John V. Carlis - Publications

Affiliations: 
University of Minnesota, Twin Cities, Minneapolis, MN 
Area:
Computer Science

56 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2016 Van Riper SK, Higgins L, Carlis JV, Griffin TJ. RIPPER: a framework for MS1 only metabolomics and proteomics label-free relative quantification. Bioinformatics (Oxford, England). PMID 27153682 DOI: 10.1093/bioinformatics/btw091  0.92
2015 Carlis JV, March ST. A descriptive model of physical database design problems and solutions Proceedings - International Conference On Data Engineering. 2015: 253-260. DOI: 10.1109/ICDE.1984.7271279  0.92
2014 Smith AJ, Wietgrefe SW, Shang L, Reilly CS, Southern PJ, Perkey KE, Duan L, Kohler H, Müller S, Robinson J, Carlis JV, Li Q, Johnson RP, Haase AT. Live simian immunodeficiency virus vaccine correlate of protection: immune complex-inhibitory Fc receptor interactions that reduce target cell availability. Journal of Immunology (Baltimore, Md. : 1950). 193: 3126-33. PMID 25143442 DOI: 10.4049/jimmunol.1400822  0.92
2014 Li Q, Zeng M, Duan L, Voss JE, Smith AJ, Pambuccian S, Shang L, Wietgrefe S, Southern PJ, Reilly CS, Skinner PJ, Zupancic ML, Carlis JV, Piatak M, Waterman D, et al. Live simian immunodeficiency virus vaccine correlate of protection: local antibody production and concentration on the path of virus entry. Journal of Immunology (Baltimore, Md. : 1950). 193: 3113-25. PMID 25135832 DOI: 10.4049/jimmunol.1400820  0.92
2014 Van Riper SK, de Jong EP, Higgins L, Carlis JV, Griffin TJ. Improved intensity-based label-free quantification via proximity-based intensity normalization (PIN). Journal of Proteome Research. 13: 1281-92. PMID 24571364 DOI: 10.1021/pr400866r  0.92
2014 Schroeder D, Korsakov F, Knipe CMP, Thorson L, Ellingson AM, Nuckley D, Carlis J, Keefe DF. Trend-centric motion visualization: Designing and applying a new strategy for analyzing scientific motion collections Ieee Transactions On Visualization and Computer Graphics. 20: 2644-2653. DOI: 10.1109/TVCG.2014.2346451  0.92
2013 Van Riper SK, de Jong EP, Carlis JV, Griffin TJ. Mass spectrometry-based proteomics: basic principles and emerging technologies and directions. Advances in Experimental Medicine and Biology. 990: 1-35. PMID 23378000 DOI: 10.1007/978-94-007-5896-4_1  0.92
2012 Schroeder D, Kowalewski T, White L, Carlis J, Santos E, Sweet R, Lendvay TS, Reihsen T, Keefe DF. Exploratory visualization of surgical training databases for improving skill acquisition. Ieee Computer Graphics and Applications. 32: 71-81. PMID 24807311 DOI: 10.1109/MCG.2012.67  0.92
2012 Keefe DF, Gupta A, Feldman D, Carlis JV, Krehbiel Keefe S, Griffin TJ. Scaling up multi-touch selection and querying: Interfaces and applications for combining mobile multi-touch input with large-scale visualization displays International Journal of Human Computer Studies. 70: 703-713. DOI: 10.1016/j.ijhcs.2012.05.004  0.92
2011 de Jong EP, van Riper SK, Koopmeiners JS, Carlis JV, Griffin TJ. Sample collection and handling considerations for peptidomic studies in whole saliva; implications for biomarker discovery. Clinica Chimica Acta; International Journal of Clinical Chemistry. 412: 2284-8. PMID 21889499 DOI: 10.1016/j.cca.2011.08.023  0.92
2011 Zeng M, Smith AJ, Wietgrefe SW, Southern PJ, Schacker TW, Reilly CS, Estes JD, Burton GF, Silvestri G, Lifson JD, Carlis JV, Haase AT. Cumulative mechanisms of lymphoid tissue fibrosis and T cell depletion in HIV-1 and SIV infections. The Journal of Clinical Investigation. 121: 998-1008. PMID 21393864 DOI: 10.1172/JCI45157  0.92
2011 Bandhakavi S, Van Riper SK, Tawfik PN, Stone MD, Haddad T, Rhodus NL, Carlis JV, Griffin TJ. Hexapeptide libraries for enhanced protein PTM identification and relative abundance profiling in whole human saliva. Journal of Proteome Research. 10: 1052-61. PMID 21142092 DOI: 10.1021/pr100857t  0.92
2010 Onsongo G, Stone MD, Van Riper SK, Chilton J, Wu B, Higgins L, Lund TC, Carlis JV, Griffin TJ. LTQ-iQuant: A freely available software pipeline for automated and accurate protein quantification of isobaric tagged peptide data from LTQ instruments. Proteomics. 10: 3533-8. PMID 20821806 DOI: 10.1002/pmic.201000189  0.92
2010 de Jong EP, Xie H, Onsongo G, Stone MD, Chen XB, Kooren JA, Refsland EW, Griffin RJ, Ondrey FG, Wu B, Le CT, Rhodus NL, Carlis JV, Griffin TJ. Quantitative proteomics reveals myosin and actin as promising saliva biomarkers for distinguishing pre-malignant and malignant oral lesions. Plos One. 5: e11148. PMID 20567502 DOI: 10.1371/journal.pone.0011148  0.92
2010 Pardo JV, Lee JT, Kuskowski MA, Munch KR, Carlis JV, Sheikh SA, Surerus C, Lewis SM, McCarten JR, Fink H, McPherson S, Shah HH, Rottunda S, Dysken MW. Fluorodeoxyglucose positron emission tomography of mild cognitive impairment with clinical follow-up at 3 years. Alzheimer's & Dementia : the Journal of the Alzheimer's Association. 6: 326-33. PMID 20447873 DOI: 10.1016/j.jalz.2009.09.005  0.92
2010 Onsongo G, Xie H, Griffin TJ, Carlis JV. Relational operators for prioritizing candidate biomarkers in high-throughput differential expression data 2010 Acm International Conference On Bioinformatics and Computational Biology, Acm-Bcb 2010. 25-34. DOI: 10.1145/1854776.1854786  0.92
2009 Bosinger SE, Li Q, Gordon SN, Klatt NR, Duan L, Xu L, Francella N, Sidahmed A, Smith AJ, Cramer EM, Zeng M, Masopust D, Carlis JV, Ran L, Vanderford TH, et al. Global genomic analysis reveals rapid control of a robust innate response in SIV-infected sooty mangabeys. The Journal of Clinical Investigation. 119: 3556-72. PMID 19959874 DOI: 10.1172/JCI40115  0.92
2009 Li Q, Smith AJ, Schacker TW, Carlis JV, Duan L, Reilly CS, Haase AT. Microarray analysis of lymphatic tissue reveals stage-specific, gene expression signatures in HIV-1 infection. Journal of Immunology (Baltimore, Md. : 1950). 183: 1975-82. PMID 19596987 DOI: 10.4049/jimmunol.0803222  0.92
2009 Li Q, Skinner PJ, Ha SJ, Duan L, Mattila TL, Hage A, White C, Barber DL, O'Mara L, Southern PJ, Reilly CS, Carlis JV, Miller CJ, Ahmed R, Haase AT. Visualizing antigen-specific and infected cells in situ predicts outcomes in early viral infection. Science (New York, N.Y.). 323: 1726-9. PMID 19325114 DOI: 10.1126/science.1168676  0.92
2009 Li Q, Estes JD, Schlievert PM, Duan L, Brosnahan AJ, Southern PJ, Reilly CS, Peterson ML, Schultz-Darken N, Brunner KG, Nephew KR, Pambuccian S, Lifson JD, Carlis JV, Haase AT. Glycerol monolaurate prevents mucosal SIV transmission. Nature. 458: 1034-8. PMID 19262509 DOI: 10.1038/nature07831  0.92
2008 Lee JT, Munch KR, Carlis JV, Pardo JV. Internet image viewer (iiV). Bmc Medical Imaging. 8: 10. PMID 18510765 DOI: 10.1186/1471-2342-8-10  0.92
2008 Li Q, Estes JD, Duan L, Jessurun J, Pambuccian S, Forster C, Wietgrefe S, Zupancic M, Schacker T, Reilly C, Carlis JV, Haase AT. Simian immunodeficiency virus-induced intestinal cell apoptosis is the underlying mechanism of the regenerative enteropathy of early infection Journal of Infectious Diseases. 197: 420-429. PMID 18199035 DOI: 10.1086/525046  0.92
2008 Xie H, Onsongo G, Popko J, de Jong EP, Cao J, Carlis JV, Griffin RJ, Rhodus NL, Griffin TJ. Proteomics analysis of cells in whole saliva from oral cancer patients via value-added three-dimensional peptide fractionation and tandem mass spectrometry. Molecular & Cellular Proteomics : McP. 7: 486-98. PMID 18045803 DOI: 10.1074/mcp.M700146-MCP200  0.92
2008 Munch KR, Carlis JV, Pardo JV, Lee JT. Bringing functional brain image analysis to the clinician: initial assessment of an online interactive diagnostic aide. Computers in Biology and Medicine. 38: 155-64. PMID 18022149 DOI: 10.1016/j.compbiomed.2007.09.001  0.92
2008 Onsongo G, Xie H, Griffin TJ, Carlis J. Generating GO slim using relational database management systems to support proteomics analysis Proceedings - Ieee Symposium On Computer-Based Medical Systems. 215-217. DOI: 10.1109/CBMS.2008.77  0.92
2007 Griffin TJ, Xie H, Bandhakavi S, Popko J, Mohan A, Carlis JV, Higgins L. iTRAQ reagent-based quantitative proteomic analysis on a linear ion trap mass spectrometer. Journal of Proteome Research. 6: 4200-9. PMID 17902639 DOI: 10.1021/pr070291b  0.92
2007 Pardo JV, Lee JT, Sheikh SA, Surerus-Johnson C, Shah H, Munch KR, Carlis JV, Lewis SM, Kuskowski MA, Dysken MW. Where the brain grows old: decline in anterior cingulate and medial prefrontal function with normal aging. Neuroimage. 35: 1231-7. PMID 17321756 DOI: 10.1016/j.neuroimage.2006.12.044  0.92
2007 Estes JD, Wietgrefe S, Schacker T, Southern P, Beilman G, Reilly C, Milush JM, Lifson JD, Sodora DL, Carlis JV, Haase AT. Simian immunodeficiency virus-induced lymphatic tissue fibrosis is mediated by transforming growth factor beta 1-positive regulatory T cells and begins in early infection. The Journal of Infectious Diseases. 195: 551-61. PMID 17230415 DOI: 10.1086/510852  0.92
2005 Li Q, Lifson JD, Duan L, Schacker TW, Reilly C, Carlis J, Estes JD, Haase AT. Potential roles of follicular dendritic cell-associated osteopontin in lymphoid follicle pathology and repair and in B cell regulation in HIV-1 and SIV infection. The Journal of Infectious Diseases. 192: 1269-76. PMID 16136472 DOI: 10.1086/444430  0.92
2005 Xie H, Rhodus NL, Griffin RJ, Carlis JV, Griffin TJ. A catalogue of human saliva proteins identified by free flow electrophoresis-based peptide separation and tandem mass spectrometry. Molecular & Cellular Proteomics : McP. 4: 1826-30. PMID 16103422 DOI: 10.1074/mcp.D500008-MCP200  0.92
2005 Miller CJ, Li Q, Abel K, Kim EY, Ma ZM, Wietgrefe S, La Franco-Scheuch L, Compton L, Duan L, Shore MD, Zupancic M, Busch M, Carlis J, Wolinsky S, Wolinksy S, et al. Propagation and dissemination of infection after vaginal transmission of simian immunodeficiency virus. Journal of Virology. 79: 9217-27. PMID 15994816 DOI: 10.1128/JVI.79.14.9217-9227.2005  0.92
2005 Li Q, Duan L, Estes JD, Ma ZM, Rourke T, Wang Y, Reilly C, Carlis J, Miller CJ, Haase AT. Peak SIV replication in resting memory CD4+ T cells depletes gut lamina propria CD4+ T cells. Nature. 434: 1148-52. PMID 15793562 DOI: 10.1038/nature03513  0.92
2005 Munch KR, Carlis JV, Pardo JV, Lee JT. Novel DBMS extensions for functional brain image analysis Proceedings - 18th International Conference On Systems Engineering, Iicseng 2005. 2005: 301-306. DOI: 10.1109/ICSENG.2005.59  0.92
2005 Chen JY, Carlis JV, Gao N. A complex biological databases querying method Proceedings of the Acm Symposium On Applied Computing. 1: 110-114.  0.92
2005 Xie H, Bandhakavi S, Rhodus N, Griffin RJ, Carlis JV, Griffin TJ. A high-throughput information added proteomic strategy using free flow electrophoresis and tandem mass spectrometry Aiche Annual Meeting, Conference Proceedings. 12473-12501.  0.92
2004 Li Q, Schacker T, Carlis J, Beilman G, Nguyen P, Haase AT. Functional genomic analysis of the response of HIV-1-infected lymphatic tissue to antiretroviral therapy. The Journal of Infectious Diseases. 189: 572-82. PMID 14767808 DOI: 10.1086/381396  0.92
2004 Williams JM, Oehlert GW, Carlis JV, Pusey AE. Why do male chimpanzees defend a group range? Animal Behaviour. 68: 523-532. DOI: 10.1016/j.anbehav.2003.09.015  0.92
2003 Chen JY, Carlis JV. Genomic data modeling Information Systems. 28: 287-310. DOI: 10.1016/S0306-4379(02)00071-6  0.92
2003 Chen JY, Carlis JV. Similar_Join: Extending DBMS with a bio-specific operator Proceedings of the Acm Symposium On Applied Computing. 109-114.  0.92
2003 Wagner PJ, Shoop E, Carlis JV. Using scientific data to teach a database systems course Sigcse Bulletin (Association For Computing Machinery, Special Interest Group On Computer Science Education). 224-228.  0.92
2002 Carlis JV. Pitfalls and paths to success in interdisciplinary scientific database research. Ieee Engineering in Medicine and Biology Magazine : the Quarterly Magazine of the Engineering in Medicine & Biology Society. 21: 117-22. PMID 12613220 DOI: 10.1109/MEMB.2002.1175147  0.92
2002 Williams JM, Pusey AE, Carlis JV, Farm BP, Goodall J. Female competition and male territorial behaviour influence female chimpanzees' ranging patterns Animal Behaviour. 63: 347-360. DOI: 10.1006/anbe.2001.1916  0.92
2001 Bailey BP, Konstan JA, Carlis JV. DEMAIS: Designing multimedia applications with interactive storyboards Proceedings of the Acm International Multimedia Conference and Exhibition. 241-250.  0.92
1999 Van Evert FK, Spaans EJA, Krieger SD, Carlis JV, Baker JM. A database for agroecological research data: I. Data model Agronomy Journal. 91: 54-62.  0.92
1999 Van Evert FK, Spaans EJA, Krieger SD, Carlis JV, Baker JM. A database for agroecological research data. II. A relational implementation Agronomy Journal. 91: 62-71.  0.92
1998 Allona I, Quinn M, Shoop E, Swope K, St Cyr S, Carlis J, Riedl J, Retzel E, Campbell MM, Sederoff R, Whetten RW. Analysis of xylem formation in pine by cDNA sequencing. Proceedings of the National Academy of Sciences of the United States of America. 95: 9693-8. PMID 9689143 DOI: 10.1073/pnas.95.16.9693  0.92
1997 Johnson VM, Carlis JV. Building a composite syntax for expert system shells Ieee Expert-Intelligent Systems and Their Applications. 12: 60-66. DOI: 10.1109/64.642963  0.92
1995 Claypool M, Riedl J, Carlis J, Wilcox G, Elde R, Retzel E, Georgopoulos A, Pardo J, Ugurbil K, Miller B, Honda C. Network Requirements for 3-D Flying in a Zoomable Brain Database Ieee Journal On Selected Areas in Communications. 13: 816-827. DOI: 10.1109/49.391754  0.92
1989 Held JP, Carlis JV. Conceptual Data Modeling of Expert Systems Ieee Expert-Intelligent Systems and Their Applications. 4: 50-61. DOI: 10.1109/64.21900  0.92
1989 Dabrowski CE, Jefferson DK, Carlis JV, March ST. Integrating a knowledge-based component into a physical database design system Information and Management. 17: 71-86. DOI: 10.1016/0378-7206(89)90009-8  0.92
1989 Held JP, Carlis JV. The applicative data model Information Sciences. 49: 249-283. DOI: 10.1016/0020-0255(89)90030-3  0.92
1987 Held JP, Carlis JV. MATCH—a new high-level relational operator for pattern matching Communications of the Acm. 30: 62-75. DOI: 10.1145/7885.7889  0.92
1987 March ST, Carlis JV. On the interdependencies between record structure and access path design Journal of Management Information Systems. 4.  0.92
1983 Carlis JV, March ST, Dickson GW. Physical database design: A DSS approach Information and Management. 6: 211-224. DOI: 10.1016/0378-7206(83)90008-3  0.92
1983 Carlis JV, March ST. COMPUTER-AIDED PHYSICAL DATABASE DESIGN METHODOLOGY Computer Performance. 4: 198-214.  0.92
1977 Severance DG, Carlis JV. A Practical Approach to Selecting Record Access Paths Acm Computing Surveys (Csur). 9: 259-272. DOI: 10.1145/356707.356709  0.92
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