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  1. 1.   ShiftScan: A tool for rapid analysis of high-throughput differential scanning fluorimetry data and compound prioritization
  2. Waterworth, Samantha C; Shenoy, Shilpa R; Sharma, Nirmala D; Wolcott,Chris; Donohue,Duncan; O'Keefe,Barry; Beutler,John
  3. Protein Science : a publication of the Protein Society. 2025, Mar; 34(3): e70055.
  1. 2.   Autonomous System for Tumor Resection (ASTR) - Dual-Arm Robotic Midline Partial Glossectomy
  2. Ge, Jiawei; Kam, Michael; Opfermann, Justin D; Saeidi, Hamed; Leonard, Simon; Mady, Leila J; Schnermann,Martin; Krieger, Axel
  3. IEEE Robotics and Automation Letters. 2024, Feb; 9(2): 1166-1173.
  1. 3.   Anionic Lipids Impact RAS-Binding Site Accessibility and Membrane Binding Affinity of CRAF RBD-CRD
  2. Travers, Timothy; López, Cesar A; Agamasu, Constance; Hettige, Jeevapani J; Messing,Simon; García, Angel E; Stephen, Andrew G; Gnanakaran, S
  3. Biophysical journal. 2020, AUG 4; 119(3): 525-538.
  1. 4.   Structures of N-terminally processed KRAS provide insight into the role of N-acetylation
  2. Dharmaiah,Sathiya; Tran,Tim; Messing,Simon; Agamasu,Constance; Gillette,Bill; Yan,Wupeng; Waybright,Tim; Alexander,Patrick; Esposito,Dom; Nissley,Dwight; McCormick, Frank; Stephen,Andy; Simanshu,Dhirendra
  3. Scientific reports. 2019, Jul 19; 9(1): 10512.
  1. 5.   Proteogenomic Analysis of Human Colon Cancer Reveals New Therapeutic Opportunities
  2. Vasaikar, Suhas; Huang, Chen; Wang, Xiaojing; Petyuk, Vladislav A.; Savage, Sara R.; Wen, Bo; Dou, Yongchao; Zhang, Yun; Shi, Zhiao; Arshad, Osama A.; Gritsenko, Marina A.; Zimmerman, Lisa J.; McDermott, Jason E.; Clauss, Therese R.; Moore, Ronald J.; Zhao, Rui; Monroe, Matthew E.; Wang, Yi-Ting; Chambers, Matthew C.; Slebos, Robbert J. C.; Lau, Ken S.; Mo, Qianxing; Ding, Li; Ellis, Matthew; Thiagarajan,Mathangi; Kinsinger, Christopher R.; Rodriguez, Henry; Smith, Richard D.; Rodland, Karin D.; Liebler, Daniel C.; Liu, Tao; Zhang, Bing; Ellis, Matthew J. C.; Bavarva, Jasmin; Borucki, Melissa; Elburn, Kimberly; Hannick, Linda; Vatanian, Negin; Payne, Samuel H.; Carr, Steven A.; Clauser, Karl R.; Gillette, Michael A.; Kuhn, Eric; Mani, D. R.; Cai, Shuang; Ketchum, Karen A.; Thangudu, Ratna R.; Whiteley, Gordon A.; Paulovich, Amanda; Whiteaker, Jeff; Edward, Nathan J.; Madhavan, Subha; McGarvey, Peter B.; Chan, Daniel W.; Shih, Ie-Ming; Zhang, Hui; Zhang, Zhen; Zhu, Heng; Skates, Steven J.; White, Forest M.; Mertins, Philip; Pandey, Akhilesh; Slebos, Robert J. C.; Boja, Emily; Hiltke, Tara; Kinsinger, Christopher R.; Mesri, Mehdi; Rivers, Robert C.; Stein, Stephen E.; Fenyo, David; Ruggles, Kelly; Levine, Douglas A.; Oberti, Mauricio; Rudnick, Paul A.; Snyder, Michael; Tabb, David L.; Zhao, Yingming; Chen, Xian; Ransohoff, David F.; Hoofnagle, Andrew; Sanders, Melinda E.; Wang, Yue; Davies, Sherri R.; Townsend, R. Reid; Watson, Mark
  3. CELL. 2019, May 2; 177(4): 1035-1049.e19.
  1. 6.   A dynamic hydrophobic core orchestrates allostery in protein kinases
  2. Kim, Jonggul; Ahuja, Lalima G.; Chao, Frank; Xia, Youlin; McClendon, Christopher L.; Kornev, Alexandr P.; Taylor, Susan S.; Veglia, Gianluigi
  3. SCIENCE ADVANCES. 2017, APR; 3(4):
  1. 7.   MPGAfold in dengue secondary structure prediction
  2. Kasprzak, W. K.; Shapiro, B. A.
  3. Methods in molecular biology (Clifton, N.J.). 2014, 20-Feb; 1138: 199-224.
  1. 8.   Segmentation and quantitative analysis of individual cells in developmental tissues
  2. Nandy, K.; Kim, J.; McCullough, D. P.; McAuliffe, M.; Meaburn, K. J.; Yamaguchi, T. P.; Gudla, P. R.; Lockett, S. J.
  3. Methods in molecular biology (Clifton, N.J.). 2014 1092: 235-53.
  1. 9.   Gene flow and pathogen transmission among bobcats (Lynx rufus) in a fragmented urban landscape
  2. Lee, J. S.; Ruell, E. W.; Boydston, E. E.; Lyren, L. M.; Alonso, R. S.; Troyer, J. L.; Crooks, K. R.; Vande Woude, S.
  3. Molecular Ecology. 2012, Apr; 21(7): 1617-1631.
  1. 10.   Structure of the cytoplasmic domain of Yersinia pestis YscD, an essential component of the type III secretion system
  2. Lountos, G. T.; Tropea, J. E.; Waugh, D. S.
  3. Acta Crystallographica Section D-Biological Crystallography. 2012, Mar; 68: 201-209.
  1. 11.   Bisubstrate analogue inhibitors of 6-hydroxymethyl-7,8-dihydropterin pyrophosphokinase: New design with improved properties
  2. Shi, G. B.; Shaw, G.; Liang, Y. H.; Subburaman, P.; Li, Y.; Wu, Y.; Yan, H. G.; Ji, X. H.
  3. Bioorganic & Medicinal Chemistry. 2012, Jan; 20(1): 47-57.
  1. 12.   Open Data, Open Source and Open Standards in chemistry: The Blue Obelisk five years on
  2. O'Boyle, N. M.; Guha, R.; Willighagen, E. L.; Adams, S. E.; Alvarsson, J.; Bradley, J. C.; Filippov, I. V.; Hanson, R. M.; Hanwell, M. D.; Hutchison, G. R.; James, C. A.; Jeliazkova, N.; Lang, A.; Langner, K. M.; Lonie, D. C.; Lowe, D. M.; Pansanel, J.; Pavlov, D.; Spjuth, O.; Steinbeck, C.; Tenderholt, A. L.; Theisen, K. J.; Murray-Rust, P.
  3. Journal of Cheminformatics. 2011, Oct; 3
  1. 13.   Correlating SHAPE signatures with three-dimensional RNA structures
  2. Bindewald, E.; Wendeler, M.; Legiewicz, M.; Bona, M. K.; Wang, Y.; Pritt, M. J.; Le Grice, S. F. J.; Shapiro, B. A.
  3. Rna-a Publication of the Rna Society. 2011, Sep; 17(9): 1688-1696.
  1. 14.   Improved molecular replacement by density- and energy-guided protein structure optimization
  2. DiMaio, F.; Terwilliger, T. C.; Read, R. J.; Wlodawer, A.; Oberdorfer, G.; Wagner, U.; Valkov, E.; Alon, A.; Fass, D.; Axelrod, H. L.; Das, D.; Vorobiev, S. M.; Iwai, H.; Pokkuluri, P. R.; Baker, D.
  3. Nature. 2011, May; 473(7348): 540-U149.
  1. 15.   Optimized Method for Computing O-18/O-16 Ratios of Differentially Stable-Isotope Labeled Peptides in the Context of Postdigestion O-18 Exchange/Labeling
  2. Ye, X. Y.; Luke, B. T.; Johann, D. J.; Ono, A.; Prieto, D. A.; Chan, K. C.; Issaq, H. J.; Veenstra, T. D.; Blonder, J.
  3. Analytical Chemistry. 2010, Jul; 82(13): 5878-5886.
  1. 16.   Worldwide Distribution of the MYH9 Kidney Disease Susceptibility Alleles and Haplotypes: Evidence of Historical Selection in Africa
  2. Oleksyk, T. K.; Nelson, G. W.; An, P.; Kopp, J. B.; Winkler, C. A.
  3. Plos One. 2010, Jul; 5(7): 12.
  1. 17.   IC50-to-Ki: a web-based tool for converting IC50 to Ki values for inhibitors of enzyme activity and ligand binding
  2. Cer, R. Z.; Mudunuri, U.; Stephens, R.; Lebeda, F. J.
  3. Nucleic Acids Research. 2009 37(Web Server issue): W441-W445.
  1. 18.   Structure of the lamin A/C R482W mutant responsible for dominant familial partial lipodystrophy (FPLD)
  2. Magracheva, E.; Kozlov, S.; Stewart, C. L.; Wlodawer, A.; Zdanov, A.
  3. Acta Crystallographica Section F-Structural Biology and Crystallization Communications. 2009 65: 665-670.
  1. 19.   Organizing, exploring, and analyzing antibody sequence data: the case for relational-database managers
  2. Owens, J.
  3. Methods in molecular biology (Clifton, N.J.). 2009 525: 569-80, xiv.
  1. 20.   Novel fold of VirA, a type III secretion system effector protein from Shigella flexneri
  2. Davis, J.; Wang, J. W.; Tropea, J. E.; Zhang, D.; Dauter, Z.; Waugh, D. S.; Wlodawer, A.
  3. Protein Science. 2008 17(12): 2167-2173.
  1. 21.   Identification of the ancestral killer immunoglobulin-like receptor gene in primates
  2. Sambrook, J. G.; Bashirova, A.; Andersen, H.; Piatak, M.; Vernikos, G. S.; Coggill, P.; Lifson, J. D.; Carrington, M.; Beck, S.
  3. Bmc Genomics. 2006, Aug; 7
  1. 22.   Integration of digital signal processing technologies with pulsed electron paramagnetic resonance imaging
  2. Pursley, R. H.; Salem, G.; Devasahayam, N.; Subramanian, S.; Koscielniak, J.; Krishna, M. C.; Pohida, T. J.
  3. Journal of Magnetic Resonance. 2006, FEB; 178(2): 220-227.
  1. 23.   WholePathwayScope: a comprehensive pathway-based analysis tool for high-throughput data
  2. Yi, M.; Horton, J. D.; Cohen, J. C.; Hobbs, H. H.; Stephens, R. M.
  3. Bmc Bioinformatics. 2006, JAN 19; 7
  1. 24.   Whole cell segmentation in solid tissue sections
  2. Baggett, D.; Nakaya, M. A.; McAuliffe, M.; Yamaguchi, T. P.; Lockett, S.
  3. Cytometry Part A. 2005, OCT; 67A(2): 137-143.
  1. 25.   Single haplotype analysis demonstrates rapid evolution of the killer immunoglobulin-like receptor (KIR) loci in primates
  2. Sambrook, J. G.; Bashirova, A.; Palmer, S.; Sims, S.; Trowsdale, J.; bi-Rached, L.; Parham, P.; Carrington, M.; Beck, S.
  3. Genome Research. 2005, JAN; 15(1): 25-35.
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