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PHILIP MORRIS INTERNATIONAL

PUBLICATIONS ON CANDIDATE REDUCED RISK

PRODUCTS

2008 – January 2017

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Contents 2008 ..................................................................................................................................................... 3

2009 ..................................................................................................................................................... 4

2010 ..................................................................................................................................................... 5

2011 ..................................................................................................................................................... 5

2012 ..................................................................................................................................................... 7

2013 ..................................................................................................................................................... 9

2014 ................................................................................................................................................... 11

2015 ................................................................................................................................................... 14

2016 ................................................................................................................................................... 17

2017 ................................................................................................................................................... 21

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2008

1. Diekmann, J., A. Wittig and R. Stabbert (2008). Gas chromatographic-mass spectrometric analysis of acrylamide and acetamide in cigarette mainstream smoke after on-column injection. J Chromatogr Sci 46(7): 659-663. (@PMI Science) (PMID: 18718145) - doi:10.1093/chromsci/46.7.659

2. Hengstermann, A. and T. Muller (2008). Endoplasmic reticulum stress induced by aqueous extracts of cigarette smoke in 3T3 cells activates the unfolded-protein-response-dependent PERK pathway of cell survival. Free Radic Biol Med 44(6): 1097-1107. (@PMI Science) (PMID: 18206657) - doi:10.1016/j.freeradbiomed.2007.12.009

3. Kallischnigg, G., R. Weitkunat and P. N. Lee (2008). Systematic review of the relation between smokeless tobacco and non-neoplastic oral diseases in Europe and the United States. BMC Oral Health 8: 13. (@PMI Science) (PMID: 18452601) - doi:10.1186/1472-6831-8-13

4. Karolchik, D., R. M. Kuhn, R. Baertsch, G. P. Barber, H. Clawson, M. Diekhans, B. Giardine, R. A. Harte, A. S. Hinrichs, F. Hsu, K. M. Kober, W. Miller, J. S. Pedersen, A. Pohl, B. J. Raney, B. Rhead, K. R. Rosenbloom, K. E. Smith, M. Stanke, A. Thakkapallayil, H. Trumbower, T. Wang, A. S. Zweig, D. Haussler and W. J. Kent (2008). The UCSC genome browser database: 2008 update. Nucleic Acids Res 36(SUPPL. 1): D773-D779. (@PMI Science) (PMID: 18086701) - doi:10.1093/nar/gkm966

5. Moennikes, O., P. M. Vanscheeuwijck, B. Friedrichs, E. Anskeit and G. J. Patskan (2008). Reduced toxicological activity of cigarette smoke by the addition of ammonia magnesium phosphate to the paper of an electrically heated cigarette: subchronic inhalation toxicology. Inhal Toxicol 20(7): 647-663. (@PMI Science) (PMID: 18464053) - doi:10.1080/08958370701813273

6. Roemer, E., R. Stabbert, D. Veltel, B. P. Muller, T. J. Meisgen, H. Schramke, E. Anskeit, R. G. Elves and J. A. Fournier (2008). Reduced toxicological activity of cigarette smoke by the addition of ammonium magnesium phosphate to the paper of an electrically heated cigarette: smoke chemistry and in vitro cytotoxicity and genotoxicity. Toxicol In Vitro 22(3): 671-681. (@PMI Science) (PMID: 18261880) - doi:10.1016/j.tiv.2007.12.008

7. Schlöbe, D., D. Hölzle, D. Hatz, L. von Meyer, A. R. Tricker and E. Richter (2008). 4-Hydroxy-1-(3-pyridyl)-1-butanone-releasing DNA adducts in lung, lower esophagus and cardia of sudden death victims. Toxicology 245(1-2): 154-161. (@PMI Science) (PMID: 18243467) doi:10.1016/j.tox.2007.12.021

8. Schroeter, M. R., M. Sawalich, T. Humboldt, M. Leifheit, K. Meurrens, A. Berges, H. Xu, S. Lebrun, T. Wallerath, S. Konstantinides, R. Schleef and K. Schaefer (2008). Cigarette smoke exposure promotes arterial thrombosis and vessel remodeling after vascular injury in apolipoprotein E-deficient mice. J Vasc Res 45(6): 480-492. (@PMI Science) (PMID: 18434747) - doi:10.1159/000127439

9. Sponsiello-Wang, Z., R. Weitkunat and P. N. Lee (2008). Systematic review of the relation between smokeless tobacco and cancer of the pancreas in Europe and North America. BMC Cancer 8: 356. (@PMI Science) (PMID: 19046421) - doi:10.1186/1471-2407-8-356

10. Van Miert, E., P. Vanscheeuwijck, K. Meurrens, W. Gomm and P. M. Terpstra (2008). Evaluation of the micronucleus assay in bone marrow and peripheral blood of rats for the determination of cigarette mainstream-smoke activity. Mutat Res 652(2): 131-138. (@PMI Science) (PMID: 18406658) - doi:10.1016/j.mrgentox.2008.01.006

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11. Werley, M. S., S. A. Freelin, S. E. Wrenn, B. Gerstenberg, E. Roemer, H. Schramke, E. Van Miert, P. Vanscheeuwijck, S. Weber and C. R. Coggins (2008). Smoke chemistry, in vitro and in vivo toxicology evaluations of the electrically heated cigarette smoking system series K. Regul Toxicol Pharmacol 52(2): 122-139. (@PMI Science) (PMID: 18590791) - doi:10.1016/j.yrtph.2008.05.014

2009 1. Gaworski, C. L., H. Schramke, J. Diekmann, T. J. Meisgen, F. J. Tewes, D. J. Veltel, P. M.

Vanscheeuwijck, N. Rajendran, M. Muzzio and H. J. Haussmann (2009). Effect of filtration by activated charcoal on the toxicological activity of cigarette mainstream smoke from experimental cigarettes. Inhal Toxicol 21(8): 688-704. (@PMI Science) (PMID: 19555222) - doi:10.1080/08958370802406290

2. Guex, N., M. C. Peitsch and T. Schwede (2009). Automated comparative protein structure modeling with SWISS-MODEL and Swiss-PdbViewer: A historical perspective. Electrophoresis 30(SUPPL. 1): S162-S173. (@PMI Science) (PMID: 19517507) - doi:10.1002/elps.200900140

3. Lee, P. N., B. A. Forey, J. S. Fry, J. S. Hamling, J. F. Hamling, E. B. Sanders and R. A. Carchman (2009). Does use of flue-cured rather than blended cigarettes affect international variation in mortality from lung cancer and COPD? Inhal Toxicol 21(5): 404-430. (@PMI Science) (PMID: 19496695) - doi:10.1080/08958370802317737

4. McGrath, T. E., A. P. Brown, N. K. Meruva and W. G. Chan (2009). Phenolic compound formation from the low temperature pyrolysis of tobacco. J Anal Appl Pyrolysis 84(2): 170-178. (@PMI Science) - doi:10.1016/j.jaap.2009.01.008

5. Murugan, V. and M. J. Peck (2009). Signal transduction pathways linking the activation of alveolar macrophages with the recruitment of neutrophils to lungs in chronic obstructive pulmonary disease. Exp Lung Res 35(6): 439-485. (@PMI Science) (PMID: 19842832) - doi:10.1080/01902140902759290

6. Richter, E., J. Engl, S. Friesenegger and A. R. Tricker (2009). Biotransformation of 4-(methylnitrosamino)-1-(3-pyridyl)-1-butanone in lung tissue from mouse, rat, hamster, and man. Chem Res Toxicol 22(6): 1008-1017. (PMID: 19408892) - doi:10.1021/tx800461d

7. Roemer, E., T. H. Ottmueller, V. Zenzen, S. Wittke, F. Radtke, I. Blanco and R. A. Carchman (2009). Cytotoxicity, mutagenicity, and tumorigenicity of mainstream smoke from three reference cigarettes machine-smoked to the same yields of total particulate matter per cigarette. Food Chem Toxicol 47(8): 1810-1818. (@PMI Science) (PMID: 19447158) - doi:10.1016/j.fct.2009.04.048

8. Smilde, A. K., M. J. Van Der Werf, J. P. Schaller and C. Kistemaker (2009). Characterizing the precision of mass-spectrometry-based metabolic profiling platforms. Analyst 134(11): 2281-2285. (@PMI Science) (PMID: 19838416) - doi:10.1039/B902242B

9. Tricker, A. R., M. K. Schorp, H. J. Urban, D. Leyden, H. W. Hagedorn, J. Engl, M. Urban, K. Riedel, G. Gilch, D. Janket and G. Scherer (2009). Comparison of environmental tobacco smoke (ETS) concentrations generated by an electrically heated cigarette smoking system and a conventional cigarette. Inhal Toxicol 21(1): 62-77. (@PMI Science) (PMID: 18951229) - doi:10.1080/08958370802207334

10. von Holt, K., S. Lebrun, W. Stinn, L. Conroy, T. Wallerath and R. Schleef (2009). Progression of atherosclerosis in the Apo E-/- model: 12-month exposure to cigarette mainstream smoke

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combined with high-cholesterol/fat diet. Atherosclerosis 205(1): 135-143. (@PMI Science) (PMID: 19144336) - doi:10.1016/j.atherosclerosis.2008.11.031

2010 1. Gebel, S., S. Diehl, J. Pype, B. Friedrichs, H. Weiler, J. Schuller, H. Xu, K. Taguchi, M. Yamamoto

and T. Muller (2010). The transcriptome of Nrf2-/- mice provides evidence for impaired cell cycle progression in the development of cigarette smoke-induced emphysematous changes. Toxicol Sci 115(1): 238-252. (@PMI Science) (PMID: 20133372) - doi:10.1093/toxsci/kfq039

2. Mottier, N., F. Jeanneret and M. Rotach (2010). Determination of hydrogen cyanide in cigarette mainstream smoke by LC/MS/MS. J AOAC Int 93(3): 1032-1038. (@PMI Science) (PMID: 20629410) - http://www.ingentaconnect.com/contentone/aoac/jaoac/2010/00000093/00000003/art00040

3. Roemer, E., T. H. Ottmueller, H. J. Urban and C. Baillet-Mignard (2010). SKH-1 mouse skin painting: a short-term assay to evaluate the tumorigenic activity of cigarette smoke condensate. Toxicol Lett 192(2): 155-161. (@PMI Science) (PMID: 19854249) - doi:10.1016/j.toxlet.2009.10.019

4. Schorp, M. K. and D. E. Leyden (2010). Biomonitoring of smoke constituents: exposure to 4-aminobiphenyl and 4-aminobiphenyl hemoglobin adduct levels in nonsmokers and smokers. Inhal Toxicol 22(9): 725-737. (@PMI Science) (PMID: 20433335) - doi:10.3109/08958371003717043

5. Smith, M. R. and A. König (2010). Environmental risk assessment for food-related substances. Food Control 21(12): 1588-1600. (@PMI Science) - doi:10.1016/j.foodcont.2009.12.032

6. Stinn, W., J. H. E. Arts, A. Buettner, E. Duistermaat, K. Janssens, C. F. Kuper and H. J. Haussmann (2010). Murine lung tumor response after exposure to cigarette mainstream smoke or its particulate and gas/vapor phase fractions. Toxicology 275(1-3): 10-20. (@PMI Science) (PMID: 20594951) - doi:10.1016/j.tox.2010.05.005

7. Stolle, K., A. Berges, M. Lietz, S. Lebrun and T. Wallerath (2010). Cigarette smoke enhances abdominal aortic aneurysm formation in angiotensin II-treated apolipoprotein E-deficient mice. Toxicol Lett 199(3): 403-409. (@PMI Science) (PMID: 20937366) - doi:10.1016/j.toxlet.2010.10.005

8. Weitkunat, R., E. Kaelin, G. Vuillaume and G. Kallischnigg (2010). Effectiveness of strategies to increase the validity of findings from association studies: size vs. replication. BMC Med Res Methodol 10: 47. (@PMI Science) (PMID: 20509879) - doi:10.1186/1471-2288-10-47

2011 1. Algurén, B. and R. Weitkunat (2011). Perception and prevalence of behavioral risk factors: the

lifestyle risk scale (LRS). Open J Prev Med 1(3): 143-153. (@PMI Science) - doi:10.4236/ojpm.2011.13019

2. Dempsey, R., C. R. Coggins and E. Roemer (2011). Toxicological assessment of cigarette ingredients. Regul Toxicol Pharmacol 61(1): 119-128. (@PMI Science) (PMID: 21771627) - doi:10.1016/j.yrtph.2011.07.002

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3. Geurts, B. J., P. Pratte, S. Stolz, R. Stabbert, V. Poux, M. Nordlund and C. Winkelmann (2011). Penetration of sub-micron aerosol droplets in composite cylindrical filtration elements. Int J Heat Fluid Fl 32(1): 261-272. (@PMI Science) - doi:10.1016/j.ijheatfluidflow.2010.11.002

4. Laino, T., C. Tuma, A. Curioni, E. Jochnowitz and S. Stolz (2011). A revisited picture of the mechanism of glycerol dehydration. J Phys Chem A 115(15): 3592-3595. (@PMI Science) (PMID: 21452849) - doi:10.1021/jp201078e

5. Lindner, D., S. Smith, C. M. Leroy and A. R. Tricker (2011). Comparison of exposure to selected cigarette smoke constituents in adult smokers and nonsmokers in a European, multicenter, observational study. Cancer Epidemiol Biomarkers Prev 20(7): 1524-1536. (PMID: 21613391) - doi:10.1158/1055-9965.EPI-10-1186

6. Lopez Penha, D. J., B. J. Geurts, S. Stolz and M. Nordlund (2011). Computing the apparent permeability of an array of staggered square rods using volume-penalization. Comput Fluids 51(1): 157-173. (@PMI Science) - doi:10.1016/j.compfluid.2011.08.011

7. Meyer, P., L. G. Alexopoulos, T. Bonk, A. Califano, C. R. Cho, A. De La Fuente, D. De Graaf, A. J. Hartemink, J. Hoeng, N. V. Ivanov, H. Koeppl, R. Linding, D. Marbach, R. Norel, M. C. Peitsch, J. J. Rice, A. Royyuru, F. Schacherer, J. Sprengel, K. Stolle, D. Vitkup and G. Stolovitzky (2011). Verification of systems biology research in the age of collaborative competition. Nature Biotechnol 29(9): 811-815. (@PMI Science) (PMID: 21904331) - doi:10.1038/nbt.1968

8. Mottier, N. and F. Jeanneret (2011). Evaluation of two derivatization reagents for the determination by LC-MS/MS of ammonia in cigarette mainstream smoke. J Agric Food Chem 59(1): 92-97. (@PMI Science) (PMID: 21142102) - doi:10.1021/jf103772c

9. Schlage, W. K., J. W. Westra, S. Gebel, N. L. Catlett, C. Mathis, B. P. Frushour, A. Hengstermann, A. Van Hooser, C. Poussin, B. Wong, M. Lietz, J. Park, D. Drubin, E. Veljkovic, M. C. Peitsch, J. Hoeng and R. Deehan (2011). A computable cellular stress network model for non-diseased pulmonary and cardiovascular tissue. BMC Syst Biol 5: 168. (@PMI Science) (PMID: 22011616) - doi:10.1186/1752-0509-5-168

10. Veljkovic, E., J. Jiricny, M. Menigatti, H. Rehrauer and W. Han (2011). Chronic exposure to cigarette smoke condensate in vitro induces epithelial to mesenchymal transition-like changes in human bronchial epithelial cells, BEAS-2B. Toxicol In Vitro 25(2): 446-453. (@PMI Science) (PMID: 21095227) - doi:10.1016/j.tiv.2010.11.011

11. Vuillaume, G., T. Mueller, M. Talikka, Y. Cheng, G. Diserens, M. C. Peitsch, J. Hoeng and F. Tobin (2011). Modeling early initiation processes in smoking-induced lung adenocarcinomas. Proceedings of the 8th International Workshop on Computation Systems Biology H. Koeppl, J. Acimovic, J. Kesseli, T. Mäki-Marttunen, A. Larjo and O. Yli-Harja. Tampere, Finland. TICSP Series #57. (Link to Conference Proceedings)

12. Westra, J. W., W. K. Schlage, B. P. Frushour, S. Gebel, N. L. Catlett, W. Han, S. F. Eddy, A. Hengstermann, A. L. Matthews, C. Mathis, R. B. Lichtner, C. Poussin, M. Talikka, E. Veljkovic, A. A. Van Hooser, B. Wong, M. J. Maria, M. C. Peitsch, R. Deehan and J. Hoeng (2011). Construction of a computable cell proliferation network focused on non-diseased lung cells. BMC Syst Biol 5: 105. (@PMI Science) (PMID: 21722388) - doi:10.1186/1752-0509-5-105

13. Xiang, Y., M. Talikka, V. Belcastro, P. Sperisen, M. C. Peitsch, J. Hoeng and J. Whittaker (2011). Divergence weighted independence graphs for the exploratory analysis of biological expression data. J Health Med Inform S2. (@PMI Science) - doi:10.4172/2157-7420.S2-001

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2012 1. Aydin, N., F. Chardonnens and M. Rotach (2012). Headspace volumetric Karl Fischer titration for

the determination of water content in finished tobacco products. Beitr Tabakforsch Int 25(1): 350-359. doi:10.2478/cttr-2013-0914

2. Boué, S., K. Tarasov, M. Janis, S. Lebrun, R. Hurme, W. Schlage, M. Lietz, G. Vuillaume, K. Ekroos, Y. Steffen, M. C. Peitsch, R. Laaksonen and J. Hoeng (2012). Modulation of atherogenic lipidome by cigarette smoke in apolipoprotein E-deficient mice. Atherosclerosis 225(2): 328-334. (@PMI Science) (PMID: 23102783) - doi:10.1016/j.atherosclerosis.2012.09.032

3. Chan, J. R., G. Vuillaume, C. Bever, S. Lebrun, M. Lietz, Y. Steffen, K. Stolle, K. Wahba, X. Wang, S. Moodie, J. Hoeng, M. C. Peitsch and L. M. Powell (2012). The Apoe-/- Mouse PhysioLab® Platform: A validated physiologically-based mathematical model of atherosclerotic plaque progression in the Apoe-/- mouse. Biodiscovery 3:2. (@PMI Science) - doi:10.7750/BioDiscovery.2012.3.2

4. Fricano, A., N. Bakaher, M. Del Corvo, P. Piffanelli, P. Donini, A. Stella, N. V. Ivanov and C. Pozzi (2012). Molecular diversity, population structure, and linkage disequilibrium in a worldwide collection of tobacco (Nicotiana tabacum L.) germplasm. BMC Genet 13: 18. (@PMI Science) (PMID: 22435796) - doi:10.1186/1471-2156-13-18

5. Hoeng, J., R. Deehan, D. Pratt, F. Martin, A. Sewer, T. M. Thomson, D. A. Drubin, C. A. Waters, D. de Graaf and M. C. Peitsch (2012). A network-based approach to quantifying the impact of biologically active substances. Drug Discov Today 17(9-10): 413-418. (@PMI Science) (PMID: 22155224) - doi:10.1016/j.drudis.2011.11.008

6. Laino, T., C. Tuma, P. Moor, E. Martin, S. Stolz and A. Curioni (2012). Mechanisms of propylene glycol and triacetin pyrolysis. J Phys Chem A 116(18): 4602-4609. (@PMI Science) - doi:10.1021/jp300997d

7. Lopez Penha, D. J., S. Stolz, J. G. M. Kuerten, M. Nordlund, A. K. Kuczaj and B. J. Geurts (2012). Fully-developed conjugate heat transfer in porous media with uniform heating. Int J Heat Fluid Fl 38: 94-106. (@PMI Science) - doi:10.1016/j.ijheatfluidflow.2012.08.007

8. Martin, E., A. Monge, J. A. Duret, F. Gualandi, M. C. Peitsch and P. Pospisil (2012). Building an R&D chemical registration system. J Cheminform 4(1): 11. (@PMI Science) (PMID: 22650418) - doi:10.1186/1758-2946-4-11

9. Martin, F., T. M. Thomson, A. Sewer, D. A. Drubin, C. Mathis, D. Weisensee, D. Pratt, J. Hoeng and M. C. Peitsch (2012). Assessment of network perturbation amplitudes by applying high-throughput data to causal biological networks. BMC Syst Biol 6: 54. (@PMI Science) (PMID: 22651900) - doi:10.1186/1752-0509-6-54

10. Martin Leroy, C., K. Jarus-Dziedzic, J. Ancerewicz, D. Lindner, A. Kulesza and J. Magnette (2012). Reduced exposure evaluation of an Electrically Heated Cigarette Smoking System. Part 7: A one-month, randomized, ambulatory, controlled clinical study in Poland. Regul Toxicol Pharmacol 64(2 Suppl): S74-84. (@PMI Science) (PMID: 22951349) - doi:10.1016/j.yrtph.2012.08.006

11. Meyer, P., J. Hoeng, J. J. Rice, R. Norel, J. Sprengel, K. Stolle, T. Bonk, S. Corthesy, A. Royyuru, M. C. Peitsch and G. Stolovitzky (2012). Industrial methodology for process verification in research (IMPROVER): Toward systems biology verification. Bioinformatics 28(9): 1193-1201. (@PMI Science) (PMID: 22423044) - doi:10.1093/bioinformatics/bts116

12. Roemer, E., M. K. Schorp, J. J. Piade, J. I. Seeman, D. E. Leyden and H. J. Haussmann (2012). Scientific assessment of the use of sugars as cigarette tobacco ingredients: a review of published

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and other publicly available studies. Crit Rev Toxicol 42(3): 244-278. (@PMI Science) (PMID: 22263649) - doi:10.3109/10408444.2011.650789

13. Roemer, E., H. Schramke, H. Weiler, A. Buettner, S. Kausche, S. Weber, A. Berges, M. Stueber, M. Muench, E. Trelles-Sticken, J. Pype, K. Kohlgrueber, H. Voelkel and S. Wittke (2012). Mainstream smoke chemistry and in vitro and in vivo toxicity of the reference cigarettes 3R4F and 2R4F. Beitr Tabakforsch Int 25(1): 316-335. (@PMI Science) - doi:10.2478/cttr-2013-0912

14. Sanders, E., R. Weitkunat, A. Utan and R. Dempsey (2012). Does the use of ingredients added to tobacco increase cigarette addictiveness?: A detailed analysis. Inhal Toxicol 24(4): 227-245. (PMID: 22429143) - doi:10.3109/08958378.2012.663006

15. Schorp, M. K., A. R. Tricker and R. Dempsey (2012). Reduced exposure evaluation of an Electrically Heated Cigarette Smoking System. Part 1: Non-clinical and clinical insights. Regul Toxicol Pharmacol 64(2 Suppl): S1-10. (@PMI Science) (PMID: 22940435) - doi:10.1016/j.yrtph.2012.08.008

16. Steffen, Y., G. Vuillaume, K. Stolle, K. Roewer, M. Lietz, J. Schueller, S. Lebrun and T. Wallerath (2012). Cigarette smoke and LDL cooperate in reducing nitric oxide bioavailability in endothelial cells via effects on both eNOS and NADPH oxidase. Nitric Oxide 27(3): 176-184. (@PMI Science) (PMID: 22766265) - doi:10.1016/j.niox.2012.06.006

17. Talikka, M., N. Sierro, N. V. Ivanov, N. Chaudhary, M. J. Peck, J. Hoeng, C. R. Coggins and M. C. Peitsch (2012). Genomic impact of cigarette smoke, with application to three smoking-related diseases. Crit Rev Toxicol 42(10): 877-889. (@PMI Science) (PMID: 22989067) - doi:10.3109/10408444.2012.725244

18. Tricker, A. R., I. J. Jang, C. Martin Leroy, D. Lindner and R. Dempsey (2012). Reduced exposure evaluation of an Electrically Heated Cigarette Smoking System. Part 4: Eight-day randomized clinical trial in Korea. Regul Toxicol Pharmacol 64(2 Suppl): S45-53. (@PMI Science) (PMID: 22951346) - doi:10.1016/j.yrtph.2012.08.013

19. Tricker, A. R., S. Kanada, K. Takada, C. M. Leroy, D. Lindner, M. K. Schorp and R. Dempsey (2012). Reduced exposure evaluation of an Electrically Heated Cigarette Smoking System. Part 5: 8-Day randomized clinical trial in Japan. Regul Toxicol Pharmacol 64(2 Suppl): S54-63. (@PMI Science) (PMID: 22940437) - doi:10.1016/j.yrtph.2012.08.003

20. Tricker, A. R., S. Kanada, K. Takada, C. Martin Leroy, D. Lindner, M. K. Schorp and R. Dempsey (2012). Reduced exposure evaluation of an Electrically Heated Cigarette Smoking System. Part 6: 6-Day randomized clinical trial of a menthol cigarette in Japan. Regul Toxicol Pharmacol 64(2 Suppl): S64-73. (@PMI Science) (PMID: 22951347) - doi:10.1016/j.yrtph.2012.08.007

21. Tricker, A. R., A. J. Stewart, C. M. Leroy, D. Lindner, M. K. Schorp and R. Dempsey (2012). Reduced exposure evaluation of an Electrically Heated Cigarette Smoking System. Part 3: Eight-day randomized clinical trial in the UK. Regul Toxicol Pharmacol 64(2 Suppl): S35-44. (@PMI Science) (PMID: 22940436) - doi:10.1016/j.yrtph.2012.08.010

22. Urban, H. J., A. R. Tricker, D. E. Leyden, N. Forte, V. Zenzen, A. Feuersenger, M. Assink, G. Kallischnigg and M. K. Schorp (2012). Reduced exposure evaluation of an Electrically Heated Cigarette Smoking System. Part 8: Nicotine bridging--estimating smoke constituent exposure by their relationships to both nicotine levels in mainstream cigarette smoke and in smokers. Regul Toxicol Pharmacol 64(2 Suppl): S85-97. (PMID: 22943848) - doi:10.1016/j.yrtph.2012.08.005

23. Zenzen, V., J. Diekmann, B. Gerstenberg, S. Weber, S. Wittke and M. K. Schorp (2012). Reduced exposure evaluation of an Electrically Heated Cigarette Smoking System. Part 2: Smoke chemistry and in vitro toxicological evaluation using smoking regimens reflecting human puffing behavior.

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Regul Toxicol Pharmacol 64(2 Suppl): S11-34. (@PMI Science) (PMID: 22922180) - doi:10.1016/j.yrtph.2012.08.004

2013 1. Ansari, S., J. Binder, S. Boue, A. Di Fabio, W. Hayes, J. Hoeng, A. Iskandar, R. Kleiman, R. Norel, B.

O'Neel, M. C. Peitsch, C. Poussin, D. Pratt, K. Rhrissorrakrai, W. K. Schlage, G. Stolovitzky and M. Talikka (2013). On crowd-verification of biological networks. Bioinform Biol Insights 7: 307-325. (@PMI Science) (PMID: 24151423) - doi:10.4137/BBI.S12932

2. Belcastro, V., C. Poussin, S. Gebel, C. Mathis, W. K. Schlage, R. B. Lichtner, S. Quadt-Humme, S. Wagner, J. Hoeng and M. C. Peitsch (2013). Systematic verification of upstream regulators of a computable cellular proliferation network model on non-diseased lung cells using a dedicated dataset. Bioinform Biol Insights 7: 217-230. (@PMI Science) (PMID: 23926424) - doi:10.4137/BBI.S12167

3. Ben-Hamo, R., S. Boue, F. Martin, M. Talikka and S. Efroni (2013). Classification of lung adenocarcinoma and squamous cell carcinoma samples based on their gene expression profile in the sbv IMPROVER Diagnostic Signature Challenge. Syst Biomed 1(4): 268-277. (@PMI Science) - doi: 10.4161/sysb.25983

4. Boué, S., H. De Leon, W. K. Schlage, M. J. Peck, H. Weiler, A. Berges, G. Vuillaume, F. Martin, B. Friedrichs, S. Lebrun, K. Meurrens, N. Schracke, M. Moehring, Y. Steffen, J. Schueller, P. Vanscheeuwijck, M. C. Peitsch and J. Hoeng (2013). Cigarette smoke induces molecular responses in respiratory tissues of ApoE-/- mice that are progressively deactivated upon cessation. Toxicology 314(1): 112-124. (@PMI Science) (PMID: 24096154) - doi:10.1016/j.tox.2013.09.013

5. De Leon, H., S. Boué, M. C. Peitsch and J. Hoeng (2013). Modulation of the hepatic lipidome and transcriptome of Apoe-/- mice in response to smoking cessation. J Liver 2: 132. (@PMI Science) - doi:10.4172/2167-0889.1000132

6. Fluck, J., A. Kenner, S. Madan, S. Ansari, T. Bobic, J. Hoeng, M. Hoffmann-Apitius and M. C. Peitsch (2013). BEL networks derived from qualitative translations of BioNLP shared task annotations. Proceedings of the 2013 Workshop on Biomedical Natural Language Processing (BioNLP), Sofia, Bulgaria, Association for Computational Linguistics: 80-88. (@PMI Science) (pdf)

7. Gebel, S., R. B. Lichtner, B. Frushour, W. K. Schlage, V. Hoang, M. Talikka, A. Hengstermann, C. Mathis, E. Veljkovic, M. Peck, M. C. Peitsch, R. Deehan, J. Hoeng and J. W. Westra (2013). Construction of a computable network model for DNA damage, autophagy, cell death, and senescence. Bioinform Biol Insights 7: 97-117. (@PMI Science) (PMID: 23515068) - doi:10.4137/BBI.S11154

8. Givi, M. E., M. J. Peck, L. Boon and E. Mortaz (2013). The role of dendritic cells in the pathogenesis of cigarette smoke-induced emphysema in mice. Eur J Pharmacol 721(1-3): 259-266. (@PMI Science) (PMID: 24120403) - doi:10.1016/j.ejphar.2013.09.027

9. Gregg, E., T. Bachmann, R. Bito, X. Cahours, M. McEwan, P. Nelson, K. Prasad, G. Scherer and M. Stiles (2013). Assessing smoking behaviour and tobacco smoke exposure: definitions and methods. Beitr Tabakforsch Int 25(8): 685-699. doi:10.2478/cttr-2013-0945

10. Hermida, L., C. Poussin, M. B. Stadler, S. Gubian, A. Sewer, D. Gaidatzis, H. R. Hotz, F. Martin, V. Belcastro, S. Cano, M. C. Peitsch and J. Hoeng (2013). Confero: an integrated contrast data and gene set platform for computational analysis and biological interpretation of omics data. BMC Genomics 14: 514. (@PMI Science) (PMID: 23895370) - doi:10.1186/1471-2164-14-514

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11. Hoeng, J., G. Stolovitzky and M. C. Peitsch (2013). sbv IMPROVER Diagnostic Signature Challenge: Preface to this special issue. Syst Biomed 1:4, 193-195. (@PMI Science) - doi:10.4161/sysb.26324

12. Iskandar, A. R., F. Martin, M. Talikka, W. K. Schlage, R. Kostadinova, C. Mathis, J. Hoeng and M. C. Peitsch (2013). Systems approaches evaluating the perturbation of xenobiotic metabolism in response to cigarette smoke exposure in nasal and bronchial tissues. Biomed Res Int 2013: 512086. (@PMI Science) (PMID: 24224167) - doi:10.1155/2013/512086

13. Knorr, A., A. Monge, M. Stueber, A. Stratmann, D. Arndt, E. Martin and P. Pospisil (2013). Computer-assisted structure identification (CASI)--an automated platform for high-throughput identification of small molecules by two-dimensional gas chromatography coupled to mass spectrometry. Anal Chem 85(23): 11216-11224. (PMID: 24160557) - doi:10.1021/ac4011952

14. Lietz, M., A. Berges, S. Lebrun, K. Meurrens, Y. Steffen, K. Stolle, J. Schueller, S. Boue, G. Vuillaume, P. Vanscheeuwijck, M. Moehring, W. Schlage, H. De Leon, J. Hoeng and M. Peitsch (2013). Cigarette-smoke-induced atherogenic lipid profiles in plasma and vascular tissue of apolipoprotein E-deficient mice are attenuated by smoking cessation. Atherosclerosis 229(1): 86-93. (@PMI Science) (PMID: 23669247) - doi:10.1016/j.atherosclerosis.2013.03.036

15. Mathis, C., C. Poussin, D. Weisensee, S. Gebel, A. Hengstermann, A. Sewer, V. Belcastro, Y. Xiang, S. Ansari, S. Wagner, J. Hoeng and M. C. Peitsch (2013). Human bronchial epithelial cells exposed in vitro to cigarette smoke at the air-liquid interface resemble bronchial epithelium from human smokers. Am J Physiol Lung Cell Mol Physiol 304(7): L489-503. (@PMI Science) (PMID: 23355383) - doi:10.1152/ajplung.00181.2012

16. Nordlund, M., D. J. Lopez Penha, S. Stolz, A. Kuczaj, C. Winkelmann and B. J. Geurts (2013). A new analytical model for the permeability of anisotropic structured porous media. Int J Eng Sci 68: 38-60. (@PMI Science) - doi:10.1016/j.ijengsci.2013.01.003

17. Park, J. S., W. K. Schlage, B. P. Frushour, M. Talikka, G. Toedter, S. Gebel, R. Deehan, E. Veljkovic, J. W. Westra, M. J. Peck, S. Boue, U. Kogel, I. Gonzalez-Suarez, A. Hengstermann, M. C. Peitsch and J. Hoeng (2013). Construction of a computable network model of tissue repair and angiogenesis in the lung. J Clin Toxicol S12:002. (@PMI Science) - doi:10.4172/2161-0495.S12-002

18. Piadé, J. J., S. Wajrock, G. Jaccard and G. Janeke (2013). Formation of mainstream cigarette smoke constituents prioritized by the World Health Organization--yield patterns observed in market surveys, clustering and inverse correlations. Food Chem Toxicol 55: 329-347. (@PMI Science) (PMID: 23357567) - doi:10.1016/j.fct.2013.01.016

19. Rhrissorrakrai, K., J. J. Rice, S. Boue, M. Talikka, E. Bilal, F. Martin, P. Meyer, R. Norel, Y. Xiang, G. Stolovitzky, J. Hoeng and M. C. Peitsch (2013). sbv IMPROVER Diagnostic Signature Challenge: Design and results. Syst Biomed 1(4): 196-207. (@PMI Science) - doi:10.4161/sysb.26325

20. Roemer, E., H. P. Lammerich, L. L. Conroy and D. Weisensee (2013). Characterization of a gap-junctional intercellular communication (GJIC) assay using cigarette smoke. Toxicol Lett 219(3): 248-253. (@PMI Science) (PMID: 23558295) - doi:10.1016/j.toxlet.2013.03.028

21. Stinn, W., A. Berges, K. Meurrens, A. Buettner, S. Gebel, R. B. Lichtner, K. Janssens, E. Veljkovic, Y. Xiang, E. Roemer and H. J. Haussmann (2013). Towards the validation of a lung tumorigenesis model with mainstream cigarette smoke inhalation using the A/J mouse. Toxicology 305: 49-64. (@PMI Science) (PMID: 23357402) - doi:10.1016/j.tox.2013.01.005

22. Stinn, W., A. Buettner, H. Weiler, B. Friedrichs, S. Luetjen, F. van Overveld, K. Meurrens, K. Janssens, S. Gebel, R. Stabbert and H. J. Haussmann (2013). Lung inflammatory effects, tumorigenesis, and emphysema development in a long-term inhalation study with cigarette

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mainstream smoke in mice. Toxicol Sci 131(2): 596-611. (@PMI Science) (PMID: 23104432) - doi:10.1093/toxsci/kfs312

23. Tarca, A. L., M. Lauria, M. Unger, E. Bilal, S. Boue, K. Kumar Dey, J. Hoeng, H. Koeppl, F. Martin, P. Meyer, P. Nandy, R. Norel, M. Peitsch, J. J. Rice, R. Romero, G. Stolovitzky, M. Talikka, Y. Xiang, C. Zechner and I. D. Collaborators (2013). Strengths and limitations of microarray-based phenotype prediction: lessons learned from the IMPROVER Diagnostic Signature Challenge. Bioinformatics 29(22): 2892-2899. (@PMI Science) (PMID: 23966112) - doi:10.1093/bioinformatics/btt492

24. Thomson, T. M., A. Sewer, F. Martin, V. Belcastro, B. P. Frushour, S. Gebel, J. Park, W. K. Schlage, M. Talikka, D. M. Vasilyev, J. W. Westra, J. Hoeng and M. C. Peitsch (2013). Quantitative assessment of biological impact using transcriptomic data and mechanistic network models. Toxicol Appl Pharmacol 272(3): 863-878. (@PMI Science) (PMID: 23933166) - doi:10.1016/j.taap.2013.07.007

25. Tobin, F., G. Vuillaume, M. Talikka, G. Diserens, M. C. Peitsch and J. Hoeng (2013). Pre-malignant processes of smoking-induced lung adenocarcinoma development: A conceptual biological model. Adv Lung Cancer 2(2): 32-53. (@PMI Science) - doi:10.4236/alc.2013.22006

26. Tuma, C., T. Laino, E. Martin, S. Stolz and A. Curioni (2013). Modeling the impact of solid surfaces in thermal degradation processes. ChemPhysChem 14(1): 88-91. (@PMI Science) (PMID: 23180393) - doi:10.1002/cphc.201200921

27. Weber, S., M. Hebestreit, T. Wilms, L. L. Conroy and G. Rodrigo (2013). Comet assay and air-liquid interface exposure system: a new combination to evaluate genotoxic effects of cigarette whole smoke in human lung cell lines. Toxicol In Vitro 27(6): 1987-1991. (@PMI Science) (PMID: 23845897) - doi:10.1016/j.tiv.2013.06.016

28. Weisensee, D., A. Poth, E. Roemer, L. L. Conroy and W. K. Schlage (2013). Cigarette smoke-induced morphological transformation of Bhas 42 cells in vitro. Altern Lab Anim 41(2): 181-189. (@PMI Science) (PMID: 23781935) - http://www.atla.org.uk/cigarette-smoke-induced-morphological-transformation-of-bhas-42-cells-in-vitro-2/

29. Weitkunat, R., C. R. E. Coggins, Z. Sponsiello-Wang, G. Kallischnigg and R. Dempsey (2013). Assessment of cigarette smoking in epidemiologic studies. Beitr Tabakforsch Int 25(7): 638-648. (@PMI Science) - doi:10.2478/cttr-2013-0940

30. Westra, J. W., W. K. Schlage, A. Hengstermann, S. Gebel, C. Mathis, T. Thomson, B. Wong, V. Hoang, E. Veljkovic, M. Peck, R. B. Lichtner, D. Weisensee, M. Talikka, R. Deehan, J. Hoeng and M. C. Peitsch (2013). A modular cell-type focused inflammatory process network model for non-diseased pulmonary tissue. Bioinform Biol Insights 7: 167-192. (@PMI Science) (PMID: 23843693) - doi:10.4137/BBI.S11509

31. Xiang, Y., S. Gubian, B. Suomela and J. Hoeng (2013). Generalized simulated annealing for global optimization: The GenSA package. R Journal 5(1): 13-28. (@PMI Science) (pdf)

32. Zipoli, F., T. Laino, S. Stolz, E. Martin, C. Winkelmann and A. Curioni (2013). Improved coarse-grained model for molecular-dynamics simulations of water nucleation. J Chem Phys 139(9): 094501. (@PMI Science) (PMID: 24028121) - doi:10.1063/1.4819136

2014

1. Belushkin, M., J. J. Piade, S. Chapman and G. Fazekas (2014). Investigating predictability of in vitro toxicological assessments of cigarettes: analysis of 7 years of regulatory submissions to

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Canadian regulatory authorities. Regul Toxicol Pharmacol 68(2): 222-230. (@PMI Science) (PMID: 24384394) - doi:10.1016/j.yrtph.2013.12.009

2. De Leon, H., S. Boue, W. K. Schlage, N. Boukharov, J. W. Westra, S. Gebel, A. VanHooser, M. Talikka, R. B. Fields, E. Veljkovic, M. J. Peck, C. Mathis, V. Hoang, C. Poussin, R. Deehan, K. Stolle, J. Hoeng and M. C. Peitsch (2014). A vascular biology network model focused on inflammatory processes to investigate atherogenesis and plaque instability. J Transl Med 12: 185. (@PMI Science) (PMID: 24965703) - doi:10.1186/1479-5876-12-185

3. Fluck, J., S. Madan, S. Ansari, J. Szostak, J. Hoeng, M. ZImmermann, M. Hofmann-Apitius and M. C. Peitsch (2014). BELIEF - A semiautomatic workflow for BEL network creation. Proceedings of the 6th International Symposium on Semantic Mining in Biomedicine (SMBM 2014). O. Bodenreider, J. L. Oliveira and F. Rinaldi. Aveiro. (@PMI Science) - http://dx.doi.org/10.5167/uzh-98982 (pdf)

4. Friedrichs, B., U. Neumann, J. Schuller and M. J. Peck (2014). Cigarette-smoke-induced priming of neutrophils from smokers and non-smokers for increased oxidative burst response is mediated by TNF-alpha. Toxicol In Vitro 28(7): 1249-1258. (@PMI Science) (PMID: 24997298) - doi:10.1016/j.tiv.2014.06.007

5. Ghosh, D. and C. Jeannet (2014). An improved Cambridge filter pad extraction methodology to obtain more accurate water and "tar" values: In situ Cambridge filter pad extraction methodology. Beitr Tabakforsch Int 26(2): 38-49. (@PMI Science) - doi:10.2478/cttr-2014-0008

6. Gonzalez-Suarez, I., A. Sewer, P. Walker, C. Mathis, S. Ellis, H. Woodhouse, E. Guedj, R. Dulize, D. Marescotti, S. Acali, F. Martin, N. V. Ivanov, J. Hoeng and M. C. Peitsch (2014). Systems biology approach for evaluating the biological impact of environmental toxicants in vitro. Chem Res Toxicol 27(3): 367-376. (@PMI Science) (PMID: 2442867) - doi:10.1021/tx400405s

7. Hoeng, J., M. Talikka, F. Martin, A. Sewer, X. Yang, A. Iskandar, W. K. Schlage and M. C. Peitsch (2014). Case study: the role of mechanistic network models in systems toxicology. Drug Discov Today 19(2): 183-192. (@PMI Science) (PMID: 23933191) - doi:10.1016/j.drudis.2013.07.023

8. Kogel, U., W. K. Schlage, F. Martin, Y. Xiang, S. Ansari, P. Leroy, P. Vanscheeuwijck, S. Gebel, A. Buettner, C. Wyss, M. Esposito, J. Hoeng and M. C. Peitsch (2014). 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. Food Chem Toxicol 68: 204-217. (@PMI Science) (PMID: 24632068) - doi:10.1016/j.fct.2014.02.034

9. Luettich, K., Y. Xiang, A. Iskandar, A. Sewer, F. Martin, M. Talikka, P. Vanscheeuwijck, A. Berges, E. Veljkovic, I. Gonzalez-Suarez, W. Schlage, W. Schlage, J. Hoeng and M. Peitsch (2014). Systems toxicology approaches enable mechanistic comparison of spontaneous and cigarette smoke-related lung tumor development in the A/J mouse model. Interdiscip Toxicol 7(2): 73-84. (@PMI Science) (PMID: 26109882) - doi:10.2478/cttr-2014-0014

10. Majeed, S., S. Frentzel, S. Wagner, D. Kuehn, P. Leroy, P. A. Guy, A. Knorr, J. Hoeng and M. C. Peitsch (2014). Characterization of the Vitrocell(R) 24/48 aerosol exposure system using mainstream cigarette smoke. Chem Cent J 8(1): 62. (@PMI Science) (PMID: 25411580) - doi:10.1186/s13065-014-0062-3

11. Martin, F., A. Sewer, M. Talikka, Y. Xiang, J. Hoeng and M. C. Peitsch (2014). Quantification of biological network perturbations for mechanistic insight and diagnostics using two-layer causal models. BMC Bioinformatics 15: 238. (@PMI Science) (PMID: 25015298) - doi:10.1186/1471-2105-15-238

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12. Meisgen, T., E. Roemer, L. L. Conroy, J. Hostens, M. Vasquez, A. Humeny, M. Moehring, W. K. Schlage and M. Kasper (2014). Cigarette-smoke- and age-dependent oxidative stress effects in rats. Beitr Tabakforsch Int 26(3): 109-120. (@PMI Science) - doi:10.2478/cttr-2014-0014

13. Peitsch, M. C. and D. de Graaf (2014). A decade of Systems Biology: where are we and where are we going to? Drug Discov Today 19(2): 105-107. (PMID: 23769977) - doi:10.1016/j.drudis.2013.06.002

14. Poussin, C., I. Gallitz, W. K. Schlage, Y. Steffen, K. Stolle, S. Lebrun, J. Hoeng, M. C. Peitsch and M. Lietz (2014). Mechanism of an indirect effect of aqueous cigarette smoke extract on the adhesion of monocytic cells to endothelial cells in an in vitro assay revealed by transcriptomics analysis. Toxicol In Vitro 28(5): 896-908. (@PMI Science) (PMID: 24747719) - doi:10.1016/j.tiv.2014.03.005

15. Poussin, C., C. Mathis, L. G. Alexopoulos, D. E. Messinis, R. H. J. Dulize, V. Belcastro, I. N. Melas, T. Sakellaropoulos, K. Rhrissorrakrai, E. Bilal, P. Meyer, M. Talikka, S. Boue, R. Norel, J. J. Rice, G. Stolovitzky, N. V. Ivanov, M. C. Peitsch and J. Hoeng (2014). The species translation challenge—A systems biology perspective on human and rat bronchial epithelial cells. Scientific Data 1: 140009. (@PMI Science) (PMID: 25977767) - doi:10.1038/sdata.2014.9

16. Schlage, W. K., A. R. Iskandar, R. Kostadinova, Y. Xiang, A. Sewer, S. Majeed, D. Kuehn, S. Frentzel, M. Talikka, M. Geertz, C. Mathis, N. Ivanov, J. Hoeng and M. C. Peitsch (2014). In vitro systems toxicology approach to investigate the effects of repeated cigarette smoke exposure on human buccal and gingival organotypic epithelial tissue cultures. Toxicol Mech Methods: 1-37. (@PMI Science) (PMID: 25046638) - doi:10.3109/15376516.2014.943441.

17. Schreiner, B. S., R. Lehmann, U. Thiel, P. M. Ziemba, L. R. Beltran, M. A. Sherkheli, P. Jeanbourquin, A. Hugi, M. Werner, G. Gisselmann and H. Hatt (2014). Direct action and modulating effect of (+)- and (-)-nicotine on ion channels expressed in trigeminal sensory neurons. Eur J Pharmacol 728: 48-58. (PMID: 24512725) - doi:10.1016/j.ejphar.2014.01.060

18. Sewer, A., S. Gubian, U. Kogel, E. Veljkovic, W. Han, A. Hengstermann, M. C. Peitsch and J. Hoeng (2014). Assessment of a novel multi-array normalization method based on spike-in control probes suitable for microRNA datasets with global decreases in expression. BMC Res Notes 7: 302. (@PMI Science) (PMID: 24886675) - doi: 10.1186/1756-0500-7-302

19. Sierro, N., J. N. Battey, S. Ouadi, N. Bakaher, L. Bovet, A. Willig, S. Goepfert, M. C. Peitsch and N. V. Ivanov (2014). The tobacco genome sequence and its comparison with those of tomato and potato. Nat Commun 5: 3833. (@PMI Science) (PMID: 24807620) - doi:10.1038/ncomms4833

20. Sturla, S. J., A. R. Boobis, R. E. Fitzgerald, J. Hoeng, R. J. Kavlock, K. Schirmer, M. Whelan, M. F. Wilks and M. C. Peitsch (2014). Systems toxicology: From basic research to risk assessment. Chem Res Toxicol 27(3): 314-329. (@PMI Science) (PMID: 24446777) - doi:10.1021/tx400410s

21. Talikka, M., R. Kostadinova, Y. Xiang, C. Mathis, A. Sewer, S. Majeed, D. Kuehn, S. Frentzel, C. Merg, M. Geertz, F. Martin, N. V. Ivanov, M. C. Peitsch and J. Hoeng (2014). The response of human nasal and bronchial organotypic tissue cultures to repeated whole cigarette smoke exposure. Int J Toxicol 33(6): 506-517. (@PMI Science) (PMID: 25297719) - doi:10.1177/1091581814551647

22. Titz, B., A. Elamin, F. Martin, T. Schneider, S. Dijon, N. V. Ivanov, J. Hoeng and M. C. Peitsch (2014). Proteomics for systems toxicology. Comput Struct Biotechnol J 11(18): 73-90. (@PMI Science) (PMID: 25379146) - doi:10.1016/j.csbj.2014.08.004

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23. Vasilyev, D. M., T. M. Thomson, B. P. Frushour, F. Martin and A. Sewer (2014). An algorithm for score aggregation over causal biological networks based on random walk sampling. BMC Res Notes 7(1): 516. (@PMI Science) (PMID: 25113603) - doi:10.1186/1756-0500-7-516

24. Winkelmann, C., M. Nordlund, A. K. Kuczaj, S. Stolz and B. Geurts (2014). Efficient second-order time integration for single-species aerosol formation and evolution. Int J Numer Meth Fluids 74(5): 313-334. (@PMI Science) - doi:10.1002/fld.3851

25. Xiang, Y., U. Kogel, S. Gebel, M. J. Peck, M. C. Peitsch, V. R. Akmaev and J. Hoeng (2014). Discovery of emphysema relevant molecular networks from an A/J mouse inhalation study using reverse engineering and forward simulation (REFS). Gene Regul Syst Bio 8: 45-61. (@PMI Science) (PMID: 24596455) - doi:10.4137/GRSB.S13140

26. Younesi, E., S. Ansari, M. Guendel, S. Ahmadi, C. Coggins, J. Hoeng, M. Hofmann-Apitius and M. C. Peitsch (2014). CSEO - the cigarette smoke exposure ontology. J Biomed Semantics 5: 31. (@PMI Science) (PMID: 25093069) - doi:10.1186/2041-1480-5-31

27. Zimmermann, P., S. Bleuler, O. Laule, F. Martin, N. V. Ivanov, P. Campanoni, K. Oishi, N. Lugon-Moulin, M. Wyss, T. Hruz and W. Gruissem (2014). ExpressionData - A public resource of high quality curated datasets representing gene expression across anatomy, development and experimental conditions. BioData Min 7: 18. (@PMI Science) (PMID: 25228922) - doi:10.1186/1756-0381-7-18

2015 1. Bilal, E., T. Sakellaropoulos, C. Participants, I. N. Melas, D. E. Messinis, V. Belcastro, K.

Rhrissorrakrai, P. Meyer, R. Norel, A. Iskandar, E. Blaese, J. J. Rice, M. C. Peitsch, J. Hoeng, G. Stolovitzky, L. G. Alexopoulos and C. Poussin (2015). A crowd-sourcing approach for the construction of species-specific cell signaling networks. Bioinformatics 31(4): 484-491. (@PMI Science) (PMID: 25294919) - doi:10.1093/bioinformatics/btu659

2. Binder, J., S. Boue, A. Di Fabio, R. B. Fields, W. Hayes, J. Hoeng, J. S. Park and M. C. Peitsch (2015). Reputation-based collaborative network biology. Pac Symp Biocomput 20: 270-281. (Conference Proceedings) (@PMI Science) (PMID: 25592588) - doi:10.1142/9789814644730_0027

3. Boue, S., B. Fields, J. Hoeng, J. Park, M. C. Peitsch, W. K. Schlage, M. Talikka, I. Binenbaum, V. Bondarenko, O. V. Bulgakov, V. Cherkasova, N. Diaz-Diaz, L. Fedorova, S. Guryanova, J. Guzova, G. Igorevna Koroleva, E. Kozhemyakina, R. Kumar, N. Lavid, Q. Lu, S. Menon, Y. Ouliel, S. C. Peterson, A. Prokhorov, E. Sanders, S. Schrier, G. Schwaitzer Neta, I. Shvydchenko, A. Tallam, G. Villa-Fombuena, J. Wu, I. Yudkevich and M. Zelikman (2015). Enhancement of COPD biological networks using a web-based collaboration interface. F1000Res 4: 32. (@PMI Science) (PMID: 25767696) - doi:10.12688/f1000research.5984.2

4. Boue, S., M. Talikka, J. W. Westra, W. Hayes, A. Di Fabio, J. Park, W. K. Schlage, A. Sewer, B. Fields, S. Ansari, F. Martin, E. Veljkovic, R. Kenney, M. C. Peitsch and J. Hoeng (2015). Causal biological network database: a comprehensive platform of causal biological network models focused on the pulmonary and vascular systems. Database 2015: bav030. (@PMI Science) (PMID: 25887162) - doi:10.1093/database/ba

5. Cabanski, M., B. Fields, S. Boue, N. Boukharov, H. DeLeon, N. Dror, M. Geertz, E. Guedj, A. Iskandar, U. Kogel, C. Merg, M. J. Peck, C. Poussin, W. K. Schlage, M. Talikka, N. V. Ivanov, J. Hoeng and M. C. Peitsch (2015). Transcriptional profiling and targeted proteomics reveals common molecular changes associated with cigarette smoke-induced lung emphysema

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development in five susceptible mouse strains. Inflamm Res 64(7): 471-486. (@PMI Science) (PMID: 25962837) - doi:10.1007/s00011-015-0820-2

6. De Leon, H., S. Boue, J. Szostak, M. C. Peitsch and J. Hoeng (2015). Systems biology research into cardiovascular disease: contributions of lipidomics-based approaches to biomarker discovery. Curr Drug Discov Technol 12(3): 129-154. (PMID: 26135855) - doi:10.2174/1570163812666150702123319

7. Frederix, E. M. A., M. Stanic, A. K. Kuczaj, M. Nordlund and B. J. Geurts (2015). Extension of the compressible PISO algorithm to single-species aerosol formation and transport. Int J Multiphase Flow 74: 184-194. doi:10.1016/j.ijmultiphaseflow.2015.04.015

8. Hoeng, J., M. C. Peitsch, P. Meyer and I. Jurisica (2015). Where are we at regarding species translation? A review of the sbv IMPROVER challenge. Bioinformatics 31(4): 451-452. (PMID: 25638813) - doi:10.1093/bioinformatics/btv065

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14. Mathis, C., S. Gebel, C. Poussin, V. Belcastro, A. Sewer, D. Weisensee, A. Hengstermann, S. Ansari, S. Wagner, M. C. Peitsch and J. Hoeng (2015). A systems biology approach reveals the dose- and time-dependent effect of primary human airway epithelium tissue culture after exposure to cigarette smoke in vitro. Bioinform Biol Insights 9: 19-35. (@PMI Science) (PMID: 25788831) - doi:10.4137/BBI.S19908

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Hoeng, N. V. Ivanov, S. Krishnan, P. Leroy, F. Martin, C. Merg, M. J. Peck, M. C. Peitsch, B. Phillips, W. K. Schlage, T. Schneider, M. Talikka, B. Titz, P. Vanscheeuwijck, E. Veljkovic, T. Vihervaara, G. Vuillaume and C. Q. Woon (2016). Comprehensive systems biology analysis of a 7-month cigarette smoke inhalation study in C57BL/6 mice. Sci Data 3: 150077. (PMID: 26731301) - doi:10.1038/sdata.2015.77

2. Behrsing, H., H. Raabe, J. Manuppello, B. Bombick, R. Curren, K. Sullivan, S. Sethi, R. Phipps, Y. Tesfaigzi, S. Yan, C. D'Ruiz, R. Tarran, S. Constant, G. Phillips, M. Gaca, P. Hayden, X. Cao, C. Mathis, J. Hoeng, A. Braun and E. Hill (2016). Assessment of in vitro COPD models for tobacco regulatory science: Workshop proceedings, conclusions and paths forward for in vitro model use. Altern Lab Anim 44(2): 129-166. (@PMI Science) (PMID: 27256455) - (link to journal)

3. Dossin, E., E. Martin, P. Diana, A. Castellon, A. Monge, P. Pospisil, M. Bentley and P. A. Guy (2016). Prediction models of retention indices for increased confidence in structural elucidation during complex matrix analysis: application to gas chromatography coupled with high-resolution mass spectrometry. Anal Chem 88(15): 7539-7547. (@PMI Science) (PMID: 27403731) - doi:10.1021/acs.analchem.6b00868

4. Elamin, A., B. Titz, S. Dijon, C. Merg, M. Geertz, T. Schneider, F. Martin, W. K. Schlage, S. Frentzel, F. Talamo, B. Phillips, E. Veljkovic, N. V. Ivanov, P. Vanscheeuwijck, M. C. Peitsch and J. Hoeng (2016). Quantitative proteomics analysis using 2D-PAGE to investigate the effects of cigarette smoke and aerosol of a prototypic modified risk tobacco product on the lung proteome in C57BL/6 mice. J Proteomics 145: 237-245. (@PMI Science) (PMID: 27268958) - doi:10.1016/j.jprot.2016.05.037

5. Fluck, J., S. Madan, S. Ansari, A. T. Kodamullil, R. Karki, M. Rastegar-Mojarad, N. L. Catlett, W. Hayes, J. Szostak, J. Hoeng and M. Peitsch (2016). Training and evaluation corpora for the extraction of causal relationships encoded in biological expression language (BEL). Database, in press. (PMID: 27554092) - doi:10.1093/database/baw113

6. Frederix, E. M. A., M. Stanic, A. K. Kuczaj, M. Nordlund and B. J. Geurts (2016). Characteristics-based sectional modeling of aerosol nucleation and condensation. J Comput Phys 326: 499-515. doi:10.1016/j.jcp.2016.09.005

7. Gonzalez Suarez, I., F. Martin, D. Marescotti, E. Guedj, S. Acali, S. Johne, R. Dulize, K. Baumer, D. Peric, D. Goedertier, S. Frentzel, N. V. Ivanov, C. Mathis, J. Hoeng and M. C. Peitsch (2016). In vitro systems toxicology assessment of a candidate modified risk tobacco product shows reduced toxicity compared to a conventional cigarette. Chem Res Toxicol 29 (1): 3-18. (@PMI Science) (PMID: 26651182) - doi:10.1021/acs.chemrestox.5b00321

8. Haziza, C., G. de La Bourdonnaye, S. Merlet, M. Benzimra, J. Ancerewicz, A. Donelli, G. Baker, P. Picavet and F. Lüdicke (2016). Assessment of the reduction in levels of exposure to harmful and potentially harmful constituents in Japanese subjects using a novel tobacco heating system compared with conventional cigarettes and smoking abstinence: A randomized controlled study in confinement. Regul Toxicol Pharmacol 81: 489-499. (@PMI Science) (PMID: 27693654) - doi:10.1016/j.yrtph.2016.09.014

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exposure clinical study in Poland. Regul Toxicol Pharmacol 81 Suppl 2: S139-S150. (@PMI

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Database 2016: baw115. (@PMI Science) (PMID: 27504010) - doi:10.1093/database/baw1115

11. Iskandar, A. R., I. Gonzalez-Suarez, S. Majeed, D. Marescotti, A. Sewer, Y. Xiang, P. Leroy, E. Guedj, C. Mathis, J. P. Schaller, P. Vanscheeuwijck, S. Frentzel, F. Martin, N. V. Ivanov, M. C. Peitsch and J. Hoeng (2016). A framework for in vitro systems toxicology assessment of e-liquids. Toxicol Mech Methods 26(6): 389-413. (@PMI Science) (PMID: 27117495) - doi:10.3109/15376516.2016.1170251

12. Kogel, U., B. Titz, W. K. Schlage, C. Nury, F. Martin, A. Oviedo, S. Lebrun, A. Elamin, E. Guedj, K.

Trivedi, N. V. Ivanov, P. Vanscheeuwijck, M. C. Peitsch and J. Hoeng (2016). Evaluation of the

Tobacco Heating System 2.2. Part 7: Systems toxicological assessment of a mentholated version

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13. Kuczaj, A. K., M. Nordlund, S. Jayaraju, E. Komen, T. Krebs, M. C. Peitsch and J. Hoeng (2016). Aerosol flow in the Vitrocell 24/48 exposure system: flow mixing and aerosol coalescence. Appl In Vitro Toxicol 2(3): 165-174. (@PMI Science) - doi:10.1089/aivt.2016.0009

14. Lo Sasso, G., W. K. Schlage, S. Boue, E. Veljkovic, M. C. Peitsch and J. Hoeng (2016). The Apoe-/- mouse model: a suitable model to study cardiovascular and respiratory diseases in the context of cigarette smoke exposure and harm reduction. J Transl Med 14(1): 146. (@PMI Science) (PMID: 27207171) - doi:10.1186/s12967-016-0901-1

15. Lo Sasso, G., B. Titz, C. Nury, S. Boué, B. Phillips, V. Belcastro, T. Schneider, S. Dijon, K. Baumer, D. Peric, R. Dulize, A. Elamin, E. Guedj, A. Buettner, P. Leroy, S. Kleinhans, G. Vuillaume, E. Veljkovic, N. V. Ivanov, F. Martin, P. Vanscheeuwijck, M. C. Peitsch and J. Hoeng (2016). Effects of cigarette smoke, cessation and switching to a candidate modified risk tobacco product on the liver in Apoe−/− mice – a systems toxicology analysis. Inhal Toxicol 28(5): 226-240. (@PMI Science) (PMID: 27027324) - doi:10.3109/08958378.2016.1150368

16. Lüdicke, F., C. Haziza, R. Weitkunat and J. Magnette (2016). Evaluation of biomarkers of exposure in smokers switching to a carbon-heated tobacco product: a controlled, randomized, open-label 5-day exposure study. Nicotine Tob Res 18: 1606-1613. (@PMI Science) (PMID: 26817490) - doi:10.1093/ntr/ntw022

17. Madan, S., S. Hodapp, P. Senger, S. Ansari, J. Szostak, J. Hoeng, M. Peitsch and J. Fluck (2016). The BEL information extraction workflow (BELIEF): evaluation in the BioCreative V BEL and IAT track. Database (Oxford) 2016: baw136. (@PMI Science) (PMID: 27694210) - doi:10.1093/database/baw136

18. Marescotti, D., I. Gonzalez Suarez, S. Acali, S. Johne, A. Laurent, S. Frentzel, J. Hoeng and M. C. Peitsch (2016). High content screening analysis to evaluate the toxicological effects of harmful and potentially harmful constituents (HPHC). J Vis Exp 111: e53987. (@PMI Science) (PMID: 27228213) - doi:10.3791/53987

19. Martin, F., M. Talikka, N. V. Ivanov, C. Haziza, J. Hoeng and M. C. Peitsch (2016). Evaluation of the Tobacco Heating System 2.2. Part 9: Application of systems pharmacology to identify exposure

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20. Marx, U., T. B. Andersson, A. Bahinski, M. Beilmann, S. Beken, F. R. Cassee, M. Cirit, M. Daneshian, S. Fitzpatrick, O. Frey, C. Gaertner, C. Giese, L. Griffith, T. Hartung, M. B. Heringa, J. Hoeng, W. H. de Jong, H. Kojima, J. Kuehnl, M. Leist, A. Luch, I. Maschmeyer, D. Sakharov, A. J. Sips, T. Steger-Hartmann, D. A. Tagle, A. Tonevitsky, T. Tralau, S. Tsyb, A. van de Stolpe, R. Vandebriel, P. Vulto, J. Wang, J. Wiest, M. Rodenburg and A. Roth (2016). Biology-inspired microphysiological system approaches to solve the prediction dilemma of substance testing. Altex 33(3): 272-321. (PMID: 27180100) - doi:10.14573/altex.1603161

21. Mitova, M. I., P. B. Campelos, C. G. Goujon-Ginglinger, S. Maeder, N. Mottier, E. G. R. Rouget, M. Tharin and A. R. Tricker (2016). Comparison of the impact of the Tobacco Heating System 2.2 and a cigarette on indoor air quality. Regul Toxicol Pharmacol 80: 91-101. (@PMI Science) (PMID: 27311683) - doi:10.1016/j.yrtph.2016.06.005

22. Mottier, N., M. Tharin, C. Cluse, J.-R. Crudo, M. G. Lueso, C. G. Goujon-Ginglinger, A. Jaquier, M. I. Mitova, E. G. R. Rouget, M. Schaller and J. Solioz (2016). Validation of selected analytical methods using accuracy profiles to assess the impact of a Tobacco Heating System on indoor air quality. Talanta, 158: 165-178. (@PMI Science, Infographic) (PMID: 27343591) - doi:10.1016/j.talanta.2016.05.022

23. Namasivayam, A. A., A. F. Morales, A. M. Lacave, A. Tallam, B. Simovic, D. G. Alfaro, D. R. Bobbili, F. Martin, G. Androsova, I. Shvydchenko, J. Park, J. V. Calvo, J. Hoeng, M. C. Peitsch, M. G. Racero, M. Biryukov, M. Talikka, M. B. Perez, N. Rohatgi, N. Diaz-Diaz, R. Mandarapu, R. A. Ruiz, S. Davidyan, S. Narayanasamy, S. Boue, S. Guryanova, S. M. Arbas, S. Menon and Y. Xiang (2016). Community-reviewed biological network models for toxicology and drug discovery applications. Gene Regul Syst Bio 10: 51-66. (@PMI Science) (PMID: 27429547) - doi:10.4137/GRSB.S39076

24. Nordlund, M. and A. K. Kuczaj (2016). Modeling aerosol formation in an electrically heated tobacco product. WASET Int J Chem Mol Nucl Mater Metall Eng 10(4): 326-338. (@PMI Science) - doi:scholar.waset.org/1999.2/10004053

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27. Oviedo, A., S. Lebrun, U. Kogel, J. Ho, W. T. Tan, B. Titz, P. Leroy, G. Vuillaume, M. Bera, F. Martin,

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29. Picavet, P., C. Haziza, N. Lama, R. Weitkunat and F. Lüdicke (2016). Comparison of the pharmacokinetics of nicotine following single and ad libitum use of a Tobacco Heating System or combustible cigarettes. Nicotine Tob Res 18(5): 557-563. (@PMI Science) (PMID: 26438645) - doi:10.1093/ntr/ntv220

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33. Sauer, J. M., A. Kleensang, M. C. Peitsch and A. W. Hayes (2016). Advancing risk assessment through the application of systems toxicology. Toxicol Res 32(1): 5-8. (PMID: 26977253) - doi:10.5487/TR.2016.32.1.005

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36. Sewer, A., U. Kogel, M. Talikka, E. T. Wong, F. Martin, Y. Xiang, E. Guedj, N. V. Ivanov, J. Hoeng and M. C. Peitsch (2016). Evaluation of the Tobacco Heating System 2.2 (THS2.2). Part 5: microRNA expression from a 90-day rat inhalation study indicates that exposure to THS 2.2 aerosol causes reduced effects on lung tissue compared with cigarette smoke. Regul Toxicol Pharmacol 81 Suppl 2: S82-S92. (@PMI Science) (PMID: 27866933) - doi:10.1016/j.yrtph.2016.11.018

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38. Stanic, M., M. Nordlund, E. M. A. Frederix, A. K. Kuczaj and B. J. Geurts (2016). Evaluation of oscillation-free fluid-porous interface treatments for segregated finite volume flow solvers. Comput Fluids 131: 169-179. doi:10.1016/j.compfluid.2016.03.019

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