David Yu MD

PubMed

• Optimization-based image reconstruction regularized with inter-spectral structural similarity for limited-angle dual-energy cone-beam CT.
  Junbo Peng, Tonghe Wang, Huiqiao Xie, Richard L J Qiu, Chih-Wei Chang
  Physics in Medicine and Biology. 2025-06-25
• 1 citations
  MRI super-resolution reconstruction using efficient diffusion probabilistic model with residual shifting.
  Mojtaba Safari, Shansong Wang, Zach Eidex, Qiang Li, Richard L J Qiu
  Physics in Medicine and Biology. 2025-06-16
• MRI super-resolution reconstruction using efficient diffusion probabilistic model with residual shifting.
  Mojtaba Safari, Shansong Wang, Zach Eidex, Qiang Li, Richard L J Qiu
  Arxiv. 2025-04-26

Journal Articles

• Distinct roles of Ape1 protein, an enzyme involved in DNA Repair, in high or low linear energy transfer ionizing radiation-induced cell killing  
  Wang, H., Wang, X., Chen, G., Zhang, X., Tang, X., Park, D., Cucinotta, F.A., Yu, D.S., Deng, X., Dynan, W.S., Doetsch, P.W., Wang, Y., Biological Chemistry, 1/1/2014
• A gemcitabine sensitivity screen identifies a role for NEK9 in the replication stress response  
  Smith, S.C., Petrova, A.V., Madden, M.Z., Wang, H., Pan, Y., Warren, M.D., Hardy, C.W., Liang, D., Liu, E.A., Robinson, M.H., Rudra, S., Wang, J., Ehdaivand, S., Torre..., Nucleic Acids Research, 1/1/2014
• Diagnostic accuracy of ultrasonic histogram features to evaluate radiation toxicity of the parotid glands: A clinical study of xerostomia following head-and-neck cance...  
  Yang, X., Tridandapani, S., Beitler, J.J., Yu, D.S., Chen, Z., Kim, S., Bruner, D.W., Curran, W.J., Liu, T., Academic Radiology, 1/1/2014
• CHD7 expression predicts survival outcomes in patients with resected pancreatic cancer  
  Colbert, L.E., Petrova, A.V., Fisher, S.B., Pantazides, B.G., Madden, M.Z., Hardy, C.W., Warren, M.D., Pan, Y., Nagaraju, G.P., Liu, E.A., Saka, B., Hall, W.A., Shelto..., Cancer Research, 1/1/2014
• Indocyanine green loaded liposome noncarriers for photodynamic therapy using human triple negative breast cancer cells  
  Shemesh, C.S., Hardy, C.W., Yu, D.S., Fernandez, B., Zhang, H., Photodiagnosis and Photodynamic Therapy, 1/1/2014
• Ultrasonic Nakagami-parameter characterization of parotid-gland injury following head-and-neck radiotherapy: a feasibility study of late toxicity  
  Yang, X., Tridandapani, S., Beitler, J.J., Yu, D.S., Wu, N., Wang, Y., Bruner, D.W., Curran, W.J., Liu, T., Medical Physics, 1/1/2014
• SIRT2 directs the replication stress response through CDK9 deacetylation  
  Zhang, H., Park, S.H., Pantazides, B.G., Karpiuk, O., Warren, M.D., Hardy, C.W., Duong, D.M., Park, S.J, Kim, H.S., Vassilopoulos, A., Seyfried, N.T., Johnsen, S.A., G..., PNAS, 1/1/2013
• Pro-necrotic mixed lineage kinase domain-like (MLKL) protein expression is a prognostic biomarker in patients with early-stage resected pancreatic adenocarcinoma  
  Colbert, L.E., Fisher, S.B., Hardy, C.W., Hall, W.A., Saka, B., Shelton, J.W., Petrova, A.V., Warren, M.D., Pantazides, B.G., Gandhi, K., Kowalski, J, Kooby, D.A., El-..., Cancer, 1/1/2013
• Segmentation editing improves efficiency while reducing inter-expert variation and maintaining accuracy for normal brain tissues in the presence of space-occupying les...  
  Deeley, M.A., Chen, A., Datteri, R.D., Noble, J., Cmelak, A., Donnelly, E., Malcolm, A., Moretti, L., Jaboin, J., Niermann, K., Yang, E.S., Yu, D.S., Dawant, B.M., Physics in Medicine and Biology, 1/1/2013
• Ultrasound GLCM texture analysis in radiation-induced parotid injury in head-and-neck cancer radiotherapy: an in vivo study of late toxicity  
  Yang, X., Tridandapani, S., Beitler, J.J., Yu, D.S., Yoshida, E.J., Chen, H., Curran, W.J., Liu, T., Medical Physics, 1/1/2012
• Ultrasound histogram assessment of parotid gland injury following head and neck radiotherapy: a feasibility study  
  Yang, X., Tridandapani, S., Beitler, J.J., Yu, D.S., Yoshida, E.J., Curran, W.J., Liu, T., Ultrasound in Medicine and Biology, 1/1/2012
• One stone two birds: CDK9-directed activation of UBE2A regulates monoubiquitination of both H2B and PCNA  
  Zhang, H., Yu, D.S., Cell Cycle, 1/1/2012
• Comparison of manual and automatic segmentation methods for brain structures in the presence of space-occupying lesions: a multi-expert study  
  Deeley, M.A., Chen, A., Daterri, R., Noble, J.H., Cmelak, A.J., Donnelly, E.F., Malcolm, A.W., Moretti, L., Jaboin, J., Niermann, K., Yang, E.S., Yu, D.S., Yei, F., Ko..., Physics in Medicine and Biology, 1/1/2011
• The negative effect of triple negative breast cancer on outcome after breast conserving therapy  
  Zaky, S.S., Lund, M., May, K.A., Godette, K.D., Beitler, J.J., Holmes, L.R., O'Regan, R.M., Yu, E.S., Yu, D.S., and Landry, J.C., Annals Of Surgical Oncology, 1/1/2011
• A role for cdk9-cyclin k in maintaining genome integrity  
  Yu, D.S. and Cortez, D., Cell Cycle, 1/1/2011
• Cyclin-dependent kinase 9-cyclin K functions in the replication stress response  
  Yu, D.S., Zhao, R., Hsu, E.L., Cayer, J., Ye, F., Guo, Y., Shyr, Y., and Cortez, D., EMBO R, 1/1/2010
• Prognostic factors for resected non-small cell lung cancer with pN2 status: implications for use of postoperative radiotherapy  
  Yu, D.S., Moretti, L., Chen, H., Carbone, D.P., Johnson, D.H., Keedy, V.L., Putnam, J., Sandler, A.B., Shyr, Y., and Lu, B., Oncologist, 1/1/2009
• A FancD2-monoubiquitin fusion reveals hidden functions of Fanconi anemia core complex in DNA repair  
  Matsushita, N., Kitao, H., Ishiai, M., Nagashima, N., Hirano, S., Okawa, K., Ohta, T., Yu, D.S., McHugh P.J., Hickson, I.D., Venkitaraman, A.R., Kurumizaka, H., Takata..., Molecular Cell, 1/1/2005
• EMSY links the BRCA2 pathway to sporadic breast and ovarian cancer  
  Hughes-Davies, L., Huntsman, D., Ruas, M., Fuks, F., Bye, J., Chin, S.F., Milner, J., Brown, L.A., Hsu, F., Gilks, B., Nielsen, T., Schulzer, M., Chia, S., Ragaz, J., ..., Cell, 1/1/2004
• Full-length archaeal Rad51 structure and mutants: mechanisms for RAD51 assembly and control by BRCA2  
  Shin, D.S., Pellegrini, L., Daniels, D., Yelent, B., Craig, L., Tsurata, H., Bates, D., Yu, D.S., Shivji, M.K., Hitomi, C., Arvai, A.S., Blundell, T.L., Venkitaraman, ..., EMBO J, 1/1/2003
• Dynamic control of RAD51 recombinase by self-association and interaction with BRCA2  
  Yu, D.S., Sonoda, E., Takeda, S., Pellegrini L., Huang, C.L., Blundell, T.L., Venkitaraman A.R., Molecular Cell, 1/1/2003
• Insights into DNA recombination from the structure of a RAD51-BRCA2 complex  
  Pellegrini, L., Yu, D.S., Lo, T., Anand, S., Lee, M., Blundell, T.L., Venkitaraman, A.R., Nature, 1/1/2002
• A functional comparison of BRCA1 C-terminal domains in transcription activation and chromatin remodeling  
  Miyake, T., Hu, Y.H., Yu, D.S., Li, R., Journal of Biological Chemistry, 1/1/2000
• Activation of chromosomal DNA replication in Saccharomyces cerevisiae by acidic transcriptional activation domains  
  Li, R., Yu, D.S., Tanaka, M., Zheng, L., Berger, S., Stillman, B., Molecular and Cellular Biology, 1/1/1998
• Association of a 14-3-3 protein with CMP-NeuAc:GM1 a2,3-Sialyltransferase  
  Gao, L., Gu, X., Yu, D.S., Yu, R.K., Zeng, G., Biochemical and Biophysical Research Communications, 1/1/1996
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Abstracts/Posters

• TNFRSF10C Copy Number Variation is Associated with Metastatic Colorectal Cancer.
  Tannenbaun, D., Hall, W.A., Colbert, L.E., Brat, D.J., Kong, J., Kim, S., Dwivedi, B., Kowalski, J., Landry, J., Yu, D.S., Radiation Research Society Annual Meeting, Las Vegas, NM, 1/1/2014
• Locoregional Recurrent Patterns in Young Versus Elderly Women Treated for Breast Cancer.
  Rudra, S., Yu, D.S., Yu, E.S., Switchenko, J.M., Mister, D., Torres, M.A., Radiation Research Society Annual Meeting, Las Vegas, NM, 1/1/2014
• A Gemcitabine Sensitivity Screen identifies a Role for NEK9 in the Replication Stress Response.
  Petrova, A.V., Smith, S.C., Madden, M.Z., Wang, H., Pan, Y., Warren, M.D., Hardy, C.W., Liang, D., Liu, E.A., Robinson, M.H., Rudra, S., Wang, J., Ehdaivand, S., Torre..., Radiation Research Society Annual Meeting, Las Vegas, NM, 1/1/2014
• A siRNA Chemotherapeutic Sensitivity Screen in Small Cell Lung Cancer Cells Identifies Potential DNA Damage Response Genes for Improved Clinical Outcome.
  Madden, M.Z, Yu, D.S., Radiation Research Society Annual Meeting, Las Vegas, NM, 1/1/2014
• Gaussian Mixture Model Analysis of Radiation-Induced Parotid-Gland Injury: An Ultrasound Study of Acute and Late Xerostomia in Head and Neck Radiotherapy.
  Liu, T., Beitler, J.J., Yu, D.S., Tridandapani, S., Curran, W.J., Yang, X., American Association of Physicists in Medicine Annual Meeting, Austin, TX, 1/1/2014
• A synthetic lethal screen identifies determinants of gemcitabine sensitivity in pancreatic cancer.
  Petrova, A.V., Colbert, L.E., Fisher, S.B., Hardy, C.W., Hall, W.A., Saka, B., Shelton, J.W., Warren, M.D., Pantazides, B.G., Gandhi, K., Kowalski, J, Kooby, D.A., El-..., Radiation Research Society Annual Meeting, New Orleans, LA, 1/1/2013
• SIRT2 directs the replication stress response through CDK9 deacetylation.
  Zhang, H., Park, S.H., Pantazides, B.G., Karpiuk, O., Hardy, C.W., Duong, D.M., Park, S., Kim, H., Vassilopoulos, A., Seyfried, N.T., Johnsen, S.A., Gius, D., Yu, D.S., Keystone Meeting on Genome Instability and DNA Repair, Banff, CA, 1/1/2013
• A synthetic lethal screen identifies determinants of gemcitabine sensitivity in pancreatic cancer.
  Warren, M.D., Hardy, C.W., Pantazides, B.G., Landry, J.C., Shelton, J.W., Maithel, S.K., El-Rayes, B., Kowalski, J, Yu, D.S., AACR Annual Meeting, Washington, DC, 1/1/2013
• A pilot clinical trial of chromodomain-helicase-DNA-binding protein 7 (CHD7) expression as a prognostic and predictive biomarker in patients with early-stage pancreati...
  Colbert, L.C., Hall, W.A., Hardy, C.W., Fisher, S.B., Yu, D.S., Maithel, S.K., El-Rayes, B., Saka, B., Adsay, N.V., Petrova, A., Pantazides, B., Kowalski, J., Gandhi, ..., AACR Annual Meeting, Washington, DC, 1/1/2013
• Understanding and exploiting the replication stress response in pancreatic cancer.
  Colbert, L.E., Fisher, S.B., Hardy, C.W., Hall, W.A., Saka, B., Shelton, J.W., Petrova, A.V., Warren, M.D., Pantazides, B.G., Gandhi, K., Kowalski, J, Kooby, D.A., El-..., AACR Annual Meeting, Washington, DC, 1/1/2013
• Ultrasound for diagnostic imaging.
  Liu, T., Yu, D.S., Beitler, J., Tridandapani, S., Bruner, D., Curran, W.J., Yang, X., AAPM Annual Meeting, Indianapolis, IN, 1/1/2013
• SIRT2 directs the replication stress response by activating CDK9 through deacetylation.
  Zhang, H., Park, S.H., Pantazides, B.G., Karpiuk, O., Hardy, C.W., Duong, D.M., Park, S., Kim, H., Vassilopoulos, A., Seyfried, N.T., Johnsen, S.A., Gius, D., Yu, D.S., Radiation Research Society Annual Meeting, New Orleans, LA, 1/1/2013
• A rationale-driven approach using a gemcitabine sensitivity screen identifies CHD7 expression as a predictor of outcome in patients with resected pancreatic cancer.
  Colbert, L.E., Fisher, S.B., Hardy, C.W., Hall, W.A., Saka, B., Shelton, J.W., Petrova, A.V., Warren, M.D., Pantazides, B.G., Gandhi, K., Kowalski, J, Kooby, D.A., El-..., Radiation Research Society Annual Meeting, New Orleans, LA, 1/1/2013
• Low CHD5 expression activates the DNA damage response and predicts poor outcome in patients undergoing adjuvant therapy for resected pancreatic cancer.
  Hall, W.A., Petrova, A.V., Colbert, L.E., Hardy, C.W., Fisher, S.B., Saka, B., Shelton, J.W., Warren, M.D., Pantazides, B.G., Gandhi, K., Kowalski, J., Kooby, D.A., El..., Radiation Research Society Annual Meeting, New Orleans, LA, 1/1/2013
• A rationale-driven approach using a gemcitabine sensitivity screen identifies CHD7 expression as a predictor of outcome in patients with resected pancreatic cancer.
  Colbert, L.E., Fisher, S.B., Hardy, C.W., Hall, W.A., Saka, B., Shelton, J.W., Petrova, A.V., Warren, M.D., Pantazides, B.G., Gandhi, K., Kowalski, J, Kooby, D.A., El-..., American Society for Therapeutic Radiology and Oncology (ASTRO) 55th Annual Meeting, Atlanta, GA, 1/1/2013
• Low CHD5 expression activates the DNA damage response and predicts poor outcome in patients undergoing adjuvant therapy for resected pancreatic cancer.
  Hall, W.A., Petrova, A.V., Colbert, L.E., Hardy, C.W., Fisher, S.B., Saka, B., Shelton, J.W., Warren, M.D., Pantazides, B.G., Gandhi, K., Kowalski, J., Kooby, D.A., El..., American Society for Therapeutic Radiology and Oncology (ASTRO) 55th Annual Meeting, Atlanta, GA, 1/1/2013
• Pro-necrotic mixed lineage kinase domain-like (MLKL) protein expression is a prognostic biomarker in patients with early-stage resected pancreatic adenocarcinoma.
  Fisher, S.B., Colbert, L.E., Hardy, C.W., Hall, W.A., Saka, B., Shelton, J.W., Petrova, A.V., Warren, M.D., Pantazides, B.G., Gandhi, K., Kowalski, J, Kooby, D.A., El-..., American Society for Therapeutic Radiology and Oncology (ASTRO) 55th Annual Meeting, Atlanta, GA, 1/1/2013
• Rationale-Driven Identification of Novel Gemcitabine Sensitivity Genes as Biomarkers for Outcome in Pancreatic Cancer Patients by Exploiting the Replication Stress Res...
  Colbert, L.E., Fisher, S.B., Hardy, C.W., Hall, W.A., Saka, B., Shelton, J.W., Petrova, A.V., Warren, M.D., Pantazides, B.G., Gandhi, K., Kowalski, J, Kooby, D.A., El-..., 3rd World Congress on Cancer Science and Therapy, San Francisco, CA, 1/1/2013
• Genetic determinants of ABT-888 PARP inhibitor sensitivity in pancreatic cancer identified through a loss of function genetic screen using RNA interference.
  Hardy, C.W., Park, W., Pantazides, B.G., El-Rayes, B., Shelton, J.W., Yu, D.S., Landry J.C., Radiation Research Society Annual Meeting, San Juan, Puerto Rico, 1/1/2012
• A synthetic lethal screen identifies genes that mediate gemcitabine resistance in pancreatic cancer.
  Yu, D.S., Pantazides, B.G., Hardy, C.W., Gandhi, K., Landry, J., Shelton, J., Maithel, S., El-Rayes B., Kowalski, J., American Society for Therapeutic Radiology and Oncology (ASTRO) 54th Annual Meeting, Boston, MA, 1/1/2012
• SIRT2 directs the replication stress response through CDK9 deacetylation.
  Zhang, H., Park, S.H., Pantazides, B.G., Hardy, C.W., Duong, D.M., Seyfried, N.T., Gius, D., Yu, D.S., American Society for Therapeutic Radiology and Oncology (ASTRO) 54th Annual Meeting, Boston, MA, 1/1/2012
• SIRT2 directs the replication stress response through CDK9 deacetylation.
  Zhang, H., Park, S.H., Pantazides, B.G., Hardy, C.W., Duong, D.M., Seyfried, N.T., Gius, D., Yu, D.S., Radiation Research Society Annual Meeting, San Juan, Puerto Rico, 1/1/2012
• A synthetic lethal screen identifies genes that mediate gemcitabine resistance in pancreatic cancer.
  Pantazides, B.G., Hardy, C.W., Gandhi, K., Landry, J., Shelton, J., Maithel, S., El-Rayes B., Kowalski, J., Yu, D.S., Radiation Research Society Annual Meeting, San Juan, Puerto Rico, 1/1/2012
• A loss of function genetic screen identifies determinants of gemcitabine sensitivity in pancreatic cancer.
  Hardy, C.W., Pantazides, B.G., Gandhi, K., Shelton, J., Maithel, S., El-Rayes B., Kowalski, J., Yu, D.S., Landry, J., International Society of Gastrointestinal Oncology Meeting, Washington, DC, 1/1/2012
• A loss of function genetic screen identifies determinants of gemcitabine sensitivity in pancreatic cancer.
  Hardy, C.W., Pantazides, B.G., Gandhi, K., Landry, J., Shelton, J., Maithel, S., El-Rayes B., Kowalski, J., Yu, D.S., AACR/Pancreatic Cancer: Progress and Challenges Meeting, Lake Tahoe, NV, 1/1/2012
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Lectures

• "Functions of SIRT2 in the Replication Stress Response" 
  Las Vegas, NM - 1/1/2014
• "Functions of SIRT2 in the Replication Stress Response" Cancer Genetics and Epigenetics Program Speaker 
  1/1/2014
• "Role of SIRT2 in the Replication Stress Response" 
  1/1/2014
• "Cancer Therapeutics and Diagnostics" 
  1/1/2013
• "Rationale-Driven Identification of Novel Gemcitabine Sensitivity Genes as Biomarkers for Outcome in Pancreatic Cancer Patients by Exploiting the Replication Stress Re... 
  San Francisco, CA - 1/1/2013
• "Biomarker Analysis of Gemcitabine Sensitivity Genes in Pancreatic Cancer" 
  Philadelphia, PA - 1/1/2013
• "Understanding and Exploiting the Replication Stress Response in Pancreatic Cancer" 
  Washington, DC - 1/1/2013
• "Pancreatic Cancer Research and Challenges" 
  1/1/2013
• Winship Cancer Institute Grand Rounds: "Role of SIRT2 in the Replication Stress Response: A Link Between Aging and Breast Cancer" 
  Emory University School of Medicine - 1/1/2012
• "DNA Repair in Triple-Negative Breast Cancer" 
  1/1/2012
• "The Replication Stress Response in Head and Neck Cancer" 
  1/1/2012
• "Exploiting the Replication Stress Response in Pancreatic Cancer" 
  Los Angeles, CA - 1/1/2012
• "CDK9-Cyclin K Functions in the Replication Stress Response" 
  Washington, DC - 1/1/2011
• "Understanding and Exploiting the Replication Stress Response in Cancer" 
  1/1/2011
• "A Loss of Function Screen Identifies CDK9 as a Novel Replication Stress Response Protein" 
  Washington, DC - 1/1/2010
• "The Replication Stress Response in Cancer," 
  1/1/2009
• "A Synthetic Lethal Screen Identifies CDK9 as a Novel Replication Stress Response Protein" 
  1/1/2009
• "The Replication Stress Response in Cancer" 
  1/1/2009
• "Role of CDK9 in the Replication Stress Response" 
  Vanderbilt University Medical Center, Nashville, TN - 1/1/2008
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