Cancer Research

Liquid Biopsy & Single Cell Oncology

Polski A, Xu L, Prabakar RK, Gai Xiaowu, Kim JW, Shah R, Jubran R, Kuhn P, Cobrinik D, Hicks J, Berry JL. Variability in retinoblastoma genome stability is driven by age and not heritability. Genes, Chromosomes, Cancer, May 2020

Xu L, Polski A, Prabakar R, Reid M, Chevez-Barrios P, Jubran R, Kim J, Kuhn P, Cobrinik D, Hicks J, Berry J. Gain of chromosome 6p is a molecular biomarker for prognostication of retinoblastoma ocular survival: the aqueous humor surrogate tumor biopsy. Molecular Cancer Research. May 2020; DOI: 10.1158/1541-7786.MCR-19-1262

 Kolencik D, Shishido SN, Piutle P, Mason J, Hicks J, Kuhn P. Liquid biopsy in colorectal carcinoma: Clinical applications and challenges. Cancers (Basel). May 2020; 12:E1376. doi:10.3390/cancers12061376.

Berry JL, Xu L, Polski A, Jubran R, Kuhn P, Kim JW, Hicks J. Aqueous Humor is Superior to Blood as a Liquid Biopsy for Retinblastoma. Ophthalmology. May, 2020;127:552-554

Febbo PG, Martin A-M, SWcher HI, Barrett JC, Beaver JA, Beresford PJ, Blumenthal GM, Bramlett Kelli, Compton C, Dittamore R, Eberhard Da, Edelstein D, Godsey J, Gruen A, Hanlon SE, Hicks J, Hovelson D, Hullings M, Johann D, Johnson J, Kolatkar A, Kuhn P, et al. Minimum Technical Data Elements for Liquid Biopsy Data Submitted to Public DatabasesClin Pharmacol Therapeu 2020; 107:730-734.

Malihi P, Graf R, Rodriguez A, Ramesh N, Lee J, Sutton R, Jiles R, Ruiz Velasco C, Sei E, Kolatkar A, Logothetis C, Navin N, Corn P, Aparicio A, Dittamore R, Hicks J, Kuhn P, Zurita A. Single-cell circulating tumor cell analysis reveals genomic instability as a distinctive feature of aggressive prostate cancerClin Cancer Res. April 2020

Shishido SN, Welter L, Rodriguez-Lee M, Kolatkar A, Xu L, Ruiz C, Gerdtsson AS, Restrepo-Vassalli S, Carlsson A, Larsen J, Greenspan EJ, Hwang SE, Waitman KR, Nieva J, Bethtel K, Hicks J, Kuhn P. Pre-analytical variables for the genomic assessment of the cellular and acellular fractions of the liquid biopsy in a cohort of breast cancer patients. J Mol Diag, Volume 22, Issue 3, Pages 319–337, March 2020

Keomanee-Dizon K, Shishido SN, Kuhn P. Circulating Tumor Cells: High Throughput Imaging of CTCs and Bioinformatic Analysis. Springer, Recent Results Cancer Res 2020;215:89-104.  Series Editors: Schlag, Peter Michael, Senn, Hans-Jörg.

Gerdtsson AS, Thiele JA, Shishido SN, Zheng S, Schaffer R, Bethel K, Curley S, Lenz HJ, Hanna D, Nieva J, Kolatkar A, Ruiz C, Rodirguez-Lee M, Okaley GJ, Lee JSH, Hicks J, Kuhn P. Single cell correlation analysis of liquid and solid biopsies in metastatic colorectal cancer. Oncotarget vol 17; 10(66): 7016–7030 December 2019.

Poreba M, GroborzK, Wioletta R, Pore M, Snipas S, Vizovisek M, Turk B, Kuhn P, Drag M, Salvesen G. The Activome: Multiplexed probing of proteolytic enzymes using mass cytometry-compatible activity-based probes (TOF-probes). bioRxiv, doi:https://doi.org/10.1101/775627. J Am Chem Soc. September 2019.

Stephanie N. Shishido, Anders Carlsson, Jorge Nieva, Kelly Bethel, James B. Hicks, Lyudmila Bazhenova, and Peter Kuhn. Circulating tumor cells as a response monitor in stage IV non-small cell lung cancer. Journal of Translational Medicine, volume 17, Article number: 294. August 2019

Tanya B. Dorff, David I. Quinn, Jacek K. Pinski, Amir Goldkorn, Sarmad Sadeghi, Denise Tsao-Wei, Susan Groshen, Peter Kuhn, and Mitchell E. Gross. Randomized Phase II Trial of Abiraterone Alone or With Dasatinib in Men With Metastatic Castration-resistant Prostate Cancer (mCRPC). Clinical Genitourinary Cancer, Vol. 17, No. 4, 241-7. August 2019

Rishvanth K. Prabakar, Liya Xu, James Hicks, and Andrew D. Smith, SMURF-seq: Efficient Copy Number Profiling on Long-read Sequencers. BMC Genome Biology, 20:134 doi.org/10.1186/s13059-019-1732-1. July 2019

Benjamin K. Ghiam, Liya Xu, and Jesse L. Berry, Aqueous Humor Markers in Retinoblastoma, a Review. Translational Vision Science & Technology, Vol.8, 13. doi:10.1167/tvst.8.2.13. April 2019

Thiele J.A., Pitule P., Hicks J., Kuhn P. (2019) Single-Cell Analysis of Circulating Tumor Cells. In: Murray S. (eds) Tumor Profiling. Methods in Molecular Biology, vol 1908. Humana Press, New York, NY.

Rajarubendra N, Almeida F, Manojlovic Z, Ohe C, Ahmadi N, Cacciamani G, Qiu M, Abreu A, Cai J, Miranda G, Stern MC, Carpten J, Kuhn P, Amin MB, Gill PS, Aron M, Gill IS. Histological Validation of 11Carbon-Acetate Positron Emission Tomography/Computerized Tomography in Detecting Lymph Node Metastases in Prostate Cancer. J Urol 2019:201:332-341

Anaparthy N, Ho YJ, Martelotto L, Hammell M, Hicks J. Single-Cell Applications of Next-Generation Sequencing. Cold Spring Harb Perspect Med. 2019 Jan 7. pii: a026898. doi: 10.1101/cshperspect.a026898

Yang SC, Welter L, Kolatkar A, Nieva J, Waitman KR, Huang KF, Liao WH, Takano S, Berelson WM, West AJ, Kuhn P, John SGA new anion exchange purification method for Cu stable isotopes in blood samples. Anal Bioanal Chem 2019;411:765-776

Alice Lu, Peter Kuhn, Ida Deichaite. Time for a change: considering the rights of study participants to ownership of their personal research-grade genomic dataConvergent Science Physical Oncology. 2018 Dec.

Jesse L. Berry, Liya Xu, Irsan Kooi, A Linn Murphree, Rishvanth K Prabakar, Mark W Reid, Kevin Stachelek, Bao Han A Le, Lisa Welter, Bibiana J Reiser, Patricia Chevez Barrios, Rima Jubran, Thomas C Lee, Jonathan Kim, Peter Kuhn, David Cobrinik and James B HicksGenomic cfDNA Analysis of Aqueous Humor in Retinoblastoma Predicts Eye Salvage: The Surrogate Tumor Biopsy for Retinoblastoma. Mol Cancer Res. 2018 Jul 30. pii: molcanres.0369.2018. doi: 10.1158/1541-7786.MCR-18-0369

Keating SM, Taylor DL, Plant AL. Litwack ED, Kuhn P, Greenspan EJ, Hartshorn CM, Sigman CC, Kelloff GJ, Chang DD, Friberg G, Lee JSH, Kuida K. Opportunities and Challenges in Implementation of Multiparameter Single Cell Analysis Platforms for Clinical Translation. Clin Transl Sci 2018;11:267-276

Chalfin HJ, Glavaris SA, Malihi PD, Sperger JM, Gorin MA, Lu C, Goodwin CR, Chen Y, Caruso EA, Dumpit R, Kuhn P, Lang JM, Nelson PS, Luo J, Pienta KJ.  Prostate cancer disseminated tumor cells are rarely detected in the bone marrow of localized patients undergoing radical prostatectomy across multiple rare cell detection platforms. J Urol 2018;199:1494-1501

Malihi P, Morikado M, Welter L, Liu ST, Miller ET, Cadaneanu RM, Knudsen BS, Lewis MS, Carlsson A, Ruiz Velasco C, Kolatkar A, Rodriguez-Lee M, Garraway IP, Hicks J, Kuhn P. Clonal diversity revealed by morphoproteomic and copy number profiles of single prostate cancer cells at diagnosis. Converg Sci Phys Oncol 2018;4:015003

Gerdtsson E, Pore M, Thiele J-A, Sandstrom Gerdtsson A, Malihi PD, Nevarez R, Kolatkar A, Ruiz Velasco C, Wix S, Singh M, Carlsson A, Zurita AJ, Logothetis C, Merchant AA, Hicks J, Kuhn PMultiplex protein detection on circulating tumor cells from liquid biopsies using imaging mass cytometry. Converg Sci Phys Oncol 2018;4:015002

Rodriguez-Lee M, Kolatkar A, McCormick M, Dago, AE, Kendall J, Carlsson NA, Bethel K, Greenspan E, Hwang S, Waitman K, Nieva J, Hicks J, Kuhn P. Effect of blood collection tube type and time to processing on the enumeration and high-content characterization of circulating tumor cells using the high-definition single cell assay. Arch Pathol Lab Med 2018;142:198-207

Berry JL, Xu L, Murphree AL, Krishnan S, Stachelek K, Zolfaqhari E, Mc Govern K, Lee TC, garlsson A, Kuhn P, Kim JW, Cobrinik D, Hicks J. Potential of Aqueous Humor as a Surrogate Tumor Biopsy for Retinoblastoma. JAMA Ophthalmol 2017 135:1221-1230

Grossman RL, Abel B, Angiuoli S, Barrett JC, Bassett D, Bramlett K, Blumenthal GM, Carlsson A, Cortese R, DiGiovanna J, Davis-Dusenbery B, Dittamore R, Eberhard DA, Febbo P, Fitzsimons M, Flamig Z, Godsey J, Goswami J, Gruen A, Guzman FO, Han J, Hayes D, Hicks J, Holloway D, Hovelson D, Johnson J, Juhl H, Kalamegham R, Kamal R, Kang Q, Kelloff GJ, Klozenbuecher M, Kolatkar A, Kuhn P, Langone K, Leary R, Loverso P, Manmathan H, Martin AM, Martini J, Miller D, Mitchell M, Morgan T, Mulpuri R, Nguyen T, Otto G, Pathak A, Peters E, Philip R, Posadas E, Reese D, Reese MG, Robinson D, Rossi AD, Sakul H, Schageman J, Singh S, Scher HI, Schmitt K, Silvestro A, Simmons J, Simmons T, Sislow J, Talasaz A, Tang P, Tewari M, Tomlins S, Toukhy H, Tseng HR, Tuck M, Tzou A, Vinson J, Wang Y, Wells W, Welsh A, Wilbanks J, Wolf J, Young L, Lee JS, Leiman LC.  Collaborating to Compete: Blood Profiling Atlas in Cancer (BloodPAC) Consortium.  Clin Pharmacol Ther 2017;101:589-592. PubMed>>

Dive C, Shishido SN, Kuhn P. Cancer Moonshot connecting International Liquid Biopsy efforts through academic partnership. Clin Pharmacol Ther 2017;101:622-624. PubMed>>

Kuhn P, Keating SM, Baxter GT, Thomas K, Kolatkar A, Sigman CC. Lessons learned: Transfer of the high-definition circulating tumor cell assay platform to development as a commercialized clinical assay platform. Clin Pharmacol Ther 2017;102:777-785. PubMed>>

Thiele J-A, Bethel K, Kralickova M, Kuhn P. Circulating Tumor Cells: Fluid Surrogates of Solid Tumors. Annu Rev Pathol 2017 Jan 24;12:419-447. doi: 10.1146/annurev-pathol-052016-100256 PubMed>>

Dizon K, Shishido S, Kuhn P. Circulating Tumor Cells: High Throughput Imaging of CTCs and Bioinformatic Analysis. Springer, Liquid Biopsies: Searching for Cancer in the Blood, 2016.

Williamson S, Metcalf R, Trapani F, Mohan S, Antonello J, Abbott B, Leong H-S, Chester C, Simms N, Polanski R, Nonaka D, Priest L, Fusi A, Carlsson F, Carlsson A, Hendrix M, Seftor R, Seftor, E, Rothwell D, Hughes A, Hicks J, Miller C, Kuhn P, Brady G, Simpson K, Blackhall F, Dive C. Vasculogenic mimicry in small cell lung cancer. Nature Communications 2016;7:13322. PubMed>>

Carlsson A, Kuhn P, Luttgen MS, Dizon KK, Troncoso P, Corn PG, Kolatkar A, Hicks, JB, Logothetis C, Zurita AJ. Paired high-content analysis of prostate cancer cells in bone marrow and Blood characterizes increased androgen receptor expression in tumor cell clusters. Clin Cancer Res 2017;23:1722-1732. PubMed>>

Gross M, Dorff T, Quinn D, Agus D, Luttgen M, Bethel K, Kolatkar A, Kuhn P. Rapid changes in circulating tumor cells following anti-angiogenic therapy. Converg Sci Phys Oncol 2015:015002. Link>>

Ko AH, Bekaii-Saab T, Van Ziffle J, Mirzoeva OM, Joseph NM, Talasaz A, Kuhn P, Tempero MA, Collisson EA, Kelley RK, Venook AP, Dito E, Ong A, Ziyeh S, Courtin R, Linetskaya R, Tahiri S, Korn WM. A Multicenter, Open-Label Phase II Clinical Trial of Combined MEK plus EGFR Inhibition for Chemotherapy-Refractory Advanced Pancreatic AdenocarcinomaClin Cancer Res. 2016 Jan 1;22(1):61-8. doi: 10.1158/1078-0432.CCR-15-0979. Epub 2015 Aug 6. PubMed>>

Mitrugno A, Tormoen GW, Kuhn P, McCarty OJ., The prothrombotic activity of cancer cells in circulation. Blood Rev. 2016 Jan;30(1):11-9. doi: 10.1016/j.blre.2015.07.001. Epub 2015 Jul 14. PubMed>>

Timour Baslan, Jude Kendall, Brian Ward, Hilary Cox, Anthony Leotta, Linda Rodgers, Michael Riggs, Sean D’Italia, Guoli Sun, Mao Yong, Kristy Miskimen, Hannah Gilmore, Michael Saborowski, Nevenka Dimitrova, Alexander Krasnitz, Lyndsay Harris, Michael Wigler and James Hicks. Optimizing sparse sequencing of single cells for highly multiplex copy number profiling. Genome Res. 2015 May;25(5):714-24. doi: 10.1101/gr.188060.114. Epub 2015 Apr 9.PubMed>>

Jorge Nieva, Kelly Bethel, Carole Baas and Peter Kuhn, Convergent Science Physical Oncology Converg. Sci. Phys. Oncol. 1 010201 doi:10.1088/2057-1739/1/1/010201 Link>>

Emerson T. et al., Fourier-ring descriptor to characterize rare circulating cells from images generated using immunofluorescence microscopy. Comput Med Imaging Graph. 2015 Mar; 40:70-87. doi: 10.1016/j.compmedimag.2014.10.003. PubMed>>

Ruiz C. et al., Limited genomic heterogeneity of circulating melanoma cells in advanced stage patients. Physical Biology 2015 Jan 9;12(1):016008. doi: 10.1088/1478-3975/12/1/016008. PubMed>>

Rodriguez-Lee M., Kuhn P. and Webb D. R. Advancing Cancer Patient Care by Integrating Circulating Tumor Cell Technology to Understand the Spatial and Temporal Dynamics of Cancer. Drug Development Res. 75 : 384–392 (2014) Epub 2014/09/04. DOI: 10.1002/ddr.21225. Link>>

Dago A.E. et al. Rapid phenotypic and genomic change in response to therapeutic pressure in prostate cancer inferred by high content analysis of single circulating tumor cells. PloS one. 2014;9(8):e101777. Epub 2014/08/02. doi: 10.1371/journal.pone.0101777. PubMed PMID: 25084170; PubMed Central PMCID: PMCPmc4118839. PubMed>>

Carlsson A., et al. Circulating Tumor Microemboli Diagnostics for Patients with Non–Small-Cell Lung Cancer. Journal of Thoracic Oncology. 2014;9(8):1111-9 10.097/JTO.0000000000000235. Link >>

Bazhenova L. et al. Adrenal metastases in lung cancer: clinical implications of a mathematical model. Journal of thoracic oncology : official publication of the International Association for the Study of Lung Cancer. 2014;9(4):442-6. doi: 10.1097/JTO.0000000000000133. PubMed PMID: 24736064; PubMed Central PMCID: PMC398954.7 PubMed >>

Phillips KG, Kuhn P, McCarty OJ. Physical biology in cancer. 2. The physical biology of circulating tumor cells. American journal of physiology Cell physiology. 2014;306(2):C80-8. doi: 10.1152/ajpcell.00294.2013. PubMed PMID: 24133063; PubMed Central PMCID: PMC3919989. PubMed >>

Bethel K, et al. Fluid phase biopsy for detection and characterization of circulating endothelial cells in myocardial infarction. Physical biology. 2014;11(1):016002. doi: 10.1088/1478-3975/11/1/016002. PubMed PMID: 24406475. PubMed >

Nair VS, et al. An observational study of circulating tumor cells and (18)F-FDG PET uptake in patients with treatment-naive non-small cell lung cancer. PloS one. 2013;8(7):e67733. doi: 10.1371/journal.pone.0067733. PubMed PMID: 23861795; PubMed Central PMCID: PMC3702496. PubMed>>

PSOC Network, et al. A physical sciences network characterization of non-tumorigenic and metastatic cells. Scientific reports. 2013;3:1449. doi: 10.1038/srep01449. PubMed PMID: 23618955; PubMed Central PMCID: PMC3636513. PubMed>>

Cho E. H. Circulating tumor cells as emerging tumor biomarkers in lung cancer J Thorac Dis. Oct 2012; 4(5): 444–445. doi: 10.3978/j.issn.2072-1439.2012.08.13PMCID: PMC3461062. PubMed>>

Boshuizen R., Kuhn P., van den Heuvel M. Circulating tumor cells in non-small cell lung carcinoma J Thorac Dis. Oct 2012; 4(5): 456–458. doi: 10.3978/j.issn.2072-1439.2012.08.21 PMCID: PMC3461060. PubMed>>

Nieva J. & Kuhn P. Fluid biopsy for solid tumors: a patient’s companion for lifelong characterization of their disease Future Oncol. Aug 2012; 8(8): 989–998. doi: 10.2217/fon.12.91 PMCID: PMC3658625.  PubMed>>

Scott J., Kuhn P. and Anderson A. R. Unifying metastasis — integrating intravasation, circulation and end-organ colonization Nature Reviews Cancer 2012, 445-446. doi:10.1038/nrc3287 PMCID: PMC3387999.  FullText >>

Phillips KG, et al. Optical quantification of cellular mass, volume, and density of circulating tumor cells identified in an ovarian cancer patient. Frontiers in oncology. 2012;2:72. doi: 10.3389/fonc.2012.00072. PubMed PMID: 22826822; PubMed Central PMCID: PMC3399133. PubMed>>

Phillips KG, et al. Quantification of cellular volume and sub-cellular density fluctuations: comparison of normal peripheral blood cells and circulating tumor cells identified in a breast cancer patient. Frontiers in oncology. 2012;2:96. doi: 10.3389/fonc.2012.00096. PubMed PMID: 22934287; PubMed Central PMCID: PMC3414893. PubMed>>

Nieva J.,et al. High definition imaging of circulating tumor cells and associated cellular events in non-small cell lung cancer patients; a longitudinal analysis Phys Biol. Feb 2012; 9(1): 016004. doi: 10.1088/1478-3975/9/1/016004 PMCID: PMC3388002.  PubMed>>

Marrinucci D. et al. Fluid biopsy in patients with metastatic prostate, pancreatic and breast cancers. Phys Biol. Feb 2012; 9(1): 016003. doi: 10.1088/1478-3975/9/1/016003 PMCID: PMC3387996. PubMed>>

Wendel M., et al. Fluid biopsy for circulating tumor cell identification in patients with early-and late-stage non-small cell lung cancer: a glimpse into lung cancer biology. Phys Biol. Feb 2012; 9(1): 016005. doi: 10.1088/1478-3967/9/1/016005 PMCID: PMC3387995. PubMed>>

Kuhn P. & Bethel K. EDITORIAL: A fluid biopsy as investigating technology for the fluid phase of solid tumors Phys Biol. Feb 2012; 9(1): 010301. doi:10.1088/1478-3975/9/1/010301. iop link>>

Lazar D. C., et al. Cytometric comparisons between circulating tumor cells from prostate cancer patients and the prostate-tumor-derived LNCaP cell line. Phys Biol. Feb 2012; 9(1): 016002. doi: 10.1088/1478-3975/9/1/016002 PMCID: PMC3387997. PubMed>>

Cho E. H., et al. Characterization of circulating tumor cell aggregates identified in patients with epithelial tumors. Phys Biol. Feb 2012; 9(1): 016001. doi: 10.1088/1478-3975/9/1/016001 PMCID: PMC3387999. PubMed>>

Mathematical & Computational Oncology

Joseph R. Larsen, Margaret R. Martin, John D. Martin, Peter Kuhn, James B. Hicks. Modeling the Onset of Symptoms of COVID-19. Frontiers in Public Health. DOI:10.3389/fpubh.2020.00473. August 2020.

Zaki Hasnain, Tanachat Nilanon, Ming Li, Aaron Mejia, Anand Kolatkar, Luciano Nocera, Cyrus Shahabi, Frankie A. Cozzens Philips, Jerry S.H. Lee, Sean E. Hanlon, Poorba Vaidya, Naoto T. Ueno, Sriram Yennu, Paul K. Newton, Peter Kuhn, Jorge Nieva.   Quantified Kinematics to Evaluate Patient Chemotherapy Risks in Clinic. JCO Clinical Cancer Informatics. DOI: 10.1200/CCI.20.00010. June 29, 2020.

Takeo Fujii, Jeremy Mason, Angela Chen, Peter Kuhn, Wendy A. Woodward, Debu Tripathy, Paul K. Newton, Naoto T. Ueno. Prediction of bone metastasis in inflammatory breast cancer using a Markov chain model. The Oncologist,. doi:10.1634/theoncologist.2018-0713. April 2019

Zaki Hasnain, Jeremy Mason, Karanvir Gill, Gus Miranda, Inderbir S. Gill, Peter Kuhn, Paul K. Newton. Machine learning models for predicting post-cystectomy recurrence and survival in bladder cancer patientsPLOS One. doi: 10.1371/journal.pone.0210976. Jan. 2019

In GK, Mason J, Lin S, Newton PK, Kuhn P, Nieva J. Development of metastatic brain disease involves progresson through lung metastases in EGFR mutated non-small cell lung cancer. Converg Sci Phys Oncol 2017;3:035002

Newton PK, et al. Spreaders and sponges define metastasis in lung cancer: a Markov chain Monte Carlo mathematical model. Cancer research. 2013;73(9):2760-9. doi: 0.1158/0008-5472.CAN-12-4488. PubMed PMID: 23447576; PubMed Central PMCID: PMC3644026

Lee AM, et al. Modeling and Simulation of Procoagulant Circulating Tumor Cells in Flow Front Oncol. 2012; 2: 108. doi: 10.3389/fonc.2012.00108. PMCID: PMC3442195

Lee AM, et al. A low-dimensional deformation model for cancer cells in flow. Physics of fluids. 2012;24(8):81903. doi: 10.1063/1.4748811. PubMed PMID: 23024578; PubMed Central PMCID: PMC3443115

Newton PK, et al. A stochastic Markov chain model to describe lung cancer growth and metastasis. PloS one. 2012;7(4):e34637. doi: 10.1371/journal.pone.0034637. PubMed PMID: 22558094; PubMed Central PMCID: PMC3338733

Patient-Facing Technology

Joan E. Broderick, Marcella May, Joseph E. Schwartz, Ming Li, Aaron Mejia, Luciano Nocera, Anand Kolatkar, Naoto T. Ueno, Sriram Yennu, Jerry S. H. Lee, Sean E. Hanlon, Frankie A. Cozzens Philips, Cyrus Shahabi, Peter Kuhn, and Jorge Nieva. Patient reported outcomes can improve performance status assessment: a pilot study. Journal of Patient-Reported Outcomes, volume 3, Article number: 41. July 2019

Zaki Hasnain, Ming Li, Tanya Dorff, David Quinn, Naoto T. Ueno, Sriram Yennu, Anand Kolatkar, Cyrus Shahabi, Luciano Nocera, Jorge Nieva, Peter Kuhn, Paul K. Newton. Low-dimensional dynamical characterization of human performance of cancer patients using motion dataClinical Biomechanics. 2018 Jul;56:61-69. doi: 10.1016/j.clinbiomech.2018.05.007. Epub 2018 May 18

Abreu A, Fay, C, Park D, Quinn D, Dorff T. Carpten  J, Kuhn P, Gill P, Almeida F, Gill I. Robotic salvage retroperitoneal and pelvic lymph node dissection for ‘node-only’ recurrent prostate cancer: technique and initial series. BJU Int 2017; 120:401-408

Structural Biology

Forse GJ, Uson ML, Nasertorabi F, Kolatkar A, Lamberto I, Pasquale EB, Kuhn P. Distinctive structure of the EphA3/Ephrin-A5 complex reveals a dual mode of Eph receptor interaction for Ephrin-A5. PLoS One 2015;10:e0127081. PMCID: PMC4439037

Stevens RC, Cherezov V, Katritch V, Abagyan R, Kuhn P, Hugh R, Wuthrich K. The GPCR Network:  a large-scale collaboration to determine human GPCR structure and function. Nature Reviews/Drug Discovery 2013 12:23-34.

Hanson MA, Roth CB, Jo E, Griffith MT, Scott FL, Reinhart G, Desale H, Clemons B, Cahalan SM, Schuerer SC, Sanna MG, Han GW, John P, Rosen H, Stevens RC. Crystal Structure of a lipid G protein-coupled receptor. Science 2012;335:851-5.

Newman BW, Kiss G, Kunding AH, Bhella D, Baksh MF, Connelly S, Droese B, Klaus JP, Makino S, Sawicki SG, Siddell SG, Stamou DG, Wilson IA, Kuhn P, Buchmeier MJ. A Structural analysis of M protein in coronavirus assembly and morphology. J Struct Biol 2011;174:11-22.

Wu B, Chien YET, Mol CD, Fenalti G, Liu W, Katritch V, Abagyan R, Brooun A, Wells P, Bi FC, Jamel DJ, Kuhn P, Handel TM, Cherezov V, Stevens RC. Structures of the CXCR4 Chemokine GPCR with Small –Molecule and Cyclic Peptide Antagonists. Science 2010;330:1066-1071.  PMCID: PMC3074590. a. CXCr4 plays a critical role in metastatic dissemination and this work is the start of multi-scale structural biology to understand the process of metastasis at the biochemical, cellular and physiological level. 

Pelissier M-C, Lesley SA, Kuhn P, Bourne Y. Structural insights into the catalytic mechanism of bacterial guanosine-diphospho-D-mannose pyrophosphorylase and its regulation by divalent ions.  J Biol Chem 2010;285:27468-476.  PMCID: PMC2930745

Elledge H, Kazmierczak P, Clark P, Joseph J, Kolatkar A, Kuhn P, Muller U. The structure of the N-terminus of cadherin 23 reveals a new adhesion mechanism for a subset of cadherin superfamily members.  PNAS 2010;107:10708-10712.  PMCID: PMC2890781

Abendroth J, McCormick MS, Edwards TE, Staker B, Lowewn R, Gifford M, Jeff Rifkin, Mayer Ch, Guo W, Zhang Y, Myler P, Kelley A, Analau E, Nakazawa Hewitt S, Napuli AJ, Kuhn P, Ruth RD, Steward LJ.  X-ray structure determination of the glycine cleavage system protein H of Mycobacterium tuberculosis using an inverse Compton synchrotron X-ray source.  J Struct Funct Genomics 2010;11:91-100.  PMCID: PMC2939714

Chandramouli S, Joseph JS, Daudenarde S, Gatchalian J, Cornillez-TY C, Kuhn P. Serotype-specific structural differences in the protease-cofactor complexes of the Dengue Virus Family. J Virol 2010;84:3059-67.  PMCID: PMC2826037

Cherezov V, Hanson MA, Griffith MT, Hilgart MC, Sanishvili R, Nagarajan V, Stepanov S, Fischetti RF, Kuhn P, Stevens RC.  Rastering strategy for screening and centering of microcrystal samples of human membrane proteins with a sub-10 µm size x-ray synchrotron beam.  J R Soc Interface 2009;6:S587-S597. PMCID: PMC2843980

Schwander M, Xiong W, Tokita J, Lelli A, Elledge H, Kazmierczak P, Sczaniecka A, Kolatkar A, Whiltshire T, Kuhn P, Holt J, Kachar B, Tarantino L, Ulrich M.  A mouse model for non-syndromic deafness (DFNB12) links hearing loss to defects in tip links of mechanosensory hair cells. PNAS 2009;106:5252-5257. PMCID: PMC2664065

Serrano P, Johnson MA, Chatterjee A, Neuman BW, Joseph JS, Buchmeier MJ, Kuhn P, Wüthrich K. Nuclear magnetic resonance structure of the nucleic acid-binding domain of severe acute respiratory syndrome coronavirus nonstructural protein 3. J Virol 2009;83:12998-3008. PMCID: PMC2786856

Grillet N, Schwander M, Hildegrand MS, Sczaniecka A, Kolatkar A, Velasco J, Webster JA, Kahrizi K, Najmabadi H, Kimberling WJ, Stephan D, Bahlo M, Wiltshire T, Tarantino LM, Kuhn P, Smith RJ, Müeller U. Mutations in LOXHD1, an Evolutionarily Conserved stereociliary Protein, Disrupt Hair Cell Function in Mice and Cause Progressive Hearing Loss in Humans. Am J Hum Genet 2009;85:328-337.  PMCID: PMC2771534

Cornillez-Ty CT, Liao L, Yates JR 3rd, Kuhn P, Buchmeier MJ. SARS Coronavirus nonstructural protein 2 interacts with a host protein complex involved in mitochondrial biogenesis and intracellular signaling. J Virol 2009;83:10314-10318.  PMCID: PMC2748024

Chatterjee A, Johnson MA, Serrano P, Pedrini B, Joseph JS, Neuman BW, Saikatendu K, Buchmeier MJ, Kuhn P, Wüthrich K.  Nuclear magnetic resonance structure shows that the severe acute respiratory syndrome coronavirus-unique domain contains a macrodomain fold. J Virol 2009;83:1823-1836.  PMCID: PMC2643772

Soltis SM, Cohen AE, Deacon A, Eriksson T, Gonzalez A, McPhillips S, Chui H, Dunten P, Hollenbeck M, Mathews I , Miller M, Moorhead P, Phizackerley RP, Smith C, Song J, van dem Bedem H, Ellis P, Kuhn P, McPhillips T, Sauter N, Sharp K, Tsyba I, Wolf G. New paradigm for macromolecular crystallography experiments at SSRL:  automated crystal screening and remote data collection. Acta Cyrstallogr D Biol Crystallogr 2008;64:1210-1021. PMCID: PMC2631117

Buchmeier MJ and Kuhn P.  New tools to battle emerging viruses. Current Opinion in Microbiology 2008;11:360-361. PMCID: PMC18644462

Chrencik JE, Brooun A, Zhang H, Irimpan M, Hura GL, Foster SA, Perry JJP, Streiff M, Ramage P, Widmer H, Bokoch GM, Tainer J, Weckbecker G, Kuhn P. Structural basis of promiscuous guanine nucleotide exchange mediated by the T-cell essential Vav1. J Mol Bio 2008;380:828-43. PMCID: PMC18589439

Hanson MD, Cherezov V, Griffith MT, Roth CB, Jaakola VP, Chien EY, Velasquez J, Kuhn P, Stevens RC. A specific cholesterol binding site is established by the 2.8 A structure of the human beta2-adrenergic receptor. Structure 2008;16:897-905.  PMC2601552

Ng, JD, Clark PJ, Stevens RC, Kuhn P. In situ X-ray analysis of protein crystals in low-birefringent and X-ray transmissive plastic microchannels. Acta Crystallogr D Biol Crystallogr 2008;64:189-97.

Ng JD, Stevens RC, Kuhn P. Protein crystallization in restricted geometry: advancing old ideas for modern times in structural proteomics. Methods Mol Biol. 2008;426:363-76.

Neuman BW, Joseph JS, Saikatendu KS, Serrano P, Chatterjee A, Johnson M, Liao L, Klaus JP, Yates JR, Wuthrich K, Stevens RC, Buchmeier MJ, Kuhn P. Proteomics analysis unravels the functional repertoire of coronavirus nonstructural protein 3. J Virol 2008;82:5279-94. PMCID: PMC2395186

Recht MI, De Bruyker D, Bell AAG, Wolkin MV, Peeters E, Anderson GB, Kolatkar AR, Bern   MW, Kuhn P, Bruce RH, and Torres FE.  Enthalpy array analysis of enzymatic and binding    reactions.  Analytical Biochem 2008;377:33-39. PMCID: PMC2386773

Kolatkar A, Kennedy K, Halabuk D, Kunken J, Marrinucci D, Bethel K, Guzman R, Huckaby T, Kuhn P.  C-ME: A 3-D Community-Based, Real-Time Collaboration Tool for Scientific Research and Training. PLoS One 2008;3:e1621. PMCID: PMC2229842

Canard B, Joseph J, Kuhn P. International research networks in viral structural proteomics: again, lessons from SARS. Antiviral Research 2008;78:47-50. PMCID: PMC2793675

Cherezov V, Rosenbaum DM, Hanson MA, Rasmussen SG, Thian FS, Kobilka TS, Choi HJ, Kuhn P, Weis WI, Kobilka BK, Stevens RC. High-resolution crystal structure of an engineered human beta2-adrenergic G protein-coupled receptor. Science 2007;318:1258-65. PMDIC: PMC2583103. This first application of the microbeam x-ray diffraction approach combined with LCP derived crystals combined with multi-crystal data sets laid the foundation for the widely accepted standard approach in human membrane protein structural biology.

Joseph JS, Saikatendu KS, Subramanian V, Neuman BW, Buchmeier MJ, Stevens RC, Kuhn P. Crystal structure of a monomeric form of severe acute respiratory syndrome coronavirus endonuclease nsp15 suggests a role for hexamerization as an allosteric switch. J Virol 2007;81:6700-8. PMCID: PMC1900129

Hanson MA, Brooun A, Baker KA, Jaakola VP, Roth C, Chien EY, Alexandrov A, Velasquez J, Davis L, Griffith M, Moy K, Ganser-Pornillos BK, Hua Y, Kuhn P, Ellis S, Yeager M, Stevens RC. Profiling of membrane protein variants in a baculovirus system by coupling cell-surface detection with small-scale parallel expression. Protein Expr Purif 2007;56:85-92. PMCID: PMC2274776

Chrencik JE, Brooun A, Recht MI, Nicola G, Davis LK, Abagyan R, Widmer H, Pasquale EB, Kuhn P. Three-dimensional Structure of the EphB2 Receptor in Complex with an Antagonistic Peptide Reveals a Novel Mode of Inhibition. J Biol Chem 2007;282:36505-13.

Serrano P, Johnson MA, Almeida MS, Horst R, Herrmann T, Joseph JS, Neuman BW, Subramanian V, Saikatendu KS, Buchmeier MJ, Stevens RC, Kuhn P, Wüthrich K. Nuclear magnetic resonance structure of the N-terminal domain of nonstructural protein 3 from the severe acute respiratory syndrome coronavirus. J Virol 2007;81:12049-60.  PMCID: PMC2168779

Ng, JD, Stevens RC, Kuhn P. Protein crystallization in restricted geometery: advancing old ideas for modern times in structural proteomics. Book chapter; Methods in Molecular Biology; Editors: Bostijan Kobe, Mitchell Guss, Thomas Huber, 2008;426:363-76

Saikatendu KS, Joseph JS, Subramanian V, Neuman BW, Buchmeier MJ, Stevens RC, Kuhn P. Ribonucleocapsid formation of SARS-CoV through molecular action of the N-terminal domain of sars9a (N protein). J Virol 2007;81:3913-21. PMCID: PMC1866093

Abola E, Carlton DD, Kuhn P, Stevens RC. Five years of increasing structural biology throughput. A retrospective analysis.  In Structure Based Drug Discovery, H. Jhoti & A. Leach (eds), Springer (Netherlands), 2007, 1-26.

Gerdts CJ, Tereshko V, Yadav MK, Dementieva I, Collar F, Joachmiak A, Stevens RC, Kuhn P, Kossiakoff A, Ismagilov RF. Time-cotrolled microfluidic seeding in nL-volume droplets to separate nucleation and growth stages of protein crystallization. Angew Chem Int Ed Engl 2006;45:8156-60.

Abola E, Kuhn P, Stevens RC. Miniaturization of the structural biology technologies – From expression to biophysical analyses. Structural Genomics on Membrane Proteins. K. Lundstrom, Ed., CRC Press: Boca Rraton, FL, 2006;299-320.

Burrer R, Neuman BW, Ting JP, Stein DA, Moulton HM, Iversen PL, Kuhn P, Buchmeier MJ. Antiviral effects of antisense morpholino oligomers in murine coronavirus infection models. J Virol 2007;81:5637-48.

Brooun A, Foster SA, Chrencik JE, Chein EYTS, Kolatkar A, Streif M, Ramage P, Widmer H, Weckbecker G, Kuhn P. Remedial strategies in structural proteomics: expression, purification and crystallization of the Vav1/Rac1 complex. Protein Expr Purif 2007;53:51-62.

Bencharit S, Edwards CC, Morton CL, Howard-Williams EL, Kuhn P, Potter PM, Redinbo MR. Multisite Promiscuity in the Processing of Endogenous Substrates by Human Carboxylesterase 1. J Mol Biol 2006; 363: 201-214.

Neuman BW, Adair BD, Yoshioka C, Quispe JD, Orca G, Kuhn P, Milligan RA, Yeager M, Buchmeier MJ. Supramolecular architecture of severe acute respiratory syndrome coronavirus revealed by electron cryomicroscopy. J Virol 2006;80:7918-28.

Joseph JS, Saikatendu KS, Subramanian V, Neuman BW, Brooun A, Griffith M, Moy K, Yadav MK, Velasquez J, Buchmeier MJ, Stevens RC, Kuhn P.  Crystal structure of nonstructural protein 10 from the severe acute respiratory syndrome coronavirus reveals a novel fold with two zinc-binding motifs. J Virol 2006;80:7894-901.

Chrencik JE, Brooun A, Kraus ML, Recht MI, Kolatkar AR, Han GW, Seifert JM, Widmer H, Auer M, Kuhn P.  Structural and biophysical characterization of the EphB4*ephrinB2 protein-protein interaction and receptor specificity. J Biol Chem 2006;281:28185-92.

Chrencik JE, Brooun A, Recht MI, Kraus ML, Koolpe M, Kolatkar AR, Bruce RH, Martiny-Baron G, Widmer H, Pasquale EB, Kuhn P.  Structure and thermodynamic characterization of the EphB4/Ephrin-B2 antagonist peptide complex reveals the determinants for receptor specificity. Structure 2006;14:321-30.

Yadav MK, Gerdts CJ, Sanishvili R, Smith WW, Rorach LS, Ismagilov RF, Kuhn P, Stevens RC. In situ data collection and structure refinement from microcapillary protein crystallization. J Appl Crystallogr 2005; 38:900-905.  PMCID: PMC1858637

Saikatendu KS, Joseph JS, Subramanian V, Clayton T, Griffith M, Moy K, Velasquez J, Neuman BW, Buchmeier MJ, Stevens RC, Kuhn P. Structural basis of severe acute respiratory syndrome coronavirus ADP-ribose-1”-phosphate dephosphorylation by a conserved domain of nsP3. Structure. 2005;13:1665-75. Application of the next generation structural genomics approaches to viral structural proteomics. This was subsequently applied to human protein complexes and membrane proteins.  

Peti W, Johnson MA, Herrmann T, Neuman BW, Buchmeier MJ, Nelson M, Joseph J, Page R, Stevens RC, Kuhn P, Wuthrich K. Structural genomics of the severe acute respiratory syndrome coronavirus: nuclear magnetic resonance structure of the protein nsP7.  J Virol 2005;79:12905-13.

Neuman BW, Stein DA, Kroeker AD, Churchill MJ, Kim AM, Kuhn P, Dawson P, Moulton Hm, Bestwick RK, Iversen PL, Buchmeier MJ. Inhibition, escape and attenuated growth of severe acute respiratory syndrome coronavirus treated with antisense morpholino oligomers. J Virol 2005;79:9665-76.

Agrawal N, Lesley SA, Kuhn P, Kohen A. Mechanistic studies of a flavin-dependent thymidylate synthase. Biochemistry. 2004;43(32):10295-301.

Torres FE, Kuhn P, De Bruyker D, Bell AG, Wolkin MV, Peeters E, Williamson JR, Anderson GB, Schmitz GP, Recht MI, Schweizer S, Scott LG, Ho JH, Elrod SA, Schultz PG, Lerner RA, Bruce RH. Enthalpy arrays. Proc Natl Acad Sci U S A. 2004 Jun 29;101(26):9517-22.

Bern M, Goldberg D, Stevens RC, Kuhn P. Automatic classification of protein crystallization images using a curve-tracking algorithm. J Appl Crystallogr 2004;37:279-287.

Asmar GA, Hanson MA, Ward AB, Lasalde JA, Stevens RC, Potter C, and Kuhn P.  Low Voltage Electron Microscopy (LVEM) asa probe for solubilized membrane protein aggregation states. Microsc Microanal 2004;10: 1492-1493.

Page R, Grzechnik SK, Canaves JM, Spraggon G, Kreusch A, Kuhn P, Stevens RC, Lesley SA, Shotgun crystallization strategy for structural genomics: an optimized two-tiered crystallization screen against the Thermotoga maritima proteome, Acta Cryst D  2003;59:1028-1037.

Mathews II, Deacon AM, Canaves JM, McMullan D, Lesley SA, Agarwalla S, Kuhn P.  Functional analysis of substrate and cofactor complex structures of a thymidylate synthase-complementing protein. Structure 2003:11:(6):677-690.

Bencharit S, Morton CL, Hyatt JL, Kuhn P, Danks MK, Potter PM, Redinbo MR. Crystal structure of human carboxylesterase 1 complexed with the Alzheimer’s drug tacrine. From binding promiscuity to selective inhibition. Chem Biol 2003;10(4):341-9.

Kuhn P, Wilson K, Patch MG and Stevens RC.  The genesis of high-throughput structure-based drug discovery using protein crystallography.  Current Opinion in Chemical Biology 2002;6:704-710.

McPhillips TM, McPhillips SE, Chiu H-J, Cohen AE, Deacon AM, Ellis PJ, Garman E, Gonzalez A, Sauter NK, Phizackerley RP, Soltis SM, Kuhn P.  Blu-Ice and the Distributed Control System: software for data acquisition and instrument control at macromolecular crystallography beam lines.  J Syncrotron Radiat in press 2002;9:401-406.

Lesley SA, Kuhn P, Godzik A, Deacon AM, Matthews I, Kreusch A, Spraggon G, et al.  Structural genomics of the Thermotoga maritima proteome implemented in a high-throughput structure determination pipeline.  Proc. of theNatl. Acad. of Sciences 2002;99:11664-11669.

Chiu H-J, McPhillips T, McPhillips S, Sharp K, Eriksson T, Sauter N, Solits M, Kuhn P. Collaboratory for Macromolecular Crystallography at SSRL. Networked Learning. NAISO Academic  Press, 128-134 (2002).

Ramirez U, Minasov G, Focia P, Stroud R, Walter P, Kuhn P, and Freymann D.  Structural basis for mobility in the 1.1 Å crystal structure of the NG domain of Thermus aquaticus Ffh.  J of Mol Biol2002;320:783-799.

Mathews II, McMullan D, Miller MD, Canaves JM, Elsliger MA, Floyd R, Grzechnik SK, Jaroszewski L, Klock HE, Koesema E, Kovarik JS, Kreusch A, Kuhn P, McPhillips TM, Morse AT, Quijano K, Rife CL, Schwarzenbacher R, Spraggon G, Stevens RC, van den Bedem H, Weekes D, Wolf G, Hodgson KO, Wooley J, Deacon AM, Godzik A, Lesley SA, Wilson IA. Crystal structure of 2-keto-3-deoxygluconate kinase (TM0067) from Thermotoga maritima at 2.05 A resolution. Proteins 2008;70:603-8.

Kosloff M, Han GW, Krishna SS, Schwarzenbacher R, Fasnacht M, Elsliger MA, Abdubek P, Agarwalla S, Ambing E, Astakhova T, Axelrod HL, Canaves JM, Carlton D, Chiu HJ, Clayton T, Didonato M, Duan L, Feuerhelm J, Grittini C, Grzechnik SK, Hale J, Hampton E, Haugen J, Jaroszewski L, Jin KK, Johnson H, Klock HE, Knuth MW, Koesema E, Kreusch A, Kuhn P, Levin I, McMullan D, Miller MD, Morse AT, Moy K, Nigoghossian E, Okach L, Oommachen S, Page R, Paulsen J, Quijano K, Reyes R, Rife CL, Sims E, Spraggon G, Sridhar V, Stevens RC, van den Bedem H, Velasquez J, White A, Wolf G, Xu Q, Hodgson KO, Wooley J, Deacon AM, Godzik A, Lesley SA, Wilson IA. Comparative structural analysis of a novel glutathioneS-transferase (ATU5508) from Agrobacterium tumefaciens at 2.0 A resolution. Proteins. 2006;65:527-37.

Xu Q, Krishna SS, McMullan D, Schwarzenbacher R, Miller MD, Abdubek P, Agarwalla S, Ambing E, Astakhova T, Axelrod HL, Canaves JM, Carlton D, Chiu HJ, Clayton T, Didonato M, Duan L, Elsliger MA, Feuerhelm J, Grzechnik SK, Hale J, Hampton E, Han GW, Haugen J, Jaroszewski L, Jin KK, Klock HE, Knuth MW, Koesema E, Kreusch A, Kuhn P, Morse AT, Nigoghossian E, Okach L, Oommachen S, Paulsen J, Quijano K, Reyes R, Rife CL, Spraggon G, Stevens RC, van den Bedem H, White A, Wolf G, Hodgson KO, Wooley J, Deacon AM, Godzik A, Lesley SA, Wilson IA. Crystal structure of an ORFan protein (TM1622) from Thermotoga maritima at 1.75 A resolution reveals a fold similar to the Ran-binding protein Mog1p. Proteins. 2006 Aug 31;

Didonato M, Krishna SS, Schwarzenbacher R, McMullan D, Agarwalla S, Brittain SM, Miller MD, Abdubek P, Ambing E, Axelrod HL, Canaves JM, Chiu HJ, Deacon AM, Duan L, Elsliger MA, Godzik A, Grzechnik SK, Hale J, Hampton E, Haugen J, Jaroszewski L, Jin KK, Klock HE, Knuth MW, Koesema E, Kreusch A, Kuhn P, Lesley SA, Levin I, Morse AT, Nigoghossian E, Okach L, Oommachen S, Paulsen J, Quijano K, Reyes R, Rife CL, Spraggon G, Stevens RC, van den Bedem H, White A, Wolf G, Xu Q, Hodgson KO, Wooley J, Wilson IA. Crystal structure of 2-phosphosulfolactate phosphatase (ComB) from Clostridium acetobutylicum at 2.6 A resolution reveals a new fold with a novel active site. Proteins. 2006 Aug 22; [Epub ahead of print].

Mathews II, Krishna SS, Schwarzenbacher R, McMullan D, Jaroszewski L, Miller MD, Abdubek P, Agarwalla S, Ambing E, Axelrod HL, Canaves JM, Carlton D, Chiu HJ, Clayton T, DiDonato M, Duan L, Elsliger MA, Grzechnik SK, Hale J, Hampton E, Haugen J, Jin KK, Klock HE, Koesema E, Kovarik JS, Kreusch A, Kuhn P, Levin I, Morse AT, Nigoghossian E, Okach L, Oommachen S, Paulsen J, Quijano K, Reyes R, Rife CL, Spraggon G, Stevens RC, van den Bedem H, White A, Wolf G, Xu Q, Hodgson KO, Wooley J, Deacon AM, Godzik A, Lesley SA, Wilson IA. Crystal structure of phosphoribosylformyl-glycinamidine synthase II, PurS subunit (TM1244) from Thermotoga maritima at 1.90 A resolution. Proteins 2006;65:249-254.

Schwarzenbacher R, McMullan D, Krishna SS, Xu Q, Miller MD, Canaves JM, Elsliger MA, Floyd R, Grzechnik SK, Jaroszewski L, Klock HE, Koesema E, Kovarik JS, Kreusch A, Kuhn P, McPhillips TM, Morse AT, Quijano K, Spraggon G, Stevens RC, van den Bedem H, Wolf G, Hodgson KO, Wooley J, Deacon AM, Godzik A, Lesley SA, Wilson IA. Crystal structure of a glycerate kinase (TM1585) from Thermotoga maritima at 2.70 A resolution reveals a new fold. Proteins 2006;65:243-248.

Xu Q, Schwarzenbacher R, Krishna SS, McMullan D, Agarwalla S, Quijano K, Abdubek P, Ambing E, Axelrod H, Biorac T, Canaves JM, Chiu HJ, Elsliger MA, Grittini C, Grzechnik SK, DiDonato M, Hale J, Hampton E, Han GW, Haugen J, Hornsby M, Jaroszewski L, Klock HE, Knuth MW, Koesema E, Kreusch A, Kuhn P, Miller MD, Moy K, Nigoghossian E, Paulsen J, Reyes R, Rife C, Spraggon G, Stevens RC, van den Bedem H, Velasquez J, White A, Wolf G, Hodgson KO, Wooley J, Deacon AM, Godzik A, Lesley SA, Wilson IA. Crystal structure of acireductone dioxygenase (ARD) from Mus musculus at 2.06 angstrom resolution. Proteins 2006;64:808-813.

Han GW, Sri Krishna S, Schwarzenbacher R, McMullan D, Ginalski K, Elsliger MA, Brittain SM, Abdubek P, Agarwalla S, Ambing E, Astakhova T, Axelrod H, Canaves JM, Chiu HJ, DiDonato M, Grzechnik SK, Hale J, Hampton E, Haugen J, Jaroszewski L, Jin KK, Klock HE, Knuth MW, Koesema E, Kreusch A, Kuhn P, Miller MD, Morse AT, Moy K, Nigoghossian E, Oommachen S, Ouyang J, Paulsen J, Quijano K, Reyes R, Rife C, Spraggon G, Stevens RC, van den Bedem H, Velasquez J, Wang X, West B, White A, Wolf G, Xu Q, Hodgson KO, Wooley J, Deacon AM, Godzik A, Lesley SA, Wilson IA.  Crystal structure of the ApbE protein (TM1553) from Thermotoga maritima at 1.58 A resolution. Proteins 2006;64:1083-90.

Mathews II, Krishna SS, Schwarzenbacher R, McMullan D, Abdubek P, Ambing E, Canaves JM, Chiu HJ, Deacon AM, DiDonato M, Elsliger MA, Godzik A, Grittini C, Grzechnik SK, Hale J, Hampton E, Han GW, Haugen J, Jaroszewski L, Klock HE, Koesema E, Kreusch A, Kuhn P, Lesley SA, Levin I, Miller MD, Moy K, Nigoghossian E, Paulsen J, Quijano K, Reyes R, Spraggon G, Stevens RC, van den Bedem H, Velasquez J, White A, Wolf G, Xu Q, Hodgson KO, Wooley J, Wilson IA. Crystal structure of phosphoribosylformylglycinamidine synthase II (smPurL) from Thermotoga maritima at 2.15 A resolution. Proteins 2006;63:1106-11

Jin KK, Krishna SS, Schwarzenbacher R, McMullan D, Abdubek P, Agarwalla S, Ambing E, Axelrod H, Canaves JM, Chiu HJ, Deacon AM, DiDonato M, Elsliger MA, Feuerhelm J, Godzik A, Grittini C, Grzechnik SK, Hale J, Hampton E, Haugen J, Hornsby M, Jaroszewski L, Klock HE, Knuth MW, Koesema E, Kreusch A, Kuhn P, Lesley SA, Miller MD, Moy K, Nigoghossian E, Okach L, Oommachen S, Paulsen J, Quijano K, Reyes R, Rife C, Stevens RC, Spraggon G, van den Bedem H, Velasquez J, White A, Wolf G, Han GW, Xu Q, Hodgson KO, Wooley J, Wilson IA. Crystal structure of TM1367 from Thermotoga maritima at 1.90 A resolution reveals an atypical member of the cyclophilin (peptidylprolyl isomerase) fold. Proteins 2006;63:1112-8.

DiDonato M, Krishna SS, Schwarzenbacher R, McMullan D, Jaroszewski L, Miller MD, Abdubek P, Agarwalla S, Ambing E, Axelrod H, Biorac T, Chiu HJ, Deacon AM, Elsliger MA, Feuerhelm J, Godzik A, Grittini C, Grzechnik SK, Hale J, Hampton E, Haugen J, Hornsby M, Klock HE, Knuth MW, Koesema E, Kreusch A, Kuhn P, Lesley SA, Moy K, Nigoghossian E, Okach L, Paulsen J, Quijano K, Reyes R, Rife C, Spraggon G, Stevens RC, van den Bedem H, Velasquez J, White A, Wolf G, Xu Q, Hodgson KO, Wooley J, Wilson IA. Crystal structure of a single-stranded DNA-binding protein (TM0604) from Thermotoga maritima at 2.60 A resolution. Proteins 2006;63:256-60.

Xu Q, Schwarzenbacher R, McMullan D, Abdubek P, Agarwalla S, Ambing E, Axelrod H, Biorac T, Canaves JM, Chiu HJ, Deacon AM, DiDonato M, Elsliger MA, Godzik A, Grittini C, Grzechnik SK, Hale J, Hampton E, Han GW, Haugen J, Hornsby M, Jaroszewski L, Klock HE, Koesema E, Kreusch A, Kuhn P, Lesley SA, Miller MD, Moy K, Nigoghossian E, Paulsen J, Quijano K, Reyes R, Rife C, Spraggon G, Stevens RC, van den Bedem H, Velasquez J, White A, Wolf G, Hodgson KO, Wooley J, Wilson IA. Crystal structure of virulence factor CJ0248 from Campylobacter jejuni at 2.25 A resolution reveals a new fold. Proteins 2006;62(1):292-6.

Klock HE, Schwarzenbacher R, Xu Q, McMullan D, Abdubek P, Ambing E, Axelrod H, Biorac T, Canaves JM, Chiu HJ, Deacon AM, DiDonato M, Elsliger MA, Godzik A, Grittini C, Grzechnik SK, Hale J, Hampton E, Han GW, Haugen J, Hornsby M, Jaroszewski L, Koesema E, Kreusch A, Kuhn P, Miller MD, Moy K, Nigoghossian E, Paulsen J, Quijano K, Reyes R, Rife C, Sims E, Spraggon G, Stevens RC, van den Bedem H, Velasquez J, Vincent J, White A, Wolf G, Hodgson KO, Wooley J, Lesley SA, Wilson IA.  Crystal structure of a conserved hypothetical protein (gi: 13879369) from Mouse at 1.90 A resolution reveals a new fold. Proteins 2005 61:1132-6.

Jaroszewski L, Schwarzenbacher R, McMullan D, Abdubek P, Agarwalla S, Ambing E, Axelrod H, Biorac T, Canaves JM, Chiu HJ, Deacon AM, Didonato M, Elsliger MA, Godzik A, Grittini C, Grzechnik SK, Hale J, Hampton E, Han GW, Haugen J, Hornsby M, Klock HE, Koesema E, Kreusch A, Kuhn P, Lesley SA, Miller MD, Moy K, Nigoghossian E, Paulsen J, Quijano K, Reyes R, Rife C, Spraggon G, Stevens RC, van den Bedem H, Velasquez J, Vincent J, White A, Wolf G, Xu Q, Hodgson KO, Wooley J, Wilson IA. Crystal structure of Hsp33 chaperone (TM1394) from Thermotoga maritime at 2.20 A resolution. Proteins 2005;61:669-673.

Rife C, Schwarzenbacher R, McMullan D, Abdubek P, Ambing E, Axelrod H, Biorac T, Canaves JM, Chiu HJ, Deacon AM, DiDonato M, Elsliger MA, Godzik A, Grittini C, Grzechnik SK, Hale J, Hampton E, Han GW, Haugen J, Hornsby M, Jaroszewski L, Klock HE, Koesema E, Kreusch A, Kuhn P, Lesley SA, Miller MD, Moy K, Nigoghossian E, Paulsen J, Quijano K, Reyes R, Sims E, Spraggon G, Stevens RC, van den Bedem H, Velasquez J, Vincent J, White A, Wolf G, Xu Q, Hodgson KO, Wooley J, Wilson IA.  Crystal structure of the global regulatory protein CsrA from Pseudomonas putida at 2.05 A resolution revewals a new fold. Proteins 2005;61:444-8.

Han GW, Schwarzenbacher R, McMullan D, Abdubek P, Ambing E, Axelrod H, Biorac T, Canaves JM, Chiu HJ, Dai X, Deacon AM, DiDonato M, Elsliger MA, Godzik A, Grittini C, Grzechnik SK, Hale J, Hampton E, Haugen J, Hornsby M, Jaroszewski L, Klock HE, Koesema E, Kreusch A, Kuhn P, Lesley SA, McPhillips TM, Miller MD, Moy K, Nigoghossian E, Paulsen J, Quijano K, Reyes R, Spraggon G, Stevens RC, van den Bedem H, Velasquez J, Vincent J, White A, Wolf G, Xu Q, Hodgson KO, Wooley J, Wilson IA. Crystal structure of an Apo mRNA decapping enzyme (DcpS) from Mouse at 1.83 A resolution. Proteins 2005;60:797-802.

Mathews I, Schwarzenbacher R, McMullan D, Abdubek P, Ambing E, Axelrod H, Biorac T, Canaves JM, Chiu HJ, Deacon AM, DiDonato M, Elsliger MA, Godzik A, Grittini C, Grzechnik SK, Hale J, Hampton E, Han GW, Haugen J, Hornsby M, Jaroszewski L, Klock HE, Koesema E, Kreusch A, Kuhn P, Lesley SA, Levin I, Miller MD, Moy K, Nigoghossian E, Ouyang J, Paulsen J, Quijano K, Reyes R, Spraggon G, Stevens RC, van den Bedem H, Velasquez J, Vincent J, White A, Wolf G, Xu Q, Hodgson KO, Wooley J, Wilson IA. Crystal structure of S-adenosylmethionine:tRNA ribosyltransferase-isomerase (QueA) from Thermoatoga maritime at 2.0 A resolution reveals a new fold. Proteins 2005;59:869-74.

Levin I, Miller MD, Schwarzenbacher R, McMullan D, Abdubek P, Ambing E, Biorac T, Cambell J, Canaves JM, Chiu HJ, Deacon AM, DiDonato M, Elsliger MA, Godzik A, Grittini C, Grzechnik SK, Hale J, Hampton E, Han GW, Haugen J, Hornsby M, Jaroszewski L, Karlak C, Klock HE, Koesema E, Kreusch A, Kuhn P, Lesley SA, Morse A, Moy K, Nigoghossian E, Ouyang J, Page R, Quijano K, Reyes R, Robb A, Sims E, Spraggon G, Stevens RC, van den Bedem H, Velasquez J, Vincent J, Wang X, West B, Wolf G, Xu Q, Zagnitko O, Hodgson KO, Wooley J, Wilson IA. Crystal structure of an indigoidine synthase A (IndA)-like protein (TM1464) from Thermotoga maritime at 1.90 A resolution reveals a new fold. Proteins 2005;59:864-8.

Han GW, Schwarzenbacher R, Page R, Jaroszewski L, Abdubek P, Ambing E, Biorac T, Canaves JM, Chiu HJ, Dai X, Deacon AM, DiDonato M, Elsliger MA, Godzik A, Grittini C, Grzechnik SK, Hale J, Hampton E, Haugen J, Hornsby M, Klock HE, Koesema E, Kreusch A, Kuhn P, Lesley SA, Levin I, McMullan D, McPhillips TM, Miller MD, Morse A, Moy K, Nigoghossian E, Ouyang J, Paulsen J, Quijano K, Reyes R, Sims E, Spraggon G, Stevens RC, van den Bedem H, Velasquez J, Vincent J, von Delft F, Wang X, West B, White A, Wolf G, Xu Q, Zagnitko O, Hodgson KO, Wooley J, Wilson IA. Crystal structure of an alanine-glyoxylate aminotransferase from Anabaena sp. At 1.70 A resolution reveals a noncovalently linked PLP cofactor. Proteins 2005;58:971-5.

Xu Q, Schwarzenbacher R, McMullan D, Abdubek P, Ambing E, Biorac T, Canaves JM, Chiu HJ, Dai X, Deacon AM, DiDonato M, Elsliger MA, Godzik A, Grittini C, Grzechnik SK, Hampton E, Hornsby M, Jaroszewski L, Klock HE, Koesema E, Kreusch A, Kuhn P, Lesley SA, Levin I, Miller MD, Morse A, Moy K, Ouyang J, Page R, Quijano K, Reyes R, Robb A, Sims E, Spraggon G, Stevens RC, van den Bedem H, Velasquez J, Vincent J, von Delft F, Wang X, West B, White A, Wolf G, Zagnitko O, Hodgson KO, Wooley J, Wilson IA.  Crystal structure of a formiminotetrahydrofolate cyclodeaminase (TM1560) from Thermotoga maritime at 2.80 A resolution reveals new fold. Proteins 2005;58:976-81.

Arndt JW, Schwarzenbacher R, Page R, Abdubek P, Ambing E, Biorac T, Canaves JM, Chiu HJ, Dai X, Deacon AM, DiDonato M, Elsliger MA, Godzik A, Grittini C, Grzechnik SK, Hale J, Hampton E, Han GW, Haugen J, Hornsby M, Klock HE, Koesema E, Kreusch A, Kuhn P, Jaroszewski L, Lesley SA, Levin I, McMullan D, McPhillips TM, Miller MD, Morse A, Moy K, Nigoghossian E, Ouyang J, Peti WS, Quijano K, Reyes R, Sims E, Spraggon G, Stevens RC, van den Bedem H, Velasquez J, Vincent J, von Delft F, Wang X, West B, White A, Wolf G, Xu Q, Zagnitko O, Hodgson KO, Wooley J, Wilson IA.  Crystal structure of an alpha/beta serine hydrolase (YDR428C) from Saccharomyces cerevisiae at 1.85 A resolution. Proteins 2005;58:755-8.

Yadav MK, Gerdts CJ, Sanishvili R, Smith WW, Roach LS, Ismagilov RF, Kuhn P, Stevens RC. In situ data collection and structure refinement from microcapillary protein crystallization. J Applied Crystallogr 2005;38:900-905.

Abola EE, Kuhn P, Stevens R. Miniaturization in structural biology pipelines. Acta Crystallogr Section A 2005;61:C150.

Elsliger MA, Deacon AM, Godzik A, Kuhn P, Lesley SA, Stevens RC, Hodgson KO, Wooley J, Wilson IA. The Joint Center for Structural Genomics: a multi-tiered approach to structural genomics. Acta Crystallogr Section A 2005;61:C257.

Miller MD, Schwarzenbacher R, von Delft F, Abdubek P, Ambing E, Biorac T, Brinen LS, Canaves JM, Cambell J, Chiu HJ, Dai X, Deacon AM, DiDonato M, Elsliger MA, Eshagi S, Floyd R, Godzik A, Grittini C, Grzechnik SK, Hampton E, Jaroszewski L, Karlak C, Klock HE, Koesema E, Kovarik JS, Kreusch A, Kuhn P, Lesley SA, Levin I, McMullan D, McPhillips TM, Morse A, Moy K, Ouyang J, Page R, Quijano K, Robb A, Spraggon G, Stevens RC, van den Bedem H, Velasquez J, Vincent J, Wang X, West B, Wolf G, Xu Q, Hodgson KO, Wooley J, Wilson IA. Crystal structure of a tandem cystathionin-beta-synthase (CBS) domain protein (TM0395) from Thermotoga maritime at 1.87 A resolution. Protein 2004;57:213-7.

Levin I, Schwarzenbacher R, McMullan D, Abdubek P, Ambing E, Biorac T, Cambell J, Canaves JM, Chiu HJ, Dai X, Deacon AM, DiDonato M, Elsliger MA, Godzik A, Grittini C, Grzechnik SK, Hampton E, Jaroszewski L, Karlak C, Klock HE, Koesema E, Kreusch A, Kuhn P, Lesley SA, McPhillips TM, Miller MD, Morse A, Moy K, Ouyang J, Page R, Quijano K, Reyes R, Robb A, Sims E, Spraggon G, Stevens RC, van den Bedem H, Velasquez J, Vincent J, von Delft F, Wang X, West B, Wolf G, Xu Q, Hodgson KO, Wooley J, Wilson IA.  Cyrstal structure of a putative NADPH-dependent oxidoreductase (GI: 18204011) from mouse at 2.10 A resolution. Proteins 2004;56:629-33.

Xu Q, Schwarzenbacher R, Page R, Sims E, Abdubek P, Ambing E, Biorac T, Brinen LS, Cambell J, Canaves JM, Chiu HJ, Dai X, Deacon AM, DiDonato M, Elsliger MA, Floyd R, Godzik A, Grittini C, Grzechnik SK, Hampton E, Jaroszewski L, Karlak C, Klock HE, Koesema E, Kovarik JS, Kreusch A, Kuhn P, Lesley SA, Levin I, McMullan D, McPhillips TM, Miller MD, Morse A, Moy K, Ouyang J, Quijano K, Reyes R, Rezezadeh F, Robb A, Spraggon G, Stevens RC, van den Bedem H, Velasquez J, Vincent J, von Delft F, Wang X, West B, Wolf G, Hodgson KO, Wooley J, Wilson IA.  Crystal structure of an allantoicase (YIR029W) from Saccharomyces serrevisiae at 2.4 A resolution. Proteins 2004;56:619-24.

McMullan D, Schwarzenbacher R, Jaroszewski L, von Delft F, Klock HE, Vincent J, Quijano K, Abdubek P, Ambing E, Biorac T, Brinen LS, Canaves JM, Dai X, Deacon AM, DiDonato M, Elsliger MA, Eshaghi S, Floyd R, Godzik A, Grittini C, Grzechnik SK, Hampton E, Karlak C, Koesema E, Kreusch A, Kuhn P, Levin I, McPhillips TM, Miller MD, Morse A, Moy K, Ouyang J, Page R, Reyes R, Rezezadeh F, Robb A, Sims E, Spraggon G, Stevens RC, van den Bedem H, Velasquez J, Wang X, West B, Wolf G, Xu Q, Hodgson KO, Wooley J, Lesley SA, Wilson IA.  Crystal structure of a novel Thermotoga maritime enzyme (TM1112) from the cupin family at 1.83 A resolution. Proteins 2004;56:615-8.

Jaroszewski L, Schwarzenbacher R, von Delft F, McMullan D, Brinen LS, Canaves JM, Dai X, Deacon AM, DiDonato M, Elsliger MA, Eshagi S, Floyd R, Godzik A, Grittini C, Grzechnik SK, Hampton E, Levin I, Karlak C, Klock HE, Koesema E, Kovarik JS, Kreusch A, Kuhn P, Lesley SA, McPhillips TM, Miller MD, Morse A, Moy K, Ouyang J, Page R, Quijano K, Reyes R, Rezezadeh F, Robb A, Sims E, Spraggon G, Stevens RC, van den Bedem H, Velasquez J, Vincent J, Wang X, West B, Wolf G, Xu Q, Hodgson KO, Wooley J, Wilson IA.  Crystal structure of a novel manganese-containing cupin (TM1459) Thermotoga maritime at 1.65 A resolution. Protein 2004;56:611-4.

Bakolitsa C, Schwarzenbacher R, McMullan D, Brinen LS, Canaves JM, Dai X, Deacon AM, Elsliger MA, Eshagi S, Floyd R, Godzik A, Grittini C, Grzechnik SK, Jaroszewski L, Karlak C, Klock HE, Koesema E, Kovarik JS, Kreusch A, Kuhn P, Lesley SA, McPhillips TM, Miller MD, Morse A, Moy K, Ouyang J, Page R, Quijano K, Robb A, Spraggon G, Stevens RC, van den Bedem H, Velasquez J, Vincent J, von Delft F, Wang X, West B, Wolf G, Hodgson KO, Wooley J, Wilson IA.  Crystald structure of an orphan protein (TM0875) from Thermotoga maritima 2.00-A resolution reveals a new fold. Proteins 2004;56:607-10.

Levin I, Schwarzenbacher R, Page R, Abdubek P, Ambing E, Biorac T, Brinen LS, Campbell J, Canaves JM, Chiu HJ, Dai X, Deacon AM, DiDonato M, Elsliger MA, Floyd R, Godzik A, Grittini C, Grzechnik SK, Hampton E, Jaroszewski L, Karlak C, Klock HE, Koesema E, Kovarik JS, Kreusch A, Kuhn P, Lesley SA, McMullan D, McPhillips TM, Miller MD, Morse A, Moy K, Ouyang J, Quijano K, Reyes R, Rezezadeh F, Robb A, Sims E, Spraggon G, Stevens RC, van den Bedem H, Velasquez J, Vincent J, von Delft F, Wang X, West B, Wolf G, Xu Q, Hodgson KO, Wooley J, Wilson IA. Crystal structure of a PIN (PilT N-terminus) domain (AF0591) from Archaeoglobus fulgidus at 1.90 A resolution. Proteins 2004;56:404-8.

Spraggon G, Schwarzenbacher R, Kreusch A, McMullan D, Brinen LS, Canaves JM, Dai X, Deacon AM, Elsliger MA, Eshagi S, Floyd R, Godzik A, Grittini C, Grzechnik SK, Jaroszewski L, Karlak C, Klock HE, Koesema E, Kovarik JS, Kuhn P, McPhillips TM, Miller MD, Morse A, Moy K, Ouyang J, Page R, Quijano K, Rezezadeh F, Robb A, Sims E, Stevens RC, van den Bedem H, Velasquez J, Vincent J, von Delft F, Wang X, West B, Wolf G, Xu Q, Hodgson KO, Wooley J, Lesley SA, Wilson IA. Crystal structure of a methionine aminopeptidase (TM1478) from Thermotoga maritime at 1.9 A resolution. Proteins 2005;56:396-400.

Schwarzenbacher R, von Delft F, Jaroszewski L, Abdubek P, Ambing E, Biorac T, Brinen LS, Canaves JM, Cambell J, Chiu HJ, Dai X, Deacon AM, DiDonato M, Elsliger MA, Eshagi S, Floyd R, Godzik A, Grittini C, Grzechnik SK, Hampton E, Karlak C, Klock HE, Koesema E, Kovarik JS, Kreusch A, Kuhn P, Lesley SA, Levin I, McMullan D, McPhillips TM, Miller MD, Morse A, Moy K, Ouyang J, Page R, Quijano K, Robb A, Spraggon G, Stevens RC, van den Bedem H, Velasquez J, Vincent J, Wang X, West B, Wolf G, Xu Q, Hodgson KO, Wooley J, Wilson IA. Crystal structure of a putative oxalate decarboxylase (TM1287) from Thermotoga maritima at 1.95 A resolution.  Proteins 2004;56(2):392-5. 

Heine A, Canaves JM, von Delft F, Brinen LS, Dai X, Deacon AM, Elsliger MA, Eshaghi S, Floyd R, Godzik A, Grittini C, Grzechnik SK, Guda C, Jaroszewski L, Karlak C, Klock HE, Koesema E, Kovarik JS, Kreusch A, Kuhn P, Lesley SA, McMullan D, McPhillips TM, Miller MA, Miller MD, Morse A, Moy K, Ouyang J, Page R, Robb A, Rodrigues K, Schwarzenbacher R, Selby TL, Spraggon G, Stevens RC, van den Bedem H, Velasquez J, Vincent J, Wang X, West B, Wolf G, Hodgson KO, Wooley J, Wilson IA.  Crystal structure of O-acetylserine sulfhydrylase (TM0665) from Thermotoga maritima at 1.8 A resolution.  Proteins 2004;56(2):387-91.

Xu Q, Schwarzenbacher R, McMullan D, von Delft F, Brinen LS, Canaves JM, Dai X, Deacon AM, Elsliger MA, Eshagi S, Floyd R, Godzik A, Grittini C, Grzechnik SK, Jaroszewski L, Karlak C, Klock HE, Koesema E, Kovarik JS, Kreusch A, Kuhn P, Lesley SA, Levin I, McPhillips TM, Miller MD, Morse A, Moy K, Ouyang J, Page R, Quijano K, Robb A, Spraggon G, Stevens RC, van den Bedem H, Velasquez J, Vincent J, Wang X, West B, Wolf G, Hodgson KO, Wooley J, Wilson IA.  Crystal structure of a ribose-5-phosphate isomerase RpiB (TM1080) from Thermotoga maritima at 1.90 A resolution. Proteins 2004;56(1):171-5.

Santelli E, Schwarzenbacher R, McMullan D, Biorac T, Brinen LS, Canaves JM, Cambell J, Dai X, Deacon AM, Elsliger MA, Eshagi S, Floyd R, Godzik A, Grittini C, Grzechnik SK, Jaroszewski L, Karlak C, Klock HE, Koesema E, Kovarik JS, Kreusch A, Kuhn P, Lesley SA, McPhillips TM, Miller MD, Morse A, Moy K, Ouyang J, Page R, Quijano K, Rezezadeh F, Robb A, Sims E, Spraggon G, Stevens RC, van den Bedem H, Velasquez J, Vincent J, von Delft F, Wang X, West B, Wolf G, Xu Q, Hodgson KO, Wooley J, Wilson IA. Crystal structure of a glycerophosphodiester phosphodiesterase (GDPD) from Thermotoga maritima (TM1621) at 1.60 A resolution. Proteins 2004;56(1):167-70. 

Spraggon G, Schwarzenbacher R, Kreusch A, Lee CC, Abdubek P, Ambing E, Biorac T, Brinen LS, Canaves JM, Cambell J, Chiu HJ, Dai X, Deacon AM, DiDonato M, Elsliger MA, Eshagi S, Floyd R, Godzik A, Grittini C, Grzechnik SK, Hampton E, Jaroszewski L, Karlak C, Klock HE, Koesema E, Kovarik JS, Kuhn P, Levin I, McMullan D, McPhillips TM, Miller MD, Morse A, Moy K, Ouyang J, Page R, Quijano K, Robb A, Stevens RC, van den Bedem H, Velasquez J, Vincent J, von Delft F, Wang X, West B, Wolf G, Xu Q, Hodgson KO, Wooley J, Lesley SA, Wilson IA.  Crystal structure of an Udp-n-acetylmuramate-alanine ligase MurC (TM0231) from Thermotoga maritima at 2.3 A resolution. Proteins 2004;55(4):1078-81.

Schwarzenbacher R, Jaroszewski L, von Delft F, Abdubek P, Ambing E, Biorac T, Brinen LS, Canaves JM, Cambell J, Chiu HJ, Dai X, Deacon AM, DiDonato M, Elsliger MA, Eshagi S, Floyd R, Godzik A, Grittini C, Grzechnik SK, Hampton E, Karlak C, Klock HE, Koesema E, Kovarik JS, Kreusch A, Kuhn P, Lesley SA, Levin I, McMullan D, McPhillips TM, Miller MD, Morse A, Moy K, Ouyang J, Page R, Quijano K, Robb A, Spraggon G, Stevens RC, van den Bedem H, Velasquez J, Vincent J, Wang X, West B, Wolf G, Xu Q, Hodgson KO, Wooley J, Wilson IA.  Crystal structure of a type II quinolic acid phosphoribosyltransferase (TM1645) from Thermotoga maritima at 2.50 A resolution. Proteins 2004;55(3):768-71.

Schwarzenbacher R, Jaroszewski L, von Delft F, Abdubek P, Ambing E, Biorac T, Brinen LS, Canaves JM, Cambell J, Chiu HJ, Dai X, Deacon AM, DiDonato M, Elsliger MA, Eshagi S, Floyd R, Godzik A, Grittini C, Grzechnik SK, Hampton E, Karlak C, Klock HE, Koesema E, Kovarik JS, Kreusch A, Kuhn P, Lesley SA, Levin I, McMullan D, McPhillips TM, Miller MD, Morse A, Moy K, Ouyang J, Page R, Quijano K, Robb A, Spraggon G, Stevens RC, van den Bedem H, Velasquez J, Vincent J, Wang X, West B, Wolf G, Xu Q, Hodgson KO, Wooley J, Wilson IA.  Crystal structure of an aspartate aminotransferase (TM1255) from Thermotoga maritima at 1.90 A resolution. Proteins 2004;55(3):759-63.

Schwarzenbacher R, Jaroszewski L, von Delft F, Abdubek P, Ambing E, Biorac T, Brinen LS, Canaves JM, Cambell J, Chiu HJ, Dai X, Deacon AM, DiDonato M, Elsliger MA, Eshagi S, Floyd R, Godzik A, Grittini C, Grzechnik SK, Hampton E, Karlak C, Klock HE, Koesema E, Kovarik JS, Kreusch A, Kuhn P, Lesley SA, Levin I, McMullan D, McPhillips TM, Miller MD, Morse A, Moy K, Ouyang J, Page R, Quijano K, Robb A, Spraggon G, Stevens RC, van den Bedem H, Velasquez J, Vincent J, Wang X, West B, Wolf G, Xu Q, Hodgson KO, Wooley J, Wilson IA.  Crystal structure of a phosphoribosylaminoimidazole mutase PurE (TM0446) from Thermotoga maritima at 1.77-A resolution. Proteins 2004;55(2):474-8.

Schwarzenbacher R, von Delft F, Abdubek P, Ambing E, Biorac T, Brinen LS, Canaves JM, Cambell J, Chiu HJ, Dai X, Deacon AM, DiDonato M, Elsliger MA, Eshagi S, Floyd R, Godzik A, Grittini C, Grzechnik SK, Hampton E, Jaroszewski L, Karlak C, Klock HE, Koesema E, Kovarik JS, Kreusch A, Kuhn P, Lesley SA, Levin I, McMullan D, McPhillips TM, Miller MD, Morse A, Moy K, Ouyang J, Page R, Quijano K, Robb A, Spraggon G, Stevens RC, van den Bedem H, Velasquez J, Vincent J, Wang X, West B, Wolf G, Xu Q, Hodgson KO, Wooley J, Wilson IA. Crystal structure of a putative PII-like signaling protein (TM0021) from Thermotoga maritima at 2.5 A resolution. Proteins 2004;54(4):810-3.

Erlandsen H, Canaves JM, Elsliger MA, von Delft F, Brinen LS, Dai X, Deacon AM, Floyd R, Godzik A, Grittini C, Grzechnik SK, Jaroszewski L, Klock HE, Koesema E, Kovarik JS, Kreusch A, Kuhn P, Lesley SA, McMullan D, McPhillips TM, Miller MD, Morse A, Moy K, Ouyang J, Page R, Robb A, Quijano K, Schwarzenbacher R, Spraggon G, Stevens RC, van den Bedem H, Velasquez J, Vincent J, Wang X, West B, Wolf G, Hodgson KO, Wooley J, Wilson IA.  Crystal structure of an HEPN domain protein (TM0613) from Thermotoga maritima at 1.75 A resolution. Proteins 2004;54(4):806-9. No

Schwarzenbacher R, Deacon AM, Jaroszewski L, Brinen LS, Canaves JM, Dai X, Elsliger MA, Floyd R, Godzik A, Grittini C, Grzechnik SK, Klock HE, Koesema E, Kovarik JS, Kreusch A, Kuhn P, Lesley SA, McMullan D, McPhillips TM, Miller MD, Morse A, Moy K, Nelson MS, Ouyang J, Page R, Robb A, Quijano K, Spraggon G, Stevens RC, van den Bedem H, Velasquez J, Vincent J, von Delft F, Wang X, West B, Wolf G, Hodgson KO, Wooley J, Wilson IA. Crystal structure of a putative glutamine amido transferase (TM1158) from Thermotoga maritima at 1.7 A resolution. Proteins 2004;54(4):801-5.

Schwarzenbacher R, von Delft F, Canaves JM, Brinen LS, Dai X, Deacon AM, Elsliger MA, Eshaghi S, Floyd R, Godzik A, Grittini C, Grzechnik SK, Guda C, Jaroszewski L, Karlak C, Klock HE, Koesema E, Kovarik JS, Kreusch A, Kuhn P, Lesley SA, McMullan D, McPhillips TM, Miller MA, Miller MD, Morse A, Moy K, Ouyang J, Page R, Robb A, Rodrigues K, Selby TL, Spraggon G, Stevens RC, van den Bedem H, Velasquez J, Vincent J, Wang X, West B, Wolf G, Hodgson KO, Wooley J, Wilson IA.  Crystal structure of an iron-containing 1,3-propanediol dehydrogenase (TM0920) from Thermotoga maritima at 1.3 A resolution. Proteins 2004;54(1):174-7.

Page R, Nelson MS, von Delft F, Elsliger MA, Canaves JM, Brinen LS, Dai X, Deacon AM, Floyd R, Godzik A, Grittini C, Grzechnik SK, Jaroszewski L, Klock HE, Koesema E, Kovarik JS, Kreusch A, Kuhn P, Lesley SA, McMullan D, McPhillips TM, Miller MD, Morse A, Moy K, Ouyang J, Robb A, Rodrigues K, Schwarzenbacher R, Spraggon G, Stevens RC, van den Bedem H, Velasquez J, Vincent J, Wang X, West B, Wolf G, Hodgson KO, Wooley J, Wilson IA. Crystal structure of gamma-glutamyl phosphate reductase (TM0293) from Thermotoga maritima at 2.0 A resolution. Proteins 2004;54(1):157-61.

Bern M, Goldberg D, Stevens RC, Kuhn P. Automatic classification of protein crystallization images using a curve-tracking algorithm. J Appl Crystallogr 2004;37:2790287.

Page R, Grzechnik SK, Canaves JM, Spraggon G, Kreusch A, Kuhn P, Stevens RC, Lesley SA. Shotgun crystallization strategy for structural genomics: an optimized two-tiered crystallization screen against the Thermotoga maritime proteome. Acta Crystallogr Section D 2003:59:1028-1037.

Canaves JM, Brinen LS, Dai X, Deacon AM, Elsliger MA, Eshaghi S, Floyd R, Godzik A, Grittini C, Grzechnik SK, Guda C, Jaroszewski L, Karlak C, Klock HE, Koesema E, Kovarik JS, Kreusch A, Kuhn P, Lesley SA, McMullan D, McPhillips TM, Miller MA, Miller MD, Morse A, Moy K, Ouyang J, Robb A, Rodrigues K, Selby TL, Spraggon G, Stevens RC, van den Bedem H, Velasquez J, Vincent J, Wang X, West B, Wolf G, Hodgson KO, Wooley J, Wilson IA. Crystal structure of uronate isomerase (TM0064) from Thermotoga maritima at 2.85 A resolution. Proteins 2003;53(1):142-5.

Schwarzenbacher R, Crystal structure of a zinc-containing glycerol dehydrogenase (TM0423) from Thermotoga maritima at 1.5 A resolution. Proteins. 2003 Feb 1;50(2):371-4

Brinen LS, Canaves JM, Dai X, Deacon AM, Elsliger MA, Eshaghi S, Floyd R, Godzik A, Grittini C, Grzechnik SK, Guda C, Jaroszewski L, Karlak C, Klock HE, Koesema E, Kovarik JS, Kreusch A, Kuhn P, Lesley SA, McMullan D, McPhillips TM, Miller MA, Miller MD, Morse A, Moy K, Ouyang J, Robb A, Rodrigues K, Selby TL, Spraggon G, Stevens RC, van den Bedem H, Velasquez J, Vincent J, Wang X, West B, Wolf G, Taylor SS, Hodgson KO, Wooley J, Wilson IA.  Crystal structure of a zinc-containing glycerol dehydrogenase (TM0423) from Thermotoga maritima at 1.5 A resolution. Proteins 2003;50(2):371-4.

Kuhn P, Lesley SA, Mathews II, Canaves JM, Brinen LS, Dai X, Deacon AM, Elsliger MA, Eshaghi S, Floyd R, Godzik A, Grittini C, Grzechnik SK, Guda C, Hodgson KO, Jaroszewski L, Karlak C, Klock HE, Koesema E, Kovarik JM, Kreusch AT, McMullan D, McPhillips TM, Miller MA, Miller M, Morse A, Moy K, Ouyang J, Robb A, Rodrigues K, Selby TL, Spraggon G, Stevens RC, Taylor SS, van den Bedem H, Velasquez J, Vincent J, Wang X, West B, Wolf G, Wooley J, Wilson IA.  Crystal structure of thy1, a thymidylate synthase complementing protein from Thermotoga maritima at 2.25 A resolution. Proteins 2002;49(1):142-5.

Lesley, Scott A.; Kuhn, Peter; Godzik, Adam; Deacon, Ashley M.; Mathews, Irimpan; Kreusch, Andreas; Spraggon, Glen; Klock, Heath E.; McMullan, Daniel; Shin, Tanya; Vincent, Juli; Robb, Alyssa; Brinen, Linda S.; Miller, Mitchell D.; McPhillips, Timothy M.; Miller, Mark A.; Scheibe, Daniel; Canaves, Jaume M.; Guda, Chittibabu; Jaroszewski, Lukasz; Selby, Thomas L.; Elsliger, Marc-Andre; Wooley, John; Taylor, Susan S.; Hodgson, Keith O.; Wilson, Ian A.; Schultz, Peter G.; Stevens, Raymond C. Structural genomics of the Thermotoga maritima proteome implemented in a high-throughput structure determination pipeline, Proceedings of the National Academy of Sciences of the United States of America (2002), 99(18), 11664-11669.  First large scale structural genomics results that utilized the next generation technological solutions to structural biology. These scientific and technological advances were subsequently implemented for most crystallography projects.

Chiu H, McPhillips T, McPhillips S, Sharp K, Eriksson T, Sauter N, Soltis M, and Kuhn P.  Collaboratory for Macromolecular Crystallography at SSRL.  Networked Learning. NAISOAcademic Press, 128-134 (2002).

Manikandan P, Ellis P, Kuhn P, Choi EY, Hoffman B, and Hille R.  Structure/function studies of arsenite oxidoreductase and xanthine oxidase.  Indian J of Chem 2002;41:22-31.

Deacon A, Brinen L. Kuhn P, McPhillips S, McPhillips T, Miller M, van den Bedem H. Wolf G, Zhong J, Zhang Z. A system for rapid and systematic characterization of protein cyrstals. Acta Crystallogr Section A 2002;58:C299.

Miller MD, Cohen A, Deacon A, Ellis P, Kuhn P Phizackerley P. Automated mounting cryo-cooled crystals on Stanford synchrotron radiation laboratory beamline 11-1. Acta Crystallogr Section A 2002;58:C202.

Mathews II, Deacon AM, McMullan D, CanavesJM, Kuhn P and Lesley S. Structural insights into the mechanism of thymidylate synthase complementing proteins. Acta Cyrst Section A 2002;58:C106.

Eriksson T, Chiu H-J, Sharp K, McPhillips T, McPhillips S, Sauter N, Solits M, and Kuhn P. Collaboratory for macromolecular cyrstallography at SSRL. Acta Crystallogr Section A 2002;58:C73.

McPhillips TM, McPhillips SE, Chiu H-J, Cohen AE, Deacon AM, Ellis PJ, Garman E, Gonzalez A, Sauter NK, Phizackerley RP, Solits SM, Kuhn P. Blu-Ice and the distributed control system: software for data acquisition and instrument control at macromolecular crystallography beamlines. J Synchr Radiation 2002;9:401-406.

Kuhn P, and Soltis SM.  Macromolecular structure determination in the post-genome era.  Nuclear Instr andMethods in Physics Res 2001;467-468:1363-1366.

Ellis P, Conrads T, Hille R, and Kuhn P.  Crystal structure of the 100 kDa arsenite oxidase from Alcaligenes faecalis in two crystal forms at 1.64 Å and 2.03 Å.  Structure 2001;9:125–132.

Abola E, Kuhn P, Earnest T, and Stevens RC.  Automation of x-ray crystallography.  Nature Struct Biol 2000;7:973–977.

Kuhn P, Deacon AM, Comoso S, Rajaseger G, Kinik RM, Uson I, Kolatkar PR, The atomic resolution structure of bucandin, a novel toxin isolated from the Malyan krait, determined by direct methods. Acta Crystallogr Section D 2000;56: 1401-1407. erratum 2000;56:1702.

Bott R, Ganshaw M, Soltis M, Kuhn P, Knapp M. Snapshots of enyme activation. Acta Crystallogr Section A 2000;56:S247.

Yeh AP, Chatelet C, Soltis SM, Kuhn P, Meyer J, and Rees DC.  Structure of a Thioredoxin-like [2Fe-2S] Ferredoxin from Aquifex aeolicus.  J Mol Biol 2000;300:587-595.

Kuhn P, Garman E, Soltis SM.  Limitations in macromolecular crystallography due to radiation damage. Synchrotron Radiat and Instr (P. Pianetta, J. Arthur, and S. Brennan, Eds.), 215-218, (2000).

Luan P, Heine A, Zeng K, Moyer B, Greasely SE, Kuhn P, Balch WE and Wilson IA.  A New Functional Domain of Guanine Nucleotide Dissociation Inhibitor (a-GDI) Involved in Rab Recycling. Traffic 2000;1:270-281.

Kielkopf CL, Ding S, Kuhn P, and Rees DC.  Conformational Flexibility of B-DNA at 0.74 Å Resolution: d(CCAGTACTGG)2.  J Mol Biol 2000;296:787-801.

Ellis P,Carlow C, Ma D, and Kuhn P.  Crystal Structure of the Complex of Brugia Malayi Cyclophilin and Cyclosporin A.  Biochemistry 2000;39:592-598.

Yew WS, Kolatkar PR, Kuhn P, and Khoo HE.  Crystallization and Preliminary Crystallographic Study of Stonustoxin, a Protein Lethal Factor isolated from the Stonefish (Synanceja horrida) Venom.  J Struct Biol 1999;128:216-218.

Mitchell E, Kuhn P and Garman E. Demystifying the Synchrotron Trip: a First Time User’s Guide.  Structure 1999;7:111-121.

Kuhn P.  Analysis of disordered in protein structures as observed by protein crystallographic methods. Biophysical J 1999;76:30-31.

Kuhn P, Knapp M, Soltis SM, Ganshaw G, Thoene M, and Bott R.  The 0.78 Å Structure of a Serine Protease, Bacillus lentus Subtilisin.  Biochemistry 1998;37:13446-13452.

Merritt EA, Kuhn P, Sarfaty S, Erbe JL, Holmes RK, and Hol WGJ.  The 1.25 Å Resolution Refinement of the Cholera Toxin B-pentamer: Evidence of Peptide Backbone Strain at the Receptor Binding Site.  J Mol Biol 1998;282:1043-1059.

Bernstein BE, Williams DM, Bressi JC, Kuhn P, Gelb MH, Blackburn GM, and Hol WGJ.  A Bisubstrate Analog Induces Unexpected Conformational Changes in Phosphoglycerate Kinase from Trypanosoma brucel.  J MolBiol 1998;279:1137-1148.

Genick U, Softis SM, Kuhn P, Canestrelli IL, and Getzoff ED.  Structure at 0.85 Å Resolution of an Early Protein Photocycle Intermediate.  Nature 1998;392:206-209. Ultra-high resolution data collection and data interpretation was applied to time resolved crystallography. This provided the initial data to investigate radiation decay and its interpretation in the biological/structural context.

Redinbo MR, Stewart L, Kuhn P, Champoux JJ, and Hol WGJ. Crystal Structures of Human Topoisomerase I in Covalent and Noncovalent Complexes with DNA.  Science 1998;279:1504-1513. Multi-crystal data collection and data merging was a key to the successful completion of the structural determination. This provided the foundation of many of the diffraction data collection approaches.

Whitby FG, Luecke H, Kuhn P, Somoza JR, Huetze-Perez JA, Phillips JD, Hill CP, Fletterick RJ, and Wang CC., Crystal Structure of Tritrichomonas foetus lnosine-5′-monophosphate Dehydrogenase and the Enzyme Product Complex.  Biochemistry 1997;36:10666-10674.

VanRoey P, Rao V, Kuhn P, Tarentino AL, Plummer Jr TH.  Structural analysis of the mechanisms and substrate specificities of oligosaccharide releasing enzymes.  Glycobiology 1996;6:1004-1004.

Kuhn P, Guan C, Cui T, Tarentino AL, Plummer Jr TH, and Van Roey P.  Active Site and Oligosaccharide Recognition Residues of PNGase F. J. Bio. Chem 1995;270:29493-29497.

Kuhn P.  Structure and Function of PNGase F.  Dissertation submitted to the Physics Department at the State University of New York at Albany, NY, (1995).

Kuhn P, Tarentino A, Plummer T, and Van Roey P.  Crystal Structure of Peptide-N-(N-acetyl-beta-D-glucosaminyl)asparagine Amidase F at 2.2 Å Resolution.  Biochemistry 1994;33:11699-11706.

Kuhn P, Tarentino A, Plummer T, and Van Roey P.  Crystallization and Preliminary Crystallographic Analysis of Peptide-N-(N-acetyl-beta-D-glucosaminyl)asparagine Amidase F, PNGase F.  J Mol Biol 1994;241:622-623.