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Pilot study of global endocrine disrupting activity in Iowa public drinking water utilities using cell-based assays.

Jones RR, Stavreva DA, Weyer PJ, Varticovski L, Inoue-Choi M, Medgyesi DN, Chavis N, Graubard BI, Cain T, Wichman M, Beane Freeman LE, Hager GL, Ward MH.

Sci Total Environ. 2019 Dec 26;714:136317. doi: 10.1016/j.scitotenv.2019.136317. [Epub ahead of print]


Automated detection & classification of knee arthroplasty using deep learning.

Yi PH, Wei J, Kim TK, Sair HI, Hui FK, Hager GD, Fritz J, Oni JK.

Knee. 2019 Dec 26. pii: S0968-0160(19)30310-2. doi: 10.1016/j.knee.2019.11.020. [Epub ahead of print]


Dense Depth Estimation in Monocular Endoscopy with Self-supervised Learning Methods.

Liu X, Sinha A, Ishii M, Hager GD, Reiter A, Taylor RH, Unberath M.

IEEE Trans Med Imaging. 2019 Nov 1. doi: 10.1109/TMI.2019.2950936. [Epub ahead of print]


Artificial intelligence to diagnose ischemic stroke and identify large vessel occlusions: a systematic review.

Murray NM, Unberath M, Hager GD, Hui FK.

J Neurointerv Surg. 2020 Feb;12(2):156-164. doi: 10.1136/neurintsurg-2019-015135. Epub 2019 Oct 8. Review.


Limited Chemical Structural Diversity Found to Modulate Thyroid Hormone Receptor in the Tox21 Chemical Library.

Paul-Friedman K, Martin M, Crofton KM, Hsu CW, Sakamuru S, Zhao J, Xia M, Huang R, Stavreva DA, Soni V, Varticovski L, Raziuddin R, Hager GL, Houck KA.

Environ Health Perspect. 2019 Sep;127(9):97009. doi: 10.1289/EHP5314. Epub 2019 Sep 30.


Meta-analysis of Chromatin Programming by Steroid Receptors.

Paakinaho V, Swinstead EE, Presman DM, Grøntved L, Hager GL.

Cell Rep. 2019 Sep 24;28(13):3523-3534.e2. doi: 10.1016/j.celrep.2019.08.039.


Deep Learning and Transfer Learning for Optic Disc Laterality Detection: Implications for Machine Learning in Neuro-Ophthalmology.

Liu TYA, Ting DSW, Yi PH, Wei J, Zhu H, Subramanian PS, Li T, Hui FK, Hager GD, Miller NR.

J Neuroophthalmol. 2019 Aug 22. doi: 10.1097/WNO.0000000000000827. [Epub ahead of print]


Transcriptional Bursting and Co-bursting Regulation by Steroid Hormone Release Pattern and Transcription Factor Mobility.

Stavreva DA, Garcia DA, Fettweis G, Gudla PR, Zaki GF, Soni V, McGowan A, Williams G, Huynh A, Palangat M, Schiltz RL, Johnson TA, Presman DM, Ferguson ML, Pegoraro G, Upadhyaya A, Hager GL.

Mol Cell. 2019 Sep 19;75(6):1161-1177.e11. doi: 10.1016/j.molcel.2019.06.042. Epub 2019 Aug 14.


Glucocorticoid receptor quaternary structure drives chromatin occupancy and transcriptional outcome.

Paakinaho V, Johnson TA, Presman DM, Hager GL.

Genome Res. 2019 Aug;29(8):1223-1234. doi: 10.1101/gr.244814.118. Epub 2019 Jul 23.


Deep-Learning-Based Semantic Labeling for 2D Mammography and Comparison of Complexity for Machine Learning Tasks.

Yi PH, Lin A, Wei J, Yu AC, Sair HI, Hui FK, Hager GD, Harvey SC.

J Digit Imaging. 2019 Aug;32(4):565-570. doi: 10.1007/s10278-019-00244-w.


Endoscopic navigation in the clinic: registration in the absence of preoperative imaging.

Sinha A, Ishii M, Hager GD, Taylor RH.

Int J Comput Assist Radiol Surg. 2019 Sep;14(9):1495-1506. doi: 10.1007/s11548-019-02005-0. Epub 2019 May 31.


The deformable most-likely-point paradigm.

Sinha A, Billings SD, Reiter A, Liu X, Ishii M, Hager GD, Taylor RH.

Med Image Anal. 2019 Jul;55:148-164. doi: 10.1016/ Epub 2019 May 1.


Interrelations of Sphingolipid and Lysophosphatidate Signaling with Immune System in Ovarian Cancer.

Meshcheryakova A, Svoboda M, Jaritz M, Mungenast F, Salzmann M, Pils D, Cacsire Castillo-Tong D, Hager G, Wolf A, Braicu EI, Sehouli J, Lambrechts S, Vergote I, Mahner S, Birner P, Zimmermann P, Brindley DN, Heinze G, Zeillinger R, Mechtcheriakova D.

Comput Struct Biotechnol J. 2019 Apr 10;17:537-560. doi: 10.1016/j.csbj.2019.04.004. eCollection 2019.


Automated semantic labeling of pediatric musculoskeletal radiographs using deep learning.

Yi PH, Kim TK, Wei J, Shin J, Hui FK, Sair HI, Hager GD, Fritz J.

Pediatr Radiol. 2019 Jul;49(8):1066-1070. doi: 10.1007/s00247-019-04408-2. Epub 2019 Apr 30.


Segmenting and classifying activities in robot-assisted surgery with recurrent neural networks.

DiPietro R, Ahmidi N, Malpani A, Waldram M, Lee GI, Lee MR, Vedula SS, Hager GD.

Int J Comput Assist Radiol Surg. 2019 Nov;14(11):2005-2020. doi: 10.1007/s11548-019-01953-x. Epub 2019 Apr 29.


Objective assessment of intraoperative technical skill in capsulorhexis using videos of cataract surgery.

Kim TS, O'Brien M, Zafar S, Hager GD, Sikder S, Vedula SS.

Int J Comput Assist Radiol Surg. 2019 Jun;14(6):1097-1105. doi: 10.1007/s11548-019-01956-8. Epub 2019 Apr 11.


Deep Learning Method for Automated Classification of Anteroposterior and Posteroanterior Chest Radiographs.

Kim TK, Yi PH, Wei J, Shin JW, Hager G, Hui FK, Sair HI, Lin CT.

J Digit Imaging. 2019 Dec;32(6):925-930. doi: 10.1007/s10278-019-00208-0.


Assessment of Automated Identification of Phases in Videos of Cataract Surgery Using Machine Learning and Deep Learning Techniques.

Yu F, Silva Croso G, Kim TS, Song Z, Parker F, Hager GD, Reiter A, Vedula SS, Ali H, Sikder S.

JAMA Netw Open. 2019 Apr 5;2(4):e191860. doi: 10.1001/jamanetworkopen.2019.1860.


Single-Cell Resolution and Quantitation of Targeted Glucocorticoid Delivery in the Thymus.

Taves MD, Mittelstadt PR, Presman DM, Hager GL, Ashwell JD.

Cell Rep. 2019 Mar 26;26(13):3629-3642.e4. doi: 10.1016/j.celrep.2019.02.108.


High Quality ATAC-Seq Data Recovered from Cryopreserved Breast Cell Lines and Tissue.

Fujiwara S, Baek S, Varticovski L, Kim S, Hager GL.

Sci Rep. 2019 Jan 24;9(1):516. doi: 10.1038/s41598-018-36927-7.


Association Between Surgical Trainee Daytime Sleepiness and Intraoperative Technical Skill When Performing Septoplasty.

Tseng YW, Vedula SS, Malpani A, Ahmidi N, Boahene KDO, Papel ID, Kontis TC, Maxwell J, Wanamaker JR, Byrne PJ, Malekzadeh S, Hager GD, Ishii LE, Ishii M.

JAMA Facial Plast Surg. 2019 Mar 1;21(2):104-109. doi: 10.1001/jamafacial.2018.1171.


Corrigendum to "The role of protein methyltransferases as potential novel therapeutic targets in squamous cell carcinoma of the head and neck" [Oral Oncol. 81 (2018) 100-108].

Saloura V, Vougiouklakis T, Burkitt K, Nakamura Y, Hager GL, van Waes C.

Oral Oncol. 2018 Nov;86:318. doi: 10.1016/j.oraloncology.2018.08.022. Epub 2018 Sep 7. No abstract available.


Deep Supervision with Intermediate Concepts.

Li C, Zia MZ, Tran QH, Yu X, Hager GD, Chandraker M.

IEEE Trans Pattern Anal Mach Intell. 2019 Aug;41(8):1828-1843. doi: 10.1109/TPAMI.2018.2863285. Epub 2018 Aug 13.


Evaluation and Stability Analysis of Video-Based Navigation System for Functional Endoscopic Sinus Surgery on In Vivo Clinical Data.

Leonard S, Sinha A, Reiter A, Ishii M, Gallia GL, Taylor RH, Hager GD.

IEEE Trans Med Imaging. 2018 Oct;37(10):2185-2195. doi: 10.1109/TMI.2018.2833868. Epub 2018 May 7.


Dual Roles for Ikaros in Regulation of Macrophage Chromatin State and Inflammatory Gene Expression.

Oh KS, Gottschalk RA, Lounsbury NW, Sun J, Dorrington MG, Baek S, Sun G, Wang Z, Krauss KS, Milner JD, Dutta B, Hager GL, Sung MH, Fraser IDC.

J Immunol. 2018 Jul 15;201(2):757-771. doi: 10.4049/jimmunol.1800158. Epub 2018 Jun 13.


The role of protein methyltransferases as potential novel therapeutic targets in squamous cell carcinoma of the head and neck.

Saloura V, Vougiouklakis T, Sievers C, Burkitt K, Nakamura Y, Hager G, van Waes C.

Oral Oncol. 2018 Jun;81:100-108. doi: 10.1016/j.oraloncology.2018.04.014. Epub 2018 May 3. Review. Erratum in: Oral Oncol. 2018 Nov;86:318.


Chromatin reprogramming in breast cancer.

Swinstead EE, Paakinaho V, Hager GL.

Endocr Relat Cancer. 2018 Jul;25(7):R385-R404. doi: 10.1530/ERC-18-0033. Epub 2018 Apr 24. Review.


Synergistic gene expression during the acute phase response is characterized by transcription factor assisted loading.

Goldstein I, Paakinaho V, Baek S, Sung MH, Hager GL.

Nat Commun. 2017 Nov 29;8(1):1849. doi: 10.1038/s41467-017-02055-5.


Conventional and pioneer modes of glucocorticoid receptor interaction with enhancer chromatin in vivo.

Johnson TA, Chereji RV, Stavreva DA, Morris SA, Hager GL, Clark DJ.

Nucleic Acids Res. 2018 Jan 9;46(1):203-214. doi: 10.1093/nar/gkx1044.


The Three Ds of Transcription Activation by Glucagon: Direct, Delayed, and Dynamic.

Goldstein I, Hager GL.

Endocrinology. 2018 Jan 1;159(1):206-216. doi: 10.1210/en.2017-00521. Review.


Surgical data science: The new knowledge domain.

Vedula SS, Hager GD.

Innov Surg Sci. 2017 Apr;2(3):109-121. doi: 10.1515/iss-2017-0004. Epub 2017 Apr 20.


Surgical data science for next-generation interventions.

Maier-Hein L, Vedula SS, Speidel S, Navab N, Kikinis R, Park A, Eisenmann M, Feussner H, Forestier G, Giannarou S, Hashizume M, Katic D, Kenngott H, Kranzfelder M, Malpani A, März K, Neumuth T, Padoy N, Pugh C, Schoch N, Stoyanov D, Taylor R, Wagner M, Hager GD, Jannin P.

Nat Biomed Eng. 2017 Sep;1(9):691-696. doi: 10.1038/s41551-017-0132-7. No abstract available.


Myc Regulates Chromatin Decompaction and Nuclear Architecture during B Cell Activation.

Kieffer-Kwon KR, Nimura K, Rao SSP, Xu J, Jung S, Pekowska A, Dose M, Stevens E, Mathe E, Dong P, Huang SC, Ricci MA, Baranello L, Zheng Y, Tomassoni Ardori F, Resch W, Stavreva D, Nelson S, McAndrew M, Casellas A, Finn E, Gregory C, St Hilaire BG, Johnson SM, Dubois W, Cosma MP, Batchelor E, Levens D, Phair RD, Misteli T, Tessarollo L, Hager G, Lakadamyali M, Liu Z, Floer M, Shroff H, Aiden EL, Casellas R.

Mol Cell. 2017 Aug 17;67(4):566-578.e10. doi: 10.1016/j.molcel.2017.07.013. Epub 2017 Aug 10.


Anti-Inflammatory Chromatinscape Suggests Alternative Mechanisms of Glucocorticoid Receptor Action.

Oh KS, Patel H, Gottschalk RA, Lee WS, Baek S, Fraser IDC, Hager GL, Sung MH.

Immunity. 2017 Aug 15;47(2):298-309.e5. doi: 10.1016/j.immuni.2017.07.012. Epub 2017 Aug 8.


Determination of uranium isotope ratios using a liquid sampling atmospheric pressure glow discharge/Orbitrap mass spectrometer system.

Hoegg ED, Marcus RK, Koppenaal DW, Irvahn J, Hager GJ, Hart GL.

Rapid Commun Mass Spectrom. 2017 Sep 30;31(18):1534-1540. doi: 10.1002/rcm.7937.


Single-molecule analysis of steroid receptor and cofactor action in living cells.

Paakinaho V, Presman DM, Ball DA, Johnson TA, Schiltz RL, Levitt P, Mazza D, Morisaki T, Karpova TS, Hager GL.

Nat Commun. 2017 Jun 21;8:15896. doi: 10.1038/ncomms15896.


Dynamic enhancer function in the chromatin context.

Goldstein I, Hager GL.

Wiley Interdiscip Rev Syst Biol Med. 2018 Jan;10(1). doi: 10.1002/wsbm.1390. Epub 2017 May 22. Review.


Bivariate Genomic Footprinting Detects Changes in Transcription Factor Activity.

Baek S, Goldstein I, Hager GL.

Cell Rep. 2017 May 23;19(8):1710-1722. doi: 10.1016/j.celrep.2017.05.003.


Identifying environmental chemicals as agonists of the androgen receptor by using a quantitative high-throughput screening platform.

Lynch C, Sakamuru S, Huang R, Stavreva DA, Varticovski L, Hager GL, Judson RS, Houck KA, Kleinstreuer NC, Casey W, Paules RS, Simeonov A, Xia M.

Toxicology. 2017 Jun 15;385:48-58. doi: 10.1016/j.tox.2017.05.001. Epub 2017 May 4.


Objective Assessment of Surgical Technical Skill and Competency in the Operating Room.

Vedula SS, Ishii M, Hager GD.

Annu Rev Biomed Eng. 2017 Jun 21;19:301-325. doi: 10.1146/annurev-bioeng-071516-044435. Epub 2017 Mar 27. Review.


Quantifying transcription factor binding dynamics at the single-molecule level in live cells.

Presman DM, Ball DA, Paakinaho V, Grimm JB, Lavis LD, Karpova TS, Hager GL.

Methods. 2017 Jul 1;123:76-88. doi: 10.1016/j.ymeth.2017.03.014. Epub 2017 Mar 15.


Genome-Wide Identification of Basic Helix-Loop-Helix and NF-1 Motifs Underlying GR Binding Sites in Male Rat Hippocampus.

Pooley JR, Flynn BP, Grøntved L, Baek S, Guertin MJ, Kershaw YM, Birnie MT, Pellatt A, Rivers CA, Schiltz RL, Hager GL, Lightman SL, Conway-Campbell BL.

Endocrinology. 2017 May 1;158(5):1486-1501. doi: 10.1210/en.2016-1929.


Epigenetic siRNA and Chemical Screens Identify SETD8 Inhibition as a Therapeutic Strategy for p53 Activation in High-Risk Neuroblastoma.

Veschi V, Liu Z, Voss TC, Ozbun L, Gryder B, Yan C, Hu Y, Ma A, Jin J, Mazur SJ, Lam N, Souza BK, Giannini G, Hager GL, Arrowsmith CH, Khan J, Appella E, Thiele CJ.

Cancer Cell. 2017 Jan 9;31(1):50-63. doi: 10.1016/j.ccell.2016.12.002.


High fat diet-induced changes of mouse hepatic transcription and enhancer activity can be reversed by subsequent weight loss.

Siersbæk M, Varticovski L, Yang S, Baek S, Nielsen R, Mandrup S, Hager GL, Chung JH, Grøntved L.

Sci Rep. 2017 Jan 10;7:40220. doi: 10.1038/srep40220.


A Dataset and Benchmarks for Segmentation and Recognition of Gestures in Robotic Surgery.

Ahmidi N, Tao L, Sefati S, Gao Y, Lea C, Haro BB, Zappella L, Khudanpur S, Vidal R, Hager GD.

IEEE Trans Biomed Eng. 2017 Sep;64(9):2025-2041. doi: 10.1109/TBME.2016.2647680. Epub 2017 Jan 4.


Transcription factor assisted loading and enhancer dynamics dictate the hepatic fasting response.

Goldstein I, Baek S, Presman DM, Paakinaho V, Swinstead EE, Hager GL.

Genome Res. 2017 Mar;27(3):427-439. doi: 10.1101/gr.212175.116. Epub 2016 Dec 28.


Nonclinical Safety Testing of RNA Vaccines.

Hager G.

Methods Mol Biol. 2017;1499:253-272. Review.


Cajal body function in genome organization and transcriptome diversity.

Sawyer IA, Sturgill D, Sung MH, Hager GL, Dundr M.

Bioessays. 2016 Dec;38(12):1197-1208. doi: 10.1002/bies.201600144. Epub 2016 Oct 21. Review.


More than meets the dimer: What is the quaternary structure of the glucocorticoid receptor?

Presman DM, Hager GL.

Transcription. 2017 Jan;8(1):32-39. doi: 10.1080/21541264.2016.1249045. Epub 2016 Oct 20.

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