Publications

Y2021

Yoganand Balagurunathan, Andrew Beers, Michael McNitt-Gray, Lubomir Hadjiiski, Sandy Napel, Dmitry Goldgof, Gustavo Perez, Pablo Arbelaez, Alireza Mehrtash, Tina Kapur, Ehwa Yang, Jung Won Moon, Gabriel Bernardino, Ricard Delgado-Gonzalo, M Mehdi Farhangi, Amir A Amini, Renkun Ni, Xue Feng, Aditya Bagari, Kiran Vaidhya, Benjamin Veasey, Wiem Safta, Hichem Frigui, Joseph Enguehard, Ali Gholipour, Laura Silvana Castillo, Laura Alexandra Daza, Paul Pinsky, Jayashree Kalpathy-Cramer, Keyvan Farahani, Lung Nodule Malignancy Prediction in Sequential CT Scans: Summary of ISBI 2018 Challenge, IEEE Trans. Med. Img., (in press) 2021.

Bethany L Niell, Mahmoud Abdalah, Olya Stringfield, Natarajan Raghunand, Dana Ataya, Robert Gillies, Yoganand Balagurunathan, Quantitative measures of background parenchymal enhancement predict breast cancer risk, 217(1), Ame. J. Roent., 2021.

Y Balagurunathan, R Mitchell, I El Naqa, Requirements and reliability of AI in the medical context, Phy. Medi., 83, pg 72-78, 2021.

 

Y2020

Lu, N. A. Parra, J. Qi, K. Gage, J. W. Choi, Qian Li, Shuxuan Fan, S. Feuerlein, J. Pow-Sang, R. Gillies, Y. Balagurunathan, Repeatability of Quantitative Imaging Features in Prostate Magnetic Resonance Imaging, frontier oncology, 10 (551), May 2020. PubMed PMID: 32457827.

Mukherjee^, M. Zhou, E. Lee, A. Schicht, Y.Balagurunathan, S.Napel, R.Gillies, S.Wong, A. Thieme, A.Leung, O. Gevaert, LungNet: A Shallow Convolutional Neural Network Model of Non-Small Cell Lung Cancer Evaluated on Multi-Institutional Image Data, Nat. Mach. Intell., 2, pp274-281, May 2020.

McNitt-Gray, S. Napel, A. Jaggi, S.A. Mattonen, L. Hadjiiski, M. Muzi, D. Goldgof, Y. Balagurunathan, L.A. Pierce, P.E. Kinahan, E.F. Jones, A. Nguyen, A. Virkud, H.P. Chan, N. Emaminejad, M. Wahi-Anwar, M. Daly, M. Abdalah, H. Yang, L. Lu, W. Lv, A. Rahmim, A. Gastounioti, S. Pati, S. Bakas, D. Kontos, B. Zhao, J. Kalpathy-Cramer, K. Farahani, Standardization in Quantitative Imaging: A Multicenter Comparison of Radiomic Features from Different Software Packages on Digital Reference Objects and Patient Data Sets, J. Tomography, vol. 6(2), Jun 2020.

Pérez-Morales J, Tunali I, Stringfield O, Eschrich SA, Balagurunathan Y, Gillies RJ, Schabath MB.  Peritumoral and intratumoral radiomic features predict survival outcomes among patients diagnosed in lung cancer screening. Sci Rep. 2020 Jun 29;10(1):10528. doi: 10.1038/s41598-020-67378-8. PubMed PMID: 32601340.

E.A.Dean,M. S.Mousa,G. S. Krivenko, R.S. Mhaskar, A.Lazaryan, C. A. Bachmeier, J. C. Chavez, T. Nishihori, M.L. Davila, F. Khimani,H. D. Liu,J. Pinilla-Ibarz, B. D. Shah, M. D. Jain, Y.Balagurunathan, F.L. Locke, High metabolic tumor volume is associated with decreased efficacy of axicabtagene ciloleucel in large B cell lymphoma, Blood Advances, Blood Adv. 2020 Jul 28;4(14):3268-3276. PMID: 32702097.

L Niell, M. Abdalah, O. Stringfield, N.Raghunand, D.Ataya, R.Gillies, Y. Balagurunathan, Quantitative measures of background parenchymal enhancement predict breast cancer risk, American. J of Roentgenology, 9(2), Sep 2020.

S.L.Polk, J.W.Choi, M.J.McGettigan, T.Rose, A.Ahmed, J.Kim, K.Jiang, Y.Balagurunathan, J.Qi, P.T Farah, A. Rathi, J.B Permuth, D.Jeong, Multiphase computed tomography radiomics of pancreatic intraductal papillary mucinous neoplasms to predict malignancy, World J.  Gastroenterology, 26(24), Jun 2020.

 

Y2019

Nestor, H. Lu, J. Choi, K. Gage, J. Pow-Sang, R. J. Gillies, Y. Balagurunathan, Habitats in DCE-MRI to Predict Clinically Significant Prostate Cancers, Tomography, 5(1), 68-76, March 2019. PMCID: PMC6403034.

Srikumar, E. Siegel, Y. Gu, Y.Balagurunathan, A.Garcia, Y. Ann Chen, J. Zhou, X.Zhao, R. Gillies, W.Clark, A.Gamenthaler, JC Choi, D. Shibata. Semi-Automated Measure of Abdominal Adiposity Using Computed Tomography Scan Analysis, J. Surgical res., 237, 12-21, May 2019.

Paul, M. Schabath, Y.Balagurunathan, Y. Liu, Q. Li, R. Gillies, L. Hall, D. Goldgof, Explaining deep features using radiologist defined semantic features and traditional quantitative features, Tomography 5(1), pp192, March 2019.

Balagurunathan, M. Schabath, Y Liu, H Wang, R. J. Gillies, Quantitative Imaging features Improve Discrimination of Malignancy in Pulmonary nodules, Scientific Rep., 9(1), pp8528, 2019. PMCID: PMC6561979.

El-Kenawi, C. Gatenbee, M. Robertson-Tessi, R. Bravo, J. Dhillon, Y.Balagurunathan, A. Berglund, N.Visvakarma,A.Kasprzak, A. Ibrahim-Hashim, J. Choi, K.Luddy, R.Gatenby, B.Ruffell, S. Pilon-Thomas, A. Anderson, B. Ruffell, R.Gillies, Tumor-generated acidity alters functional activity and polarization of macrophages in prostate cancer, British J.Canc., 121, 556–566, Aug 2019.

Q.Liu, H.Lu, J.Choi, K.Gage, S.Feuerlein, J.Powsang, R. Gillies, Y. Balagurunathan, Radiological Semantics discriminate clinically significant grade prostate cancer, BMC Cancer Img., 19 (81), Dec 2019. PMCID: PMC6889697.

 

2018

Q Li, Y. Balagurunathan, Y. Ying, Q. Ji, M. Schabath, Z. Ye, R. J. Gillies, Comparison of Radiological Semantics and LRADS in Discriminating Malignant Nodules in NLST images,  Clin. Lung Can.,19(2):148-156, Mar 2018.

 

Balagurunathan, A.Beers, J.Kalpathy-Cramer, M.McNitt-Gray, L. Hadjiiski, B.Zhao, J. Zhu, H.Yang, S.Yip, H. Aerts, S. Napel, D. Cherezov, K. Cha, H.Chan, C. Flores, A. Garcia, R. Gillies, and D Goldgof, Semi-Automated Pulmonary Nodule interval Segmentation using the NLST data, Med. Phys, 45(3), 1093-1107,  2018. PMCID: PMC5952359.

J. Gillies and Y. Balagurunathan, Habitat Imaging in Breast Cancer: Life at the Edge (invited), Radiology, 288(1):36-37, July 2018. (PMID: 29714676).

Cherezov, S.Hawkins, D. Goldgof, L. Hall, Y. Liu, Q. Li, Y. Balagurunathan, R. Gillies, M. Schabath, Delta radiomic features improve prediction for lung cancer incidence: A nested case-control analysis of the National Lung Screening Trial, Cancer Medicine, 1-17, Oct 2018.  

 

Nestor, H. Lu, Q. Li, R. Stoyanova, A. Pollack, S. Punnen, J. Choi, M. Abdalah, C. Lopez, K. Gage, J. Park, Y. Kosj, J. Pow-Sang, R. J. Gillies, Y. Balagurunathan, Predicting clinically significant prostate cancer using DCE-MRI habitat descriptors, Oncotarget, 9 (98), December 2018. PMCID: PMC6324677.

 

 

2017

Liu^#, Y. Balagurunathan^#, A. Thomas, S. Antic, Q Li, R. Walker, S. Gary, P. Massion, M. Schabath, R. Gillies, Radiological Image Traits Predictive of Cancer Status in Pulmonary Nodules, Clin.Can.Res, 23(6), 2017.(# equal contribution). PMCID: PMC5527551.

Shafiq-ul-hassan, G. Zhang, K. Latifi, G. Ullah, D. Hunt, Y. Balagurunathan, M. Abdalah, M. Schabath, D. Goldgof, D. Mackin, L. E. Court, R. Gillies, E. Moros, Intrinsic dependencies of CT radiomics features on voxel size and number of gray levels, Med. Phys., 44(3), 2017.

Ibrahim-Hashim, M. Roberson-Tessi, L.Xu, A. E. El-kenawi, P.M.Enriquez-Navas,M.C. Lloyd, Y. Balagurunathan, M. Bui, J. Brown, A. A.Anderson, R. J. Gillies, R. A. Gatenby, Perturbing cancer eco-evolutionary dynamics to promote non-invasive phenotypes, Canc.Res.,77(9), 2017. (Highlights: Manuscript highlighted on the Cover page).

Jennifer B. P, Jung W. Choi, Dung-Tsa Chen, Kun J, Gina D, Jian-Nong Li, Domenico C, Barbara A. C, Anthony M, Yoganand B, Nipun M, Jose G. T, Daniel J, A pilot study of radiologic measures of abdominal adiposity: weighty contributors to early pancreatic carcinogenesis worth evaluating?, Canc. Bio & Med., 14 (1), 2017.

Li, J. Kim, Y. Balagurunathan, Y. Liu, K. Latifi, A. Garcia, O. Stringfield, E. Moros, T. J. Dhilling, Z. Ye, R. Gillies, Image features from pre-treatment planning CT scans can predict tumor recurrence after stereotactic body radiotherapy in Non-Small Cell Lung cancer, Med.Phys., 44 (8), August 2017.

Y.Liu, H.Wang, Q. Li, M.J. McGettigan,Y. Balagurunathan, A. L. Garcia, Z. J. Thompson, J.J. Heine, Z.Ye, R.J.Gillies, M.B. Schabath, Radiologic Features of Small Pulmonary Nodules and Lung Cancer Risk in the National Lung Screening Trial: A Nested Case-Control Study, Radiology, 286(1), 298-306, Jan 2018 (Epub, Aug 2017).

YCC. Chang, E. Ackerstaff, Y. Tschudi, B. Jimenez, W. Foltz, C. Fisher, L. Lilge, HJ. Cho, S. Carlin, RJ Gillies, Y. Balagurunathan,  RL. Yechieli, T. Subhawong, B. Turkbey, A. Pollack,R. Stoyanova. Delineation of Tumor Habitats based on Dynamic Contrast Enhanced MRI, Scientific reports, 7(1), August 2017.

Permuth, D. Chen, S. Yoder, J. Li, A.Smith, J.Choi, J.Kim, Y. Balagurunathan, K. Jiang, D. Coppola, B. Centeno, J. Klapman, P. Hodul, F. Karreth, J. Trevino, N. Merchant, A. Magliocco, M. Malafa, and R. Gillies, Linc-ing Circulating Long Non-coding RNAs to the Diagnosis and Malignant Prediction of Intraductal Papillary Mucinous Neoplasm of the Pancreas, Scientific reports, 7(1), Sep 2017. PMCID: PMC5585319.

Q Li, J Kim, Y. Balagurunathan, J Wi, Y. Ying, K Latifi, E.Moros, M. Schabath, Z. Ye, R. J. Gillies, CT imaging features associated with recurrence in non-small cell lung cancer patients after stereotactic body radiotherapy, Rad. Oncol.,  12(1):158,  2017.

 

Y2016

Wang, M, Schabath, Y. Liu, O. Stringfield, Y. Balagurunathan, J. Hein, S. Eschrich, Z. Ye, R. Gillies, Association Between Computed Tomographic Features and Kirsten Rat Sarcoma Viral Oncogene Mutations in Patients with Stage 1 Lung Adenocarcinoma and their prognostic value, Clin. Lung Cancer, 17(4), 2016. PMCID: PMC4887405.

Liu, J. Kim, Y. Balagurunathan, Q. Li, A. Garcia, O. Stringfield, Z. Ye, R. Gillies, Radiomic features are associated with EGFR mutation status in lung adenocarcinoma, Clin.Lung. Can., 17 (5), September 2016.

 Liu, J. Kim, Z. Ye, F. Qu, S. Liu, H. Wang, Y. Balagurunathan, R. J. Gillies, CT features associated with Epidermal Growth Factor Receptor Mutation Status in lung adenocarcinomas, Radiology, 280 (1), July 2016 (DOI:http://dx.doi.org/10.1148/radiol.2016151455).

 B. Permuth, J. Choi, Y. Balagurunathan, J. Kim, D.T. Chen, K. Jiang, S. Orcutt, L. Chen, K. Quinn, R. Carvajal, G. Gonzalez-Calderon, M. Fournier, Q.Li, A. Garcia, A. Bouton, D. Yakoub, S. Lechner, D. Coppola, B. A. Centeno, A. Magliocco, C. Harris, J. Klapman, P. Hodul, J. Trevino, N. Merchant, R. Gillies, M. Malafa, Combining novel radiomic features with a plasma-based miRNA classifier may improve prediction of malignant pathology in patients with intraductal papillary mucinous neoplasms of the pancreas, Oncotarget, July 2016 (DOI:10.18632/oncotarget.11768).

 Hawkins, H. Wang, Y. Liu, A. Garcia, O. Stringfield, H. Krewer, Q. Li, D. Cherezov, R. Gatenby. Y. Balagurunathan, D. Goldgof, M. Schabath, L. hall, R. Gillies, Predicting malignant nodules from screening CT scans, J. Throc. Onc. 11 (12), 2120-2128, Dec 2016.

 M.B.Schabath, P. P.Massion, Z. J. Thompson, Steven. A.Eschrich, Y.Balagurunathan, D.Goldof, R. J.Gillies, Differences in Patient Outcomes of Prevalence, Interval, and Screen-Detected Lung Cancers in the CT Arm of the National Lung Screening Trial, PLOS One, 11(8), Aug 2016.

 R.Stoyanova, M. Takhar, Y. Tschudi, J.C. Ford, G. Solórzano, N. Erho, Y. Balagurunathan, S. Punnen, E. Davicioni, R. J. Gillies, A. Pollack, Prostate cancer radiomics and the promise of radio genomics, Translational Cancer Research, 5(4), August, 2016.

 Paul, S. Hawkins, Y. Balagurunathan, M. Schabath, R. Gillies, L. Hall, D. Goldgof, Deep learning transfer learning in combination with traditional features predicts survival among patients with lung adenocarcinoma, Tomography J, 2(4), Dec 2016.

 Kalpathy-Cramer, A. Mamomov, B. Zhao, L. Lu, D. Cherezov, S. Napel, S. Echegaray, McNitt-Gray, P. Lo, J.C. Sieren, J. Uthoff, S.K.N. Dilger, N. Driscll, I. Yeung, K. Cha, Y. Balagurunathan, R. Gillies, D. Goldgof, Radiomics of lung nodules: a multi-institutional study of robustness and agreement of quantitative imaging features, Tomography J, 2(4), Dec 2016.

 

Y2015

Grove, A. Berglund, M. Schabath, H. Aerts, A. Dekker, H. Wang, E. Rios, P. Lambin, Y. Gu, Y Balagurunathan, E. Eikman, R. Gatenby, S. Eschrich, R. J. Gillies, Quantitative descriptors from computed tomographic images for lung adenocarcinoma, PLOS, 10(3), 2015.

Verduzco, M. Lloyd, A. Ibrahim-Hashim, Y. Balagurunathan, R. Gatenby, R. Gillies, intermittent hypoxia selects for genotypes and phenotypes that increases survival, invasion, and therapy resistance, J. PLOS One, 10 (3), 2015.

 

 Y2014

Zhou, L. Hall, D. Goldgof, R. Russo, Y.Balagurunathan, R. Gillies, R. Gatenby, Radiologically defined ecological dynamics and clinical outcomes in glioblastoma multiform: Preliminary results, J. Trans. Onco.,7(1), 5-13, Feb 2014.

 Y Balagurunathan, Y Gu, H Wang, V Kumar, O Grove, S. Hawkins, J. Kim, D. Goldgof, L. Hall, R. Gatenby, R. Gillies, Reproducibility and Prognosis of quantitative features extracted from CT images of lung tumor, J. Trans. Oncol.,7(1), 72-87, Feb 2014. PMCID:PMC3998690.

 Y Balagurunathan, V Kumar, Y Gu, J Kim, H Wang, Y Liu, D Goldgof, L Hall, R Korn, B Zhao, L Schwartz, S Basu, S Eschrich, R Gatenby, R Gillies. Test Retest reproducibility analysis of lung CT image features. Journal of Digital Imaging, 27, 805-823, Dec 2014. PMID:24990346

 Bailey, J. Wojtkowiak, H. Cornell, M. Ribeiro, Y. Balagurunathan, A. Ibrahim-Hashim, R. Gillies, Mechanisms of buffer therapy resistance, Neoplasia, 16(4), p354-364, April 2014.

 

Y2012-13

 Kumar, Y. Gu, S. Basu, A. Berglund, S. Eschrich, M. Schabath, K.Forster, J. Hugo, A. Dekker, D.Fenstermacher, D. Goldgof, L. Hall, P. Lambin, R. Y. Balagurunathan, Gatenby,  R. Gillies. Radiomics the process and challenges, Magnetic Res Imag. 30(9):1234-48, 2012. PMCID: PMC3563280.

 Estrella, T. Chen, M. Lloyd, J. Wojtkowiak, H.H. Cornnell, A. Ibrahim-Hashim, K. Bailey, Y.Balagurunathan, J. M. Rothberg, B.F.Sloane, J. Johnson, R.A. Gatenby, R.J. Gillies, Acidity Generated by the Tumor Microenvironment Drives Local Invasion, Cancer Res, 73(5), 1-15, 2013. PMCID:PMC3594450.

Badie.C, Kabacik,.S, Balagurunathan. Y, Bernard. N, Brengues. M, Faggioni. G, Greither. R, Lista. F, Peinnequin. A, Poyot. T, Herodin. F, Missel. A, Terbrueggen. B, Zenhausern. F, Rothkamm. K, Meineke. V, Braselmann. H, Beinke. C, H. Abend, M., NATO biodosimetry study Laboratory intercomparison of  gene expression assay, J. Radiation Res, July, 2013. PMCID:PMC4117252.

Rothkamm.K, Beinke. C,Romm.H,Badie.C, Balagurunathan.Y, Barnard.S, Bernard.N, Boulay-Greene.H, Brengues, M, De Amicis.A,De Sanctis.S, Greither. R, Herodin.F, Jones. A, Kabacik.S, Knie.T, Kulka.U, Lista.F, Martigne.P, Missel. A, Coquet. J, Ostriches. U, Peinnequin. A, Poyot. T, Roessler. U, Scherthan. H, Terbrueggen. B, Thierens. H, Valente. M,  Vral. A, Zenhausern. F, Meineke. V, Braselmann. H, Abend, M., Comparison to established and emerging biodosimetry assay, J. Radiation Res, 180, 2013. PMCID:PMC4094341.