23 results on '"Claire W. Hardy"'
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2. Supplementary Figure Legends from CHD7 Expression Predicts Survival Outcomes in Patients with Resected Pancreatic Cancer
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David S. Yu, Shishir K. Maithel, Jerome C. Landry, Walter J. Curran, N. Volkan Adsay, Charles A. Staley, Bassel F. El-Rayes, David A. Kooby, Jeanne Kowalski, Rini Pauly, Khanjan Gandhi, Joseph W. Shelton, William A. Hall, Burcu Saka, Elaine A. Liu, Ganji P. Nagaraju, Yunfeng Pan, Matthew D. Warren, Claire W. Hardy, Matthew Z. Madden, Brooke G. Pantazides, Sarah B. Fisher, Aleksandra V. Petrova, and Lauren E. Colbert
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PDF file - 70KB
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- 2023
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3. Supplementary Tables 1 - 4 from CHD7 Expression Predicts Survival Outcomes in Patients with Resected Pancreatic Cancer
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David S. Yu, Shishir K. Maithel, Jerome C. Landry, Walter J. Curran, N. Volkan Adsay, Charles A. Staley, Bassel F. El-Rayes, David A. Kooby, Jeanne Kowalski, Rini Pauly, Khanjan Gandhi, Joseph W. Shelton, William A. Hall, Burcu Saka, Elaine A. Liu, Ganji P. Nagaraju, Yunfeng Pan, Matthew D. Warren, Claire W. Hardy, Matthew Z. Madden, Brooke G. Pantazides, Sarah B. Fisher, Aleksandra V. Petrova, and Lauren E. Colbert
- Abstract
XLS file - 675KB, Full Results of Primary Gemcitabine Sensitivity Screen (S1). Known DNA Damage Response Genes Identified as Hits in Gemcitabine Sensitivity Screen (S2). Dysregulation, Differential Expression, and Literature RNAi Cross-Reference for Known DDR Genes and Select Hits (S3). Selected Top 15% of Gemcitabine Sensitivity Genes Tested on Secondary Screen (S4).
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- 2023
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4. Data from CHD7 Expression Predicts Survival Outcomes in Patients with Resected Pancreatic Cancer
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David S. Yu, Shishir K. Maithel, Jerome C. Landry, Walter J. Curran, N. Volkan Adsay, Charles A. Staley, Bassel F. El-Rayes, David A. Kooby, Jeanne Kowalski, Rini Pauly, Khanjan Gandhi, Joseph W. Shelton, William A. Hall, Burcu Saka, Elaine A. Liu, Ganji P. Nagaraju, Yunfeng Pan, Matthew D. Warren, Claire W. Hardy, Matthew Z. Madden, Brooke G. Pantazides, Sarah B. Fisher, Aleksandra V. Petrova, and Lauren E. Colbert
- Abstract
Pancreatic ductal adenocarcinoma (PDAC) is a devastating disease with poor outcomes with current therapies. Gemcitabine is the primary adjuvant drug used clinically, but its effectiveness is limited. In this study, our objective was to use a rationale-driven approach to identify novel biomarkers for outcome in patients with early-stage resected PDAC treated with adjuvant gemcitabine. Using a synthetic lethal screen in human PDAC cells, we identified 93 genes, including 55 genes linked to DNA damage responses (DDR), that demonstrated gemcitabine sensitization when silenced, including CHD7, which functions in chromatin remodeling. CHD7 depletion sensitized PDAC cells to gemcitabine and delayed their growth in tumor xenografts. Moreover, CHD7 silencing impaired ATR-dependent phosphorylation of CHK1 and increased DNA damage induced by gemcitabine. CHD7 was dysregulated, ranking above the 90th percentile in differential expression in a panel of PDAC clinical specimens, highlighting its potential as a biomarker. Immunohistochemical analysis of specimens from 59 patients with resected PDAC receiving adjuvant gemcitabine revealed that low CHD7 expression was associated with increased recurrence-free survival (RFS) and overall survival (OS), in univariate and multivariate analyses. Notably, CHD7 expression was not associated with RFS or OS for patients not receiving gemcitabine. Thus, low CHD7 expression was correlated selectively with gemcitabine sensitivity in this patient population. These results supported our rationale-driven strategy to exploit dysregulated DDR pathways in PDAC to identify genetic determinants of gemcitabine sensitivity, identifying CHD7 as a novel biomarker candidate to evaluate further for individualizing PDAC treatment. Cancer Res; 74(10); 2677–87. ©2014 AACR.
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- 2023
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5. A gemcitabine sensitivity screen identifies a role for NEK9 in the replication stress response
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Mylin A. Torres, Hongyan Wang, Elaine A. Liu, Claire W. Hardy, Scott C. Smith, Matthew D. Warren, Jie Wang, M. Hope Robinson, Matthew Z. Madden, Ya Wang, Yunfeng Pan, Soumon Rudra, Dong Liang, Shahrzad Ehdaivand, David S. Yu, and Aleksandra V. Petrova
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DNA re-replication ,DNA Replication ,Antimetabolites, Antineoplastic ,DNA repair ,Eukaryotic DNA replication ,Triple Negative Breast Neoplasms ,Biology ,Genome Integrity, Repair and Replication ,Protein Serine-Threonine Kinases ,Deoxycytidine ,DNA replication factor CDT1 ,Control of chromosome duplication ,Stress, Physiological ,Cell Line, Tumor ,Replication Protein A ,Genetics ,Humans ,NIMA-Related Kinases ,CHEK1 ,Replication protein A ,DNA replication ,Gemcitabine ,3. Good health ,Checkpoint Kinase 1 ,Cancer research ,biology.protein ,Female ,Protein Kinases ,DNA Damage - Abstract
The Replication Stress Response (RSR) is a signaling network that recognizes challenges to DNA replication and coordinates diverse DNA repair and cell-cycle checkpoint pathways. Gemcitabine is a nucleoside analogue that causes cytotoxicity by inducing DNA replication blocks. Using a synthetic lethal screen of a RNAi library of nuclear enzymes to identify genes that when silenced cause gemcitabine sensitization or resistance in human triple-negative breast cancer cells, we identified NIMA (never in mitosis gene A)-related kinase 9 (NEK9) as a key component of the RSR. NEK9 depletion in cells leads to replication stress hypersensitivity, spontaneous accumulation of DNA damage and RPA70 foci, and an impairment in recovery from replication arrest. NEK9 protein levels also increase in response to replication stress. NEK9 complexes with CHK1, and moreover, NEK9 depletion impairs CHK1 autophosphorylation and kinase activity in response to replication stress. Thus, NEK9 is a critical component of the RSR that promotes CHK1 activity, maintaining genome integrity following challenges to DNA replication.
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- 2014
6. Low CHD5 expression activates the DNA damage response and predicts poor outcome in patients undergoing adjuvant therapy for resected pancreatic cancer
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Walter J. Curran, Jerome C. Landry, Claire W. Hardy, Joseph W. Shelton, Christopher A. Staley, Jeanne Kowalski, Shishir K. Maithel, Khanjan Gandhi, David A. Kooby, Lauren E. Colbert, Sarah B. Fisher, Brooke G. Pantazides, Bassel F. El-Rayes, William A. Hall, N. Volkan Adsay, Matthew D. Warren, Aleksandra V. Petrova, Burcu Saka, and David S. Yu
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Adult ,Male ,Cancer Research ,Nerve Tissue Proteins ,Kaplan-Meier Estimate ,Adenocarcinoma ,Biology ,Deoxycytidine ,Disease-Free Survival ,Pancreatic cancer ,Biomarkers, Tumor ,Tumor Cells, Cultured ,Genetics ,medicine ,Adjuvant therapy ,Humans ,Genes, Tumor Suppressor ,Molecular Biology ,Survival analysis ,Aged ,Aged, 80 and over ,Proportional hazards model ,DNA Helicases ,Cancer ,Middle Aged ,Prognosis ,medicine.disease ,Gemcitabine ,Gene Expression Regulation, Neoplastic ,Pancreatic Neoplasms ,Treatment Outcome ,Chemotherapy, Adjuvant ,Immunology ,Cancer research ,Biomarker (medicine) ,Immunohistochemistry ,Female ,DNA Damage - Abstract
The DNA damage response (DDR) promotes genome integrity and serves as a cancer barrier in precancerous lesions but paradoxically may promote cancer survival. Genes that activate the DDR when dysregulated could function as useful biomarkers for outcome in cancer patients. Using a siRNA screen in human pancreatic cancer cells, we identified the CHD5 tumor suppressor as a gene, which, when silenced, activates the DDR. We evaluated the relationship of CHD5 expression with DDR activation in human pancreatic cancer cells and the association of CHD5 expression in 80 patients with resected pancreatic adenocarcinoma (PAC) by immunohistochemical analysis with clinical outcome. CHD5 depletion and low CHD5 expression in human pancreatic cancer cells lead to increased H2AX-Ser139 and CHK2-Thr68 phosphorylation and accumulation into nuclear foci. On Kaplan-Meier log-rank survival analysis, patients with low CHD5 expression had a median recurrence-free survival (RFS) of 5.3 vs 15.4 months for patients with high CHD5 expression (P=0.03). In 59 patients receiving adjuvant chemotherapy, low CHD5 expression was associated with decreased RFS (4.5 vs 16.3 months; P=0.001) and overall survival (OS) (7.2 vs 21.6 months; P=0.003). On multivariate Cox regression analysis, low CHD5 expression remained associated with worse OS (HR: 3.187 (95% CI: 1.49-6.81); P=0.003) in patients undergoing adjuvant chemotherapy. Thus, low CHD5 expression activates the DDR and predicts for worse OS in patients with resected PAC receiving adjuvant chemotherapy. Our findings support a model in which dysregulated expression of tumor suppressor genes that induce DDR activation can be utilized as biomarkers for poor outcome.
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- 2013
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7. SIRT2 directs the replication stress response through CDK9 deacetylation
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Brooke G. Pantazides, Steven A. Johnsen, Claire W. Hardy, David Gius, Athanassios Vassilopoulos, Duc M. Duong, Seong Hoon Park, Nicholas T. Seyfried, Oleksandra Karpiuk, Hui Zhang, So Jeong Park, David S. Yu, Hyun-Seok Kim, and Matthew D. Warren
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DNA Replication ,Cell cycle checkpoint ,Blotting, Western ,Fluorescent Antibody Technique ,SIRT2 ,Cell Line ,Colony-Forming Units Assay ,DNA replication factor CDT1 ,Mice ,Sirtuin 2 ,Tandem Mass Spectrometry ,Replication Protein A ,Animals ,Humans ,Kinase activity ,Replication protein A ,Multidisciplinary ,biology ,DNA replication ,Acetylation ,Cell Cycle Checkpoints ,Biological Sciences ,Cyclin-Dependent Kinase 9 ,Molecular biology ,Cell biology ,Sirtuin ,biology.protein ,Ataxia telangiectasia and Rad3 related ,Chromatography, Liquid - Abstract
Sirtuin 2 (SIRT2) is a sirtuin family deacetylase that directs acetylome signaling, protects genome integrity, and is a murine tumor suppressor. We show that SIRT2 directs replication stress responses by regulating the activity of cyclin-dependent kinase 9 (CDK9), a protein required for recovery from replication arrest. SIRT2 deficiency results in replication stress sensitivity, impairment in recovery from replication arrest, spontaneous accumulation of replication protein A to foci and chromatin, and a G2/M checkpoint deficit. SIRT2 interacts with and deacetylates CDK9 at lysine 48 in response to replication stress in a manner that is partially dependent on ataxia telangiectasia and Rad3 related (ATR) but not cyclin T or K, thereby stimulating CDK9 kinase activity and promoting recovery from replication arrest. Moreover, wild-type, but not acetylated CDK9, alleviates the replication stress response impairment of SIRT2 deficiency. Collectively, our results define a function for SIRT2 in regulating checkpoint pathways that respond to replication stress through deacetylation of CDK9, providing insight into how SIRT2 maintains genome integrity and a unique mechanism by which SIRT2 may function, at least in part, as a tumor suppressor protein.
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- 2013
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8. Pronecrotic mixed lineage kinase domain-like protein expression is a prognostic biomarker in patients with early-stage resected pancreatic adenocarcinoma
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David S. Yu, William A. Hall, Charles A. Staley, Bassel F. El-Rayes, Aleksandra V. Petrova, N. Volkan Adsay, Joseph W. Shelton, Lauren E. Colbert, Khanjan Gandhi, Jerome C. Landry, Brooke G. Pantazides, Claire W. Hardy, Jeanne Kowalski, Shishir K. Maithel, Walter J. Curran, David A. Kooby, Sarah B. Fisher, Burcu Saka, and Matthew D. Warren
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Cancer Research ,Pathology ,medicine.medical_specialty ,Necrosis ,business.industry ,Necroptosis ,medicine.disease ,Oncology ,Pancreatic cancer ,Cancer cell ,medicine ,Cancer research ,Immunohistochemistry ,Adenocarcinoma ,Biomarker (medicine) ,medicine.symptom ,Stage (cooking) ,business - Abstract
Background Mixed lineage kinase domain-like protein (MLKL) is a necrosome component mediating programmed necrosis that may be an important determinant of cancer cell death. The goal of the current study was to evaluate the prognostic value of MLKL expression in patients with pancreatic adenocarcinoma (PAC).
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- 2013
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9. The influence of adjuvant radiotherapy dose on overall survival in patients with resected pancreatic adenocarcinoma
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David A. Kooby, William A. Hall, John S. Kauh, Theresa W. Gillespie, Yuan Liu, Joseph Lipscomb, Jerome C. Landry, Roshan S. Prabhu, Claire W. Hardy, and Lauren E. Colbert
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Cancer Research ,medicine.medical_specialty ,Chemotherapy ,Adjuvant radiotherapy ,business.industry ,medicine.medical_treatment ,Hazard ratio ,Urology ,Cancer ,medicine.disease ,Confidence interval ,Surgery ,Oncology ,medicine ,Adenocarcinoma ,Stage (cooking) ,business ,Prospective cohort study - Abstract
BACKGROUND Adjuvant radiotherapy (A-RT) for patients with resected pancreatic adenocarcinoma (PAC) is controversial. In the current study, the authors aim to determine whether there is an association between overall survival (OS) and A-RT dose. METHODS National Cancer Data Base (NCDB) data were obtained for all patients who received A-RT for resected PAC from 1998 through 2002. Univariate and multivariate survival analyses were performed along with Kaplan-Meier estimates for A-RT levels
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- 2013
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10. CHD7 expression predicts survival outcomes in patients with resected pancreatic cancer
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Rini Pauly, Matthew D. Warren, Yunfeng Pan, William A. Hall, Charles A. Staley, Lauren E. Colbert, Elaine A. Liu, Brooke G. Pantazides, David A. Kooby, Jerome C. Landry, N. Volkan Adsay, Khanjan Gandhi, Claire W. Hardy, Jeanne Kowalski, Shishir K. Maithel, Ganji Purnachandra Nagaraju, Joseph W. Shelton, Bassel F. El-Rayes, Matthew Z. Madden, Walter J. Curran, Sarah B. Fisher, Burcu Saka, Aleksandra V. Petrova, and David S. Yu
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Male ,Cancer Research ,Antimetabolites, Antineoplastic ,endocrine system diseases ,Biology ,Deoxycytidine ,Gene Expression Regulation, Enzymologic ,Article ,chemistry.chemical_compound ,Mice ,Random Allocation ,Pancreatic cancer ,Cell Line, Tumor ,Carcinoma ,medicine ,Biomarkers, Tumor ,Gene silencing ,Animals ,Humans ,Survival analysis ,Proportional Hazards Models ,DNA Helicases ,medicine.disease ,Survival Analysis ,Xenograft Model Antitumor Assays ,Gemcitabine ,digestive system diseases ,DNA-Binding Proteins ,Gene Expression Regulation, Neoplastic ,Pancreatic Neoplasms ,Oncology ,chemistry ,Gene Knockdown Techniques ,Cancer research ,Biomarker (medicine) ,Immunohistochemistry ,Drug Screening Assays, Antitumor ,medicine.drug ,Carcinoma, Pancreatic Ductal - Abstract
Pancreatic ductal adenocarcinoma (PDAC) is a devastating disease with poor outcomes with current therapies. Gemcitabine is the primary adjuvant drug used clinically, but its effectiveness is limited. In this study, our objective was to use a rationale-driven approach to identify novel biomarkers for outcome in patients with early-stage resected PDAC treated with adjuvant gemcitabine. Using a synthetic lethal screen in human PDAC cells, we identified 93 genes, including 55 genes linked to DNA damage responses (DDR), that demonstrated gemcitabine sensitization when silenced, including CHD7, which functions in chromatin remodeling. CHD7 depletion sensitized PDAC cells to gemcitabine and delayed their growth in tumor xenografts. Moreover, CHD7 silencing impaired ATR-dependent phosphorylation of CHK1 and increased DNA damage induced by gemcitabine. CHD7 was dysregulated, ranking above the 90th percentile in differential expression in a panel of PDAC clinical specimens, highlighting its potential as a biomarker. Immunohistochemical analysis of specimens from 59 patients with resected PDAC receiving adjuvant gemcitabine revealed that low CHD7 expression was associated with increased recurrence-free survival (RFS) and overall survival (OS), in univariate and multivariate analyses. Notably, CHD7 expression was not associated with RFS or OS for patients not receiving gemcitabine. Thus, low CHD7 expression was correlated selectively with gemcitabine sensitivity in this patient population. These results supported our rationale-driven strategy to exploit dysregulated DDR pathways in PDAC to identify genetic determinants of gemcitabine sensitivity, identifying CHD7 as a novel biomarker candidate to evaluate further for individualizing PDAC treatment. Cancer Res; 74(10); 2677–87. ©2014 AACR.
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- 2014
11. Improved hippocampal dose with reduced margin radiotherapy for glioblastoma multiforme
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Tomi Ogunleye, Claire W. Hardy, Arif Ali, Hui-Kuo Shu, Walter J. Curran, and Ian R. Crocker
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Organs at Risk ,Dacarbazine ,medicine.medical_treatment ,Hippocampal formation ,Glioblastoma multiforme ,Hippocampus ,GBM ,Margin (machine learning) ,Statistical significance ,Temozolomide ,medicine ,Humans ,Radiology, Nuclear Medicine and imaging ,Radiometry ,medicine.diagnostic_test ,Brain Neoplasms ,business.industry ,Radiotherapy Planning, Computer-Assisted ,Research ,Radiotherapy Dosage ,Magnetic resonance imaging ,Chemoradiotherapy ,medicine.disease ,Magnetic Resonance Imaging ,Tumor Burden ,Radiation therapy ,Clinical Trials, Phase III as Topic ,Oncology ,Radiology Nuclear Medicine and imaging ,Chemotherapy, Adjuvant ,Glioblastoma ,Tomography, X-Ray Computed ,Nuclear medicine ,business ,Radiotherapy, Image-Guided ,medicine.drug - Abstract
Background: To dosimetrically evaluate the effect of reduced margin radiotherapy on hippocampal dose for glioblastoma multiforme (GBM) patients. Methods: GBM patients enrolled on the Radiation Therapy Oncology Group (RTOG) 0825 trial at our institution were identified. Standard RTOG 0825 expansions were 2 cm + 3-5 mm from the gross tumor volume (GTV) to the clinical tumor volume (CTV) and from the CTV to the planning tumor volume (PTV), respectively. These same patients also had reduced margin tumor volumes generated with 8 mm (GTV to CTV) + 3 mm (CTV to PTV) expansions. Individual plans were created for both standard and reduced margin structures. The dose-volume histograms were statistically compared with a paired, two-tailed Student’s t-test with a significance level of p
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- 2014
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12. Indocyanine green loaded liposome nanocarriers for photodynamic therapy using human triple negative breast cancer cells
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Brian Fernandez, Colby S. Shemesh, David S. Yu, Hailing Zhang, and Claire W. Hardy
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Indocyanine Green ,medicine.medical_specialty ,Radiation-Sensitizing Agents ,DNA damage ,Cell Survival ,medicine.medical_treatment ,Biophysics ,Photodynamic therapy ,Apoptosis ,Triple Negative Breast Neoplasms ,Dermatology ,Diffusion ,chemistry.chemical_compound ,Nanocapsules ,Cell Line, Tumor ,medicine ,Humans ,Pharmacology (medical) ,Photosensitizer ,Viability assay ,Clonogenic assay ,Cytotoxicity ,Liposome ,Chemistry ,eye diseases ,Surgery ,Treatment Outcome ,Oncology ,Photochemotherapy ,Liposomes ,Cancer research ,Indocyanine green - Abstract
Summary Background The goal of the current research is to evaluate the potential of photodynamic therapy (PDT) in the treatment of triple negative breast cancer (TNBC) with the development of a theranostic thermosensitive liposome platform to deliver indocyanine green (ICG) as the near-infrared (NIR) photosensitizer excited by an 808 nm diode laser. Methods In the PDT protocol, an optimized thermosensitive liposome formulation is investigated to formulate ICG as the photosensitizer, which is exited by laser light at the wavelength of 808 nm delivered by a fiber-coupled laser system. ICG in both free solution and thermosensitive liposomal formulation were evaluated as the NIR photosensitizer and compared in the PDT treatment on a panel of triple negative breast cancer cell lines along with the nontumorigenic mammary epithelial cell line MCF-10A. In addition to cytotoxicity, and clonogenic survival assessment, the role of DNA double strand break damage was evaluated. Results Both MTT and clonogenic assays revealed that PDT using ICG inhibited the growth of several TNBC cell lines as well as the non-tumorigenic human breast epithelial cell line MCF-10A; and the liposomal formulation of ICG did not compromise the in vitro treatment potency, though free ICG performed slightly more effective in certain cell lines, but was not statistically significant. Cell viability was dose dependent in regards to ICG concentration and irradiation energy. Interestingly, PDT using the described protocol was more potent to inhibit the growth of MDA-MB-468 and HCC-1806 cells, coinciding with the observation that these cells are more sensitive toward DNA damaging agents. In comparison, cell lines HCC-70, BT-549, and MCF-10A were found to have less of an inhibitory effect. Furthermore, substantial DNA double strand breaks (DSBs) were observed 30 min after the PDT treatment via a γ-H2AX staining assay. PDT induced DNA damage has the potential to lead to mutagenicity, which may have various responses depending on the repair capabilities of the cells. Conclusion Our results suggest that PDT using indocyanine green loaded liposomes were effective in inhibiting tumor cell growth to varying extents with higher responses observed for MDA-MB-468 and HCC-1806 cells.
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- 2013
13. Pronecrotic mixed lineage kinase domain-like protein expression is a prognostic biomarker in patients with early-stage resected pancreatic adenocarcinoma
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Lauren E, Colbert, Sarah B, Fisher, Claire W, Hardy, William A, Hall, Burcu, Saka, Joseph W, Shelton, Aleksandra V, Petrova, Matthew D, Warren, Brooke G, Pantazides, Khanjan, Gandhi, Jeanne, Kowalski, David A, Kooby, Bassel F, El-Rayes, Charles A, Staley, N Volkan, Adsay, Walter J, Curran, Jerome C, Landry, Shishir K, Maithel, and David S, Yu
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Adult ,Aged, 80 and over ,Male ,Analysis of Variance ,Kaplan-Meier Estimate ,Adenocarcinoma ,Middle Aged ,Prognosis ,Immunohistochemistry ,Gene Expression Regulation, Enzymologic ,Article ,Gene Expression Regulation, Neoplastic ,Pancreatic Neoplasms ,Predictive Value of Tests ,Biomarkers, Tumor ,Odds Ratio ,Humans ,Female ,Protein Kinases ,Aged ,Neoplasm Staging ,Proportional Hazards Models - Abstract
Mixed lineage kinase domain-like protein (MLKL) is a necrosome component mediating programmed necrosis that may be an important determinant of cancer cell death. The goal of the current study was to evaluate the prognostic value of MLKL expression in patients with pancreatic adenocarcinoma (PAC).Tissue from 80 patients was collected from a prospectively maintained database of patients with PAC who underwent pancreaticoduodenectomy between January 2000 and October 2008. Immunohistochemistry analysis was performed and scored using an established scoring system. Kaplan-Meier survival curves were generated for recurrence-free survival (RFS) and overall survival (OS) for all patients and for patients receiving adjuvant chemotherapy. MLKL scores were correlated with RFS and OS using univariate and multivariate Cox regression analyses incorporating clinically relevant covariates.The median age of the patients was 63 years and 53% were men. Low MLKL expression was associated with decreased OS (6 months vs 17 months; P = .006). In the subset of 59 patients who received adjuvant chemotherapy, low MLKL expression was associated with decreased RFS (5 months vs 15 months; P = .006) and decreased OS (6 months vs 19 months; P .0001). On multivariate analysis, low MLKL expression was associated with poor OS in all patients (hazards ratio, 4.6 [95% confidence interval, 1.6-13.8]; P = .006) and in patients receiving adjuvant chemotherapy (hazards ratio, 8.1 [95% confidence interval, 2.2-29.2]; P = .002).Low expression of MLKL is associated with decreased OS in patients with resected PAC and decreased RFS and OS in the subset of patients with resected PAC who receive adjuvant chemotherapy. The use of this biomarker in patients with PAC may provide important prognostic information.
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- 2013
14. Abstract A33: A loss of function genetic screen identifies determinants of gemcitabine sensitivity in pancreatic cancer
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David S. Yu, Khanjan Gandhi, Jerome C. Landry, Joseph W. Shelton, Claire W. Hardy, Brooke G. Pantazides, Jeanne Kowalski, Shishir K. Maithel, and Bassel F. El-Rayes
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Oncology ,medicine.medical_specialty ,Candidate gene ,DNA repair ,business.industry ,Cancer ,Cell cycle ,medicine.disease ,Gemcitabine ,Internal medicine ,Pancreatic cancer ,medicine ,Gene silencing ,business ,medicine.drug ,Genetic screen - Abstract
Purpose/Objectives: Pancreatic cancer is notorious for its devastating disease course and prognosis. Gemcitabine is a widely used regimen for pancreatic cancer treatment but lack of response and resistance often limits its effectiveness. Thus, a better understanding of which patients are likely to respond to gemcitabine treatment would allow the personalization of therapies that are most effective for a patient while potentially reducing toxicity. The objective of this study was to identify the genes and mechanisms involved in determining gemcitabine sensitivity in pancreatic cancer. Materials/Methods: We completed a loss of function genetic screen to identify genes, which when silenced cause sensitization of resistance to a low dose of gemcitabine in human pancreatic cancer cells. We optimized a high-throughput assay using ATR or CHK1 siRNA as positive controls and ATM or nontargeting (NT) siRNA as negative controls. Our siRNA library included 4,474 siRNAs corresponding to 1,006 unique human genes arrayed in a one-gene:one-well format in 96-well plates. Genes chosen for our library consisted predominantly of nuclear enzymes, which we reasoned were more likely to function directly in DNA repair processes and be targetable. Mia PaCa-2 cells were transfected with 25 nM siRNA and treated 48 hours later with or without 13 nM gemcitabine for 72 hours prior to assaying for cell proliferation using WST-1 reagent. Candidate genes were deconvoluted with individual siRNAs to eliminate off-target effects and validated by secondary screens for cell cycle recovery after a challenge of hydroxyurea (HU) and γH2AX phosphorylation in the absence of exogenous damage following gene silencing. A rigorous statistical algorithm was used to determine positive hits. Genes with variable expression in pancreatic cancer tissue samples were identified by mining through published data sets. Results: We identified 49 genes in which at least 2 unique siRNAs yielded gemcitabine sensitization and 17 genes in which at least 2 unique siRNAs yielded gemcitabine resistance. Positive hits included 25 known genome maintenance genes, including well characterized ATR signaling pathway genes CHK1, RAD9, HUS1 , and CDC25A , 27 putative ATM/ATR substrates, and 26 genes identified in previously published DNA damage sensitivity screens. Eight of our genes are above the 90th percentile in variability of expression amongst a panel of pancreatic cancer tissue samples. Conclusion: We identified gemcitabine sensitization and resistance genes that are variably expressed in pancreatic cancer, which may function as novel targets or biomarkers for individualizing treatment for patients with pancreatic cancer. Citation Format: Claire W. Hardy, Brooke G. Pantazides, Khanjan Gandhi, Jerome C. Landry, Joseph W. Shelton, Shishir K. Maithel, Bassel El-Rayes, Jeanne Kowalski, David S. Yu. A loss of function genetic screen identifies determinants of gemcitabine sensitivity in pancreatic cancer. [abstract]. In: Proceedings of the AACR Special Conference on Pancreatic Cancer: Progress and Challenges; Jun 18-21, 2012; Lake Tahoe, NV. Philadelphia (PA): AACR; Cancer Res 2012;72(12 Suppl):Abstract nr A33.
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- 2012
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15. Chromodomain-Helicase-DNA-Binding Protein 7 (CHD7), a Novel Gemcitabine Sensitivity Gene, Is a Prognostic Biomarker in Patients With Early-Stage Resected Pancreatic Adenocarcinoma
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Shishir K. Maithel, Burcu Saka, N.V. Adsay, Joseph W. Shelton, William A. Hall, David S. Yu, Jerome C. Landry, Sarah B. Fisher, Claire W. Hardy, and Lauren E. Colbert
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Cancer Research ,Radiation ,business.industry ,Binding protein ,Helicase dna ,medicine.disease ,Gemcitabine ,Chromodomain ,Oncology ,Cancer research ,Medicine ,Adenocarcinoma ,Radiology, Nuclear Medicine and imaging ,In patient ,Stage (cooking) ,business ,Gene ,medicine.drug - Published
- 2013
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16. Pronecrotic Mixed Lineage Kinase Domain-Like (MLKL) Protein Expression Is a Prognostic Biomarker in Patients With Resected Pancreatic Adenocarcinoma
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Lauren E. Colbert, N.V. Adsay, William A. Hall, Shishir K. Maithel, Sarah B. Fisher, David S. Yu, J.W. Shelton, Burcu Saka, Jerome C. Landry, and Claire W. Hardy
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Oncology ,Cancer Research ,medicine.medical_specialty ,Radiation ,business.industry ,medicine.disease ,Protein expression ,Domain (software engineering) ,Mixed Lineage Kinase ,Internal medicine ,medicine ,Cancer research ,Adenocarcinoma ,Radiology, Nuclear Medicine and imaging ,Prognostic biomarker ,In patient ,business - Published
- 2013
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17. Chromodomain Helicase DNA Binding Protein 5 (CHD5) Is Associated With Improved Overall Survival in Patients Undergoing Adjuvant Therapy for Resected Pancreatic Adenocarcinoma
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Shishir K. Maithel, Jerome C. Landry, Claire W. Hardy, Lauren E. Colbert, William A. Hall, Sarah B. Fisher, David A. Kooby, Joseph W. Shelton, Volkan Adsay, and David S. Yu
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Cancer Research ,medicine.medical_specialty ,Radiation ,Genitourinary system ,Proportional hazards model ,business.industry ,medicine.medical_treatment ,medicine.disease ,Gastroenterology ,Radiation therapy ,Oncology ,Internal medicine ,medicine ,Adjuvant therapy ,Cancer research ,Adenocarcinoma ,Biomarker (medicine) ,Radiology, Nuclear Medicine and imaging ,Hormone therapy ,Stage (cooking) ,business - Abstract
investigated the role of DAB2IP and/or EZH2 as prognostic biomarkers following radiation therapy (RT) in high-risk PCa patients. Materials/Methods: Immunohistochemistry was performed and scored by an expert genitourinary pathologist. Freedom from biochemical failure (FFBF) was determined using the Phoenix definition. Castrate resistancefree survival (CRFS) was determined when 2 episodes of rising prostatespecific antigen (PSA) occurred while on standard hormone therapy. Distant metastasis-free survival (DMFS) was determined from clinical data review. Log-rank test and Cox regression were used to determine significance of DAB2IP and EZH2 levels with clinical outcome. Results: Fifty-four patients with high-risk PCa (stage T3a, or Gleason score 8, or PSA 20) treated with RT from 2005-2012 at UT Southwestern were evaluated. 28.3% (13/46) of patients revealed DAB2IPreduction while 71.7% (33/46) retained DAB2IP. Nearly all patients expressed EZH2 (97.9%), supporting prior reports that EZH2 expression precedes DAB2IP reduction. For EZH2, the intensity level was grade (G) 0 in 1 (2.1%), G1 in 9 (18.8%), G2 in 29 (60.4%), and G3 in 9 (18.8%) patients. Median follow-up was 34.0 months (mos) (range, 6.7-76.1 mos) for DAB2IP-reduced patients, 29.9 mos (range, 6.1-84.6 mos) for DAB2IP-retained patients, and 32.6 m (range, 2.8-84.6 mos) for the EZH2 study. Patients with reduced DAB2IP demonstrated worse outcome compared to patients retaining DAB2IP, including FFBF (2-year Z 73% vs 93%; 4-yearZ 37% vs 89%; p Z 0.04; HR Z 3.65), DMFS (2-yearZ 90% vs 97%; 4-year Z 36% vs 97%; p Z 0.05), and CRFS (4-year Z 50% vs 90%; p Z 0.02). Intensity of EZH2 expression trended toward significance for worse FFBF and CRFS (p Z 0.07). Patients with reduced DAB2IP or highest intensity (G3) EZH2 expression exhibited even worse FFBF (p Z 0.03; HR Z 5.65). Six of the 7 patients that developed CRPC had reduced DAB2IP or G3 EZH2. Even with modest follow-up and after controlling for duration of hormone therapy, DAB2IP remains significant. Conclusions: This study suggests that DAB2IP loss is a potent biomarker for identifying high-risk PCa patients that portends worse outcome despite definitive RT. EZH2 is expressed in most high-risk PCa tumors evaluated, and is a less potent discriminator of outcome in this group of patients. DAB2IP status in combination with degree of EZH2 expression may be useful for determining patients with worse outcome within the high-risk patient population. Author Disclosure: C. Jacobs: None. P. Kapur: None. J. Yan: None. V. Tumati: None. X. Xie: None. D. Pistenmaa: None. M. Bhuiyan: None. J. Hsieh: None. D. Saha: None. D. Kim: None.
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- 2013
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18. The Influence of Radiation Therapy Dose Escalation on Overall Survival in Unresectable Pancreatic Adenocarcinoma
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Jeffrey M. Switchenko, Joseph Lipscomb, William A. Hall, David A. Kooby, Dana Nickleach, Lauren E. Colbert, Roshan S. Prabhu, Jerome C. Landry, Claire W. Hardy, and Theresa W. Gillespie
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Oncology ,Cancer Research ,medicine.medical_specialty ,Radiation ,business.industry ,medicine.medical_treatment ,medicine.disease ,Surgery ,Radiation therapy ,Internal medicine ,medicine ,Dose escalation ,Overall survival ,Adenocarcinoma ,Radiology, Nuclear Medicine and imaging ,business - Published
- 2013
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19. Abstract 1767: A synthetic lethal screen identifies determinants of gemcitabine sensitivity in pancreatic cancer
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Jeanne Kowalski, Shishir K. Maithel, David S. Yu, Khanjan Gandhi, Bassel F. El-Rayes, Joseph W. Shelton, Brooke G. Pantazides, Matthew D. Warren, Jerome C. Landry, and Claire W. Hardy
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Cancer Research ,Candidate gene ,DNA repair ,business.industry ,Cancer ,Cell cycle ,medicine.disease ,Bioinformatics ,Gemcitabine ,Oncology ,Pancreatic cancer ,Cancer research ,medicine ,Gene silencing ,business ,Genetic screen ,medicine.drug - Abstract
Purpose/Objectives: Pancreatic cancer is notorious for its devastating disease course and prognosis. Gemcitabine is a widely used regimen for pancreatic cancer treatment but lack of response and resistance often limits its effectiveness. Thus, a better understanding of which patients are likely to respond to gemcitabine treatment would allow the personalization of therapies that are most effective for a patient while potentially reducing toxicity. The objective of this study was to identify the genes and mechanisms involved in determining gemcitabine sensitivity in pancreatic cancer. Materials/Methods: We completed a loss of function genetic screen to identify genes, which when silenced cause sensitization of resistance to a low dose of gemcitabine in human pancreatic cancer cells. We optimized a high-throughput assay using ATR or CHK1 siRNA as positive controls and ATM or non-targeting (NT) siRNA as negative controls. Our siRNA library included 4,474 siRNAs corresponding to 1,006 unique human genes arrayed in a one-gene:one-well format in 96-well plates. Genes chosen for our library consisted predominantly of nuclear enzymes, which we reasoned were more likely to function directly in DNA repair processes and be targetable. Mia PaCa-2 cells were transfected with 25 nM siRNA and treated 48 hours later with or without 13 nM gemcitabine for 72 hours prior to assaying for cell proliferation using WST-1 reagent. Candidate genes were deconvoluted with individual siRNAs to eliminate off-target effects and validated by secondary screens for cell cycle recovery after a challenge of hydroxyurea (HU) and γH2AX phosphorylation in the absence of exogenous damage following gene silencing. A rigorous statistical algorithm was used to determine positive hits. Genes with variable expression in pancreatic cancer tissue samples were identified by mining through published data sets. Results: We identified 49 genes in which at least 2 unique siRNAs yielded gemcitabine sensitization and 17 genes in which at least 2 unique siRNAs yielded gemcitabine resistance. Positive hits included 25 known genome maintenance genes, including well characterized ATR signaling pathway genes CHK1, RAD9, HUS1, and CDC25A, 27 putative ATM/ATR substrates, and 26 genes identified in previously published DNA damage sensitivity screens. Eight of our genes are above the 90th percentile in variability of expression amongst a panel of pancreatic cancer tissue samples. Conclusion: We identified gemcitabine sensitization and resistance genes that are variably expressed in pancreatic cancer, which may function as novel targets or biomarkers for individualizing treatment for patients with pancreatic cancer. Citation Format: Matthew D. Warren, Claire W. Hardy, Brooke G. Pantazides, Khanjan Gandhi, Jerome C. Landry, Joseph W. Shelton, Shishir K. Maithel, Bassel El-Rayes, Jeanne Kowalski, David S. Yu. A synthetic lethal screen identifies determinants of gemcitabine sensitivity in pancreatic cancer. [abstract]. In: Proceedings of the 104th Annual Meeting of the American Association for Cancer Research; 2013 Apr 6-10; Washington, DC. Philadelphia (PA): AACR; Cancer Res 2013;73(8 Suppl):Abstract nr 1767. doi:10.1158/1538-7445.AM2013-1767
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- 2013
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20. Abstract LB-168: A pilot clinical trial of chromodomain-helicase-DNA-binding protein 7 (CHD7) expression as a prognostic and predictive biomarker in patients with early-stage pancreatic adenocarcinoma
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William A. Hall, Jeanne Kowalski, Shishir K. Maithel, Charles A. Staley, N. Volkan Adsay, Lauren E. Colbert, Brooke G. Pantazides, Sarah B. Fisher, Bassel F. El-Rayes, Burcu Saka, David A. Kooby, Khanjan Gandhi, Jerome C. Landry, Claire W. Hardy, David S. Yu, and Aleksandra V. Petrova
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Oncology ,Cancer Research ,medicine.medical_specialty ,business.industry ,FOLFIRINOX ,Cancer ,medicine.disease ,Gemcitabine ,Capecitabine ,Internal medicine ,Pancreatic cancer ,medicine ,Adenocarcinoma ,business ,Survival analysis ,Chemoradiotherapy ,medicine.drug - Abstract
Background/ Objectives Chromodomain helicase DNA Binding protein 7 (CHD7) modulates chromatin remodeling during genome maintenance. Its role in pancreatic cancer (PAC) is unestablished, but preliminary data for Gemcitabine (GEM) sensitivity in pancreatic cell lines and pilot clinical data is promising. This study will evaluate CHD7 as a prognostic and predictive factor in resected PAC using 1) immunohistochemistry (IHC) of patient samples from RTOG 97-04, 2) prospective evaluation of CHD7 over-expression and treatment response in patients receiving FOLFIRINOX and GEM-based chemoradiotherapy (CRT) for locally advanced PAC at our institution and 3) a Phase II molecular-driven randomized trial of personalized therapy based on CHD7 expression. Methodology A loss of function siRNA screen identified genes, including CHD7, that conferred GEM sensitivity when silenced using GEM-treated Mia PaCa-2 cells. CHD7 expression was assessed by IHC scoring in 80 patients who underwent curative intent resection of PAC between 1/2000 and 10/2008. Kaplan-meier survival analysis was performed for recurrence-free survival (RFS) and overall survival (OS). Univariate (UV) and Multivariate (MV) Cox regression analyses using clinically relevant covariates were used to correlate CHD7 expression levels with RFS and OS in patients receiving GEM therapy (n=42). This analysis will be validated in 200 patient samples from RTOG 97-04. CHD7 expression will be correlated with RFS and OS in GEM and 5-Fluorouracil (5-FU) treatment arms. CHD7 expression will also be measured in pre-chemotherapy core biopsies from locally advanced PAC patients treated at our institution. Patients will receive either two cycles of FOLFIRINOX (FOL) followed by GEM-based CRT at a dose of 1000mg/m2 once weekly or two cycles of FOL followed by Capecitabine (CAP)-based CRT. CHD7 expression will again be correlated with survival. These results will be followed by an ECOG- sponsored multi-institutional Phase II randomized trial of FOL and GEM-based CRT or FOL and CAP-based CRT based on CHD7 gene expression. Preliminary Data/ Anticipated Results In patients receiving GEM (n=42), high CHD7 was associated with poor RFS (7 months vs 15 months; p=.025) and poor OS (10 months vs 18 months; p=.015). On MV analysis, high CHD7 expression remained a predictor of poor RFS (HR 8.2 [95% CI 2.4-28]; p=.001) and poor OS (HR 11.6 [95% CI 3.4-40); p We expect our RTOG 97-04 validation study to demonstrate stronger correlation of low CHD7 expression with improved RFS and OS in GEM-treated patients. Similarly, we expect our institutional trial to demonstrate improved RFS and OS with low CHD7 in the GEM-treated arm. Citation Format: Lauren E. Colbert, William A. Hall, Claire W. Hardy, Sarah B. Fisher, David S. Yu, Shishir K. Maithel, Bassel El-Rayes, Burcu Saka, N Volkan Adsay, Aleksandra Petrova, Brooke Pantazides, Jeanne Kowalski, Khanjan Gandhi, David Kooby, Charles Staley, Jerome C. Landry. A pilot clinical trial of chromodomain-helicase-DNA-binding protein 7 (CHD7) expression as a prognostic and predictive biomarker in patients with early-stage pancreatic adenocarcinoma. [abstract]. In: Proceedings of the 104th Annual Meeting of the American Association for Cancer Research; 2013 Apr 6-10; Washington, DC. Philadelphia (PA): AACR; Cancer Res 2013;73(8 Suppl):Abstract nr LB-168. doi:10.1158/1538-7445.AM2013-LB-168
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- 2013
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21. Influence of Adjuvant Radiation Therapy Dose and Fraction on Overall Survival for Pancreatic Adenocarcinoma
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Theresa W. Gillespie, Yingzi Liu, David A. Kooby, Joseph Lipscomb, Lauren E. Colbert, Jerome C. Landry, Claire W. Hardy, and William A. Hall
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Oncology ,Cancer Research ,medicine.medical_specialty ,Adjuvant radiotherapy ,Radiation ,business.industry ,Fraction (chemistry) ,medicine.disease ,Internal medicine ,medicine ,Overall survival ,Adenocarcinoma ,Radiology, Nuclear Medicine and imaging ,business - Published
- 2012
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22. A Synthetic Lethal Screen Identifies Genes That Mediate Gemcitabine Resistance in Pancreatic Cancer
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Brooke G. Pantazides, Bassel F. El-Rayes, Khanjan Gandhi, Jerome C. Landry, Claire W. Hardy, Jeanne Kowalski, Shishir K. Maithel, Joseph W. Shelton, and David S. Yu
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Oncology ,Cancer Research ,medicine.medical_specialty ,Radiation ,business.industry ,Gemcitabine resistance ,medicine.disease ,Internal medicine ,Pancreatic cancer ,medicine ,Radiology, Nuclear Medicine and imaging ,business ,Gene - Published
- 2012
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23. SIRT2 Directs the Replication Stress Response Through CDK9 Deacetylation
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Brooke G. Pantazides, Seong Hoon Park, Nicholas T. Seyfried, Hui Zhang, Claire W. Hardy, Duc M. Duong, and David S. Yu
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Cancer Research ,Radiation ,Oncology ,Replication stress ,business.industry ,Acetylation ,Medicine ,Radiology, Nuclear Medicine and imaging ,Cyclin-dependent kinase 9 ,business ,SIRT2 ,Cell biology - Published
- 2012
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