Zobrazeno 1 - 10
of 52
pro vyhledávání: '"Paul A. Rudnick"'
Autor:
Yingwei Hu, Jianbo Pan, Punit Shah, Minghui Ao, Stefani N. Thomas, Yang Liu, Lijun Chen, Michael Schnaubelt, David J. Clark, Henry Rodriguez, Emily S. Boja, Tara Hiltke, Christopher R. Kinsinger, Karin D. Rodland, Qing Kay Li, Jiang Qian, Zhen Zhang, Daniel W. Chan, Hui Zhang, Akhilesh Pandey, Amanda Paulovich, Andrew Hoofnagle, Bing Zhang, D.R. Mani, Daniel C. Liebler, David F. Ransohoff, David Fenyo, David L. Tabb, Douglas A. Levine, Eric Kuhn, Forest M. White, Gordon A. Whiteley, Heng Zhu, Ie-Ming Shih, Jasmin Bavarva, Jason E. McDermott, Jeffrey Whiteaker, Karen A. Ketchum, Karl R. Clauser, Kelly Ruggles, Kimberly Elburn, Li Ding, Linda Hannick, Lisa J. Zimmerman, Mark Watson, Mathangi Thiagarajan, Matthew J.C. Ellis, Mauricio Oberti, Mehdi Mesri, Melinda E. Sanders, Melissa Borucki, Michael A. Gillette, Michael Snyder, Nathan J. Edwards, Negin Vatanian, Paul A. Rudnick, Peter B. McGarvey, Philip Mertins, R. Reid Townsend, Ratna R. Thangudu, Richard D. Smith, Robert C. Rivers, Robert J.C. Slebos, Samuel H. Payne, Sherri R. Davies, Shuang Cai, Stephen E. Stein, Steven A. Carr, Steven J. Skates, Subha Madhavan, Tao Liu, Xian Chen, Yingming Zhao, Yue Wang, Zhiao Shi
Publikováno v:
Cell Reports, Vol 33, Iss 3, Pp 108276- (2020)
Summary: Many gene products exhibit great structural heterogeneity because of an array of modifications. These modifications are not directly encoded in the genomic template but often affect the functionality of proteins. Protein glycosylation plays
Externí odkaz:
https://doaj.org/article/687878b78b8f4a70bfe6276db55dbef8
Autor:
Yang Liu, Mauricio Oberti, Samuel H. Payne, Zhiao Shi, Minghui Ao, Mathangi Thiagarajan, D. R. Mani, Karen A. Ketchum, Jeffrey R. Whiteaker, Henry Rodriguez, Peter B. McGarvey, Xian Chen, Karl R. Clauser, Nathan Edwards, Amanda G. Paulovich, Shuang Cai, David L. Tabb, Heng Zhu, David F. Ransohoff, Mark A. Watson, Andrew N. Hoofnagle, Kelly V. Ruggles, Jiang Qian, Karin D. Rodland, Qing Kay Li, Daniel C. Liebler, Yingwei Hu, Hui Zhang, Christopher R. Kinsinger, Akhilesh Pandey, Tara Hiltke, Stephen E. Stein, Lijun Chen, Eric Kuhn, Richard D. Smith, Matthew J. Ellis, Subha Madhavan, Linda Hannick, Punit Shah, Kimberly Elburn, Yingming Zhao, Bing Zhang, Robert J.C. Slebos, Daniel W. Chan, Zhen Zhang, Jasmin H. Bavarva, Sherri R. Davies, David J. Clark, Li Ding, Mehdi Mesri, Jianbo Pan, Melinda E. Sanders, Douglas A. Levine, Forest M. White, Lisa J. Zimmerman, Steven A. Carr, Michael A. Gillette, Tao Liu, Yue Wang, Robert Rivers, Melissa Borucki, David Fenyö, Steven J. Skates, Ie Ming Shih, Gordon Whiteley, Michael Snyder, Raymond R. Townsend, Philip Mertins, Ratna R. Thangudu, Paul A. Rudnick, Michael Schnaubelt, Negin Vatanian, Jason E. McDermott, Stefani N. Thomas, Emily S. Boja
Publikováno v:
Cell Reports, Vol 33, Iss 3, Pp 108276-(2020)
Cell Rep
Cell Rep
SUMMARY: Many gene products exhibit great structural heterogeneity because of an array of modifications. These modifications are not directly encoded in the genomic template but often affect the functionality of proteins. Protein glycosylation plays
Autor:
Mehdi Mesri, Akhilesh Pandey, Lauren C. Tang, Shayan C. Avanessian, Stefani N. Thomas, Emily S. Boja, Chen Huang, Lili Blumenberg, Mauricio Oberti, Peter B. McGarvey, Karen A. Ketchum, Zhen Zhang, Amanda G. Paulovich, Samuel H. Payne, Ratna R. Thangudu, Karsten Krug, Gad Getz, Shuang Cai, David I. Heiman, Karl R. Clauser, David F. Ransohoff, Nathan Edwards, Ie Ming Shih, Chet Birger, Gordon Whiteley, Michael Snyder, Tara Hiltke, Paul A. Rudnick, Christopher R. Kinsinger, Philipp Mertins, Subha Madhavan, Henry Rodriguez, Melinda E. Sanders, Jingqin Luo, Xian Chen, Yosef E. Maruvka, Kenna M. Shaw, George Miles, Shunqiang Li, Eric Kuhn, Lisa J. Zimmerman, Zhiao Shi, Christopher G. Maher, Stephen E. Stein, Thomas F. Westbrook, Matthew A. Wyczalkowski, Daniel W. Chan, Bo Wen, Xi Steven Chen, Song Cao, Hui Zhang, Yifat Geffen, Jason E. McDermott, Yuxing Liao, Yue Wang, Yingming Zhao, David L. Tabb, Mathangi Thiagarajan, D. R. Mani, Matthew J. Ellis, Forest M. White, Robert Rivers, Heng Zhu, Yongchao Dou, David Fenyö, Antonio Colaprico, Shankha Satpathy, Eric J. Jaehnig, Jeffrey R. Whiteaker, Li Ding, Meenakshi Anurag, Karin D. Rodland, Andrew N. Hoofnagle, Ana I. Robles, Kelly V. Ruggles, Steven A. Carr, Richard D. Smith, Jacob J. Kennedy, Tao Liu, Robbert J.C. Slebos, Maciej Wiznerowicz, Daniel C. Liebler, M. Harry Kane, Jonathan T. Lei, Alla Karpova, Ramani B. Kothadia, Douglas A. Levine, Bing Zhang, Michael A. Gillette, Jarey Wang
Publikováno v:
Cell
Elsevier
Elsevier
SUMMARY The integration of mass spectrometry-based proteomics with next-generation DNA and RNA sequencing profiles tumors more comprehensively. Here this “proteogenomics” approach was applied to 122 treatment-naive primary breast cancers accrued
Autor:
Nathan Edwards, Jeri Roth, Christopher R. Kinsinger, Karen A. Ketchum, Xinjian Yan, Mehdi Mesri, Ratna R. Thangudu, Stephen E. Stein, Paul A. Rudnick, Henry Rodriguez, Yuri A. Mirokhin, Sanford P. Markey, Dmitrii V. Tchekhovskoi
Publikováno v:
Journal of Proteome Research. 15:1023-1032
The Clinical Proteomic Tumor Analysis Consortium (CPTAC) has produced large proteomics data sets from the mass spectrometric interrogation of tumor samples previously analyzed by The Cancer Genome Atlas (TCGA) program. The availability of the genomic
Autor:
Christopher R. Kinsinger, Michael Holck, Michael J. MacCoss, Karen A. Ketchum, Anand Basu, Deepak Singhal, Nathan Edwards, Paul A. Rudnick, Ratna R. Thangudu, Erika Kim
Publikováno v:
Cancer Research. 80:LB-242
The objective of the National Cancer Institutes' Proteomic Data Commons (PDC) is to make cancer-related proteomic datasets accessible to the public. The PDC provides the cancer research community with a unified data repository that enables data shari
Autor:
Paul A. Rudnick, Tapan K. Maity, Shaojian Gao, Romi Biswas, Nitin Roper, Shivangi Awasthi, Xu Zhang, Abhilash Venugopalan, Emily Kawaler, Khoa Dang Nguyen, Constance M. Cultraro, David Fenyö, Udayan Guha
Lung cancer is the leading cause of cancer death in both men and women. Tumor heterogeneity is an impediment to targeted treatment of all cancers, including lung cancer. Here, we sought to characterize tumor proteome and phosphoproteome changes by lo
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::201ebb39de85a0dc102189144eacbd3e
Autor:
David L. Tabb, Zhiao Shi, Samuel H. Payne, Peter B. McGarvey, Matthew J. Ellis, Jing Wang, Steven J. Skates, David F. Ransohoff, Kent Shaddox, Ie Ming Shih, Gordon Whiteley, Michael Snyder, Nathan Edwards, Jeffrey R. Whiteaker, Tao Liu, Forest M. White, Xian Chen, Douglas A. Levine, Christopher R. Kinsinger, Sean Wang, Sangtae Kim, Karin D. Rodland, Qi Liu, Melinda E. Sanders, Michael A. Gillette, Robert J. Coffey, Xiaojing Wang, Steven A. Carr, Philipp Mertins, Bing Zhang, Robbert J.C. Slebos, Pei Wang, Emily S. Boja, Lisa J. Zimmerman, Daniel C. Liebler, Matthew C. Chambers, Henry Rodriguez, Zhen Zhang, Akhilesh Pandey, Richard D. Smith, Robert Rivers, Subha Madhavan, Karen A. Ketchum, Li Ding, Yue Wang, R. Reid Townsend, Sherri R. Davies, David Fenyö, Hui Zhang, D. R. Mani, Heng Zhu, Yingming Zhao, Jason E. McDermott, Paul A. Rudnick, Stephen E. Stein, Tara Hiltke, Mehdi Mesri, Jing Zhu, Andrew N. Hoofnagle, Daniel W. Chan, Amanda G. Paulovich, Eric Kuhn, Karl R. Klauser, Kenna M. Shaw
Publikováno v:
Nature. 513:382-387
Extensive genomic characterization of human cancers presents the problem of inference from genomic abnormalities to cancer phenotypes. To address this problem, we analysed proteomes of colon and rectal tumours characterized previously by The Cancer G
Publikováno v:
Molecular & Cellular Proteomics. 13:1341-1351
Normalization is an important step in the analysis of quantitative proteomics data. If this step is ignored, systematic biases can lead to incorrect assumptions about regulation. Most statistical procedures for normalizing proteomics data have been b
Autor:
Emily S. Boja, Ratna R. Thangudu, Karl R. Clauser, Li Ding, Steven J. Skates, David L. Tabb, Tao Liu, Christopher R. Kinsinger, Yue Wang, Vladislav A. Petyuk, Andrew N. Hoofnagle, Matthew C. Chambers, Ie Ming Shih, Kelly V. Ruggles, Gordon Whiteley, Michael Snyder, Matthew J. Ellis, Stephen E. Stein, Mauricio Oberti, Karen A. Ketchum, Melissa Borucki, Samuel H. Payne, Eric Kuhn, Sara R. Savage, Zhiao Shi, Zhen Zhang, Yongchao Dou, David Fenyö, Bing Zhang, Melinda E. Sanders, Matthew E. Monroe, Shuang Cai, Philip Mertins, Peter B. McGarvey, Mathangi Thiagarajan, R. Reid Townsend, Daniel W. Chan, Robert Rivers, Nathan Edwards, Hui Zhang, Tara Hiltke, Bo Wen, Jasmin H. Bavarva, Steven A. Carr, Richard D. Smith, Mark A. Watson, Xiaojing Wang, Mehdi Mesri, Yi-Ting Wang, Douglas A. Levine, Linda Hannick, Rui Zhao, Suhas Vasaikar, Marina A. Gritsenko, Lisa J. Zimmerman, Forest M. White, Amanda G. Paulovich, Michael A. Gillette, Xian Chen, Henry Rodriguez, Ken S. Lau, Akhilesh Pandey, Robbert J.C. Slebos, Daniel C. Liebler, Jeffrey R. Whiteaker, Therese R. W. Clauss, Karin D. Rodland, Paul A. Rudnick, Subha Madhavan, Kimberly Elburn, Yun Zhang, Negin Vatanian, Osama A. Arshad, Sherri R. Davies, Jason E. McDermott, Qianxing Mo, Ronald J. Moore, David F. Ransohoff, D. R. Mani, Heng Zhu, Yingming Zhao, Chen Huang
Publikováno v:
Cell. 177:1035-1049.e19
We performed the first proteogenomic study on a prospectively collected colon cancer cohort. Comparative proteomic and phosphoproteomic analysis of paired tumor and normal adjacent tissues produced a catalog of colon cancer-associated proteins and ph
Autor:
Paul A. Rudnick
Publikováno v:
PROTEOMICS. 13:3247-3250
Spectral library searching has many advantages over sequence database searching, yet it has not been widely adopted. One possible reason for this is that users are unsure exactly how to interpret the similarity scores (e.g., "dot products" are not pr