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Publications - Current Year

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Hassanein M, Hight MR, Buck JR, Tantawy MN, Nickels ML, Hoeksema MD, Harris BK, Boyd K, Massion PP, Manning HC. Preclinical Evaluation of 4-[(18)F]Fluoroglutamine PET to Assess ASCT2 Expression in Lung Cancer. Mol Imaging Biol. 2016 Feb;18(1):18-23. doi: 10.1007/s11307-015-0862-4. PubMed PMID:  25971659; PubMed Central PMCID: PMC4644503.

Bhola NE, Jansen VM, Koch JP, Li H, Formisano L, Williams JA, Grandis JR, Arteaga CL. Treatment of Triple-Negative Breast Cancer with TORC1/2 Inhibitors Sustains a Drug-Resistant and Notch-Dependent Cancer Stem Cell Population. Cancer Res. 2016 Jan 15;76(2):440-52. doi: 10.1158/0008-5472.CAN-15-1640-T. Epub 2015 Dec 16. PubMed PMID: 26676751; PubMed Central PMCID: PMC4715956.

Young CD, Arteaga CL, Cook RS. Dual inhibition of Type I and Type III PI3 kinases increases tumor cell apoptosis in HER2+ breast cancers. Breast Cancer Res. 2015 Dec 4;17:148. doi: 10.1186/s13058-015-0656-2. PubMed PMID: 26637440; PubMed Central PMCID: PMC4670529.

Goodwin CM, Rossanese OW, Olejniczak ET, Fesik SW. Myeloid cell leukemia-1 is an important apoptotic survival factor in triple-negative breast cancer. Cell Death Differ. 2015 Dec;22(12):2098-106. doi: 10.1038/cdd.2015.73. Epub 2015 Jun 5. PubMed PMID: 26045046.

Mayer IA. Clinical Implications of Mutations in the PI3K Pathway in HER2+ Breast Cancer: Prognostic or Predictive? Curr Breast Cancer Rep. 2015 Dec;7(4):210-214. Epub 2015 Oct 10. PubMed PMID: 26881050; PubMed Central PMCID: PMC4751984.

Lin CC, Mitra R, Cheng F, Zhao Z. A cross-cancer differential co-expression network reveals microRNA-regulated oncogenic functional modules. Mol Biosyst. 2015 Dec;11(12):3244-52. doi: 10.1039/c5mb00443h. PubMed PMID: 26448606; PubMed Central PMCID: PMC4643368.

Weis JA, Miga MI, Arlinghaus LR, Li X, Abramson V, Chakravarthy AB, Pendyala P, Yankeelov TE. Predicting the Response of Breast Cancer to Neoadjuvant Therapy Using a Mechanically Coupled Reaction-Diffusion Model. Cancer Res. 2015 Nov 15;75(22):4697-707. doi: 10.1158/0008-5472.CAN-14-2945. Epub 2015 Sep 2. PubMed PMID: 26333809; PubMed Central PMCID: PMC4651826.

Zabransky DJ, Yankaskas CL, Cochran RL, Wong HY, Croessmann S, Chu D, Kavuri SM, Red Brewer M, Rosen DM, Dalton WB, Cimino-Mathews A, Cravero K, Button B, Kyker-Snowman K, Cidado J, Erlanger B, Parsons HA, Manto KM, Bose R, Lauring J, Arteaga CL, Konstantopoulos K, Park BH. HER2 missense mutations have distinct effects on oncogenic signaling and migration. Proc Natl Acad Sci U S A. 2015 Nov  10;112(45):E6205-14. doi: 10.1073/pnas.1516853112. Epub 2015 Oct 27. PubMed PMID: 26508629; PubMed Central PMCID: PMC4653184.

Lehmann BD, Pietenpol JA. Clinical implications of molecular heterogeneity in triple negative breast cancer. Breast. 2015 Nov;24 Suppl 2:S36-40. doi: 10.1016/j.breast.2015.07.009. Epub 2015 Aug 5. PubMed PMID: 26253813; PubMed Central PMCID: PMC4641762.

Barnes SL, Sorace AG, Loveless ME, Whisenant JG, Yankeelov TE. Correlation of tumor characteristics derived from DCE-MRI and DW-MRI with histology in murine models of breast cancer. NMR Biomed. 2015 Oct;28(10):1345-56. doi: 10.1002/nbm.3377. Epub 2015 Aug 30. PubMed PMID: 26332194; PubMed Central PMCID: PMC4573954.

Dungrawala H, Rose KL, Bhat KP, Mohni KN, Glick GG, Couch FB, Cortez D. The Replication Checkpoint Prevents Two Types of Fork Collapse without Regulating Replisome Stability. Mol Cell. 2015 Sep 17;59(6):998-1010. doi: 10.1016/j.molcel.2015.07.030. Epub 2015 Sep 10. PubMed PMID: 26365379; PubMed Central PMCID: PMC4575883.

Cheng F, Liu C, Lin CC, Zhao J, Jia P, Li WH, Zhao Z. A Gene Gravity Model for the Evolution of Cancer Genomes: A Study of 3,000 Cancer Genomes across 9 Cancer Types. PLoS Comput Biol. 2015 Sep 9;11(9):e1004497. doi: 10.1371/journal.pcbi.1004497. eCollection 2015 Sep. PubMed PMID: 26352260; PubMed Central PMCID: PMC4564226.

Wang Q, Yu H, Zhao Z, Jia P. EW_dmGWAS: edge-weighted dense module search for genome-wide association studies and gene expression profiles. Bioinformatics. 2015 Aug 1;31(15):2591-4. doi: 10.1093/bioinformatics/btv150. Epub 2015 Mar 24. PubMed PMID: 25805723; PubMed Central PMCID: PMC4514922.

Dillon LM, Bean JR, Yang W, Shee K, Symonds LK, Balko JM, McDonald WH, Liu S, Gonzalez-Angulo AM, Mills GB, Arteaga CL, Miller TW. P-REX1 creates a positive feedback loop to activate growth factor receptor, PI3K/AKT and MEK/ERK signaling in breast cancer. Oncogene. 2015 Jul 23;34(30):3968-76. doi: 10.1038/onc.2014.328. Epub 2014 Oct 6. PubMed PMID: 25284585; PubMed Central PMCID: PMC4387124.

O'Brien TD, Jia P, Xia J, Saxena U, Jin H, Vuong H, Kim P, Wang Q, Aryee MJ, Mino-Kenudson M, Engelman JA, Le LP, Iafrate AJ, Heist RS, Pao W, Zhao Z. Inconsistency and features of single nucleotide variants detected in whole exome sequencing versus transcriptome sequencing: A case study in lung cancer. Methods. 2015 Jul 15;83:118-27. doi: 10.1016/j.ymeth.2015.04.016. Epub 2015 Apr 23. PubMed PMID: 25913717; PubMed Central PMCID: PMC4509831.

Lin CC, Jiang W, Mitra R, Cheng F, Yu H, Zhao Z. Regulation rewiring analysis reveals mutual regulation between STAT1 and miR-155-5p in tumor immunosurveillance in seven major cancers. Sci Rep. 2015 Jul 9;5:12063. doi: 10.1038/srep12063. PubMed PMID: 26156524; PubMed Central PMCID: PMC4496795.

Abramson RG, Lambert KF, Jones-Jackson LB, Arlinghaus LR, Williams J, Abramson VG, Chakravarthy AB, Yankeelov TE. Prone Versus Supine Breast FDG-PET/CT for Assessing Locoregional Disease Distribution in Locally Advanced Breast Cancer. Acad Radiol. 2015 Jul;22(7):853-9. doi: 10.1016/j.acra.2015.02.012. Epub  2015 Apr 10. PubMed PMID: 25865435; PubMed Central PMCID: PMC4464958.

Liu Y, Cai Q, Bao PP, Su Y, Cai H, Wu J, Ye F, Guo X, Zheng W, Zheng Y, Shu XO. Tumor tissue microRNA expression in association with triple-negative breast cancer outcomes. Breast Cancer Res Treat. 2015 Jul;152(1):183-91. doi: 10.1007/s10549-015-3460-x. Epub 2015 Jun 11. PubMed PMID: 26062749; PubMed Central PMCID: PMC4484742.

Agrawal LS, Mayer IA. Optimizing the use of neoadjuvant endocrine therapy. Curr Oncol Rep. 2015 Jul;17(7):33. doi: 10.1007/s11912-015-0455-z. PubMed PMID: 26008918.

Williams JM, Rani SD, Li X, Arlinghaus LR, Lee TC, MacDonald LR, Partridge SC, Kang H, Whisenant JG, Abramson RG, Linden HM, Kinahan PE, Yankeelov TE. Comparison of prone versus supine 18F-FDG-PET of locally advanced breast cancer:  Phantom and preliminary clinical studies. Med Phys. 2015 Jul;42(7):3801-13. doi:  10.1118/1.4921363. PubMed PMID: 26133582; PubMed Central PMCID: PMC4464063.

Young CD, Zimmerman LJ, Hoshino D, Formisano L, Hanker AB, Gatza ML, Morrison MM, Moore PD, Whitwell CA, Dave B, Stricker T, Bhola NE, Silva GO, Patel P, Brantley-Sieders DM, Levin M, Horiates M, Palma NA, Wang K, Stephens PJ, Perou CM, Weaver AM, O'Shaughnessy JA, Chang JC, Park BH, Liebler DC, Cook RS, Arteaga CL. Activating PIK3CA Mutations Induce an Epidermal Growth Factor Receptor (EGFR)/Extracellular Signal-regulated Kinase (ERK) Paracrine Signaling Axis in Basal-like Breast Cancer. Mol Cell Proteomics. 2015 Jul;14(7):1959-76. doi: 10.1074/mcp.M115.049783. Epub 2015 May 7. PubMed PMID: 25953087; PubMed Central PMCID: PMC4587316.

Vassilopoulos A, Tominaga Y, Kim HS, Lahusen T, Li B, Yu H, Gius D, Deng CX. WEE1 murine deficiency induces hyper-activation of APC/C and results in genomic instability and carcinogenesis. Oncogene. 2015 Jun 4;34(23):3023-35. doi: 10.1038/onc.2014.239. Epub 2014 Aug 4. PubMed PMID: 25088202.

Abramson RG, McGhee CR, Lakomkin N, Arteaga CL. Pitfalls in RECIST Data Extraction for Clinical Trials: Beyond the Basics. Acad Radiol. 2015 Jun;22(6):779-86. doi: 10.1016/j.acra.2015.01.015. Epub 2015 Mar 18. Review. PubMed PMID: 25794800; PubMed Central PMCID: PMC4429002.

Sun J, Zhao M, Jia P, Wang L, Wu Y, Iverson C, Zhou Y, Bowton E, Roden DM, Denny JC, Aldrich MC, Xu H, Zhao Z. Deciphering Signaling Pathway Networks to Understand the Molecular Mechanisms of Metformin Action. PLoS Comput Biol. 2015 Jun 17;11(6):e1004202. doi: 10.1371/journal.pcbi.1004202. eCollection 2015 Jun. PubMed PMID: 26083494; PubMed Central PMCID: PMC4470683.

Burke JP, Bian Z, Shaw S, Zhao B, Goodwin CM, Belmar J, Browning CF, Vigil D, Friberg A, Camper DV, Rossanese OW, Lee T, Olejniczak ET, Fesik SW. Discovery of tricyclic indoles that potently inhibit Mcl-1 using fragment-based methods and structure-based design. J Med Chem. 2015 May 14;58(9):3794-805. doi: 10.1021/jm501984f. Epub 2015 Apr 17. PubMed PMID: 25844895.

Thomas LR, Wang Q, Grieb BC, Phan J, Foshage AM, Sun Q, Olejniczak ET, Clark T, Dey S, Lorey S, Alicie B, Howard GC, Cawthon B, Ess KC, Eischen CM, Zhao Z, Fesik SW, Tansey WP. Interaction with WDR5 promotes target gene recognition and tumorigenesis by MYC. Mol Cell. 2015 May 7;58(3):440-52. doi: 10.1016/j.molcel.2015.02.028. Epub 2015 Mar 26. PubMed PMID: 25818646; PubMed Central PMCID: PMC4427524.

Sanders ME, Schuyler PA, Simpson JF, Page DL, Dupont WD. Continued observation of the natural history of low-grade ductal carcinoma in situ reaffirms proclivity for local recurrence even after more than 30 years of follow-up. Mod Pathol. 2015 May;28(5):662-9. doi: 10.1038/modpathol.2014.141. Epub 2014 Dec 12. PubMed PMID: 25502729; PubMed Central PMCID: PMC4416977.

Li X, Abramson RG, Arlinghaus LR, Kang H, Chakravarthy AB, Abramson VG, Farley J, Mayer IA, Kelley MC, Meszoely IM, Means-Powell J, Grau AM, Sanders M, Yankeelov TE. Multiparametric magnetic resonance imaging for predicting pathological response after the first cycle of neoadjuvant chemotherapy in breast cancer. Invest Radiol. 2015 Apr;50(4):195-204. doi: 10.1097/RLI.000000000000100. PubMed PMID: 25360603; PubMed Central PMCID: PMC4471951.

Cheung YY, Nickels ML, McKinley ET, Buck JR, Manning HC. High-yielding, automated production of 3'-deoxy-3'-[(18)F]fluorothymidine using a modified Bioscan Coincidence FDG reaction module. Appl Radiat Isot. 2015 Mar;97:47-51. doi: 10.1016/j.apradiso.2014.11.011. Epub 2014 Dec 15. PubMed PMID: 25531913.

Felix DD, Gore JC, Yankeelov TE, Peterson TE, Barnes S, Whisenant J, Weis J, Shoukouhi S, Virostko J, Nickels M, McIntyre JO, Sanders M, Abramson V, Tantawy MN. Detection of breast cancer microcalcification using (99m)Tc-MDP SPECT or Osteosense 750EX FMT imaging. Nucl Med Biol. 2015 Mar;42(3):269-73. doi: 10.1016/j.nucmedbio.2014.11.010. Epub 2014 Dec 6. PubMed PMID: 25533764.

Jiang W, Jia P, Hutchinson KE, Johnson DB, Sosman JA, Zhao Z. Clinically relevant genes and regulatory pathways associated with NRASQ61 mutations in melanoma through an integrative genomics approach. Oncotarget. 2015 Feb 10;6(4):2496-508. PubMed PMID: 25537510; PubMed Central PMCID: PMC4385866.

Kost SD, Dewaraja YK, Abramson RG, Stabin MG. VIDA: a voxel-based dosimetry method for targeted radionuclide therapy using Geant4. Cancer Biother Radiopharm. 2015 Feb;30(1):16-26. doi: 10.1089/cbr.2014.1713. Epub 2015 Jan 16. PubMed PMID: 25594357; PubMed Central PMCID: PMC4322792.

Wang Q, Jia P, Cheng F, Zhao Z. Heterogeneous DNA methylation contributes to tumorigenesis through inducing the loss of coexpression connectivity in colorectal cancer. Genes Chromosomes Cancer. 2015 Feb;54(2):110-21. doi:10.1002/gcc.22224. Epub 2014 Nov 19. PubMed PMID: 25407423.

Walsh AJ, Cook RS, Lee JH, Arteaga CL, Skala MC. Collagen density and alignment in responsive and resistant trastuzumab-treated breast cancer xenografts. J Biomed Opt. 2015 Feb;20(2):26004. doi: 10.1117/1.JBO.20.2.026004. PubMed PMID: 25700233; PubMed Central PMCID: PMC4335617.

Whisenant JG, McIntyre JO, Peterson TE, Kang H, Sánchez V, Manning HC, Arteaga CL, Yankeelov TE. Utility of [18 F]FLT-PET to assess treatment response in trastuzumab-resistant and trastuzumab-sensitive HER2-overexpressing human breast cancer xenografts. Mol Imaging Biol. 2015 Feb;17(1):119-28. doi: 10.1007/s11307-014-0770-z. PubMed PMID: 25034624; PubMed Central PMCID:PMC4311727.

Bhola NE, Jansen VM, Bafna S, Giltnane JM, Balko JM, Estrada MV, Meszoely I, Mayer I, Abramson V, Ye F, Sanders M, Dugger TC, Allen EV, Arteaga CL. Kinome-wide functional screen identifies role of PLK1 in hormone-independent, ER-positive breast cancer. Cancer Res. 2015 Jan 15;75(2):405-14. doi: 10.1158/0008-5472.CAN-14-2475. Epub 2014 Dec 5. PubMed PMID: 25480943; PubMed Central PMCID: PMC4297507.

Abramson RG, Burton KR, Yu JP, Scalzetti EM, Yankeelov TE, Rosenkrantz AB, Mendiratta-Lala M, Bartholmai BJ, Ganeshan D, Lenchik L, Subramaniam RM. Methods and challenges in quantitative imaging biomarker development. Acad Radiol. 2015Jan;22(1):25-32. doi: 10.1016/j.acra.2014.09.001. Review. PubMed PMID: 25481515; PubMed Central PMCID: PMC4258641.

Rosenkrantz AB, Mendiratta-Lala M, Bartholmai BJ, Ganeshan D, Abramson RG, Burton KR, Yu JP, Scalzetti EM, Yankeelov TE, Subramaniam RM, Lenchik L. Clinical utility of quantitative imaging. Acad Radiol. 2015 Jan;22(1):33-49. doi: 10.1016/j.acra.2014.08.011. Epub 2014 Oct 22. Review. PubMed PMID: 25442800; PubMed Central PMCID: PMC4259826.

Xu Y, Guo X, Sun J, Zhao Z. Snowball: resampling combined with distance-based regression to discover transcriptional consequences of a driver mutation. Bioinformatics. 2015 Jan 1;31(1):84-93. doi: 10.1093/bioinformatics/btu603. Epub 2014 Sep 5. PubMed PMID: 25192743; PubMed Central PMCID: PMC4271146.

Chen Y, Sun J, Huang LC, Xu H, Zhao Z. Classification of Cancer Primary Sites Using Machine Learning and Somatic Mutations. Biomed Res Int. 2015;2015:491502. doi: 10.1155/2015/491502. Epub 2015 Oct 11. PubMed PMID: 26539502; PubMed Central PMCID: PMC4619847.

Liu Q, Zhong X, Madison BB, Rustgi AK, Shyr Y. Assessing Computational Steps for CLIP-Seq Data Analysis. Biomed Res Int. 2015;2015:196082. doi:10.1155/2015/196082. Epub 2015 Oct 11. PubMed PMID: 26539468; PubMed Central PMCID: PMC4619761.

Wang J, Liu Q, Shyr Y. Dysregulated transcription across diverse cancer types reveals the importance of RNA-binding protein in carcinogenesis. BMC Genomics. 2015;16 Suppl 7:S5. doi: 10.1186/1471-2164-16-S7-S5. Epub 2015 Jun 11. PubMed PMID: 26100984; PubMed Central PMCID: PMC4474540.

Abramson VG, Lehmann BD, Ballinger TJ, Pietenpol JA. Subtyping of triple-negative breast cancer: implications for therapy. Cancer. 2015 Jan 1;121(1):8-16. doi: 10.1002/cncr.28914. Epub 2014 Jul 16. Review. PubMed PMID: 25043972; PubMed Central PMCID: PMC4270831.

Hartmann LC, Degnim AC, Santen RJ, Dupont WD, Ghosh K. Atypical hyperplasia of the breast--risk assessment and management options. N Engl J Med. 2015 Jan 1;372(1):78-89. doi: 10.1056/NEJMsr1407164. PubMed PMID: 25551530; PubMed Central PMCID: PMC4347900.

Belmar J, Fesik SW. Small molecule Mcl-1 inhibitors for the treatment of cancer. Pharmacol Ther. 2015 Jan;145:76-84. doi: 10.1016/j.pharmthera.2014.08.003. Epub 2014 Aug 27. Review. PubMed PMID: 25172548; PubMed Central PMCID: PMC4340597.