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37. Zhao, H., Yang, L., Baddour, J., Achreja, A., Bernard, V., Moss, T., Marini, J., Tudawe, T., Seviour, E.G., San Lucas, F.A., Alvarez, H., Gupta, S., Maiti, S.N., Cooper, L., Peehl, D., Ram, P.T., Maitra, A., Nagrath, D. (2016). Tumor microenvironment derived exosomes pleiotropically modulate cancer cell metabolism. Elife 5. eLife PubMed

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Figure 8

36. Behrouz Zand, Rebecca A. Previs, Niki M. Zacharias, Rajesha Rupaimoole, Takashi Mitamura, Archana Sidalaghatta Nagaraja, Michele Guindani, Heather J. Dalton, Lifeng Yang, Joelle Baddour, Abhinav Achreja, Wei Hu, Chad V. Pecot, Cristina Ivan, Sherry Y. Wu, Christopher R. McCullough, Kshipra M. Gharpure, Einav Shoshan, Sunila Pradeep, Lingegowda S. Mangala, Cristian Rodriguez-Aguayo, Ying Wang, Alpa M. Nick, Michael A. Davies, Guillermo Armaiz-Pena, Jinsong Liu, Susan K. Lutgendorf, Keith A. Baggerly, Menashe Bar Eli, Gabriel Lopez-Berestein, Deepak Nagrath, Pratip K. Bhattacharya, Anil K. Sood. Role of Increased n-acetylaspartate Levels in Cancer, Journal of the National Cancer Institute (2016) 108(6). Oxford Journals PDF


35. Salimian Rizi B and D. Nagrath. A missing link between omentum and ovarian cancer’s metabolic coupling: nitric oxide homeostasis, Oncoscience 2015 Oncoscience 2 (10), 797-798. PubMed Oncoscience


34. Susmita Mondal, Debarshi Roy, Juliana Camacho-Pereira, Eduardo Chini, Lifeng Yang, Joelle Baddour, Katherine Stilles, Seth Padmabandu , Val Lowe, Thomas Dierks, Edward Hammond, Keith Dredge,Deepak Nagrath, Viji Shridhar. HSulf-1 deficiency dictates a metabolic reprogramming of glycolysis and TCA cycle in ovarian cancer, Oncotarget 2015. Oncotarget PDF


33. K. C. Nicolaou, Christian Nilewski, Christopher R. H. Hale, Christopher F. Ahles, Chiao An Chiu, Christian Ebner, Abdelatif ElMarrouni, Lifeng Yang, Katherine Stiles, and Deepak Nagrath.  Synthesis and Biological Evaluation of Dimeric Furanoid Macroheterocycles: Discovery of New Anticancer Agents, Journal of the American Chemical Society. 2015, 137 (14), 4766-4770. DOI: 10.1021/jacs.5b00141. ACS PDF

32. Bahar Salimian, Christine Caneba, Aleksandra Nowicka, Ahmad Walid Nabiyar, Xinran Liu, Kevin Chen, Ann Klopp, Deepak Nagrath. Nitric oxide mediates metabolic coupling of omentum-derived adipose to ovarian and endometrial cancer cells, Cancer Res; Published OnlineFirst November 25, 2014; doi:10.1158/0008-5472.CAN-14-1337. AACR PDF








31. Christine A. Caneba, Lifeng Yang, Joelle Baddour, Rebecca Curtis, Julia Win, Sean Hartig, Juan Marini, and Deepak Nagrath. Nitric Oxide is a Positive Regulator of the Warburg Effect in Ovarian Cancer Cells, Cell Death & Disease 5 (e1302), 2014. Nature PDF

30. Lifeng Yang, Tyler Moss, Lingegowda S Mangala, Juan Marini, Hongyun Zhao, Stephen Wahlig, Guillermo Armaiz‐Pena, Dahai Jiang, Abhinav Achreja, Julia Win, RajeshaRoopaimoole, Cristian Rodriguez‐Aguayo, Imelda Mercado‐Uribe, Gabriel Lopez‐Berestein, Jinsong Liu, Takashi Tsukamoto, Anil K. Sood, Prahlad T Ram, Deepak Nagrath. Metabolic shifts toward glutamine regulate tumor growth, invasion and bioenergetics in ovarian cancer. Molecular Systems Biology 10(5), 2014. MSB PDF

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29. Peter I. Kamel, Xin Qu, Andrew M. Geiszler, Deepak Nagrath, Romain Harmancey,Heinrich Taegtmeyer, K. Jane Grande-Allen, Metabolic regulation of collagen gel contraction by porcine aortic valvular interstitial cells. J. R. Soc. Interface December 6, 2014 11 101 20140852; doi:10.1098/rsif.2014.0852 1742-5662. RSIF PDF

28. M. Köhring, S. Huang, M. Jahjah, W. Jiang, W. Ren, U. Willer, C. Caneba, L. Yang, D. Nagrath, W. Schade, F.K. Tittel, QCL based TDLAS sensor for detection of NO towards emission measurements from ovarian cancer cells. Applied Physics B: Lasers and Optics, 2014. Springer PDF

27. Taichiro Nishikawa, Nadège Bellance, Aaron Damm, Han Bing, Zhen Zhu, Kan Handa, Mladen I. Yovchev, Vasudha Sehgal, Tyler J Moss, Michael Oertel, Prahlad Ram, Iraklis I. Pipinos, Alejandro Soto-Gutierrez, Ira J. Fox, Deepak Nagrath, A switch in the source of ATP production and a loss in capacity to perform glycolysis are hallmarks of hepatocyte failure in advance liver disease. Journal of Hepatology, Available online 26 February 2014. PubMed PDF

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26. Deepak Nagrath, Alejandro Soto-Gutierrez, Reply to: “Is the pathway of energy metabolism modified in advanced cirrhosis?” PDF, Journal of Hepatology, Volume 61, Issue 2, August 2014, Page 453, PDF

25. Nowicka, F. C. Marini, T. N. Solley, P.B. Elizondo, Z. Yan, H. J. Sharp, R. Broaddus, M. Kolonin, S. C. Mok, M. S. Thompson, W. A. Woodward, K. Lu, B. Salimian, D. Nagrath, A. H. Klopp,  Human Omental-Derived Adipose Stem Cells Increase Ovarian Cancer Proliferation, Migration and Chemoresistance, Plos One 8(12). 2013 PONE PDF

24. N. Berestovsky, W. Zhou, D. Nagrath, L. Nakhleh, Modeling Integrated Cellular Machinery Using Hybrid Petri-Boolean Networks, PloS Computational Biology 9(11). 2013 PDF

23. Christine Caneba, Nadège Bellance, Lifeng Yang, Lisa Pabst, Deepak Nagrath, Pyruvate uptake is increased in highly invasive ovarian cancer cells under anoikis conditions for anaplerosis, mitochondrial function and migration, American Journal of Physiology-Endocrinology And Metabolism, 303(8):E1036-52. 2012. PubMed PDF

22. Kakajan Komurov, Jen-Te Tseng, Melissa Muller, Elena G Seviour, Tyler J Moss, Lifeng Yang, Deepak Nagrath, Prahlad T Ram, The glucose-deprivation network counteracts lapatinib-induced toxicity in resistant ErbB2-positive breast cancer cells, Molecular Systems Biology 8 (1): 596. 2012. PubMed PDF

21. Nadège Bellance, Lisa Pabst, Genevara Allen, Rodrigue Rossignol, Deepak Nagrath, Oncosecretomics coupled to bioenergetics identifies α-amino adipic acid, isoleucine and GABA as potential biomarkers of cancer: Differential expression of c-Myc, Oct1 and KLF4 coordinates metabolic changes, Biochimica et Biophysica Acta – Bioenergetics, 1817(11):2060-71. 2012. PubMed PDF

20. Avila-Elchiver Marco, Nagrath Deepak, Yarmush and Martin L., Optimality and thermodynamics determine the evolution of transcriptional regulatory networks, Molecular Biosystems 8(2):511-30. 2012. PubMed PDF

19. Deepak Nagrath, Christine Caneba, Thasni Karedath, Nadege Bellance, Metabolomics for mitochondrial and cancer studies, Biochimica et Biophysica Acta – Bioenergetics 1807 (6), 650-663. 2011. PubMed PDF

18. Nripen S Sharma, Deepak Nagrath, Martin L Yarmush, Metabolic profiling based quantitative evaluation of hepatocellular metabolism in presence of adipocyte derived extracellular matrix, PloS one 6 (5). 2011. PDF

17. S. Wong and Deepak Nagrath, Liver Tissue Engineering in Biomaterials for Tissue Engineering Applications: A Review of the Past and Future Trends. Edited by Jason Burdick and Rob Mauck. Springer Publisher. 2011. Link

16. Deepak Nagrath*, Fang Xia* and Steven Cramer, Characterization and Modeling of Nonlinear Hydrophobic Interaction Chromatographic Systems, Journal of Chromatography A, 1218(9):1219-26. (* Equal Contribution) 2011. PubMed PDF

15. N. Sharma*, D, Nagrath* and M. Yarmush. Adipocyte Derived Basement Membrane Extract With Biological Activity: Applications in Hepatocyte Functional Augmentation In vitro. THE FASEB JOURNAL, 2010 Jul;24(7):2364-74 (* Equal Contribution) PDF

14. Deepak Nagrath*, Marco Avila*, Francois Berthiaume, A. Tilles, A. Messac, Martin L. Yarmush, Soft Constraints Based Multiobjective Framework for Metabolic Flux Analysis, Metabolic Engineering Sep;12(5):429-45. (* Equal Contribution). PubMed PDF

13. Nagrath D*, Xu H*, Tanimura Y, Zuo R, Berthiaume F, Avila M, Yarmush R, and Yarmush ML. Metabolic preconditioning of donor organs: defatting fatty livers by normothermic perfusion ex vivo. Metab Eng 2009 Jul-Sep; 11(4-5) 274-83. doi:10.1016/j.ymben.2009.05.005 pmid:19508897. (* Equal Contribution). (Selected as Cover Page article). PubMed PDF

12. Wang S*, Nagrath D*, Chen PC, Berthiaume F, and Yarmush ML. Three-dimensional primary hepatocyte culture in synthetic self-assembling peptide hydrogel. Tissue Eng Part A 2008 Feb; 14(2) 227-36. doi:10.1089/tea.2007.0143 pmid:18333775. (* Equal Contribution) PubMed

11. Nagrath D, Avila-Elchiver M, Berthiaume F, Tilles AW, Messac A, and Yarmush ML. Integrated energy and flux balance based multiobjective framework for large-scale metabolic networks. Ann Biomed Eng 2007 Jun; 35(6) 863-85. doi:10.1007/s10439-007-9283-0 pmid:17393337 PubMed PDF

10. Cho CH, Park J, Nagrath D, Tilles AW, Berthiaume F, Toner M, and Yarmush ML. Oxygen uptake rates and liver-specific functions of hepatocyte and 3T3 fibroblast co-cultures. Biotechnol Bioeng 2007 May 1; 97(1) 188-99. doi:10.1002/bit.21225 pmid:17054120 PubMed PDF

9. Xia F, Nagrath D, and Cramer SM. Effect of pH changes on water release values in hydrophobic interaction chromatographic systems. J Chromatogr A 2005 Jun 24; 1079(1-2) 229-35. pmid:16038309 PubMed PDF


8. Yokoyama T, Banta S, Berthiaume F, Nagrath D, Tompkins RG, and Yarmush ML. Evolution of intrahepatic carbon, nitrogen, and energy metabolism in a D-galactosamine-induced rat liver failure model. Metab Eng 2005 Mar; 7(2) 88-103. doi:10.1016/j.ymben.2004.09.003 pmid:15781418 PubMed PDF

7. Nagrath D, Bequette BW, Cramer SM, Messac A. Multiobjective optimization strategies for linear gradient chromatography. AICHE Journal 2005 Feb; 51(2) 511-525 PDF

6. Xia F, Nagrath D, Garde S, and Cramer SM. Evaluation of selectivity changes in HIC systems using a preferential interaction based analysis. Biotechnol Bioeng 2004 Aug 5; 87(3) 354-63. doi:10.1002/bit.20120 pmid:15281110 PubMed PDF

5. Ghose S, Nagrath D, Hubbard B, Brooks C, and Cramer SM. Use and optimization of a dual-flowrate loading strategy to maximize throughput in protein-a affinity chromatography. Biotechnol Prog 2004 May-Jun; 20(3) 830-40. doi:10.1021/bp0342654 pmid:15176889 PubMed PDF

4. Nagrath D, Messac A, Bequette BW, and Cramer SM. A hybrid model framework for the optimization of preparative chromatographic processes. Biotechnol Prog 2004 Jan-Feb; 20(1) 162-78. doi:10.1021/bp034026g pmid:14763840 PubMed PDF

3. Xia F*, Nagrath D*, and Cramer SM. Modeling of adsorption in hydrophobic interaction chromatography systems using a preferential interaction quadratic isotherm. J Chromatogr A 2003 Mar 7; 989(1) 47-54. pmid:12641281 (* Equal Contribution) PubMed PDF

2. Nagrath D, Bequette BW, Cramer SM. Evolutionary operation and control of chromatographic processes. AICHE Journal 2003 Jan; 49(1) 82-95 PDF

1. Nagrath D, Prasad V, Bequette BW. A model predictive formulation for control of open-loop unstable cascade systems. Chemical Engineering Science 2002 Feb; 57(3) 365-378. PDF