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705 results on '"Kowalski, Jeanne"'

3. Melanoma Cell Intrinsic GABAA Receptor Enhancement Potentiates Radiation and Immune Checkpoint Inhibitor Response by Promoting Direct and T Cell-Mediated Antitumor Activity

Author

Pomeranz Krummel, Daniel A., Nasti, Tahseen H., Kaluzova, Milota, Kallay, Laura, Bhattacharya, Debanjan, Melms, Johannes C., Izar, Benjamin, Xu, Maxwell, Burnham, Andre, Ahmed, Taukir, Li, Guanguan, Lawson, David, Kowalski, Jeanne, Cao, Yichun, Switchenko, Jeffrey M., Ionascu, Dan, Cook, James M., Medvedovic, Mario, Jenkins, Andrew, Khan, Mohammad K., and Sengupta, Soma

Published
2021
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13. Class I HDACs Are Mediators of Smoke Carcinogen–Induced Stabilization of DNMT1 and Serve as Promising Targets for Chemoprevention of Lung Cancer

Author

Brodie, Seth A, Li, Ge, El-Kommos, Adam, Kang, Hyunseok, Ramalingam, Suresh S, Behera, Madhusmita, Gandhi, Khanjan, Kowalski, Jeanne, Sica, Gabriel L, Khuri, Fadlo R, Vertino, Paula M, and Brandes, Johann C

Subjects
Prevention, Orphan Drug, Rare Diseases, Genetics, Tobacco Smoke and Health, Tobacco, Cancer, Lung Cancer, Lung, 2.1 Biological and endogenous factors, Aetiology, Carcinogens, Environmental, Carcinoma, Bronchogenic, Cell Transformation, Neoplastic, Cells, Cultured, Chemoprevention, DNA (Cytosine-5-)-Methyltransferase 1, DNA (Cytosine-5-)-Methyltransferases, Histone Deacetylase 1, Histone Deacetylase Inhibitors, Humans, Lung Neoplasms, Molecular Targeted Therapy, Promoter Regions, Genetic, Protein Stability, Smoke, Clinical Sciences, Oncology and Carcinogenesis, Oncology & Carcinogenesis
Abstract

DNA methylation is an early event in bronchial carcinogenesis and increased DNA methyltransferase (DNMT)1 protein expression is a crucial step in the oncogenic transformation of epithelia. Here, we investigate the role of class I histone deacetylases (HDAC) 1 to 3 in the stabilization of DNMT1 protein and as a potential therapeutic target for lung cancer chemoprevention. Long-term exposure of immortalized bronchial epithelial cells (HBEC-3KT) to low doses of tobacco-related carcinogens led to oncogenic transformation, increased HDAC expression, cell-cycle independent increased DNMT1 stability, and DNA hypermethylation. Overexpression of HDACs was associated with increased DNMT1 stability and knockdown of HDACs reduced DNMT1 protein levels and induced DNMT1 acetylation. This suggests a causal relationship among increased class I HDACs levels, upregulation of DNMT1 protein, and subsequent promoter hypermethylation. Targeting of class I HDACs with valproic acid (VPA) was associated with reduced HDAC expression and a profound reduction of DNMT1 protein level. Treatment of transformed bronchial epithelial cells with VPA resulted in reduced colony formation, demethylation of the aberrantly methylated SFRP2 promoter, and derepression of SFRP2 transcription. These data suggest that inhibition of HDAC activity may reverse or prevent carcinogen-induced transformation. Finally, immunohistochemistry on human lung cancer specimens revealed a significant increase in DNMT1, HDAC1, HDAC2, and HDAC3 expression, supporting our hypotheses that class I HDACs are mediators of DNMT1 stability. In summary, our study provides evidence for an important role of class I HDACs in controlling the stability of DNMT1 and suggests that HDAC inhibition could be an attractive approach for lung cancer chemoprevention.

Published
2014

14. MoCoLo: a testing framework for motif co-localization.

Author

Xu, Qi, Mundo, Imee M A del, Zewail-Foote, Maha, Luke, Brian T, Vasquez, Karen M, and Kowalski, Jeanne

Subjects
DNA structure, CONDITIONAL probability, DNA damage, TUMOR markers, CELL lines
Abstract

Sequence-level data offers insights into biological processes through the interaction of two or more genomic features from the same or different molecular data types. Within motifs, this interaction is often explored via the co-occurrence of feature genomic tracks using fixed-segments or analytical tests that respectively require window size determination and risk of false positives from over-simplified models. Moreover, methods for robustly examining the co-localization of genomic features, and thereby understanding their spatial interaction, have been elusive. We present a new analytical method for examining feature interaction by introducing the notion of reciprocal co-occurrence, define statistics to estimate it and hypotheses to test for it. Our approach leverages conditional motif co-occurrence events between features to infer their co-localization. Using reverse conditional probabilities and introducing a novel simulation approach that retains motif properties (e.g. length, guanine-content), our method further accounts for potential confounders in testing. As a proof-of-concept, motif co-localization (MoCoLo) confirmed the co-occurrence of histone markers in a breast cancer cell line. As a novel analysis, MoCoLo identified significant co-localization of oxidative DNA damage within non-B DNA-forming regions that significantly differed between non-B DNA structures. Altogether, these findings demonstrate the potential utility of MoCoLo for testing spatial interactions between genomic features via their co-localization. [ABSTRACT FROM AUTHOR]

Published
2024
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18. Modulating native GABAA receptors in medulloblastoma with positive allosteric benzodiazepine-derivatives induces cell death

Author

Kallay, Laura, Keskin, Havva, Ross, Alexandra, Rupji, Manali, Moody, Olivia A., Wang, Xin, Li, Guanguan, Ahmed, Taukir, Rashid, Farjana, Stephen, Michael Rajesh, Cottrill, Kirsten A., Nuckols, T. Austin, Xu, Maxwell, Martinson, Deborah E., Tranghese, Frank, Pei, Yanxin, Cook, James M., Kowalski, Jeanne, Taylor, Michael D., Jenkins, Andrew, Pomeranz Krummel, Daniel A., and Sengupta, Soma

Published
2019
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19. Differentiation therapy in poor risk myeloid malignancies: Results of a dose finding study of the combination bryostatin-1 and GM-CSF

Author

Smith, B Douglas, Jones, Richard J, Cho, Eunpi, Kowalski, Jeanne, Karp, Judith E, Gore, Steven D, Vala, Milada, Meade, Brooke, Baker, Sharyn D, Zhao, Ming, Piantadosi, Steven, Zhang, Zhe, Blumenthal, Gideon, Warlick, Erica D, Brodsky, Robert A, Murgo, Anthony, Rudek, Michelle A, and Matsui, William H

Subjects
Biomedical and Clinical Sciences, Clinical Sciences, Oncology and Carcinogenesis, Clinical Research, Rare Diseases, Hematology, Clinical Trials and Supportive Activities, Cancer, Evaluation of treatments and therapeutic interventions, 6.1 Pharmaceuticals, Adult, Aged, Antineoplastic Agents, Bryostatins, Cell Differentiation, Dose-Response Relationship, Drug, Female, Granulocyte-Macrophage Colony-Stimulating Factor, Humans, Male, Middle Aged, Prognosis, Leukemia, Differentiation therapy, Myelodysplastic syndrome, Growth factors, Bryostatin, Drug resistance, Immunology, Cardiovascular medicine and haematology
Abstract

PurposePharmacologic differentiating agents have had relatively limited clinical success outside of the use of ATRA in acute promyelocytic leukemia and DNA methyltransferase inhibitors in myelodysplastic syndromes. The differentiating effects of such agents can be enhanced in combination with lineage-specific growth factors. We developed a dose finding trial to assess toxicity, differentiating activity, and clinical impact of the combination of bryostatin-1 and GM-CSF.Experimental designPatients with poor risk myeloid malignancies were eligible to enroll in a dose finding study of continuous infusion bryostatin-1 combined with a fixed dose of daily GM-CSF. Toxicities were graded per NCI CTC version 2.0 and pharmacokinetic and correlative study samples were obtained to assess the combination's clinical and biologic differentiating effects.ResultsThirty-two patients were treated with the combination therapy and the dose determined to be most suitable for study in a larger trial was continuous infusion broystatin-1 at 16μg/m(2) for 14 days and subcutaneous GM-CSF at 125μg/m(2) daily for 14 days every 28 days. Arthralgias and myalgias limited further dose escalation. Clinically, the combination impacted differentiation with improvement of absolute neutrophil counts (p=0.0001) in the majority of patients. Interestingly, there were two objective clinical responses, including a CR after a single cycle. Both the bryostatin-1 plasma concentrations and the correlative studies supported biologic activity of the combination at the doses where clinical responses were observed.ConclusionsCombining growth factors with pharmacologic differentiating agents may increase their clinical effectiveness and further studies should focus on such combinations.

Published
2011

24. X-AMPIE: Expressed Amplification Signatures for Information Exchange in Cancer

Author

Xu, Qi and Kowalski, Jeanne

Abstract

This paper describes a method for deriving sample-level expressed amplification signatures (EASs) within and among model systems (cancer cell lines, patient tumors, etc.) and cancer types to build a crosstalk of multiply informed EASs that may be explored as potential markers in cancer etiology and treatment.&nbsp

Published
2023
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27. Data from Upregulation of MMP-2 by HMGA1 Promotes Transformation in Undifferentiated, Large-Cell Lung Cancer

Author

Hillion, Joelle, primary, Wood, Lisa J., primary, Mukherjee, Mita, primary, Bhattacharya, Raka, primary, Di Cello, Francescopaolo, primary, Kowalski, Jeanne, primary, Elbahloul, Ossama, primary, Segal, Jodi, primary, Poirier, John, primary, Rudin, Charles M., primary, Dhara, Surajit, primary, Belton, Amy, primary, Joseph, Biju, primary, Zucker, Stanley, primary, and Resar, Linda M.S., primary

Published
2023
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28. Supplementary Data from Covalent JNK Inhibitor, JNK-IN-8, Suppresses Tumor Growth in Triple-Negative Breast Cancer by Activating TFEB- and TFE3-Mediated Lysosome Biogenesis and Autophagy

Author

Soleimani, Milad, primary, Somma, Alexander, primary, Kaoud, Tamer, primary, Goyal, Ria, primary, Bustamante, Jorge, primary, Wylie, Dennis C., primary, Holay, Nisha, primary, Looney, Agnieszka, primary, Giri, Uma, primary, Triplett, Todd, primary, Dalby, Kevin, primary, Kowalski, Jeanne, primary, Eckhardt, S. Gail, primary, and Van Den Berg, Carla, primary

Published
2023
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29. Supplementary Figures 1 - 10 from Class I HDACs Are Mediators of Smoke Carcinogen–Induced Stabilization of DNMT1 and Serve as Promising Targets for Chemoprevention of Lung Cancer

Author

Brodie, Seth A., primary, Li, Ge, primary, El-Kommos, Adam, primary, Kang, Hyunseok, primary, Ramalingam, Suresh S., primary, Behera, Madhusmita, primary, Gandhi, Khanjan, primary, Kowalski, Jeanne, primary, Sica, Gabriel L., primary, Khuri, Fadlo R., primary, Vertino, Paula M., primary, and Brandes, Johann C., primary

Published
2023
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30. Data from Class I HDACs Are Mediators of Smoke Carcinogen–Induced Stabilization of DNMT1 and Serve as Promising Targets for Chemoprevention of Lung Cancer

Author

Brodie, Seth A., primary, Li, Ge, primary, El-Kommos, Adam, primary, Kang, Hyunseok, primary, Ramalingam, Suresh S., primary, Behera, Madhusmita, primary, Gandhi, Khanjan, primary, Kowalski, Jeanne, primary, Sica, Gabriel L., primary, Khuri, Fadlo R., primary, Vertino, Paula M., primary, and Brandes, Johann C., primary

Published
2023
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31. Supplementary Table 1 from Class I HDACs Are Mediators of Smoke Carcinogen–Induced Stabilization of DNMT1 and Serve as Promising Targets for Chemoprevention of Lung Cancer

Author

Brodie, Seth A., primary, Li, Ge, primary, El-Kommos, Adam, primary, Kang, Hyunseok, primary, Ramalingam, Suresh S., primary, Behera, Madhusmita, primary, Gandhi, Khanjan, primary, Kowalski, Jeanne, primary, Sica, Gabriel L., primary, Khuri, Fadlo R., primary, Vertino, Paula M., primary, and Brandes, Johann C., primary

Published
2023
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32. Supplementary Figure Legends from Class I HDACs Are Mediators of Smoke Carcinogen–Induced Stabilization of DNMT1 and Serve as Promising Targets for Chemoprevention of Lung Cancer

Author

Brodie, Seth A., primary, Li, Ge, primary, El-Kommos, Adam, primary, Kang, Hyunseok, primary, Ramalingam, Suresh S., primary, Behera, Madhusmita, primary, Gandhi, Khanjan, primary, Kowalski, Jeanne, primary, Sica, Gabriel L., primary, Khuri, Fadlo R., primary, Vertino, Paula M., primary, and Brandes, Johann C., primary

Published
2023
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33. Supplementary Table 2 from Class I HDACs Are Mediators of Smoke Carcinogen–Induced Stabilization of DNMT1 and Serve as Promising Targets for Chemoprevention of Lung Cancer

Author

Brodie, Seth A., primary, Li, Ge, primary, El-Kommos, Adam, primary, Kang, Hyunseok, primary, Ramalingam, Suresh S., primary, Behera, Madhusmita, primary, Gandhi, Khanjan, primary, Kowalski, Jeanne, primary, Sica, Gabriel L., primary, Khuri, Fadlo R., primary, Vertino, Paula M., primary, and Brandes, Johann C., primary

Published
2023
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34. Data from Covalent JNK Inhibitor, JNK-IN-8, Suppresses Tumor Growth in Triple-Negative Breast Cancer by Activating TFEB- and TFE3-Mediated Lysosome Biogenesis and Autophagy

Author

Soleimani, Milad, primary, Somma, Alexander, primary, Kaoud, Tamer, primary, Goyal, Ria, primary, Bustamante, Jorge, primary, Wylie, Dennis C., primary, Holay, Nisha, primary, Looney, Agnieszka, primary, Giri, Uma, primary, Triplett, Todd, primary, Dalby, Kevin, primary, Kowalski, Jeanne, primary, Eckhardt, S. Gail, primary, and Van Den Berg, Carla, primary

Published
2023
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35. Supplementary Data from Upregulation of MMP-2 by HMGA1 Promotes Transformation in Undifferentiated, Large-Cell Lung Cancer

Author

Hillion, Joelle, primary, Wood, Lisa J., primary, Mukherjee, Mita, primary, Bhattacharya, Raka, primary, Di Cello, Francescopaolo, primary, Kowalski, Jeanne, primary, Elbahloul, Ossama, primary, Segal, Jodi, primary, Poirier, John, primary, Rudin, Charles M., primary, Dhara, Surajit, primary, Belton, Amy, primary, Joseph, Biju, primary, Zucker, Stanley, primary, and Resar, Linda M.S., primary

Published
2023
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36. Supplementary Data from K562/GM-CSF Immunotherapy Reduces Tumor Burden in Chronic Myeloid Leukemia Patients with Residual Disease on Imatinib Mesylate

Author

Smith, B. Douglas, primary, Kasamon, Yvette L., primary, Kowalski, Jeanne, primary, Gocke, Christopher, primary, Murphy, Kathleen, primary, Miller, Carole B., primary, Garrett-Mayer, Elizabeth, primary, Tsai, Hua-Ling, primary, Qin, Lu, primary, Chia, Christina, primary, Biedrzycki, Barbara, primary, Harding, Thomas C., primary, Tu, Guang Haun, primary, Jones, Richard, primary, Hege, Kristen, primary, and Levitsky, Hyam I., primary

Published
2023
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40. Data from Progressive Chromatin Repression and Promoter Methylation of CTNNA1 Associated with Advanced Myeloid Malignancies

Author

Ye, Ying, primary, McDevitt, Michael A., primary, Guo, Mingzhou, primary, Zhang, Wei, primary, Galm, Oliver, primary, Gore, Steven D., primary, Karp, Judith E., primary, Maciejewski, Jaroslaw P., primary, Kowalski, Jeanne, primary, Tsai, Hua-Ling, primary, Gondek, Lukasz P., primary, Tsai, Hsing-Chen, primary, Wang, Xiaofei, primary, Hooker, Craig, primary, Smith, B. Douglas, primary, Carraway, Hetty E., primary, and Herman, James G., primary

Published
2023
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41. Data from The High-Mobility Group A1a/Signal Transducer and Activator of Transcription-3 Axis: An Achilles Heel for Hematopoietic Malignancies?

Author

Hillion, Joelle, primary, Dhara, Surajit, primary, Sumter, Takita Felder, primary, Mukherjee, Mita, primary, Di Cello, Francescopaolo, primary, Belton, Amy, primary, Turkson, James, primary, Jaganathan, Souyma, primary, Cheng, Linzhao, primary, Ye, Zhaohui, primary, Jove, Richard, primary, Aplan, Peter, primary, Lin, Ying-Wei, primary, Wertzler, Kelsey, primary, Reeves, Ray, primary, Elbahlouh, Ossama, primary, Kowalski, Jeanne, primary, Bhattacharya, Raka, primary, and Resar, Linda M. S., primary

Published
2023
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42. Supplementary Figure 2 from Progressive Chromatin Repression and Promoter Methylation of CTNNA1 Associated with Advanced Myeloid Malignancies

Author

Ye, Ying, primary, McDevitt, Michael A., primary, Guo, Mingzhou, primary, Zhang, Wei, primary, Galm, Oliver, primary, Gore, Steven D., primary, Karp, Judith E., primary, Maciejewski, Jaroslaw P., primary, Kowalski, Jeanne, primary, Tsai, Hua-Ling, primary, Gondek, Lukasz P., primary, Tsai, Hsing-Chen, primary, Wang, Xiaofei, primary, Hooker, Craig, primary, Smith, B. Douglas, primary, Carraway, Hetty E., primary, and Herman, James G., primary

Published
2023
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43. Supplementary Figures 1 - 6 from CHD7 Expression Predicts Survival Outcomes in Patients with Resected Pancreatic Cancer

Author

Colbert, Lauren E., primary, Petrova, Aleksandra V., primary, Fisher, Sarah B., primary, Pantazides, Brooke G., primary, Madden, Matthew Z., primary, Hardy, Claire W., primary, Warren, Matthew D., primary, Pan, Yunfeng, primary, Nagaraju, Ganji P., primary, Liu, Elaine A., primary, Saka, Burcu, primary, Hall, William A., primary, Shelton, Joseph W., primary, Gandhi, Khanjan, primary, Pauly, Rini, primary, Kowalski, Jeanne, primary, Kooby, David A., primary, El-Rayes, Bassel F., primary, Staley, Charles A., primary, Adsay, N. Volkan, primary, Curran, Walter J., primary, Landry, Jerome C., primary, Maithel, Shishir K., primary, and Yu, David S., primary

Published
2023
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44. Supplementary Table 2 from Progressive Chromatin Repression and Promoter Methylation of CTNNA1 Associated with Advanced Myeloid Malignancies

Author

Ye, Ying, primary, McDevitt, Michael A., primary, Guo, Mingzhou, primary, Zhang, Wei, primary, Galm, Oliver, primary, Gore, Steven D., primary, Karp, Judith E., primary, Maciejewski, Jaroslaw P., primary, Kowalski, Jeanne, primary, Tsai, Hua-Ling, primary, Gondek, Lukasz P., primary, Tsai, Hsing-Chen, primary, Wang, Xiaofei, primary, Hooker, Craig, primary, Smith, B. Douglas, primary, Carraway, Hetty E., primary, and Herman, James G., primary

Published
2023
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45. Supplementary Figure and Table Legends 1-2 from Progressive Chromatin Repression and Promoter Methylation of CTNNA1 Associated with Advanced Myeloid Malignancies

Author

Ye, Ying, primary, McDevitt, Michael A., primary, Guo, Mingzhou, primary, Zhang, Wei, primary, Galm, Oliver, primary, Gore, Steven D., primary, Karp, Judith E., primary, Maciejewski, Jaroslaw P., primary, Kowalski, Jeanne, primary, Tsai, Hua-Ling, primary, Gondek, Lukasz P., primary, Tsai, Hsing-Chen, primary, Wang, Xiaofei, primary, Hooker, Craig, primary, Smith, B. Douglas, primary, Carraway, Hetty E., primary, and Herman, James G., primary

Published
2023
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46. Supplementary Figure Legends from CHD7 Expression Predicts Survival Outcomes in Patients with Resected Pancreatic Cancer

Author

Colbert, Lauren E., primary, Petrova, Aleksandra V., primary, Fisher, Sarah B., primary, Pantazides, Brooke G., primary, Madden, Matthew Z., primary, Hardy, Claire W., primary, Warren, Matthew D., primary, Pan, Yunfeng, primary, Nagaraju, Ganji P., primary, Liu, Elaine A., primary, Saka, Burcu, primary, Hall, William A., primary, Shelton, Joseph W., primary, Gandhi, Khanjan, primary, Pauly, Rini, primary, Kowalski, Jeanne, primary, Kooby, David A., primary, El-Rayes, Bassel F., primary, Staley, Charles A., primary, Adsay, N. Volkan, primary, Curran, Walter J., primary, Landry, Jerome C., primary, Maithel, Shishir K., primary, and Yu, David S., primary

Published
2023
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47. Supplementary Table 2 from The High-Mobility Group A1a/Signal Transducer and Activator of Transcription-3 Axis: An Achilles Heel for Hematopoietic Malignancies?

Author

Hillion, Joelle, primary, Dhara, Surajit, primary, Sumter, Takita Felder, primary, Mukherjee, Mita, primary, Di Cello, Francescopaolo, primary, Belton, Amy, primary, Turkson, James, primary, Jaganathan, Souyma, primary, Cheng, Linzhao, primary, Ye, Zhaohui, primary, Jove, Richard, primary, Aplan, Peter, primary, Lin, Ying-Wei, primary, Wertzler, Kelsey, primary, Reeves, Ray, primary, Elbahlouh, Ossama, primary, Kowalski, Jeanne, primary, Bhattacharya, Raka, primary, and Resar, Linda M. S., primary

Published
2023
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48. Supplementary Figure 1 from Progressive Chromatin Repression and Promoter Methylation of CTNNA1 Associated with Advanced Myeloid Malignancies

Author

Ye, Ying, primary, McDevitt, Michael A., primary, Guo, Mingzhou, primary, Zhang, Wei, primary, Galm, Oliver, primary, Gore, Steven D., primary, Karp, Judith E., primary, Maciejewski, Jaroslaw P., primary, Kowalski, Jeanne, primary, Tsai, Hua-Ling, primary, Gondek, Lukasz P., primary, Tsai, Hsing-Chen, primary, Wang, Xiaofei, primary, Hooker, Craig, primary, Smith, B. Douglas, primary, Carraway, Hetty E., primary, and Herman, James G., primary

Published
2023
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50. Data from CHD7 Expression Predicts Survival Outcomes in Patients with Resected Pancreatic Cancer

Author

Colbert, Lauren E., primary, Petrova, Aleksandra V., primary, Fisher, Sarah B., primary, Pantazides, Brooke G., primary, Madden, Matthew Z., primary, Hardy, Claire W., primary, Warren, Matthew D., primary, Pan, Yunfeng, primary, Nagaraju, Ganji P., primary, Liu, Elaine A., primary, Saka, Burcu, primary, Hall, William A., primary, Shelton, Joseph W., primary, Gandhi, Khanjan, primary, Pauly, Rini, primary, Kowalski, Jeanne, primary, Kooby, David A., primary, El-Rayes, Bassel F., primary, Staley, Charles A., primary, Adsay, N. Volkan, primary, Curran, Walter J., primary, Landry, Jerome C., primary, Maithel, Shishir K., primary, and Yu, David S., primary

Published
2023
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