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D

Doo Nam Kim

pacific northwest national laboratory

12H-index
70Paper Count
490Citation Count
Published Papers 18
Publication Date
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Graph identification of proteins in tomograms (GRIP-Tomo) 2.0: Topologically aware classification for proteins
errProtein Science
IF5.2
err2026-08-11
err0
errOAAI
errChengxuan Li; August George; Reece Neff; Doo Nam Kim; Trevor Moser; Kate Baldwin; Malio Nelson; Arsam Firoozfar; James E. Evans; Margaret S. Cheung
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errSave
Synergy and antagonism in a genome-scale model of metabolic hijacking by bacteriophages
errScience Advances
IF12.5
err2026-04-01
err0
errOAAI
errJordan C. Rozum; William Sineath; Pavlo Bohutskyi; Jordan Quenneville; Doo Nam Kim; Connah Johnson; Angad P. Mehta; James Evans; David Pollock; Wei-Jun Qian; Margaret S. Cheung; Ruonan Wu; Song Feng
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errSave
Integrative Multi-PTM Proteomics Reveals Dynamic Global, Redox, Phosphorylation, and Acetylation Regulation in Cytokine-Treated Pancreatic Beta Cells
errMolecular & Cellular Proteomics
IF5.5
err2025-09-12
err0
PREAI
errAustin Gluth; Xiaolu Li; Marina A. Gritsenko; Matthew J. Gaffrey; Doo Nam Kim; Priscila M. Lalli; Rosalie K. Chu; Nicholas J. Day; Tyler J. Sagendorf; Matthew E. Monroe; Song Feng; Tao Liu; Bin Yang; Wei-Jun Qian; Tong Zhang
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errSave
Artificial Intelligence Transforming Post-Translational Modification Research
errBIOENGINEERING-BASEL
IF3.7
err2024-12-31
err1
errOAAI
errKim, Doo Nam; Yin, Tianzhixi; Zhang, Tong; Im, Alexandria K.; Cort, John R.; Rozum, Jordan C.; Pollock, David; Qian, Wei-Jun; Feng, Song
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errSave
Integrative Multi-PTM Proteomics Reveals Dynamic Global, Redox, Phosphorylation, and Acetylation Regulation in Cytokine-Treated Pancreatic Beta Cells
errMOLECULAR & CELLULAR PROTEOMICS
IF5.5
err2024-12-01
err0
errOAAI
errGluth, Austin; Li, Xiaolu; Gritsenko, Marina A.; Gaffrey, Matthew J.; Kim, Doo Nam; Lalli, Priscila M.; Chu, Rosalie K.; Day, Nicholas J.; Sagendorf, Tyler J.; Monroe, Matthew E.; Feng, Song; Liu, Tao; Yang, Bin; Qian, Wei-Jun; Zhang, Tong
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errSave
Dynamic Redox, Phosphorylation, and Acetylation Regulation in Cytokine-treated Pancreatic Beta Cells by an Integrative MultiPTM Workflow
errFREE RADICAL BIOLOGY AND MEDICINE
IF8.2
err2024-11-01
err0
PREAI
errGluth, Austin; Li, Xiaolu; Gritsenko, Marina; Gaffrey, Matthew; Kim, Doo Nam; Lalli, Priscila; Feng, Song; Qian, Wei Jhu; Zhang, Tong
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errSave
Dirigent isoflavene-forming PsPTS2: 3D structure stereochemical, and kinetic characterization comparison with pterocarpan-forming PsPTS1 homolog in pea
errJOURNAL OF BIOLOGICAL CHEMISTRY
IF3.9
err2024-03-01
err2
errOAAI
errMeng, Qingyan; Moinuddin, Syed G. A.; Celoy, Rhodesia M.; Smith, Clyde A.; Young, Robert P.; Costa, Michael A.; Freeman, Rachel A.; Fukaya, Masashi; Kim, Doo Nam; Cort, John R.; Hawes, Martha C.; van Etten, Hans D.; Pandey, Pankaj; Chittiboyina, Amar G.; Ferreira, Daneel; Davin, Laurence B.; Lewis, Norman G.
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errSave
Leveraging Artificial Intelligence to Expedite Antibody Design and Enhance Antibody-Antigen Interactions
errBIOENGINEERING-BASEL
IF3.7
err2024-02-15
err10
errOAAI
errKim, Doo Nam; McNaughton, Andrew D.; Kumar, Neeraj
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errSave
Shaping Nanobodies and Intrabodies against Proteoforms
errANALYTICAL CHEMISTRY
IF6.7
err2023-05-26
err0
PREAI
errLeonard, Bojana; Danna, Vincent; Gorham, Leo; Davison, Michelle; Chrisler, William; Kim, Doo Nam; Gerbasi, Vincent R.
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errSave
Tunable Heteroassembly of a Plant Pseudoenzyme-Enzyme Complex
errACS CHEMICAL BIOLOGY
IF3.8
err2021-09-14
err16
errOAAI
errNovikova, Irina, V; Zhou, Mowei; Du, Chen; Parra, Marcelina; Kim, Doo Nam; VanAernum, Zachary L.; Shaw, Jared B.; Hellmann, Hanjo; Wysocki, Vicki H.; Evans, James E.
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errSave
Practical Considerations for Atomistic Structure Modeling with Cryo-EM Maps
errJOURNAL OF CHEMICAL INFORMATION AND MODELING
IF5.3
err2020-05-18
err12
errOAAI
errKim, Doo Nam; Gront, Dominik; Sanbonmatsu, Karissa Y.
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errSave
Zinc-finger protein CNBP alters the 3-D structure of lncRNA Braveheart in solution
errNATURE COMMUNICATIONS
IF15.7
err2020-01-09
err64
errOAAI
errKim, Doo Nam; Thiel, Bernhard C.; Mrozowich, Tyler; Hennelly, Scott P.; Hofacker, Ivo L.; Patel, Trushar R.; Sanbonmatsu, Karissa Y.
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errSave
Cryo_fit: Democratization of flexible fitting for cryo-EM
errJOURNAL OF STRUCTURAL BIOLOGY
IF5.1
err2019-10-01
err31
errOAAI
errKim, Doo Nam; Moriarty, Nigel W.; Kirmizialtin, Serdal; Afonine, Pavel, V; Poon, Billy; Sobolev, Oleg, V; Adams, Paul D.; Sanbonmatsu, Karissa
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errSave
Tools for the cryo-EM gold rush: going from the cryo-EM map to the atomistic model
errBIOSCIENCE REPORTS
IF4.7
err2017-12-05
err20
errOAAI
errKim, Doo Nam; Sanbonmatsu, Karissa Y.
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errSave
Shewanella upenei sp nov., a Lipolytic Bacterium Isolated from Bensasi Goatfish Upeneus bensasi
errJOURNAL OF MICROBIOLOGY
IF2.6
err2011-06-30
err15
PREAI
errKim, Kyung-Kil; Kim, Young-Ok; Park, Sooyeon; Kang, So-Jung; Nam, Bo-Hye; Kim, Doo Nam; Oh, Tae-Kwang; Yoon, Jung-Hoon
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errSave
EaMEAD: Activation Energy Prediction of Cytochrome P450 Mediated Metabolism with Effective Atomic Descriptors
errJOURNAL OF CHEMICAL INFORMATION AND MODELING
IF5.3
err2009-06-22
err25
PREAI
errKim, Doo Nam; Cho, Kwang-Hwi; Oh, Won Seok; Lee, Chang Joon; Lee, Sung Kwang; Jung, Jihoon; No, Kyoung Tai
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errSave
Regioselectivity prediction of CYP1A2-mediated phase I metabolism
errJOURNAL OF CHEMICAL INFORMATION AND MODELING
IF5.3
err2008-04-16
err39
PREAI
errJung, Jihoon; Kim, Nam Doo; Kim, Su Yeon; Choi, Inhee; Cho, Kwang-Hwi; Oh, Won Seok; Kim, Doo Nam; No, Kyoung Tai
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errSave
New combined model for the prediction of regioselectivity in cytochrome P450/3A4 mediated metabolism
errJOURNAL OF CHEMICAL INFORMATION AND MODELING
IF5.3
err2008-02-22
err43
PREAI
errOh, Won Seok; Kim, Doo Nam; Jung, Jihoon; Cho, Kwang-Hwi; No, Kyoung Tai
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errSave

Research Directions

The data has not been retrieved yet.
Co-authors
Cooperation Journals
P
Paul D. Adams
H-index: 99 · Papers: 578
W
Weijun Qian
H-index: 78 · Papers: 3.2W
V
Vicki H. Wysocki
H-index: 72 · Papers: 462
I
Ivo L. Hofacker
H-index: 70 · Papers: 309
N
Norman Lewis
H-index: 67 · Papers: 1.1K
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