Publications Summary of publications (co)-authored by center faculty.

2023 (5)

  1. K. Brown, L. M. Jenkins, M., D. Crooks, D.B.Surman, S. Mazur, Y.Xu, B. Aramilli, Y. Yang,   A. Lane, T. Fan, D. Schrump, M. Linehan, R. T. Ripley, E. Appella (2023). Targeting Mutant-p53-R248W with NSC59984 Enhances Anti-Tumor Response and Alters the Onco-Metabolic Profile. Frontiers in Oncology 12: 1094210 
  2. Zhang, X., Su, Y., Lane, A.N., Stromberg, A., Fan, T. W-M. and Wang, C. (2023).  Bayesian Kinetic Modeling for Tracer-Based Metabolomic Data. BMC Bioinformatics 24:108
  3. Y. Tong, Y. Q. Xiong, T. L Scott , J.Chen, L. Li, D. He, C. Wang, A. N. Lane, and R. Xu (2023) PLOD2-induced succinate elevation enhances cancer cell stemness and 5hmC accumulation. PNAS 120: e2214942120
  4. JN Rashida Gnanaprakasam, B. Kushwaha, L. Liu, X. Chen, S. Kang, T.Wang, T.A. Cassel, C. M. Adams, R.M. Higashi, D. A. Scott, G. Xin, Z. Li., J. Yang, A. N. Lane, T.W.-M. Fan, J. Zhang, and R. Wang (2023). Asparagine restriction enhances CD8+ T cell metabolic fitness and antitumoral functionality through an NRF2-dependent stress response. Nat Metab. 5: 1423–1439.
  5. T. W.-M. Fan, J.Winnike, A.Al-Attar, K. Sellers, A. Belshoff, P. K. Lorkiewicz, J. L. Tan, R. M. Higashi, A.N. Lane. (2023) Differential Inhibition of anapleurotic pyruvate carboxylation and glutaminolysis underlies distinct toxicity of Se agents in human lung cancer.  Metabolites 13: 774

2022 (13)

  1. K.L. Fulghum, T.N. Audam, P. K Lorkiewicz, Y. Zheng, M. Merchant, T. D. Cummins, W. L Dean, T. A Cassel, T. W-M Fan, B.G. Hill. (2022) In vivo deep network tracing reveals phosphofructokinase-mediated coordination of biosynthetic pathway activity in the myocardium. J. Molecular and Cellular Cardiology  162, 32-42
  2. S.K. Dhar, T.L. Scott, Wang, C, T. W-M. Fan, D. K. St. Clair*(2022). Mitochondrial superoxide targets energy metabolism to modulate epigenetic regulation of NRF2-mediated transcription. Free Radical Biol. & Med. 79:181-189
  3. X. Chen, B. Sunkel, M. Wang, S. Kang, T. Wang, JN Rashida Gnanaprakasam, L. Liu, T. A. Cassel, D. A. Scott, A. M. Muñoz-Cabello, J. Lopez-Barneo, J. Yang, A. N. Lane, B. Stanton*, T. W.-M. Fan*, and R. Wang* (2022) Succinate dehydrogenase/complex II is critical for metabolic and epigenetic regulation of T cell proliferation and inflammation Science Immunology 7(70) eabm8161 [
  4. T. Chihanga, S. Vicente-Munoz, S. Ruiz-Torres , B. Pal , M. Sertorio, P. R. Andreassen, S. M. Davies, A.N. Lane, L. Romick-Rosendale, S.I. Wells* (2022) Head and neck cancer susceptibility and metabolism in Fanconi anemia.  Cancers 14, 2040
  5. J. Drury, L. E.A. Young, T. L. Scott, C. Kelson, D. He, J. Liu, Y. Wu, C. Wang, H.L. Weiss, T. Fan, M.S. Gentry, R. Sun, and Y. Y. Zaytseva* (2022) Tissue-specific deletion of fatty acid synthase is associated with increased survival and suppressed intestinal tumor development in the mouse model of Apc-driven colorectal cancer. Int. J. Molec. Sci. 23:6510
  6. P. Lin, T. W-M. Fan and A. N. Lane* (2022) Chemoselection and Isotopomer Distribution Analysis by NMR. Methods 206: 8-17
  7. S. Kang, L. Liu, T Wang, M. Cannon, P. Lin, T. W.-M. Fan, D. A. Scott, H-S. Joyce Wu, A. N. Lane, and R. Wang* (2022) GAB functions as a bioenergetic and signaling gatekeeper to control T cell inflammation. Nat. Metabolism 4: 1322-1335
  8. Scott, T.L; Zhu, J; Cassel, T.A; Vicente, S., Lin, P.,  Higashi, R.M; Lane, A.N*; Fan, T.W-M* (2022). A small-scale microwave-assisted acid hydrolysis method for glycogen determination and turnover in biological samples using Stable Isotope Resolved Metabolomics. Metabolites 12: 760
  9. Lin, P., Crooks, D., Linehan, W.M., Fan, T. W-M., Lane AN*. (2022) Resolving enantiomers of 2-hydroxy acids by NMR.  Anal Chem. 94: 12286-12291  
  10. T. Chihanga, S. Vicente-Muñoz, S. Ruiz-Torres, B. Pal , M. Sertorio, P. R. Andreassen, R. Khoury , P. Mehta ,S. M. Davies, A. N. Lane, L. E. Romick-Rosendale , S. I. Wells (2022) Dysregulation of Mitochondrial Metabolism in Fanconi Anemia-Deficient Cells. https://encyclopedia.pub/entry/24921
  11. T. W-M. Fan*, S. Daneshmandi, T. A. Cassel, M. B. Uddin, J. Sledziona, P. T. Thompson, P. Lin, R. M. Higashi, and A.N. Lane*. (2022) Polarization and b-glucan reprogram immunomodulatory metabolism in human macrophages and ex vivo in lung cancer tissues J Immunol 209:1674-1690
  12. A. Ali, S. Davidson, E. Fraenkel, I. Gilmore, T. Hankemeier,  J. Kirwan, A. N. Lane*, I. Lanekoff, M. Larion, L-I McCall, M. Murphy, J. Sweedler, C. Zhu. Single cell metabolism-current and future trends. Metabolomics 18:
  13. T. W-M. Fan*, Q. Sun, R. M. Higashi (2022) Ultrahigh resolution MS1/MS2-based Reconstruction of Metabolic Networks in Mammalian Cells Reveals Changes for Selenite and Arsenic Action  J. Biol. Chem. 298: 102586  

2021 (9)

1) M. J Merino, C. J. Ricketts, V. Moreno, Y. Yang, T. W.-M. Fan, A. N. Lane, P. S. Meltzer, C. D. Vocke, D. R. Crooks, W. M. Linehan* (2021) Multifocal renal cell carcinomas with somatic IDH2 mutation: report of a previously undescribed neoplasm. Am. J. Surg. Path. 45, 137-142

2) D. R. Crooks*, N. Maio*, M. Lang, C. J. Ricketts, A. Ferguson, S. Turan, Y-Y Kim, G. M. Cawthon, C. D. Vocke, F. Sohelian, N. De Van Alda, P. Jailwala, M. Tandon, B. Tran, T. W.-M. Fan, A. N. Lane, Y. Yang, T. A. Rouault, W. M. Linehan (2021). The oncometabolite fumarate promotes mutations and loss of mitochondrial DNA in fumarate hydratase-deficient tumors. Science Signaling 14, eabc4436

3) Q. Sun, T. W-M. Fan*, A.N. Lane, R. M. Higashi* (2021) Ion Chromatography-Ultra High-resolution MS1/MS2 Method for Stable Isotope-Resolved Metabolomics (SIRM) Reconstruction of Metabolic Networks. Anal. Chem. 93(5):2749-2757

4) Daneshmandi, S., Cassel, T.A., Lin, P., Higashi, R.M., Wulf, G.B., Boussiotis, V., Fan, T. WM*, Seth, P.* (2021) Targeting 6-Phosphogluconate Dehydrogenase generates T effector cells with enhanced effector phenotype and anti-tumor function. Cell reports 34(10):108831

5) Y-H Chang, J. D. Hoffman, L. M. Yanckello, P. Lin, G. Nehra, G. Chlipala, S. D. McCulloch, M.Flythe, A. N. Lane, S. J. Green, A. M.S. Hartz, A-L Lin (2021) Apolipoprotein E genotype-dependent nutrigenetic effects to prebiotic inulin for reducing risk for Alzheimer’s disease via gut-brain axis. Nutritional Neurosciences in press

6) P. Lin, J. Dai, D.R. Crooks, L. Neckers, R. M. Higashi, T. W-M Fan, A. N. Lane* (2021) NMR methods of determining lipid turnover via stable isotope resolved metabolomics Metabolites sp. Iss. 11, 202 [4.097]

7) Vicente-Muñoz, S., Lin, P., Fan, T. W-M. & Lane, A.N.* (2021) Analysis of 13C carboxylate isotopomers of metabolites using 15N cholamine chemoselection. Anal Chem 93, 6639-6637

8) Yang, J.S., Fan, T. W-M*., Brandon, J.A., Lane, A.N. & Higashi, R.M.*(2021) Rapid analysis of S-Adenosylmethionine (SAM) and S-Adenosylhomocysteine (SAH) isotopologues in stable isotope-resolved metabolomics (SIRM) using direct infusion nanoelectrospray ultra-high-resolution Fourier transform mass spectrometry (DI-nESI-UHR-FTMS). Anal Chim Acta 118, 338873

9) T. W.-M. Fan*, R. M. Higashi, M. Purdom, T. J. Bocklage, T. A. Pittman, D. He, C. Wang, A. N. Lane*. (2021) Variable metabolic and immune action of checkpoint inhibition in ex vivo patient-derived lung cancer tissue cultures. eLife in press

2020 (14)

1) Selivanov VA, Marin S, Tarragó-Celada J, Lane AN, Higashi RM, Fan TW, de Atauri P, Cascante M. (2020) Software Supporting a Workflow of Quantitative Dynamic Flux Maps Estimation in Central Metabolism from SIRM Experimental Data. Methods Mol Biol. 2088:271-298. doi: 10.1007/978-1-0716-0159-4_12.

2) E. M. Palmieri, M. Gonzalez-Cotto, W. A. Baseler, L. C. Davies, B. Ghesquiere, N. Maio, C. M. Rice, T. Rouault, T. A. Cassel, R. M. Higashi, A. N. Lane, T. W.-M. Fan, D. A. Wink, and D. W. McVicar (2020). Nitric Oxide Orchestrates the Rewiring of Carbon Utilization During M1 Macrophage Polarization. Nat. Commun. 11, 698

3) Z. Huang, A. N. Lane, T. W-M. Fan, R. M. Higashi, H.L. Weiss, X. Yin and C. Wang (2020). Differential Abundance Analysis with Bayes Shrinkage Estimation of Variance (DASEV) for Proteomics and Metabolomics Data. Sci Rep 9:17423

4) Lane, A.N.*, Higashi, R.M. & Fan, T. W-M. (2020) Metabolic reprogramming in tumors: contributions of the tumor microenvironment Genes & Disease invited review 7, 185-198

5) Sengupta, D., Cassell, T.A., Teng, K-u., Hu, P, Fan, T. W-M.*, Ghoshal, K.*(2020) Regulation of hepatic glutamine metabolism by miR-122. Molecular Metabolism 34, 174-186

6) J. S. Hardwick, M. M. Haugland A. H. El-Sagheer, D. Ptchelkine F. R. Beierlein., A. N. Lane, T. Brown, J. E. Lovett, and E. A. Anderson (2020). Establishing 2'-spin labeling as a minimally perturbing tool for DNA structural analysis. NAR 48, 2830-2840

7) R. Panarsky, D. R. Crooks, A. N. Lane, T.A. Cassel, Y. Yang, T. W-M. Fan, W. M. Linehan, J. A. Moscow. Fumarate hydratase-deficient renal cell carcinoma cells respond to asparagine by activation of the unfolded protein response and stimulation of the hexosamine biosynthetic pathway. Cancer & Metabolism 8, 7

8) Xiao GG, Zhang Z, Lu B, Wang H, Fan TW, Boros LG, Gao P, Pan Y, Go VLW. (2020) Proceedings of the 3rd International Conference for Cancer Metabolism and Therapy, October 12-14, 2018, Shanghai, China. Pancreas. 49:149-157

9) Wang, T., Gnanaprakasam, J., Hong, B., Sun, H., Liu, L., Miller, E., Song, X., Cassel, T.A., Sun, Q., Vicente-Munoz, S., Warmoes, M.O., Lane, A.N., Fan, T W-M.* & Wang, R.* (2020). Inosine is an alternative carbon supply that supports effector T cell proliferation and anti-tumor function under glucose restriction. Nat. Metabolism. 2, 635-347

10) H. Wu, T. Reizel, Y. J. Wang J. L. Lapiro, B. T. Kren, J. Schug, S. Rao, A, Morgan, A. Herman, L. L. Shekels, M. Rassette, A. N. Lane, T. A. Cassel, T. W. M. Fan, J. C. Manivel, S. Gunewardena, U. Apte, P. Sicinski, K. H. Kaestner, J. H. Albrecht* (2020). A negative reciprocal regulatory axis between cyclin D1 and HNF4α modulates cell cycle progression and metabolism in the liver. PNAS 117, 17177-17186

11) Fan, T. W-M.*, Higashi, R.M., Chernavskaya, Y. & Lane, AN.* (2020) Resolving metabolic heterogeneity in experimental models of the tumor microenvironment from a Stable Isotope Resolved Metabolomics perspective Metabolites 10, 249;

12) Y. Zhong, K. Mohan, J. Liu, A. Al-Attar, R. M. Flight, P. Lin, Q. Sun, M. O. Warmoes, R.R. Deshpande, H. Liu, K. Sik Jung, M. I. Mitov, N. Lin, D. A. Butterfield, S. Lu, J. Liu, H. N. B. Moseley, T. W. M. Fan, M. E. Kleinman, Q. J. Wang (2020) Loss of CLN3, the gene mutated in Juvenile Neuronal Ceroid Lipofuscinosis, leads to metabolic impairment and autophagy induction in retina pigment epithelium. Biochim Biophys Acta Mol Basis Dis 1866, 165883

13) Beger, R.D., Dunn, W.B., Bandukwala, A., Bethan, B., Broadhurst, D.B., Clish, C.B., Dasari, S., Derr, L., Evans, A., Fischer, S., Flynn, T., Thomas Hartung, T., Herrington, D., Higashi, R., Hsu, P-C., Jones, C., Kachman, M., Karuso, H., Kruppa, G., Lippa, K., Maruvada, P., Mosley, J., Ntai, I., O’Donovan, C., Playdon, M, Raftery, D., Shaughnessy, D., Souza, A., Spaeder, T., Spalholz, B., Tayyari, F., Ubhi, B., Verma, M., Walk, T., Wilson, I., Witkin, K., Bearden, D.W., and Zanetti, K.A. (2020) Towards Quality Assurance and Quality Control in Untargeted Metabolomics Studies. Metabolomics. 15: 4.

14) Lane A.N. (2020) Bacterial Repression, Lac and Trp Systems. In: Roberts G., Watts A., European Biophysical Societies (eds) Encyclopedia of Biophysics. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-642-35943-9_441-1

2019 (19)

1) R. A Kulkarni; C. A Briney; D. R Crooks; S. E Bergholtz; C.Mushti; A. N Lane; T. Fan; S. J Lockett; R. E Swenson; W. M. Linehan; J. L Meier (2019) Photoinducible Oncometabolite Detection. ChemBioChem 20, 360-365 doi.org/10.1002/cbic.201800651 [Cover Feature: Photoinducible Oncometabolite Detection (ChemBioChem 3/2019) ]

2) Crooks, D.R., Fan, T. W-M., Linehan, W.M. (2019) Metabolic Labeling of Cultured Mammalian Cells for Stable Isotope-Resolved Metabolomics: Practical Aspects of Tissue Culture and Sample Extraction. Springer Methods in Molecular Biology. 1928:1-27 DOI:10.1007/978-1-4939-9027-6_1

3) Lane, A.N., Higashi, R.M. & Fan, T. W-M.* (2019) NMR and MS-based Stable Isotope-Resolved Metabolomics and Applications in Cancer Metabolism. Trends Anal Chem. 120, 115322 Invited review. https://doi.org/10.1016/j.trac.2018.11.020

4) R. Beger; W. B. Dunn, A. Bandukwala; B. Bethan; D. Broadhurst; C. Clish; S. Dasari; L. Derr; A. Evans; S. Fischer; T. Flynn; T. Hartung; D. Herrington; R. Higashi; P-C. Hsu; C. Jones; M. Kachman; H. Karuso; G. Kruppa; K. Lippa; P. Maruvada; J. Mosley; I. Ntai; C. O'Donovan; M. Playdon; D. Raftery; D. Shaughnessy; A. Souza; T. Spaeder; B. Spalholz; F. Tayyari; B. Ubhi; M. Verma; T. Walk; I. Wilson; K. Witkin; D. Bearden; K. Zanetti (2019) Towards Quality Assurance and Quality Control in Untargeted Metabolomics Studies. Metabolomics 15: 4

5) Sreedhar, A., Cassel, T.A., Smith, P., Lu, D., Nam, H.W, Lane, A.N.* Y. Zhao, Y.* (2018) UCP2 overexpression redirects glucose into anabolic metabolic pathways. Proteomics e201800353 DOI: 10.1002/pmic.201800353

6) Sellers, K, Allen, T., Bousamra, M., Tan, J., Lin, W., MacRae, J., Chernyavskaya, Y., Lane, A.N., Higashi, R.M., Fan, T. W-M.*, & Yuneva, M.* (2019) Metabolic reprogramming and Notch activity distinguish between non-small cell lung cancer subtypes. Brit. J. Cancer 121, 51-64 https://doi.org/10.1038/s41416-019-0464-z

[Editorial Commentary: O.T. Brustugun A NOTCH added to metabolomics https://doi.org/10.1038/s41416-019-0463-0]

7) P. Lin, T. W-M Fan*, and A. N. Lane* (2019). Stable Isotope Resolved Metabolomics by NMR. Springer Methods in Molecular Biology. Invited chapter 2037:151-168

8) Yang, Y., Lane, A.N., Fan, T. W-M. , R. M. Higashi* (2019). Quantification of Isotopologues of Amino Acids by Multiplexed Stable Isotope Resolved Metabolomics using Ultrahigh Resolution Mass Spectrometry Coupled with Direct Infusion. Amino Acid Analysis: Methods and Protocols, Methods in Molecular Biology, 2030:57-68 [Blog]

9) Y-A. Wen, X. Xiong, T. Scott, A. Li, C. Wang, H. Weiss, L.Tan, E. Bradford, T. Fan, N. Chandel, T. Barrett , T. Gao (2019). The mitochondrial retrograde signaling regulates Wnt signaling to promote tumorigenesis in colon cancer. Cell Death & Diff. 26:1955-1969 doi: 10.1038/s41418-018-0265-6

10) W-Y Kang, P. T. Thompson, S. El-Amouri, T. W.M. Fan, A. N. Lane, R. M. Higashi*, (2019). An Improved Segmented-Scan Spectral Stitching Method (S8) for FT mass spectrometry. Anal. Chim. Acta 1080, 104-115 doi: 10.1016/j.aca.2019.06.019

11) Bruntz, R.C., Belshoff, A.C., Zhang, Y., Higashi, R.M., Lane, A.N., Fan, T. W-M.* (2019) Differential Inhibition of anaplerotic glutaminolysis underlies distinct toxicity of Se agents in human lung cancer. Proteomics invited paper e1800486

12) Fan, T. W-M.*, Bruntz, R.C., Yang, Y., Stine, Z.E., Le, A., Song, H., Deng, P., Zhang, Y., Shah, P.P., Beverly, L.J., Qi, Z., Ji, H., Higashi, R.M., Dang, C.V. & Lane, A.N.* (2019) Purine nucleotide biosynthesis is preferentially fueled by de novo serine and glycine synthesis in human lung cancer tissues. J. Biol. Chem. 294, 13464-13477

13) Zhang, Y., Zhang, X., Lane, A, Fan, T.W.M, Liu, J. (2019) Inferring Transcription Factors Governing Metabolic Reprogramming Using Gradient Boosted Trees. IEEE Journal of Biomedical and Health Informatics. In press

14) S. Kishimoto;J. R. Brender; S. Matsumoto; T. Seki, N. Oshima; H. Merkle; P. Lin., G. Reed, A. P. Chen; J.H.Ardenkjaer-Larsen , J. Munasinghe, K. Saito; K. Yamamoto; P. L. Choyke, J. Mitchell; W. M.Linehan; T.W-M. Fan, A.N. Lane, M. C. Krishna (2019). Imaging of glucose metabolism by 13C-MRΩ distinguishes pancreatic cancer subtypes. eLife 8:e46312

15) T. N. Rao*, N. Hansen, J. Hilfiker, S. Rai, J.-M. Majewska, T. Cassel, F. Geier, J. Delezie, R. Nienhold, H. H. Shen, C. Beisel, S. Di Palma, J. Trebicka, D. Wolf, M. Gassmann, A. N. Lane, T. W.-M. Fan, C. Handschin, S. Dirnhofer, N. Kröger, C. Hess, T. Radimerski, and R. C. Skoda. (2019) Metabolic Alterations in JAK2 Mutant Hematopoietic Cells Represent Therapeutic Vulnerabilities for Myeloproliferative Neoplasms. Blood 134:1832-184 [16.56] doi.org/10.1182/blood.2019000162 Editorial Comment: CK Brierley & B. Psaila (2019) Blood 134, 1778-1780

16) Y. Li, T. W-M. Fan, A. N. Lane, W-Y. Kang, S.M. Arnold, A. J. Stromberg, C. Wang* & L. Chen A. (2019) SDA: A Semi-parametric Differential Abundance Analysis Method for Metabolomics and Proteomics Data. BMC Bioinformatics 20, 501-511

17) Sun, Q., Fan, T. W-M.*, Lane, A.N., Higashi, R.M.* (2019)Applications of Chromatography-Ultra High-resolution MS for Stable Isotope-Resolved Metabolomics (SIRM) Reconstruction of Metabolic Networks. TrAC invited review 123, 115676 [7.46] https://doi.org/10.1016/j.trac.2019.115676

18) Lane, A.N.*, Higashi, R.M. & Fan, T. W-M. (2019) Metabolic reprogramming in tumors: contributions of the tumor microenvironment Genes & Disease invited review in press https://doi.org/10.1016/j.gendis.2019.10.007

19) H. Reyes-Caballero, X. Rao, Q. Sun, M. Warmoes, Lin P., T. Sussan, B. Park, T. Fan, A. Maiseyeu, S. Rajagopalan, G. Girnun, S. Biswal (2019). Particulate matter dysregulates Krebs cycle, glucose and lipid metabolism in liver prior to establishment of metabolic phenotype in an animal model. Sci Rep. 9, 17423

* Cover Feature
#  Editorial Commentary: O.T. Brustugun A NOTCH added to metabolomics https://doi.org/10.1038/s41416-019-0463-0

Others using the facilities:

1) Unruh, D. et al. (2016) Mutant IDH1 and thrombosis in gliomas. Acta Neuropathologica 132, 917-930 87. Y. Yang (2017) Metabolic Reprogramming of Human Lung Cancer Cells and Ex vivo Tissues Revealed by UHR-FTMS Analysis of Small Amino and Carboxyl Metabolites. PhD Thesis (R. Higashi advisor), UKy.

2) Cui, Z., Wang, X., Koppermann, S., Thorson, J.S., Ducho, C. and Van Lanen, S.G. (2018) Antibacterial Muramycins from Mutant Strains of Streptomyces sp. NRRL 30471. J. Nat. Prod. 81:942-948 DOI: 10.1021/acs.jnatprod.7b01054 

3) R.C. Sun, V. V. Dukhande, Z. Zhou, L. E.A. Young, S. Emanuelle, C. F. Brainson, M. S. Gentry (2019) Nuclear Glycogenolysis Modulates Histone Acetylation in Human Non-Small Cell Lung Cancers Cell Metab. 30, 903–916

2018 (15)

  1. Hardwick, J., Lane, A.N., Brown, T. (2018) Epigenetic modifications of cytosine: biophysical properties, regulation and function in mammalian DNA. BioEssays 40, 1700199. DOI: 10.1002/bies.201700199
  2. Smelter A, Moseley HNB. (2018) A Python library for FAIRer access and deposition to the Metabolomics Workbench Data Repository. Metabolomics 14(5):64.
  3. Fan, T. W-M., Zhang, X., Wang, C., Yang, Y., Kang, W-Y., Higashi, R.M., Liu, J., Lane, A.N. (2018) Exosomal lipids for classifying early and late stage non-small cell lung cancer. Anal. Chim. Acta. 1037, 256-264 10.1016/j.aca.2018.02.051
  4. Crooks,D.R., Maio, N., Lane, A.N., Fan, T. W-M., Jarnik, M., Haller, R.G., Higashi, R.M., Yang, Y., Linehan, W.M., Rouault, T.A. A novel pathway generates lipid droplets in cells unable to synthesize iron sulfur clusters. J. Biol. Chem. 293, 8297–8311 doi: 10.1074/jbc.RA118.001885*
  5. Zaytseva, Y.Y., Rychacho, P.G., Le, A-T., Scott, T.L., Flight, R.M., Kim, J.T., Harris, J., Liu, J., Wang, C., Morris, A., Arumugam, S.T., Fan, T.W-M., Moseley, H.N.B., Gao, T., Lee, E.Y., Weiss, H., Heuer, T.S., Kemble, G. & Evers, B.M. (2018) Activation of Akt pathway and autophagy promotes resistance to fatty acid synthase inhibition in colorectal cancer. Oncotarget 9:24787-24800
  6. Zhang, Y., Zhang, X., Lane, A.N., Fan, T. W-M., Liu, J. (2018) TFmeta: A Machine Learning Approach to Uncover Transcription Factors Governing Metabolic Reprogramming. BCB '18 Proceedings of the 2018 ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics pp 351-359
  7. Fan, T. W-M., El-Amouri, S.S., Macedo, J.K.A., Wang, Q.J., Cassel, T.A. and Lane, A.N. (2018) Mapping Metabolic Networks in 3D Spheroids Using Stable Isotope-Resolved Metabolomics. Metabolites 8, 40
  8. Liu, J., Murali, T., Liu, C., Yu, T., Arumugam, S.T., Moseley, H.N.B., Jouline, I., Weiss, H.L., Durbin, E., Ellingson, S., Liu, J., Hallahan, B.J., Horbinski, C., Fardo, D., Wang, C, Arnold, S.M. (2018) Characterization of Squamous Cell Lung Cancers from Appalachian Kentucky. Cancer Epidemiol. Biomarkers & Prevention. In press DOI: 10.1158/1055-9965.EPI-17-0984
  9. Mitchell, J.M., Flight, R.M., Wang, Q., Lane, A.N., Higashi, R.M., Fan, T. W-M., and Moseley, H.N.B.. Detection and Handling of Spectral Artefacts in Fourier Transform Mass Spectra of Metabolomics Experiments. Metabolomics 14, 125
  10. Lian, G., Gnanaprakasam, J.N.R., Wang, T., Wu, R., Chen, X., Liu, L., Shen, Y., Yang, M., Yang, J., Chen, Y., Vasiliou, V., Cassel, T.A., Green, D.R., Liu, Y., Fan, T.W.-M. & Wang, R. (2018) Glutathione de novo synthesis but not recycling process coordinates with glutamine catabolism to control redox homeostasis and directs murine T cell differentiation. eLife 7:e36158
  11. Chen, X., Smelter, A., Moseley, H.N.B. (2018) Automatic 13C chemical shift reference correction for unassigned protein NMR spectra. J Biomol NMR.  72:11-28
  12. Kulkarni RA, Briney CA, Crooks DR, Bergholtz SE, Mushti C, Lane AN, Fan T, Lockett SJ, Swenson RE, Linehan WM, Meier JL. (2018) Photoinducible Oncometabolite Detection. Chembiochem.  PMID:30358041 doi: 10.1002/cbic.201800651
  13. Xiong, G., Stewart, R., Chen, J., Gao, T., Scott, T.L., Samayoa, L.M., O’Connor, K., Lane, A.N., Xu, R. (2018) Collagen prolyl-hydroxylase 1 is essential for HIF-1α stabilization and chemoresistance in TNBC. Nat. Commun. 9:4456

*Editor's Choice

 

Others Using the Facilities

  1. Z. Cui, X. Wang, S. Koppermann, J. S. Thorson, C. Ducho, and S. G. Van Lanen (2018) Antibacterial Muraymycins from Mutant Strains of Streptomyces sp. NRRL 30471. J. Nat. Prod. 81:942-948 DOI: 10.1021/acs.jnatprod.7b01054
  2. Fan, T. W-M., & Lane, A.N. (2018) Stable Isotope Tracing in Cancer Metabolism CIL applications.

2017 (17)

  1. Lane, A.N., Tan, J., Wang, Y., Yan, J., Higashi, R.M., Fan, T.W-M. (2017) Probing the metabolic phenotype of breast cancer cells by multiple tracer Stable Isotope Resolved Metabolomics. Metabolic Engineering sp issue 43, 125-136
  2. Lane, A.N. & Fan, T. W-M. (2017) NMR-Based Stable Isotope Resolved Metabolomics in Systems Biochemistry. Arch. Biochem. Biophys. 628, 123-131
  3. S Yao, RM Flight, EC Rouchka, HNB Moseley (2017) Aberrant coordination geometries discovered in the most abundant metalloproteins. Proteins: Structure, Function, and Bioinformatics. 85, 885-907
  4. S Yao, RM Flight, EC Rouchka, HNB Moseley (2017) Perspectives and expectations in structural bioinformatics of metalloproteins. Proteins: Structure, Function, and Bioinformatics, 85, 938-944
  5. Yang, Y., Higashi, R.M., Lane, A.N., Fan, T. W-M. (2017) Chloroformate Derivatization for Tracing the Fate of Amino Acids in Cells and Tissues by Multiple Stable Isotope Resolved Metabolomics (mSIRM). Anal. Chim. Acta 976, 63-73
  6. Hardwick, J.S., Ptchelkine, D., El Sagheer, A.H., Tear, I., Singleton, D., Phillips, S.E.V., Lane, A.N. & Brown, T. (2017) 5-formylcytosine does not change the global structure of DNA Nat. Struct. Molec. Biol. 24, 544-552
  7. Matrka, M.C., Watanabe, M., Menon, R.M., Lambert, P.F., Lane, A.N., Romick-Rosendale, L.E., Wells, S.I. Overexpression of the human DEK oncogene reprograms cellular metabolism. PLoS One 12: e0177952
  8. Webb, S., Nagy, T., Moseley, H.N.B., Fried, M., Dutch, R.E. (2017) "Hendra virus fusion protein transmembrane domain contributes to pre-fusion protein stability" J. Biol. Chem. 292, 5685.
  9. Bruntz, R., Higashi, R.M., Lane, A.N., Fan, T. W-M. (2017) Exploring Cancer Metabolism using Stable Isotope Resolved Metabolomics (SIRM). J. Biol. Chem. 292, 11601-11609
  10. Zhao J., Li, J., Fan, T. W-M. & Hou, S. (2017) Glycolytic Reprogramming through PCK2 Regulates Tumor Initiation of Prostate Cancer Cells Oncotarget 8, 83602-83618
  11. Smelter, A., Rouchka, E.C., and Moseley, H.N.B. (2017) Detecting and accounting for multiple sources of positional variance in peak list registration analysis and spin system grouping J. Biomol. NMR 68, 281-296
  12. Verdegem, D., Moseley, H.N.B., Vermaelen, W., Sanchez, A.A., and Ghesquière, B. (2017) MAIMS: A software tool for sensitive metabolic tracer analysis through the deconvolution of 13C mass isotopologue profiles of large composite metabolites. Metabolomics13: 123
  13. Sun, R.C., Fan, T. W-M., Deng, P., Higashi, R.M., Lane, A.N., Scott, T.L., Sun, Q., Warmoes, M.O., Yang, Y.(2017) Noninvasive liquid diet delivery of stable isotopes into mouse models for deep metabolic network tracing. Nat. Commun. 8, 1646
  14. Kuperman RG, Checkai RT, Simini M, Phillips CT, Higashi RM, Fan TW, Sappington K. (2017) Selenium Toxicity To Survival And Reproduction Of Collembola And Enchytraeids In A Sandy Loam Soil.Environ Toxicol Chem. 37:846-853 doi: 10.1002/etc.4017
  15. Deng, P., Higashi, R.M., Lane, A.N., Bruntz, R.C., Sun, R.C., Raju, R.R., Nantz, M.H., Qi, Z., Fan, T. W-M. (2017) Quantification and Identification of Carbonyls Using Chemoselective Tagging and Nanospray FT-MS. Analyst. 43, 311-322
  16. Fan, T. W-M., El-Amouri, S.S., Macedo, J.K.A. & Lane, A.N. (2017) Mapping Metabolic Networks in 3D spheroids using Stable Isotope-Resolved Metabolomics (SIRM). In Proceedings of the The 2nd International Electronic Conference on Metabolomics, 20–27 November 2017; Sciforum Electronic Conference Series, 2, 2017 ; doi:10.3390/iecm-2-05035

Others Using the Facilities

17. Yang, Y. (2017) Metabolic Reprogramming of Human Lung Cancer Cells and Ex vivo Tissues Revealed by UHR-FTMS Analysis of Small Amino and Carboxyl Metabolites. Ph.D. Thesis, University of Kentucky.

2016 (9)

  1. Fan, T. W-M., Lane, A.N., Higashi, R.M. (2016) Stable Isotope Resolved Metabolomics studies in ex vivo tissue slices. Bio-protocol6, e1730
  2. Fan, T. W-M. & Lane, A.N. (2016) Applications of NMR to Systems Biochemistry. Prog. NMR Spectrosc. 92,18-53
  3. Sud M, Fahy E, Cotter D, Azam K, Vadivelu I, Burant C, Edison A, Fiehn O, Higashi R, Nair KS, Sumner S, Subramaniam S. (2016) Metabolomics Workbench: An international repository for metabolomics data and metadata, metabolite standards, protocols, tutorials and training, and analysis tools. Nucleic Acids Res. 44(D1):D463-70.
  4. Fan, T. W-M., Warmoes, M.O., Sun, Q., Song, H., Turchan-Cholewo, J., Martin, J.T., Mahan, A.L.,Higashi, R.M., Lane, A.N. (2016) Distinctly perturbed metabolic networks underlie differential tumor tissue damages induced by immune modulator beta-glucan in a two-case ex vivo non-small cell lung cancer study. CSH Molecular Case Studies J. 2, a0008.
  5. Li, J., Song, J., Zaytseva, Y.Y., Liu, Y., Rychahou, P., Jiang, K., Starr, M.E., Kim, J.T., Harris, J.W., Yiannikouris, F.B., Katz, W.S., Nilsson, P.M., Orho-Melander, M., Chen, J., Zhu, H., Fahrenholz, T., Higashi, R.M., Gao, T., Morris, A.J., Cassis, L.A., Fan, T. W-M., Weiss, H.L., Dobner, P.R., Melander, O., Jia, J., Evers, B.M. (2016) An obligatory role for neurotensin in high fat diet-induced obesity. Nature 533, 411415
  6. Lane, A.N., Higashi, R.M. & Fan, T. W-M. (2016) Models for evaluating drug responses in cancer by Stable Isotope Resolved Metabolomics (SIRM). Metabolomics 12, 108.
  7. Beger, R.D., Dunn, W., Schmidt, M.A., Gross, S.S., Kirwan, J.A., Cascante, M., Brennan, L., Wishart, D.S., Oresic, M., Hankemeier, T., Broadhurst, D.I., Lane, A.N., Suhre, K., Kastenmüller, G., Zanetti, K., Kaddurah-Daouk, R. (2016) Metabolomics Enables Precision Medicine - A White Paper, Community Perspective Metabolomics, 12, 149
  8. Wang,Q., Zhou,Y., Rychahou, P., Fan, T.W-M., Lane, A.N., Weiss, H.L., Evers, B.M. (2016) Ketogenesis contributes to intestinal cell differentiation. Cell Death and Disease, 24, 458-468

Others using the facilities:

9. Unruh, D. et al. (2016) Mutant IDH1 and thrombosis in gliomas. Acta Neuropathologica 132, 917-930

2015 (9)

  1. Lane, A.N., Arumugam, S., Lorkiewicz P.K., Higashi, R.M., Laulhe, S., Nantz, M.H., Moseley, H.N.B., Fan, T. W-M. (2015) Chemoselective detection of carbonyl compounds in metabolite mixtures by NMR. Mag Res Chem. 53, 337-343 DOI 10.1002/mrc.4199
  2. Sellers, K., Fox, M.P., Bousamra, M., Slone, S., Higashi, R.M.,Miller, D.M., Wang, Y., Yan, J., Yuneva, M., Deshpande, R., Lane, A.N.,Fan, T. W-M. (2015) Pyruvate Carboxylase is Critical in Non-Small Cell Lung Cancer. J. Clin. Invest. 125(2): 687-698 .doi:10.1172/JCI72873. [Commentary by C.T. Hensley, R.J. DeBerardinis J Clin Invest. 2015;125(2):495-497]
  3. Lane, A.N. & Fan, T. W-M. (2015) Regulation of mammalian metabolism and biosynthesis. Nucl. Acids Res. 43, 2466-2485
  4. Yao S, Flight RM, Rouchka EC, Moseley HNB. (2015) Proteins 83, 1470-87 A less-biased analysis of metalloproteins reveals novel zinc coordination geometries. Proteins 83, 1470-87 
  5. Tarrado-Castellarnaua, M., Zanuy, R.C.M., Tarragó-Celada, J., Polat, I.H., Hill, R., Fan, T. W-M., Link, W. Marta Cascante, M. (2015) Methylseleninic acid promotes antitumour effects via nuclear FOXO3a translocation through Akt inhibition. Pharmacological Research. 102:218-234
  6. Nalabothula N, Al-Jumaily T, Eteleeb AM, Flight RM, Xiaorong S, Moseley H Nalabothula N, Al-Jumaily T, Eteleeb AM, Flight RM, Xiaorong S, Moseley H, Rouchka EC, Fondufe-Mittendorf YN. Genome-Wide Profiling of PARP1 Reveals an Interplay with Gene Regulatory Regions and DNA Methylation PLoS One. 10:e0135410
  7. Saxena, N., Maio, N., Crooks, D.R., Ricketts, C.J., Yang, Y., Wei, M-H., Fan, T. W-M., Lane, A.N., Sourbier, C., Rouault, T.A., Linehan, W.M. (2015) SDHB-Deficient Cancers: The Role of Mutations That Impair Iron Sulfur Cluster Delivery JNCI 108, djv287
  8. Liu M, Luo F, Ding C, Albeituni S, Hu X, Ma Y, Cai Y, McNally L, Sanders MA, Jain D, Kloecker G, Bousamra M 2nd, Zhang HG, Higashi RM, Lane AN, Fan TW, Yan J. (2015) Particulate β-Glucan Converts Immunosuppressive Macrophages into M1 Phenotype Through Dectin-1-induced Syk-Card9-Erk Pathway and Raf-1-c-Maf Pathway. J. Immunol. 195, 5055-5065
  9. Lane, A.N., Fan, T. W-M., Yan, J. (2015) 13C Tracer studies in mouse tumor xenografts. Bio-protocol 5(22): e1650

2014 (10)

  1. Higashi, R.M., Fan, T. W-M., Lorkiewicz, P.K., Moseley, H.N.B., Lane, A.N. (2014) Stable Isotope Labeled Tracers for Metabolic Pathway Elucidation by GC-MS and FT-MS. in Mass Spectrometry Methods in Metabolomics, vol. 1198 D. Raftery Editor, Humana Press. Ch. 11
  2. Guin, S., Pollard, C., Owens, C., Ru, Y., Lew, C.R., Dancik, G., Spencer, A., Knight, S., HoGupta, S., Hansel, D., Hellerstein, M., Lorkiewicz, P.K., Lane, A.N., Fan, T. W-M., & Theodorescu, D.(2014) . AGL, a glycogen debranching enzyme lost in human glycogen storage disease, suppresses tumor growth. JNCI 106, dju062
  3. Xie, H., Hanai,J., Ren, J-G., Kats, L., Burgess ,K., Bhargava, P.,Signoretti,S., Billiard, J., Duffy,K.J., Grant,A, Wang,X., Lorkiewicz, P.K., Schatzman,S., Bousamra II,M., Lane, A.N., Higashi, R.M., Fan, T. , W-M., Pandolfi,P.P.P., Sukhatme,V.P., and Seth, P. Targeting lactate dehydrogenase-A (LDH-A) inhibits tumorigenesis and tumor progression in mouse models of lung cancer and impacts tumor-initiating cells. Cell Metabolism 19, 795-809
  4. D.B. Wilburn, K.E. Bowen, K.A. Doty, S. Arumugam, A.N. Lane, P.W. Feldhoff, and R.C. Feldhoff (2014) Sexual selection drives a novel disulfide bond pattern in a three-finger protein pheromone. PLosOne. I 9(5):e96975
  5. SS Gori, P Lorkiewicz, DS Ehringer, AC Belshoff, RM Higashi, TW-M Fan and MH Nantz (2014) Profiling Thiol Metabolites and Quantification of Cellular Glutathione using FT-ICR-MS Spectrometry. Analytical & Bioanalytical Chemistry 406, 4371-9
  6. J-G. Ren, P. Seth, C. B. Clish, P. K. Lorkiewicz. R. M. Higashi, A. N. Lane, T.W.-M. Fan and V. P. Sukhatme. (2014) Knockdown of Malic Enzyme 2 Suppresses Lung Tumor Growth. Scient. Reports 4, 5414
  7. Mitchell, J.M., Fan, T. W-M., Lane, A.N., Moseley, H.N.B. (2014) Informatics approaches to 'omics systems integration Frontiers in Genetics (Systems Biology) 5, 237
  8. Chesney, J., Clark, J., Klarer, A.C., Imbert-Fernandez, Y., Lane, A.N. and Telang, S. (2014) Fructose-2,6-Bisphosphate Synthesis by PFKFB4 is Required for the Glycolytic Response to Hypoxia and Tumor Growth. Oncotarget 5, 6670-6686
  9. Eteleeb, A.M., Moseley, H.N.B., and Rouchka, E.C. (2014)  A Comparison of Combined P-value Methods for Gene Differential Expression Using RNA-Seq Data. Proceedings of the 5th ACM Conference on Bioinformatics, Computational Biology and Health Informatics, pp 417-425
  10. Pan J, Bhardwaj M, Faulkner JR, Nagabhyru P, Charlton ND, Higashi RM, Miller AF, Young CA, Grossman RB, Schardl CL. (2014) Ether bridge formation in loline alkaloid biosynthesis. Phytochemistry 98:60-8

2013 (9)

  1. Fan, T.W-M., & Lane, A.N (2013) Methodologies for Metabolomics: Experimental Strategies and Techniques, edited by Norbert Lutz, Jonathan V. Sweedler, and Ron A.Weavers Cambridge University Press. Ch 24. ISBN:9780521765909
  2. Maldonado, C., Pushpakumar, S.B., Arumugam, S., Perez-Abadio, G., Lane, A.N. (2012) Administration of Exogenous ATP to Ischemic Skeletal Muscle Induces an Energy Sparing Effect that Involves Adenosine Receptors. Journal of Surgical Research181:e15-22. DOI: 10.1016/j.jss.2012.06.033
  3. Lane A.N. (2013) Bacterial repression: The Lac and Trp Systems. Online Encyclopedia of Biophysics, Springer Verlag. Pp 168-172DOI 10.1007/978-3-642-16712-6
  4. Reynolds, M.R., Lane, A.N., Kemp, S., Liu, Y., Hill, B., Dean, D.C., Clem, B.F. (2013) Control of Glutamine Metabolism By the Tumor Suppressor Rb. Oncogene 33(5):556-66
  5. Dong, C., Yuan, T., Wu, Y., Wang, Y., Fan, T. W-M., Miriyala, S., Lin, Y., Yao, J., Shi, J., Lorkiewicz, P.K., St Clair, D., Hung, M-C., Evers, B.M., and Zhou, B.P. (2013) Loss of FBP1 by Snail-mediated Repression Provides Metabolic Advantages in Basal-like Breast Cancer. Cancer Cell 23, 316-331
  6. Moseley, H.N.B. (2013) Error Analysis and Propagation in Metabolomics Data Analysis. Computational and Structural Biotechnology Journal. 4, e201301006
  7. Buscaglia, R., Miller, M; Dean, W.L.; Gray, R.D.; Lane, A.N.; Trent, J.O.; Chaires, J.B. (2013) Polyethylene glycol binding alters G-quadruplex structure by conformational selection. Nucl. Acids Res., 41:7934-46.
  8. Yang, Y., Lane, A.N., Fan, T.W-M., Rickets, C., Wu, M., Boros, L., Linehan, W.M. Understanding How Fumarate Hydratase (FH) Null Cells Use its Central Carbon for Energy and Malignant Development . PlosOne 8, e72179
  9. Carreer, W.J., Flight, R.M., Moseley, H.N.B. (2013) A computational framework for high-throughput isotopic natural abundance correction of omics-level ultra-high resolution FT-MS datasets. Metabolites, 3, 853-866. 

2012 (15)

  1. Yuneva, M.O., Fan, T.W-M., Higashi, R.M., Allen, T.A., Balakrishnan, A., Goga, A., Ferraris, D.V., Tsukamoto, T., Wang, C., Seo, Y., Xin Chen, X., Bishop, J.M. (2012) The Initiating Oncogenic Lesion Determines Metabolic Properties of Tumors and Cellular Sensitivity to Inhibition of Glutaminase. Cell Metabolism 15:157-70
  2. Fan, T. W-M., Lorkiewicz, P., Sellers, K., Moseley, H.N.B., Higashi, R.M., Lane, A.N. (2012) Stable Isotope-resolved metabolomics: past, present, and future. Pharmacology & Therapeutics 133:366-91.
  3. Lorkiewicz, P., Higashi, R.M., Lane, A.N., Fan, T. W-M. (2012) Method for nucleotide detection using direct-infusion FT-ICR MS for the purpose of Stable Isotopic Resolved Metabolomics (SIRM) analysis. Metabolomics. 8, 930-939. doi:10.1007/s11306-011-0388-y
  4. Le, A., Lane, A.N., Hamaker, M., Bose, S., Barbi, J., Tsukamoto, T., Rojas, C.J., Slusher, B.S., Zhang, H., Zimmerman. L.J., Liebler, D.C., Slebos, R.J.C., Lorkiewicz, P.K., Higashi, R.M., Fan, T.W-M., and Dang, C.V. (2012) Myc induction of hypoxic glutamine metabolism and a glucose-independent TCA cycle in human B lymphocytes. Cell Metabolism 15, 110-121
  5. Li M, Biswas S, Nantz MH, Higashi RM, Fu XA (2012) Preconcentration and analysis of trace volatile carbonyl compounds. Anal Chem. 84:1288-93.
  6. Muenyi, C.S., Pinhas, A.R., Fan, T. WM., Brock, G.N., Helm, C. W. and States, J.C. (2012) Sodium arsenite ± hyperthermia sensitize p53 expressing human ovarian cancer cells to cisplatin by modulating platinum DNA damage responses, Toxicological Sciences127:139-49.
  7. Fan, T.W-M., Higashi, R.M. & Lane, A.N. (2012) "Overview of Metabolomics" in The Handbook of Metabolomics Methods in Pharmacology and Toxicology, vol. 17 Humana Press, Ch. 1 DOI 10.1007/978-1-61779-618-0_4,
  8. Fan, T.W-M. (2012) "Considerations of Sample Preparation for Metabolomics Investigation." The Handbook of Metabolomics Methods in Pharmacology and Toxicology, vol. 17 Humana Press Ch. 2. DOI 10.1007/978-1-61779-618-0_4.
  9. Fan, T.W-M. (2012) "Metabolomics-Edited Transcriptomics Analysis (META)" The Handbook of Metabolomics Methods in Pharmacology and Toxicology, vol. 17 Humana Press, Ch. 14. DOI 10.1007/978-1-61779-618-0_4,
  10. Higashi, R.M. (2012) Structural Mass Spectrometry for Metabolomics. The Handbook of Metabolomics Methods in Pharmacology and Toxicology, vol. 17 Humana Press Ch 4. DOI 10.1007/978-1-61779-618-0_4
  11. Lane, A.N. (2012) NMR applications in metabolomics." The Handbook of Metabolomics Methods in Pharmacology and Toxicology, vol. 17 Humana Press Ch 6. DOI 10.1007/978-1-61779-618-0_4
  12. Poulo, J.M., Elston, T., Lane, A.N., Macdonald, J.M. and Cascante, M. (2012) "Introduction to Metabolic Control Analysis (MCA)." The Handbook of Metabolomics Methods in Pharmacology and Toxicology, vol. 17 Humana Press Ch. 9. DOI 10.1007/978-1-61779-618-0_4,
  13. Bousamra, M., Day, J., Fan, T. W-M., Kloecker, G, Lane, A.N., Miller, D.M. (2012) Clinical aspects of metabolomics The Handbook of Metabolomics Methods in Pharmacology and Toxicology, vol. 17 Humana Press Ch 3. DOI 10.1007/978-1-61779-618-0_4,
  14. Liu, W., Le, A., Fan, T. W-M., Lane, A.N., Dang, C.V., Phang, J.M. (2012) "The reprogramming of proline and glutamine metabolism contributes to the proliferative and metabolic responses to c-MYC." Proc. Natl. Acad. Sci. 109:8983-8988
  15. Mattingly, S.J., Xu, T., Nantz, M.H., Higashi, R.M. & Fan, T. WM. (2012) A carbonyl capture approach for profiling oxidized metabolites in cell extracts. Metabolomics. 8: 989-996; DOI:10.1007/s11306-011-0395-z

2011 (10)

  1. Fan, T. W-M., Lane, A.N., Higashi, R.M., Yan, J. (2011) Stable Isotope Resolved Metabolomics of Lung Cancer in a SCID Mouse Model. Metabolomics 7, 257-269
  2. Lane, A.N., Fan, T. W-M, Bousamra II, M., Higashi, R.M., Yan, J., Miller, D.M. (2011) Clinical Applications of Stable Isotope-Resolved Metabolomics (SIRM) in Non-Small Cell Lung Cancer. Omics 15, 173-182 DOI: 10.1089/omi.2010.0088
  3. Moseley, H.N.B., Higashi, R.M., Fan, T. W-M., Lane, A.N. (2011) Analysis of Non-Steady State Stable Isotope-Resolve Metabolism of UDP-GlcNAc and UDP-GalNAc. Proceedings of BIOINFORMATICS 2011 Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms. (Ed. Marco Pellegrini, Ana Fred, Joaquim Filipe, and Hugo Gamboa). SciTePress, Portugal, pp 108-115
  4. Fan, T.W-M. & Lane, A.N. (2011) NMR-based Stable Isotope Resolved Metabolomics in Systems Biochemistry. J. Biomolec. NMRSp. Edn. 49, 267280
  5. Moseley, H.N.B., Lane, A.N., Belshoff, A.C, Higashi, R.M. Fan, T. W-M., (2011) Non-Steady State Modeling of UDP-GlcNAc Biosynthesis is Enabled by Stable Isotope Resolved Metabolomics (SIRM). BMC Biology 9, 37.
  6. Fan, T. W-M.,Tan, J., McKinney, M.M. and Lane, A.N. (2011) Stable Isotope Resolved Metabolomics Analysis of Ribonucleotide and RNA Metabolism in Human Lung Cancer Cells. Metabolomics. 8, 517-527 DOI: 10.1007/s11306-011-0337-9
  7. Lane, A.N. (2011) The stability of intramolecular DNA quadruplexes compared with other macromolecules. Biochimie. 94:277-86
  8. Gracey AY, Lee TH, Higashi RM, Fan T. (2011) Hypoxia-induced mobilization of stored triglycerides in the euryoxic goby Gillichthys mirabilis. J Exp Biol. 15, 3005-12.
  9. Muenyi CS, States VA, Masters JH, Fan TW-M, Helm CW, States JC. (2011) Sodium arsenite and hyperthermia modulate cisplatin-DNA damage responses and enhance platinum accumulation in murine metastatic ovarian cancer xenograft after hyperthermic intraperitoneal chemotherapy (HIPEC). J Ovarian Res. 4:9.
  10. Fu, X., Li, M., Biswas, S., Nantz, M.H., Higashi, R.M. (2011) A novel microreactor approach for analysis of ketones and aldehydes in breath Analyst. 136, 4662-4666

2010 (9)

  1. A Yalcin, B Clem, S Makoni, A Clem, K Nelson, J Thornburg, D Siow, A N Lane, S E Brock, U Goswami, Eaton, J.W., Telang, S. & Chesney, J. (2010) "Selective inhibition of choline kinase simultaneously attenuates MAPK and PI3K /AKT signaling." Oncogene29, 139-149 doi:10.1038/onc.2009.317
  2. Fan, T. W-M. Yuan, P., Lane, A.N., Higashi, R.M., Wang, Y., Hamidi, A., Zhou, R., Xavier Guitart-Navarro, X., Chen, G., Manji, H.K., Kaddurah-Daouk, R. (2010) "Stable Isotope Resolved Metabolomic Analysis of Lithium Effects on Glial-Neuronal Interactions." Metabolomics 6, 165 - 179. DOI 10.1007/s11306-010-0208-9
  3. Dailey, M.M., Miller, M.C., Bates, P.J., Lane, A.N., Trent, J.O. (2010) Resolution and characterization of the structural polymorphism of a single quadruplex-forming sequence. Nucl. Acids Res. 38, 4877-4888 (Featured article).
  4. Moseley, H.N.B. (2010) Correcting for the effects of natural abundance in stable isotope resolved metabolomics experiments involving ultra-high resolution mass spectrometry. BMC Bioinformatics 11, 139
  5. Selivanov, V. A., Vizan, P., Mollinedo, F., Fan, T. W-M., Lee, P. W. N., Cascante, M. (2010) Edelfosine-induced metabolic changes in cancer cells that precede the overproduction of reactive oxygen species and apoptosis. BMC System Biol. Art 135
  6. Fan, T. W-M. (2010) Metabolomics-Edited Transcriptomics Analysis (Meta) Comprehensive Toxicology vol. 2 (McQueen, C.A., ed) pp 685706. Academic Press
  7. Doblin, M., Fan, T. W-M., Foster, S., Garrett, R., Maher, W., Möller, G., Oram, L. L., Roach, A., and Wallschläger, D. (2010) Sources, Speciation, and Environmental Partitioning, in: Chapman PM, Adams WJ, Brooks ML, Delos CG, Luoma SN, Maher WA, Ohlendorf HM, Presser TS, Shaw DP (eds). Ecological Assessment of Selenium in the Aquatic Environment. SETAC Press, Pensacola, FL, USA.
  8. Arumugam, S., Miller, M.C., Maliekal, J., Trent, J.O., and Lane, A.N. (2010) NMR Structure Note: Solution structure of the RBD1,2 domains from human nucleolin. J. Biomolec. NMR 47, 79-83. DOI: 10.1007/s10858-010-9412-1
  9. Miller, M.C., Buscaglia, R., Chaires, J.B., Lane, A.N., Trent, J.O. (2010) Hydration determines the G-quadruplex stability and conformation of the human telomere 3 sequence d(A(GGGTTA)3GGG)). JACS. 132, 17105-17107. DOI: 10.1021/ja105259m

2009 (7)

  1. Lane, A.N., Fan, T. W-M. & Higashi, R.M. (2009) Metabolic acidosis and the importance of balanced equations. Metabolomics. 5, 163-165 DOI: 10.1007/s11306-008-0142-2
  2. Fan, T. W-M., Bird, J.A,, Brodie, E.L., Lane, A.N. (2009) 13C-Isotopomer-based Metabolomics of Microbial Groups Isolated from Two Forest Soils. Metabolomics. 5, 108-122 DOI:10.1007/s11306-008-0150-2
  3. Fan, T. W-M; Lane, A. N.; Higashi . M.; Bousamra II, M.; Kloecker, G.;. Miller, D. M. (2009) Erlotinib-sensitive and resistant lung tumors show radically different metabolic Profiles. Exp. Molec. Pathol. 87, 83-86 doi:10.1016/j.yexmp.2009.04.004
  4. Fan, T.WM., Lane, A.N., Higashi, R.M., Farag, M.A., Gao, H., Bousamra, M. & Miller, D.M. (2009) Altered Regulation of Metabolic Pathways in Human Lung Cancer Discerned by 13C Stable Isotope-Resolved Metabolomics (SIRM). Molecular Cancer.8:41 doi:10.1186/1476-4598-8-41
  5. Lane, A.N., Fan, T. WM, Higashi, R.M., Tan, J., Bousamra, M. and Miller, D.M (2009) Prospects for clinical cancer metabolomics using stable isotope tracers. Exp. Molec. Pathol. 86, 165-173 Sp. Issue. doi:10.1016/j.yexmp.2009.01.005
  6. Yalcin, A., Clem, B.F., Simmons, S., Lane, A.N, Nelson, K.K., Clem, A.L., Brock, E., Siow, D., Wattenberg, B., Telang, S. & Chesney, J. (2009) Nuclear targeting of 6-phosphofructo-2-kinase (PFKFB3) increases proliferation via cyclin-dependent kinases. J. Biol. Chem. 284: 24223 - 24232.doi:10.1074/jbc.M109.016816
  7. Lane, A.N., Fan, T. W-M., Xie, X. Moseley, H.N. & Higashi, R.M. (2009) Stable isotope analysis of lipid biosynthesis by high resolution mass spectrometry and NMR. Anal. Chim. Acta. 651, 201-208. doi:10.1016/j.aca2009.08.032

2008 (8)

  1. McNeely, S. C., Belshoff, A. C.. Taylor, B. F.. Fan, T. W. M., McCabe, M. J., Pinhas, A.R., States, J. C. (2008) Sensitivity to sodium arsenite in human melanoma cells depends upon susceptibility to arsenite-induced mitotic arrest. Toxicology and Applied Pharmacology 229, 252-261
  2. Clem, B.F., Telang, S., Clem, A., Yalcin, A., Meier, J., Simmons, A., Rasku, M..A, Arumugam, S., Dean, W.L., Eaton, J., Lane, A.N., Trent, J.O. and Chesney. J.A. (2008) Small Molecule Inhibition of 6-Phosphofructo-2-Kinase Activity Suppresses Glycolytic Flux and Tumor Growth. Molecular Cancer Therapeutics. 7, 110-120
  3. Lane, A.N., Fan, T-WM. & Higashi, R.M. (2008) Isotopomer-based metabolomic analysis by NMR and mass spectrometry". Methods in Cell Biology, Vol 84. Biophysical Tools for Biologists, Volume 1, edited by Drs. John J. Correia and H. William Detrich. Elsevier Science & Technology Books Ch. 18. pp 541-588. ISBN:9780123725202
  4. Fan, T.W-M. & Lane, A.N. (2008) Structure-based profiling of Metabolites and Isotopomers by NMR, Prog. NMR Spectrosc. 52, 69-117 doi:10.1016/j.pnmrs.2007.03.002 (invited review)
  5. Lane, A.N., Fan. T. W-M. and Higashi, R.M. (2008)  Stable isotope assisted metabolomics in cancer research. IUBMB Life. 60, 124-129 DOI:10.1002/iub.00017 (Invited review)
  6. Fan, T. W-M., Kucia M., Jankowski, K., Higashi, R.M., Rataczjak, M.Z., Rataczjak, J., & Lane, A.N. (2008) "Proliferating Rhabdomyosarcoma cells shows an energy producing anabolic metabolic phenotype compared with Primary Myocytes" Molecular Cancer 7:79
  7. Thornburg, J.M., Nelson, K.K., Lane, A.N., Arumugam, S., Simmons, A. Eaton, J.W., Telang, S., & Chesney, J. (2008) Targeting Aspartate Aminotransferase in Breast Cancer Breast Cancer Res. 10:R84
  8. Lane, A.N., Fan, T. W-M., Higashi, R.M., Deleeuw, L., and Yang, T.H. (2008) Stable isotope tracing in metabolic pathways in Modelling Complex Biological Systems In The Context Of The Genome (Patrick Amar, Francois Kepes, Vic Norris, Bernard Vandenbunder, Eds.). Pp 69-78