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207 results on '"Thapa, Ishwor"'

8. A Robust Network Model for Studying Microbiomes in Precision Agriculture Applications

Author

Kim, Suyeon, Thapa, Ishwor, Ali, Hesham H., Hartmanis, Juris, Founding Editor, van Leeuwen, Jan, Series Editor, Hutchison, David, Editorial Board Member, Kanade, Takeo, Editorial Board Member, Kittler, Josef, Editorial Board Member, Kleinberg, Jon M., Editorial Board Member, Kobsa, Alfred, Series Editor, Mattern, Friedemann, Editorial Board Member, Mitchell, John C., Editorial Board Member, Naor, Moni, Editorial Board Member, Nierstrasz, Oscar, Series Editor, Pandu Rangan, C., Editorial Board Member, Sudan, Madhu, Series Editor, Terzopoulos, Demetri, Editorial Board Member, Tygar, Doug, Editorial Board Member, Weikum, Gerhard, Series Editor, Vardi, Moshe Y, Series Editor, Goos, Gerhard, Founding Editor, Bertino, Elisa, Editorial Board Member, Gao, Wen, Editorial Board Member, Steffen, Bernhard, Editorial Board Member, Yung, Moti, Editorial Board Member, Woeginger, Gerhard, Editorial Board Member, Franco, Leonardo, editor, de Mulatier, Clélia, editor, Paszynski, Maciej, editor, Krzhizhanovskaya, Valeria V., editor, Dongarra, Jack J., editor, and Sloot, Peter M. A., editor

Published
2024
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9. Comparison of Finite Element Method Models for Predicting Concrete Compression and Flexural Strength

Author

Thapa, Ishwor, Gupta, Megha, Ghani, Sufyan, di Prisco, Marco, Series Editor, Chen, Sheng-Hong, Series Editor, Vayas, Ioannis, Series Editor, Kumar Shukla, Sanjay, Series Editor, Sharma, Anuj, Series Editor, Kumar, Nagesh, Series Editor, Wang, Chien Ming, Series Editor, Cui, Zhen-Dong, Series Editor, Sreekeshava, K. S., editor, Kolathayar, Sreevalsa, editor, and Vinod Chandra Menon, N., editor

Published
2024
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10. Prediction of Soaked CBR Value of Sub-base Soil Using Artificial Intelligence Model

Author

Thapa, Ishwor, Ghani, Sufyan, di Prisco, Marco, Series Editor, Chen, Sheng-Hong, Series Editor, Vayas, Ioannis, Series Editor, Kumar Shukla, Sanjay, Series Editor, Sharma, Anuj, Series Editor, Kumar, Nagesh, Series Editor, Wang, Chien Ming, Series Editor, Cui, Zhen-Dong, Series Editor, Menon, N. Vinod Chandra, editor, Kolathayar, Sreevalsa, editor, Rodrigues, Hugo, editor, and Sreekeshava, K. S., editor

Published
2024
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12. Claudin-2 protects against colitis-associated cancer by promoting colitis-associated mucosal healing

Author

Ahmad, Rizwan, Kumar, Balawant, Thapa, Ishwor, Tamang, Raju Lama, Yadav, Santosh K., Washington, Mary K., Talmon, Geoffrey A., Yu, Alan S., Bastola, Dhundy K., Dhawan, Punita, and Singh, Amar B.

Subjects
Inflammation -- Prognosis, Colitis -- Prognosis, B cells -- Analysis, Cancer -- Prognosis, Gastrointestinal diseases -- Prognosis, Disease susceptibility -- Prognosis, Mice -- Analysis, Health care industry, University of Nebraska Medical Center
Abstract

Patients with inflammatory bowel disease (IBD) are susceptible to colitis-associated cancer (CAC). Chronic inflammation promotes the risk for CAC. In contrast, mucosal healing predicts improved prognosis in IBD and reduced risk of CAC. However, the molecular integration among colitis, mucosal healing, and CAC remains poorly understood. Claudin-2 (CLDN2) expression is upregulated in IBD; however, its role in CAC is not known. The current study was undertaken to examine the role for CLDN2 in CAC. The AOM/DSS-induced CAC model was used with WT and CLDN2-modified mice. High-throughput expression analyses, murine models of colitis/recovery, chronic colitis, ex vivo crypt culture, and pharmacological manipulations were employed in order to increase our mechanistic understanding. The Cldn2KO mice showed significant inhibition of CAC despite severe colitis compared with WT littermates. Cldn2 loss also resulted in impaired recovery from colitis and increased injury when mice were subjected to intestinal injury by other methods. Mechanistic studies demonstrated a possibly novel role of CLDN2 in promotion of mucosal healing downstream of EGFR signaling and by regulation of Survivin expression. An upregulated CLDN2 expression protected from CAC and associated positively with crypt regeneration and Survivin expression in patients with IBD. We demonstrate a potentially novel role of CLDN2 in promotion of mucosal healing in patients with IBD and thus regulation of vulnerability to colitis severity and CAC, which can be exploited for improved clinical management., Introduction Patients with inflammatory bowel disease (IBD) have two big fears: (a) developing colon cancer and (b) losing their colon by colectomy because of the heightened risk of colitis-associated cancer [...]

Published
2023
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16. A Computational Approach to Demonstrate the Control of Gene Expression via Chromosomal Access in Colorectal Cancer.

Author

Pecka, Caleb J., Thapa, Ishwor, Singh, Amar B., and Bastola, Dhundy

Subjects
*BCL-2 proteins, *TRANSCRIPTION factors, *WORKFLOW management systems, *COLON cancer, *GENE expression
Abstract

Background: Improved technologies for chromatin accessibility sequencing such as ATAC-seq have increased our understanding of gene regulation mechanisms, particularly in disease conditions such as cancer. Methods: This study introduces a computational tool that quantifies and establishes connections between chromatin accessibility, transcription factor binding, transcription factor mutations, and gene expression using publicly available colorectal cancer data. The tool has been packaged using a workflow management system to allow biologists and researchers to reproduce the results of this study. Results: We present compelling evidence linking chromatin accessibility to gene expression, with particular emphasis on SNP mutations and the accessibility of transcription factor genes. Furthermore, we have identified significant upregulation of key transcription factor interactions in colon cancer patients, including the apoptotic regulation facilitated by E2F1, MYC, and MYCN, as well as activation of the BCL-2 protein family facilitated by TP73. Conclusion: This study demonstrates the effectiveness of the computational tool in linking chromatin accessibility to gene expression and highlights significant transcription factor interactions in colorectal cancer. The code for this project is openly available on GitHub. [ABSTRACT FROM AUTHOR]

Published
2024
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17. A New Graph Database System for Multi-omics Data Integration and Mining Complex Biological Information

Author

Thapa, Ishwor, Ali, Hesham, Goos, Gerhard, Founding Editor, Hartmanis, Juris, Founding Editor, Bertino, Elisa, Editorial Board Member, Gao, Wen, Editorial Board Member, Steffen, Bernhard, Editorial Board Member, Woeginger, Gerhard, Editorial Board Member, Yung, Moti, Editorial Board Member, Măndoiu, Ion, editor, Murali, T. M., editor, Narasimhan, Giri, editor, Rajasekaran, Sanguthevar, editor, Skums, Pavel, editor, and Zelikovsky, Alexander, editor

Published
2020
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18. Computational Approaches for Drug Design: A Focus on Drug Repurposing

Author

Kim, Suyeon, Thapa, Ishwor, Samadi, Farial, Ali, Hesham, Goos, Gerhard, Founding Editor, Hartmanis, Juris, Founding Editor, Bertino, Elisa, Editorial Board Member, Gao, Wen, Editorial Board Member, Steffen, Bernhard, Editorial Board Member, Woeginger, Gerhard, Editorial Board Member, Yung, Moti, Editorial Board Member, Rojas, Ignacio, editor, Valenzuela, Olga, editor, Rojas, Fernando, editor, Herrera, Luis Javier, editor, and Ortuño, Francisco, editor

Published
2020
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19. On Identifying Candidates for Drug Repurposing for the Treatment of Ulcerative Colitis using Gene Expression Data

Author

Kim, Suyeon, Thapa, Ishwor, Zhang, Ling, Ali, Hesham, Hutchison, David, Editorial Board Member, Kanade, Takeo, Editorial Board Member, Kittler, Josef, Editorial Board Member, Kleinberg, Jon M., Editorial Board Member, Mattern, Friedemann, Editorial Board Member, Mitchell, John C., Editorial Board Member, Naor, Moni, Editorial Board Member, Pandu Rangan, C., Editorial Board Member, Steffen, Bernhard, Editorial Board Member, Terzopoulos, Demetri, Editorial Board Member, Tygar, Doug, Editorial Board Member, Goos, Gerhard, Founding Editor, Hartmanis, Juris, Founding Editor, Rojas, Ignacio, editor, Valenzuela, Olga, editor, Rojas, Fernando, editor, and Ortuño, Francisco, editor

Published
2019
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28. Cigarette Smoke Induces Stem Cell Features of Pancreatic Cancer Cells via PAF1

Author

Nimmakayala, Rama Krishna, Seshacharyulu, Parthasarathy, Lakshmanan, Imayavaramban, Rachagani, Satyanarayana, Chugh, Seema, Karmakar, Saswati, Rauth, Sanchita, Vengoji, Raghupathy, Atri, Pranita, Talmon, Geoffrey A., Lele, Subodh M., Smith, Lynette M., Thapa, Ishwor, Bastola, Dhundy, Ouellette, Michel M., Batra, Surinder K., and Ponnusamy, Moorthy P.

Published
2018
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30. Pyrroline-5-Carboxylate Reductase-2 Promotes Colorectal Carcinogenesis by Modulating Microtubule-Associated Serine/Threonine Kinase-like/Wnt/β-Catenin Signaling

Author

Lama Tamang, Raju, primary, Kumar, Balawant, additional, Patel, Sagar M., additional, Thapa, Ishwor, additional, Ahmad, Alshomrani, additional, Kumar, Vikas, additional, Ahmad, Rizwan, additional, Becker, Donald F., additional, Bastola, Dundy (Kiran), additional, Dhawan, Punita, additional, and Singh, Amar B., additional

Published
2023
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40. Image Analysis of DETECHIP® – A Molecular Sensing Array

Author

Lyon, Marcus, Wilson, Mark V., Rouhier, Kerry A., Symonsbergen, David J., Bastola, Kiran, Thapa, Ishwor, Holmes, Andrea E., Sikich, Sharmin M., Jackson, Abby, Kacprzyk, Janusz, Series editor, Wyld, David C., editor, Zizka, Jan, editor, and Nagamalai, Dhinaharan, editor

Published
2012
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41. Sambad – Computer Interfaces for Non-literates

Author

Dhakhwa, Sagun, Hall, Patrick A. V., Ghimire, Ganesh Bahadur, Manandhar, Prakash, Thapa, Ishwor, Hutchison, David, editor, Kanade, Takeo, editor, Kittler, Josef, editor, Kleinberg, Jon M., editor, Mattern, Friedemann, editor, Mitchell, John C., editor, Naor, Moni, editor, Nierstrasz, Oscar, editor, Pandu Rangan, C., editor, Steffen, Bernhard, editor, Sudan, Madhu, editor, Terzopoulos, Demetri, editor, Tygar, Doug, editor, Vardi, Moshe Y., editor, Weikum, Gerhard, editor, and Jacko, Julie A., editor

Published
2007
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43. MEDB-90. Iron Imbalance Can Potentiate Cisplatin Response in Pediatric Medulloblastoma by Regulating Ferroptosis

Author

Kanchan, Ranjana, primary, Perumal, Naveenkumar, additional, Khan, Parvez, additional, Doss, David, additional, Venkata, Ramakanth Chirravuri, additional, Thapa, Ishwor, additional, Vengoji, Raghupathy, additional, Kaushal, Jyoti, additional, Siddiqui, Jawed, additional, Nasser, Mohd Wasim, additional, Batra, Surinder, additional, and Mahapatra, Sidhartha, additional

Published
2022
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48. MiR-1253 Potentiates Cisplatin Response in Pediatric Group 3 Medulloblastoma by Regulating Ferroptosis

Author

Kanchan, Ranjana K., primary, Perumal, Naveenkumar, additional, Khan, Parvez, additional, Doss, David, additional, Chirravuri Venkata, Ramakanth, additional, Thapa, Ishwor, additional, Vengoji, Raghupathy, additional, Kaushal, Jyoti, additional, Siddiqui, Jawed A., additional, Nasser, Mohd Wasim, additional, Batra, Surinder K., additional, and Mahapatra, Sidharth, additional

Published
2022
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