, Turner MC, Bérubé A, Yang Q, Liu S, Krewski D.

J Toxicol Environ Health B Crit Rev. 2008 May;11(5-6):373-517. doi: 10.1080/10937400801921320. Review.

PMID:
18470797
20.

Computational representation of developmental genetic regulatory networks.

Longabaugh WJ, Davidson EH, Bolouri H.

Dev Biol. 2005 Jul 1;283(1):1-16. Review.

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