| Year |
Citation |
Score |
| 2023 |
Do K, Mehta S, Wagner R, Bhuming D, Rajczewski AT, Skubitz APN, Johnson JE, Griffin TJ, Jagtap PD. A novel clinical metaproteomics workflow enables bioinformatic analysis of host-microbe dynamics in disease. Biorxiv : the Preprint Server For Biology. PMID 38045370 DOI: 10.1101/2023.11.21.568121 |
0.309 |
|
| 2023 |
Mehta S, Bernt M, Chambers M, Fahrner M, Föll MC, Gruening B, Horro C, Johnson JE, Loux V, Rajczewski AT, Schilling O, Vandenbrouck Y, Gustafsson OJR, Thang WCM, Hyde C, ... ... Griffin TJ, et al. A Galaxy of informatics resources for MS-based proteomics. Expert Review of Proteomics. 20: 251-266. PMID 37787106 DOI: 10.1080/14789450.2023.2265062 |
0.324 |
|
| 2023 |
Bihani S, Gupta A, Mehta S, Rajczewski AT, Johnson J, Borishetty D, Griffin TJ, Srivastava S, Jagtap PD. Metaproteomic Analysis of Nasopharyngeal Swab Samples to Identify Microbial Peptides in COVID-19 Patients. Journal of Proteome Research. PMID 37450889 DOI: 10.1021/acs.jproteome.3c00040 |
0.32 |
|
| 2023 |
Weise DO, Kruk ME, Higgins L, Markowski TW, Jagtap PD, Mehta S, Mickelson A, Parker LL, Wendt CH, Griffin TJ. An optimized workflow for MS-based quantitative proteomics of challenging clinical bronchoalveolar lavage fluid (BALF) samples. Clinical Proteomics. 20: 14. PMID 37005570 DOI: 10.1186/s12014-023-09404-1 |
0.326 |
|
| 2022 |
Rajczewski AT, Han Q, Mehta S, Kumar P, Jagtap PD, Knutson CG, Fox JG, Tretyakova NY, Griffin TJ. Quantitative Proteogenomic Characterization of Inflamed Murine Colon Tissue Using an Integrated Discovery, Verification, and Validation Proteogenomic Workflow. Proteomes. 10. PMID 35466239 DOI: 10.3390/proteomes10020011 |
0.397 |
|
| 2021 |
Rajczewski AT, Mehta S, Nguyen DDA, Grüning B, Johnson JE, McGowan T, Griffin TJ, Jagtap PD. A rigorous evaluation of optimal peptide targets for MS-based clinical diagnostics of Coronavirus Disease 2019 (COVID-19). Clinical Proteomics. 18: 15. PMID 33971807 DOI: 10.1186/s12014-021-09321-1 |
0.356 |
|
| 2021 |
Rajczewski AT, Mehta S, Nguyen DDA, Grüning BA, Johnson JE, McGowan T, Griffin TJ, Jagtap PD. A rigorous evaluation of optimal peptide targets for MS-based clinical diagnostics of Coronavirus Disease 2019 (COVID-19). Medrxiv : the Preprint Server For Health Sciences. PMID 33688669 DOI: 10.1101/2021.02.09.21251427 |
0.356 |
|
| 2020 |
Sajulga R, Easterly C, Riffle M, Mesuere B, Muth T, Mehta S, Kumar P, Johnson J, Gruening BA, Schiebenhoefer H, Kolmeder CA, Fuchs S, Nunn BL, Rudney J, Griffin TJ, et al. Survey of metaproteomics software tools for functional microbiome analysis. Plos One. 15: e0241503. PMID 33170893 DOI: 10.1371/journal.pone.0241503 |
0.308 |
|
| 2020 |
Guerrero CR, Maier LA, Griffin TJ, Higgins L, Najt CP, Perlman DM, Bhargava M. Application of Proteomics in Sarcoidosis. American Journal of Respiratory Cell and Molecular Biology. PMID 32804537 DOI: 10.1165/rcmb.2020-0070PS |
0.326 |
|
| 2020 |
Bhargava M, Viken KJ, Barkes B, Griffin TJ, Gillespie M, Jagtap PD, Sajulga R, Peterson EJ, Dincer HE, Li L, Restrepo CI, O'Connor BP, Fingerlin TE, Perlman DM, Maier LA. Novel protein pathways in development and progression of pulmonary sarcoidosis. Scientific Reports. 10: 13282. PMID 32764642 DOI: 10.1038/S41598-020-69281-8 |
0.335 |
|
| 2020 |
Mehta S, Easterly CW, Sajulga R, Millikin RJ, Argentini A, Eguinoa I, Martens L, Shortreed MR, Smith LM, McGowan T, Kumar P, Johnson JE, Griffin TJ, Jagtap PD. Precursor Intensity-Based Label-Free Quantification Software Tools for Proteomic and Multi-Omic Analysis within the Galaxy Platform. Proteomes. 8. PMID 32650610 DOI: 10.3390/Proteomes8030015 |
0.612 |
|
| 2020 |
Kumar P, Johnson JE, Easterly C, Mehta S, Sajulga R, Nunn B, Jagtap PD, Griffin TJ. A sectioning and database enrichment approach for improved peptide spectrum matching in large, genome-guided protein sequence databases. Journal of Proteome Research. PMID 32396365 DOI: 10.1021/Acs.Jproteome.0C00260 |
0.468 |
|
| 2020 |
McGowan T, Johnson JE, Kumar P, Sajulga R, Mehta S, Jagtap PD, Griffin TJ. Multi-omics Visualization Platform: An extensible Galaxy plug-in for multi-omics data visualization and exploration. Gigascience. 9. PMID 32236523 DOI: 10.1093/Gigascience/Giaa025 |
0.385 |
|
| 2020 |
Jagtap P, Johnson J, Yang T, Fahrner M, Schilling O, Searle B, Griffin T. Exploring chromatogram library-based data-independent acquisition analysis using EncyclopeDIA within Galaxy framework. F1000research. 9. DOI: 10.7490/F1000Research.1118254.1 |
0.309 |
|
| 2019 |
Hubler SL, Kumar P, Mehta S, Easterly C, Johnson JE, Jagtap PD, Griffin TJ. Challenges in Peptide-Spectrum Matching: a Robust and Reproducible Statistical Framework for Removing Low-Accuracy, High-Scoring Hits. Journal of Proteome Research. PMID 31793300 DOI: 10.1021/Acs.Jproteome.9B00478 |
0.466 |
|
| 2019 |
Easterly CW, Sajulga R, Mehta S, Johnson J, Kumar P, Hubler S, Mesuere B, Rudney J, Griffin TJ, Jagtap PD. metaQuantome: An integrated, quantitative metaproteomics approach reveals connections between taxonomy and protein function in complex microbiomes. Molecular & Cellular Proteomics : McP. PMID 31235611 DOI: 10.1074/Mcp.Ra118.001240 |
0.433 |
|
| 2019 |
Stewart PA, Kuenzi BM, Mehta S, Kumar P, Johnson JE, Jagtap P, Griffin TJ, Haura EB. The Galaxy Platform for Reproducible Affinity Proteomic Mass Spectrometry Data Analysis. Methods in Molecular Biology (Clifton, N.J.). 1977: 249-261. PMID 30980333 DOI: 10.1007/978-1-4939-9232-4_16 |
0.441 |
|
| 2019 |
Boylan KLM, Rogers AC, Geller MA, Argenta PA, Griffin TJ, Skubitz APN. Abstract DP-002: COMPARISON OF POTENTIAL OVARIAN CANCER BIOMARKERS BY MASS SPECTROMETRY-BASED PROTEOMIC ANALYSIS OF RESIDUAL PAP TEST FLUID, CERVICAL SWABS, AND TUMOR TISSUE FROM AN OVARIAN CANCER PATIENT Clinical Cancer Research. 25. DOI: 10.1158/1557-3265.Ovcasymp18-Dp-002 |
0.392 |
|
| 2018 |
Kumar P, Panigrahi P, Johnson J, Weber WJ, Mehta S, Sajulga R, Easterly C, Crooker BA, Heydarian M, Anamika K, Griffin TJ, Jagtap P. QuanTP: A software resource for quantitative proteo-transcriptomic comparative data analysis and informatics. Journal of Proteome Research. PMID 30582332 DOI: 10.1021/Acs.Jproteome.8B00727 |
0.418 |
|
| 2018 |
Johnson JE, Kumar P, Easterly C, Esler M, Mehta S, Eschenlauer AC, Hegeman AD, Jagtap PD, Griffin TJ. Improve your Galaxy text life: The Query Tabular Tool. F1000research. 7: 1604. PMID 30519459 DOI: 10.12688/F1000Research.16450.2 |
0.632 |
|
| 2018 |
Argentini A, Staes A, Grüning BA, Mehta S, Easterly C, Griffin TJ, Jagtap P, Impens F, Martens L. An update on the moFF Algorithm for label-free quantitative proteomics. Journal of Proteome Research. PMID 30511867 DOI: 10.1021/Acs.Jproteome.8B00708 |
0.443 |
|
| 2018 |
Folsom TD, Higgins L, Markowski TW, Griffin TJ, Fatemi SH. Quantitative proteomics of forebrain subcellular fractions in fragile X mental retardation 1 knockout mice following acute treatment with 2-Methyl-6-(phenylethynyl)pyridine: Relevance to Developmental Study of Schizophrenia. Synapse (New York, N.Y.). PMID 30176067 DOI: 10.1002/Syn.22069 |
0.339 |
|
| 2018 |
Sajulga R, Mehta S, Kumar P, Johnson JE, Guerrero CR, Ryan MC, Karchin R, Jagtap PD, Griffin TJ. Bridging the Chromosome-Centric and Biology and Disease Human Proteome Projects: Accessible and automated tools for interpreting biological and pathological impact of protein sequence variants detected via proteogenomics. Journal of Proteome Research. PMID 30130115 DOI: 10.1021/Acs.Jproteome.8B00404 |
0.392 |
|
| 2018 |
Afiuni-Zadeh S, Boylan KLM, Jagtap PD, Griffin TJ, Rudney JD, Peterson ML, Skubitz APN. Evaluating the potential of residual Pap test fluid as a resource for the metaproteomic analysis of the cervical-vaginal microbiome. Scientific Reports. 8: 10868. PMID 30022083 DOI: 10.1038/S41598-018-29092-4 |
0.497 |
|
| 2018 |
Blank C, Easterly C, Gruening B, Johnson J, Kolmeder CA, Kumar P, May D, Mehta S, Mesuere B, Brown Z, Elias JE, Hervey WJ, McGowan T, Muth T, Nunn B, ... ... Griffin TJ, et al. Disseminating Metaproteomic Informatics Capabilities and Knowledge Using the Galaxy-P Framework. Proteomes. 6. PMID 29385081 DOI: 10.3390/Proteomes6010007 |
0.356 |
|
| 2018 |
Torres SMF, Furrow E, Souza CP, Granick JL, de Jong EP, Griffin TJ, Wang X. Salivary proteomics of healthy dogs: An in depth catalog. Plos One. 13: e0191307. PMID 29329347 DOI: 10.1371/Journal.Pone.0191307 |
0.44 |
|
| 2018 |
Kumar P, Panigrahi P, Johnson J, Easterly C, Mehta S, Rajczewski A, Sajulga R, Heydarian M, Krishanpal A, Griffin T, Jagtap P. Integrative proteo-transcriptomics workflows within the Galaxy framework to explore thecorrelation between the expression of RNA and proteins F1000research. 7. DOI: 10.7490/F1000Research.1115858.1 |
0.3 |
|
| 2018 |
Mehta S, Easterly C, Johnson JE, Gruening B, Argentini A, Millikin RJ, Shortreed MR, McGowan T, Kumar P, Martens L, Smith LM, Griffin TJ, Jagtap P. Evaluation of moFF and FlashLFQ for label free peptide quantification in proteomic workflows within Galaxy-P framework. F1000research. 7. DOI: 10.7490/F1000Research.1115792.1 |
0.561 |
|
| 2017 |
Murie C, Sandri B, Sandberg AS, Griffin TJ, Lehtiö J, Wendt C, Larsson O. Normalization of mass spectrometry data (NOMAD). Advances in Biological Regulation. PMID 29174395 DOI: 10.1016/J.Jbior.2017.11.005 |
0.426 |
|
| 2017 |
Chambers MC, Jagtap PD, Johnson JE, McGowan T, Kumar P, Onsongo G, Guerrero CR, Barsnes H, Vaudel M, Martens L, Grüning B, Cooke IR, Heydarian M, Reddy KL, Griffin TJ. An Accessible Proteogenomics Informatics Resource for Cancer Researchers. Cancer Research. 77: e43-e46. PMID 29092937 DOI: 10.1158/0008-5472.Can-17-0331 |
0.766 |
|
| 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 |
0.801 |
|
| 2016 |
Thu YM, Van Riper SK, Higgins L, Zhang T, Becker JR, Markowski TW, Nguyen HD, Griffin TJ, Bielinsky AK. Slx5/Slx8 Promotes Replication Stress Tolerance by Facilitating Mitotic Progression. Cell Reports. PMID 27134171 DOI: 10.1016/J.Celrep.2016.04.017 |
0.766 |
|
| 2016 |
Afiuni-Zadeh S, Rogers JC, Snovida SI, Bomgarden RD, Griffin TJ. AminoxyTMT: A novel multi-functional reagent for characterization of protein carbonylation. Biotechniques. 60: 186-96. PMID 27071607 DOI: 10.2144/000114402 |
0.526 |
|
| 2016 |
Anderson KJ, Vermillion KL, Jagtap P, Johnson JE, Griffin TJ, Andrews MT. Proteogenomic analysis of a hibernating mammal indicates contribution of skeletal muscle physiology to the hibernation phenotype. Journal of Proteome Research. PMID 26903422 DOI: 10.1021/Acs.Jproteome.5B01138 |
0.351 |
|
| 2016 |
Griffin T, Jagtap P, Johnson J. Using Galaxy for proteomic and integrative multi-omic data analysis F1000research. 5. DOI: 10.7490/F1000Research.1112908.1 |
0.337 |
|
| 2016 |
Jagtap P, Johnson J, McGowan T, Onsongo I, Lynch B, Guerrero C, Murray K, Smith LM, Shortreed MR, Cesnick A, Martens L, Hegeman A, Griffin T. Recent developments and new directions for the Galaxy-P project F1000research. 5. DOI: 10.7490/F1000Research.1112724.1 |
0.647 |
|
| 2016 |
McGowan T, Johnson J, Jagtap P, Onsongo G, Guerrero C, Griffin T. A multi-omics visualization platform (MVP) plug-in for Galaxy-based applications F1000research. 5. DOI: 10.7490/F1000Research.1112723.1 |
0.71 |
|
| 2016 |
Japtap P, Onsongo G, Guerrero C, Johnson J, McGowan T, Andrews M, Griffin T. Proteogenomics in Galaxy: Identifying novel ‘constellations’ of proteoforms using transcriptomic and proteomic data F1000research. 5. DOI: 10.7490/F1000Research.1112709.1 |
0.747 |
|
| 2016 |
Skubitz APN, Afiuni S, Boylan KLM, Geller M, Argenta P, Hoffman S, Griffin T. Abstract B34: Tandem Mass Tag 10-plex isobaric labeling of Pap test proteins: A novel method for the identification of ovarian cancer protein biomarkers by mass spectrometry. Clinical Cancer Research. 22. DOI: 10.1158/1557-3265.Ovca15-B34 |
0.414 |
|
| 2015 |
Rudney JD, Jagtap PD, Reilly CS, Chen R, Markowski TW, Higgins L, Johnson JE, Griffin TJ. Protein relative abundance patterns associated with sucrose-induced dysbiosis are conserved across taxonomically diverse oral microcosm biofilm models of dental caries. Microbiome. 3: 69. PMID 26684897 DOI: 10.1186/S40168-015-0136-Z |
0.349 |
|
| 2015 |
Barnidge DR, Krick TP, Griffin TJ, Murray DL. Using matrix-assisted laser desorption/ionization time-of-flight mass spectrometry to detect monoclonal immunoglobulin light chains in serum and urine. Rapid Communications in Mass Spectrometry : Rcm. 29: 2057-60. PMID 26443406 DOI: 10.1002/Rcm.7314 |
0.353 |
|
| 2015 |
Vermillion KL, Jagtap P, Johnson JE, Griffin TJ, Andrews MT. Characterizing cardiac molecular mechanisms of mammalian hibernation via quantitative proteogenomics. Journal of Proteome Research. PMID 26435507 DOI: 10.1021/Acs.Jproteome.5B00575 |
0.462 |
|
| 2015 |
Jagtap PD, Blakely A, Murray K, Stewart S, Kooren J, Johnson JE, Rhodus NL, Rudney J, Griffin TJ. Metaproteomic analysis using the Galaxy framework. Proteomics. PMID 26058579 DOI: 10.1002/Pmic.201500074 |
0.817 |
|
| 2015 |
Boekel J, Chilton JM, Cooke IR, Horvatovich PL, Jagtap PD, Käll L, Lehtiö J, Lukasse P, Moerland PD, Griffin TJ. Multi-omic data analysis using Galaxy. Nature Biotechnology. 33: 137-9. PMID 25658277 DOI: 10.1038/Nbt.3134 |
0.432 |
|
| 2015 |
Thumbigere-Math V, Michalowicz BS, de Jong EP, Griffin TJ, Basi DL, Hughes PJ, Tsai ML, Swenson KK, Rockwell L, Gopalakrishnan R. Salivary proteomics in bisphosphonate-related osteonecrosis of the jaw. Oral Diseases. 21: 46-56. PMID 24286378 DOI: 10.1111/Odi.12204 |
0.339 |
|
| 2015 |
Griffin TJ. The human saliva proteome: Overview and emerging methods for characterization Proceedings of Spie - the International Society For Optical Engineering. 9490. DOI: 10.1117/12.2183316 |
0.444 |
|
| 2014 |
Jagtap PD, Johnson JE, Onsongo G, Sadler FW, Murray K, Wang Y, Shenykman GM, Bandhakavi S, Smith LM, Griffin TJ. Flexible and accessible workflows for improved proteogenomic analysis using the Galaxy framework. Journal of Proteome Research. 13: 5898-908. PMID 25301683 DOI: 10.1021/Pr500812T |
0.8 |
|
| 2014 |
Sheynkman GM, Johnson JE, Jagtap PD, Shortreed MR, Onsongo G, Frey BL, Griffin TJ, Smith LM. Using Galaxy-P to leverage RNA-Seq for the discovery of novel protein variations. Bmc Genomics. 15: 703. PMID 25149441 DOI: 10.1186/1471-2164-15-703 |
0.832 |
|
| 2014 |
Boylan KL, Afiuni-Zadeh S, Geller MA, Hickey K, Griffin TJ, Pambuccian SE, Skubitz AP. A feasibility study to identify proteins in the residual Pap test fluid of women with normal cytology by mass spectrometry-based proteomics. Clinical Proteomics. 11: 30. PMID 25097468 DOI: 10.1186/1559-0275-11-30 |
0.45 |
|
| 2014 |
Yang Y, Rhodus NL, Ondrey FG, Wuertz BR, Chen X, Zhu Y, Griffin TJ. Quantitative proteomic analysis of oral brush biopsies identifies secretory leukocyte protease inhibitor as a promising, mechanism-based oral cancer biomarker. Plos One. 9: e95389. PMID 24748380 DOI: 10.1371/Journal.Pone.0095389 |
0.326 |
|
| 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 |
0.792 |
|
| 2014 |
Griffin TJ. Human saliva proteome: An overview Proceedings of Spie - the International Society For Optical Engineering. 9112. DOI: 10.1117/12.2058731 |
0.433 |
|
| 2014 |
Skubitz APN, Boylan KLM, Afiuni S, Griffin TJ, Geller MA. Detection of ovarian cancer biomarkers in routine Pap tests by mass spectrometry-based proteomic techniques Gynecologic Oncology. 133: 108. DOI: 10.1016/J.Ygyno.2014.03.286 |
0.36 |
|
| 2014 |
Rhodus N, Bandhakavi S, Van Riper S, Tawfik P, Stone M, Carlis J, Griffin T. OI0252 Proteomics finds increased salivary CD59 and mammaglobulins in recurrent breast cancer Oral Surgery, Oral Medicine, Oral Pathology and Oral Radiology. 117: e345. DOI: 10.1016/J.Oooo.2014.01.065 |
0.609 |
|
| 2013 |
Jagtap P, Goslinga J, Kooren JA, McGowan T, Wroblewski MS, Seymour SL, Griffin TJ. A two-step database search method improves sensitivity in peptide sequence matches for metaproteomics and proteogenomics studies. Proteomics. 13: 1352-7. PMID 23412978 DOI: 10.1002/Pmic.201200352 |
0.81 |
|
| 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 |
0.811 |
|
| 2013 |
Boylan KLM, Geller MA, Griffin TJ, Pambuccian SE, Afiuni S, Skubitz APN. Abstract A21: Proteomic analysis of residual Pap test fluid: Novel source for detection of ovarian cancer biomarkers Clinical Cancer Research. 19. DOI: 10.1158/1078-0432.Ovca13-A21 |
0.466 |
|
| 2013 |
Griffin TJ. The proteome of human saliva Proceedings of Spie - the International Society For Optical Engineering. 8723. DOI: 10.1117/12.2020012 |
0.461 |
|
| 2012 |
de Jong EP, Griffin TJ. Online nanoscale ERLIC-MS outperforms RPLC-MS for shotgun proteomics in complex mixtures. Journal of Proteome Research. 11: 5059-64. PMID 22950739 DOI: 10.1021/Pr300638N |
0.444 |
|
| 2012 |
Jagtap P, Bandhakavi S, Higgins L, McGowan T, Sa R, Stone MD, Chilton J, Arriaga EA, Seymour SL, Griffin TJ. Workflow for analysis of high mass accuracy salivary data set using MaxQuant and ProteinPilot search algorithm. Proteomics. 12: 1726-30. PMID 22623410 DOI: 10.1002/Pmic.201100097 |
0.418 |
|
| 2012 |
Yoder AR, Robinson JW, Dickey DM, Andersland J, Rose BA, Stone MD, Griffin TJ, Potter LR. A functional screen provides evidence for a conserved, regulatory, juxtamembrane phosphorylation site in guanylyl cyclase a and B. Plos One. 7: e36747. PMID 22590601 DOI: 10.1371/Journal.Pone.0036747 |
0.311 |
|
| 2012 |
Jagtap P, McGowan T, Bandhakavi S, Tu ZJ, Seymour S, Griffin TJ, Rudney JD. Deep metaproteomic analysis of human salivary supernatant. Proteomics. 12: 992-1001. PMID 22522805 DOI: 10.1002/Pmic.201100503 |
0.489 |
|
| 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 |
0.628 |
|
| 2012 |
Kooren JA, Rhodus NL, Griffin TJ. Emerging non-invasively collected genomic and proteomic biomarkers for the early diagnosis of oral squamous cell carcinoma (OSCC) Squamous Cell Carcinoma. 197-210. |
0.767 |
|
| 2011 |
Bandhakavi S, Markowski TW, Xie H, Griffin TJ. Three-dimensional peptide fractionation for highly sensitive nanoscale LC-based shotgun proteomic analysis of complex protein mixtures. Methods in Molecular Biology (Clifton, N.J.). 790: 47-56. PMID 21948405 DOI: 10.1007/978-1-61779-319-6_4 |
0.506 |
|
| 2011 |
Kooren JA, Rhodus NL, Tang C, Jagtap PD, Horrigan BJ, Griffin TJ. Evaluating the potential of a novel oral lesion exudate collection method coupled with mass spectrometry-based proteomics for oral cancer biomarker discovery. Clinical Proteomics. 8: 13. PMID 21914210 DOI: 10.1186/1559-0275-8-13 |
0.815 |
|
| 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 |
0.791 |
|
| 2011 |
Stone MD, Chen X, McGowan T, Bandhakavi S, Cheng B, Rhodus NL, Griffin TJ. Large-scale phosphoproteomics analysis of whole saliva reveals a distinct phosphorylation pattern. Journal of Proteome Research. 10: 1728-36. PMID 21299198 DOI: 10.1021/Pr1010247 |
0.398 |
|
| 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 |
0.822 |
|
| 2010 |
Stone MD, Odland RM, McGowan T, Onsongo G, Tang C, Rhodus NL, Jagtap P, Bandhakavi S, Griffin TJ. Novel In Situ Collection of Tumor Interstitial Fluid from a Head and Neck Squamous Carcinoma Reveals a Unique Proteome with Diagnostic Potential. Clinical Proteomics. 6: 75-82. PMID 20930922 DOI: 10.1007/S12014-010-9050-3 |
0.77 |
|
| 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 |
0.789 |
|
| 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 |
0.756 |
|
| 2010 |
Yee JC, Jacob NM, Jayapal KP, Kok YJ, Philp R, Griffin TJ, Hu WS. Global assessment of protein turnover in recombinant antibody producing myeloma cells. Journal of Biotechnology. 148: 182-93. PMID 20540971 DOI: 10.1016/J.Jbiotec.2010.06.005 |
0.347 |
|
| 2010 |
Roe MR, McGowan TF, Thompson LV, Griffin TJ. Targeted 18O-labeling for improved proteomic analysis of carbonylated peptides by mass spectrometry. Journal of the American Society For Mass Spectrometry. 21: 1190-203. PMID 20434358 DOI: 10.1016/J.Jasms.2010.03.029 |
0.809 |
|
| 2010 |
Rudney JD, Xie H, Rhodus NL, Ondrey FG, Griffin TJ. A metaproteomic analysis of the human salivary microbiota by three-dimensional peptide fractionation and tandem mass spectrometry. Molecular Oral Microbiology. 25: 38-49. PMID 20331792 DOI: 10.1111/J.2041-1014.2009.00558.X |
0.429 |
|
| 2010 |
Jayapal KP, Sui S, Philp RJ, Kok YJ, Yap MG, Griffin TJ, Hu WS. Multitagging proteomic strategy to estimate protein turnover rates in dynamic systems. Journal of Proteome Research. 9: 2087-97. PMID 20184388 DOI: 10.1021/Pr9007738 |
0.435 |
|
| 2010 |
Bandhakavi S, Kim YM, Ro SH, Xie H, Onsongo G, Jun CB, Kim DH, Griffin TJ. Quantitative nuclear proteomics identifies mTOR regulation of DNA damage response. Molecular & Cellular Proteomics : McP. 9: 403-14. PMID 19955088 DOI: 10.1074/Mcp.M900326-Mcp200 |
0.744 |
|
| 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 |
0.765 |
|
| 2009 |
Yan W, Apweiler R, Balgley BM, Boontheung P, Bundy JL, Cargile BJ, Cole S, Fang X, Gonzalez-Begne M, Griffin TJ, Hagen F, Hu S, Wolinsky LE, Lee CS, Malamud D, et al. Systematic comparison of the human saliva and plasma proteomes. Proteomics. Clinical Applications. 3: 116-134. PMID 19898684 DOI: 10.1002/Prca.200800140 |
0.433 |
|
| 2009 |
Bandhakavi S, Stone MD, Onsongo G, Van Riper SK, Griffin TJ. A dynamic range compression and three-dimensional peptide fractionation analysis platform expands proteome coverage and the diagnostic potential of whole saliva. Journal of Proteome Research. 8: 5590-600. PMID 19813771 DOI: 10.1021/Pr900675W |
0.812 |
|
| 2009 |
Yoder AR, Stone MD, Griffin T, Potter LR. Determination of new phosphorylation sites within natriuretic peptide receptors using mass spectrometric methods Bmc Pharmacology. 9. DOI: 10.1186/1471-2210-9-S1-P75 |
0.325 |
|
| 2008 |
Jayapal KP, Philp RJ, Kok YJ, Yap MG, Sherman DH, Griffin TJ, Hu WS. Uncovering genes with divergent mRNA-protein dynamics in Streptomyces coelicolor. Plos One. 3: e2097. PMID 18461186 DOI: 10.1371/Journal.Pone.0002097 |
0.425 |
|
| 2008 |
Grimsrud PA, Xie H, Griffin TJ, Bernlohr DA. Oxidative stress and covalent modification of protein with bioactive aldehydes. The Journal of Biological Chemistry. 283: 21837-41. PMID 18445586 DOI: 10.1074/Jbc.R700019200 |
0.312 |
|
| 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 |
0.824 |
|
| 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 |
0.765 |
|
| 2007 |
Aebersold R, Griffin TJ, Donohoe S. Isotope-coded affinity tagging of proteins. Csh Protocols. 2007: pdb.prot4728. PMID 21357116 DOI: 10.1101/Pdb.Prot4728 |
0.588 |
|
| 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 |
0.719 |
|
| 2007 |
Griffin TJ, Seth G, Xie H, Bandhakavi S, Hu WS. Advancing mammalian cell culture engineering using genome-scale technologies. Trends in Biotechnology. 25: 401-8. PMID 17681628 DOI: 10.1016/J.Tibtech.2007.07.004 |
0.3 |
|
| 2007 |
Roe MR, Xie H, Bandhakavi S, Griffin TJ. Proteomic mapping of 4-hydroxynonenal protein modification sites by solid-phase hydrazide chemistry and mass spectrometry. Analytical Chemistry. 79: 3747-56. PMID 17437329 DOI: 10.1021/Ac0617971 |
0.796 |
|
| 2007 |
Xie H, Bandhakavi S, Roe MR, Griffin TJ. Preparative peptide isoelectric focusing as a tool for improving the identification of lysine-acetylated peptides from complex mixtures. Journal of Proteome Research. 6: 2019-26. PMID 17397211 DOI: 10.1021/Pr060691J |
0.802 |
|
| 2007 |
Meany DL, Xie H, Thompson LV, Arriaga EA, Griffin TJ. Identification of carbonylated proteins from enriched rat skeletal muscle mitochondria using affinity chromatography-stable isotope labeling and tandem mass spectrometry. Proteomics. 7: 1150-63. PMID 17390297 DOI: 10.1002/Pmic.200600450 |
0.438 |
|
| 2006 |
Roe MR, Griffin TJ. Gel-free mass spectrometry-based high throughput proteomics: tools for studying biological response of proteins and proteomes. Proteomics. 6: 4678-87. PMID 16888762 DOI: 10.1002/Pmic.200500876 |
0.811 |
|
| 2006 |
Xie H, Griffin TJ. Trade-off between high sensitivity and increased potential for false positive peptide sequence matches using a two-dimensional linear ion trap for tandem mass spectrometry-based proteomics. Journal of Proteome Research. 5: 1003-9. PMID 16602709 DOI: 10.1021/Pr050472I |
0.432 |
|
| 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 |
0.747 |
|
| 2005 |
Xie H, Bandhakavi S, Griffin TJ. Evaluating preparative isoelectric focusing of complex peptide mixtures for tandem mass spectrometry-based proteomics: a case study in profiling chromatin-enriched subcellular fractions in Saccharomyces cerevisiae. Analytical Chemistry. 77: 3198-207. PMID 15889909 DOI: 10.1021/Ac0482256 |
0.471 |
|
| 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. |
0.641 |
|
| 2003 |
Griffin TJ, Lock CM, Li XJ, Patel A, Chervetsova I, Lee H, Wright ME, Ranish JA, Chen SS, Aebersold R. Abundance ratio-dependent proteomic analysis by mass spectrometry. Analytical Chemistry. 75: 867-74. PMID 12622378 DOI: 10.1021/Ac026127J |
0.708 |
|
| 2002 |
Gygi SP, Rist B, Griffin TJ, Eng J, Aebersold R. Proteome analysis of low-abundance proteins using multidimensional chromatography and isotope-coded affinity tags. Journal of Proteome Research. 1: 47-54. PMID 12643526 DOI: 10.1021/Pr015509N |
0.681 |
|
| 2002 |
Flory MR, Griffin TJ, Martin D, Aebersold R. Advances in quantitative proteomics using stable isotope tags. Trends in Biotechnology. 20: S23-9. PMID 12570156 DOI: 10.1016/S1471-1931(02)00203-3 |
0.543 |
|
| 2002 |
Lee H, Griffin TJ, Gygi SP, Rist B, Aebersold R. Development of a multiplexed microcapillary liquid chromatography system for high-throughput proteome analysis. Analytical Chemistry. 74: 4353-60. PMID 12236342 DOI: 10.1021/Ac025757I |
0.672 |
|
| 2002 |
Griffin TJ, Gygi SP, Ideker T, Rist B, Eng J, Hood L, Aebersold R. Complementary profiling of gene expression at the transcriptome and proteome levels in Saccharomyces cerevisiae. Molecular & Cellular Proteomics : McP. 1: 323-33. PMID 12096114 DOI: 10.1074/Mcp.M200001-Mcp200 |
0.578 |
|
| 2002 |
Griffin TJ, Lock CM, Li XJ, Patel A, Chervetsova I, Lee H, Wright ME, Ranish JA, Chen SS, Aebersold R. Abundance-dependent proteomic analysis by mass spectrometry Proceedings 50th Asms Conference On Mass Spectrometry and Allied Topics. 51. |
0.55 |
|
| 2002 |
Van Soest R, Varesio E, Braaf-Dragan I, Lee H, Griffin T, Aebersold R. Nano-LC MALDI-QTOF-MS for the analysis of complex ICAT labeled protein mixtures Proceedings 50th Asms Conference On Mass Spectrometry and Allied Topics. 289-290. |
0.311 |
|
| 2001 |
Griffin TJ, Goodlett DR, Aebersold R. Advances in proteome analysis by mass spectrometry. Current Opinion in Biotechnology. 12: 607-12. PMID 11849943 DOI: 10.1016/S0958-1669(01)00268-3 |
0.617 |
|
| 2001 |
Griffin TJ, Han DK, Gygi SP, Rist B, Lee H, Aebersold R, Parker KC. Toward a high-throughput approach to quantitative proteomic analysis: expression-dependent protein identification by mass spectrometry. Journal of the American Society For Mass Spectrometry. 12: 1238-46. PMID 11766750 DOI: 10.1016/S1044-0305(01)00316-6 |
0.696 |
|
| 2001 |
Griffin TJ, Aebersold R. Advances in proteome analysis by mass spectrometry. The Journal of Biological Chemistry. 276: 45497-500. PMID 11585843 DOI: 10.1074/Jbc.R100014200 |
0.554 |
|
| 2001 |
Griffin TJ, Gygi SP, Rist B, Aebersold R, Loboda A, Jilkine A, Ens W, Standing KG. Quantitative proteomic analysis using a MALDI quadrupole time-of-flight mass spectrometer. Analytical Chemistry. 73: 978-86. PMID 11289445 DOI: 10.1021/Ac001169Y |
0.69 |
|
| 2000 |
Griffin TJ, Smith LM. Genetic identification by mass spectrometric analysis of single-nucleotide polymorphisms: ternary encoding of genotypes. Analytical Chemistry. 72: 3298-302. PMID 10939403 DOI: 10.1021/Ac991390E |
0.457 |
|
| 2000 |
Griffin TJ, Smith LM. Single-nucleotide polymorphism analysis by MALDI-TOF mass spectrometry. Trends in Biotechnology. 18: 77-84. PMID 10652512 DOI: 10.1016/S0167-7799(99)01401-8 |
0.498 |
|
| 1999 |
Griffin TJ, Hall JG, Prudent JR, Smith LM. Direct genetic analysis by matrix-assisted laser desorption/ionization mass spectrometry. Proceedings of the National Academy of Sciences of the United States of America. 96: 6301-6. PMID 10339582 DOI: 10.1073/Pnas.96.11.6301 |
0.545 |
|
| 1998 |
Griffin TJ, Smith LM. An approach to predicting the stabilities of peptide nucleic acid:DNA duplexes. Analytical Biochemistry. 260: 56-63. PMID 9648653 DOI: 10.1006/Abio.1998.2686 |
0.44 |
|
| 1997 |
Griffin TJ, Tang W, Smith LM. Genetic analysis by peptide nucleic acid affinity MALDI-TOF mass spectrometry. Nature Biotechnology. 15: 1368-72. PMID 9415888 DOI: 10.1038/Nbt1297-1368 |
0.582 |
|
| Show low-probability matches. |
