| Year |
Citation |
Score |
| 2020 |
Uchiyama J, Ishihama Y, Imami K. Quantitative nascent proteome profiling by dual pulse labeling with O-propargyl-puromycin and stable isotope labeled amino acids. Journal of Biochemistry. PMID 32926143 DOI: 10.1093/Jb/Mvaa104 |
0.347 |
|
| 2020 |
Ogata K, Ishihama Y. Extending the Separation Space with Trapped Ion Mobility Spectrometry Improves the Accuracy of Isobaric Tag-Based Quantitation in Proteomic LC/MS/MS. Analytical Chemistry. 92: 8037-8040. PMID 32441512 DOI: 10.1021/Acs.Analchem.0C01695 |
0.321 |
|
| 2019 |
Masuda T, Sugiyama N, Tomita M, Ohtsuki S, Ishihama Y. Mass Spectrometry-compatible Subcellular Fractionation for Proteomics. Journal of Proteome Research. PMID 31599158 DOI: 10.1021/Acs.Jproteome.9B00347 |
0.413 |
|
| 2019 |
Sugiyama N, Imamura H, Ishihama Y. Large-scale Discovery of Substrates of the Human Kinome. Scientific Reports. 9: 10503. PMID 31324866 DOI: 10.1038/S41598-019-46385-4 |
0.328 |
|
| 2019 |
Iwasaki M, Tabata T, Kawahara Y, Ishihama Y, Nakagawa M. Removal of Interference MS/MS Spectra for Accurate Quantification in Isobaric Tag-Based Proteomics. Journal of Proteome Research. 18: 2535-2544. PMID 31039306 DOI: 10.1021/Acs.Jproteome.9B00078 |
0.384 |
|
| 2019 |
Shinkawa H, Kajikawa M, Nomura Y, Ogura M, Sawaragi Y, Yamano T, Nakagami H, Sugiyama N, Ishihama Y, Kanesaki Y, Yoshikawa H, Fukuzawa H. Algal Protein Kinase, Triacylglycerol Accumulation Regulator1, Modulates Cell Viability and Gametogenesis in Carbon/Nitrogen Imbalanced Conditions. Plant & Cell Physiology. PMID 30668822 DOI: 10.1093/Pcp/Pcz010 |
0.319 |
|
| 2019 |
Ishihama Y. Analytical Platforms for Mass Spectrometry-Based Proteomics Chromatography. 40: 89-97. DOI: 10.15583/Jpchrom.2019.023 |
0.322 |
|
| 2018 |
Moriya Y, Kawano S, Okuda S, Watanabe Y, Matsumoto M, Takami T, Kobayashi D, Yamanouchi Y, Araki N, Yoshizawa AC, Tabata T, Iwasaki M, Sugiyama N, Tanaka S, Goto S, ... Ishihama Y, et al. The jPOST environment: an integrated proteomics data repository and database. Nucleic Acids Research. PMID 30295851 DOI: 10.1093/Nar/Gky899 |
0.365 |
|
| 2018 |
Imami K, Milek M, Bogdanow B, Yasuda T, Kastelic N, Zauber H, Ishihama Y, Landthaler M, Selbach M. Phosphorylation of the Ribosomal Protein RPL12/uL11 Affects Translation during Mitosis. Molecular Cell. PMID 30220558 DOI: 10.1016/J.Molcel.2018.08.019 |
0.39 |
|
| 2018 |
Ogata K, Krokhin OV, Ishihama Y. Retention Order Reversal of Phosphorylated and Unphosphorylated Peptides in Reversed-Phase LC/MS. Analytical Sciences. 34: 1037-1041. PMID 30058604 DOI: 10.2116/Analsci.18Scp11 |
0.364 |
|
| 2018 |
Fustin JM, Kojima R, Itoh K, Chang HY, Shiqi Y, Zhuang B, Oji A, Gibo S, Narasimamurthy R, Virshup D, Kurosawa G, Doi M, Manabe I, Ishihama Y, Ikawa M, et al. Two transcripts regulated by m6A methylation code for two antagonistic kinases in the control of the circadian clock. Proceedings of the National Academy of Sciences of the United States of America. PMID 29784786 DOI: 10.1073/Pnas.1721371115 |
0.314 |
|
| 2018 |
Giese SH, Ishihama Y, Rappsilber J. Peptide Retention in Hydrophilic Strong Anion Exchange Chromatography is Driven by Charged and Aromatic Residues. Analytical Chemistry. PMID 29528219 DOI: 10.1021/Acs.Analchem.7B05157 |
0.304 |
|
| 2018 |
Murakami H, Horiba R, Iwata T, Miki Y, Uno B, Sakai T, Kaneko K, Ishihama Y, Teshima N, Esaka Y. Progress in a selective method for the determination of the acetaldehyde-derived DNA adducts by using HILIC-ESI-MS/MS. Talanta. 177: 12-17. PMID 29108566 DOI: 10.1016/J.Talanta.2017.09.055 |
0.327 |
|
| 2017 |
Tsai CF, Ku WC, Chen YJ, Ishihama Y. Absolute Phosphorylation Stoichiometry Analysis by Motif-Targeting Quantitative Mass Spectrometry. Methods in Molecular Biology (Clifton, N.J.). 1636: 313-325. PMID 28730488 DOI: 10.1007/978-1-4939-7154-1_20 |
0.372 |
|
| 2017 |
Imamura H, Wagih O, Niinae T, Sugiyama N, Beltrao P, Ishihama Y. Identifications of Putative PKA Substrates with Quantitative Phosphoproteomics and Primary-Sequence-Based Scoring. Journal of Proteome Research. PMID 28287266 DOI: 10.1021/Acs.Jproteome.7B00087 |
0.372 |
|
| 2017 |
Tsumagari K, Shirakabe K, Ogura M, Sato F, Ishihama Y, Sehara-Fujisawa A. Secretome analysis to elucidate metalloprotease-dependent ectodomain shedding of glycoproteins during neuronal differentiation. Genes to Cells : Devoted to Molecular & Cellular Mechanisms. PMID 28084684 DOI: 10.1111/Gtc.12466 |
0.332 |
|
| 2016 |
Urisman A, Levin RS, Gordan JD, Webber JT, Hernandez H, Ishihama Y, Shokat KM, Burlingame AL. An optimized chromatographic strategy for multiplexing in parallel reaction monitoring mass spectrometry: Insights from quantitation of activated kinases. Molecular & Cellular Proteomics : McP. PMID 27940637 DOI: 10.1074/Mcp.M116.058172 |
0.395 |
|
| 2016 |
Okuda S, Watanabe Y, Moriya Y, Kawano S, Yamamoto T, Matsumoto M, Takami T, Kobayashi D, Araki N, Yoshizawa AC, Tabata T, Sugiyama N, Goto S, Ishihama Y. jPOSTrepo: an international standard data repository for proteomes. Nucleic Acids Research. PMID 27899654 DOI: 10.1093/Nar/Gkw1080 |
0.324 |
|
| 2016 |
Suriyanarayanan T, Periasamy S, Lin MH, Ishihama Y, Swarup S. Flagellin FliC Phosphorylation Affects Type 2 Protease Secretion and Biofilm Dispersal in Pseudomonas aeruginosa PAO1. Plos One. 11: e0164155. PMID 27701473 DOI: 10.1371/Journal.Pone.0164155 |
0.315 |
|
| 2016 |
Miki T, Awa M, Nishikawa Y, Kiyonaka S, Wakabayashi M, Ishihama Y, Hamachi I. A conditional proteomics approach to identify proteins involved in zinc homeostasis. Nature Methods. PMID 27617391 DOI: 10.1038/Nmeth.3998 |
0.324 |
|
| 2016 |
Hirata H, Ku WC, Yip AK, Ursekar CP, Kawauchi K, Roy A, Guo AK, Vedula SR, Harada I, Chiam KH, Ishihama Y, Lim CT, Sawada Y, Sokabe M. MEKK1-dependent phosphorylation of calponin-3 tunes cell contractility. Journal of Cell Science. PMID 27528401 DOI: 10.1242/Jcs.189415 |
0.326 |
|
| 2016 |
Ohta S, Kimura M, Takagi S, Toramoto I, Ishihama Y. Identification of mitosis-specific phosphorylation in mitotic chromosome-associated proteins. Journal of Proteome Research. PMID 27504668 DOI: 10.1021/Acs.Jproteome.6B00512 |
0.331 |
|
| 2016 |
Adachi J, Hashiguchi K, Nagano M, Sato M, Sato A, Fukamizu K, Ishihama Y, Tomonaga T. Improved proteome and phosphoproteome analysis on a cation exchanger by a combined acid and salt gradient. Analytical Chemistry. PMID 27436111 DOI: 10.1021/Acs.Analchem.6B01232 |
0.336 |
|
| 2016 |
Sugiyama N, Ishihama Y. Large-scale profiling of protein kinases for cellular signaling studies by mass spectrometry and other techniques. Journal of Pharmaceutical and Biomedical Analysis. PMID 27301379 DOI: 10.1016/J.Jpba.2016.05.046 |
0.396 |
|
| 2016 |
Wagih O, Sugiyama N, Ishihama Y, Beltrao P. Uncovering Phosphorylation-Based Specificities through Functional Interaction Networks. Molecular & Cellular Proteomics : McP. 15: 236-45. PMID 26572964 DOI: 10.1074/Mcp.M115.052357 |
0.347 |
|
| 2016 |
Ishihama Y, Tsai C. Large-scale Determination of Phosphorylation Stoichiometries in Human Cells by Motif-targeting Quantitation Proteomics Seibutsu Butsuri. 56: 280-283. DOI: 10.2142/Biophys.56.280 |
0.316 |
|
| 2016 |
Nakao H, Ikeda K, Ishihama Y, Nakano M. Membrane-Spanning Sequences in Endoplasmic Reticulum Proteins Promote Phospholipid Flip-Flop Biophysical Journal. 110: 2689-2697. DOI: 10.1016/J.Bpj.2016.05.023 |
0.319 |
|
| 2016 |
Nakao H, Ikeda K, Ishihama Y, Nakano M. Flip-Flop Promotion by Membrane-Spanning Sequences in the ER Membrane Proteins Biophysical Journal. 110. DOI: 10.1016/J.Bpj.2015.11.3033 |
0.316 |
|
| 2015 |
Hu CW, Hsu CL, Wang YC, Ishihama Y, Ku WC, Huang HC, Juan HF. Temporal phosphoproteome dynamics induced by an ATP synthase inhibitor citreoviridin. Molecular & Cellular Proteomics : McP. PMID 26503892 DOI: 10.1074/Mcp.M115.051383 |
0.343 |
|
| 2015 |
Lin MH, Sugiyama N, Ishihama Y. Systematic profiling of the bacterial phosphoproteome reveals bacterium-specific features of phosphorylation. Science Signaling. 8: rs10. PMID 26373674 DOI: 10.1126/Scisignal.Aaa3117 |
0.333 |
|
| 2015 |
Piersma SR, Knol JC, de Reus I, Labots M, Sampadi BK, Pham TV, Ishihama Y, Verheul HM, Jimenez CR. Feasibility of label-free phosphoproteomics and application to base-line signaling of colorectal cancer cell lines. Journal of Proteomics. PMID 25841592 DOI: 10.1016/J.Jprot.2015.03.019 |
0.323 |
|
| 2015 |
Tsai CF, Wang YT, Yen HY, Tsou CC, Ku WC, Lin PY, Chen HY, Nesvizhskii AI, Ishihama Y, Chen YJ. Large-scale determination of absolute phosphorylation stoichiometries in human cells by motif-targeting quantitative proteomics. Nature Communications. 6: 6622. PMID 25814448 DOI: 10.1038/Ncomms7622 |
0.353 |
|
| 2015 |
Masuda K, Chiyoda T, Sugiyama N, Segura-Cabrera A, Kabe Y, Ueki A, Banno K, Banno K, Suematsu M, Aoki D, Ishihama Y, Saya H, Kuninaka S. LATS1 and LATS2 phosphorylate CDC26 to modulate assembly of the tetratricopeptide repeat subcomplex of APC/C. Plos One. 10: e0118662. PMID 25723520 DOI: 10.1371/Journal.Pone.0118662 |
0.31 |
|
| 2015 |
Iwano S, Satou A, Matsumura S, Sugiyama N, Ishihama Y, Toyoshima F. PCTK1 regulates integrin-dependent spindle orientation via protein kinase A regulatory subunit KAP0 and myosin X. Molecular and Cellular Biology. 35: 1197-208. PMID 25605337 DOI: 10.1128/Mcb.01017-14 |
0.301 |
|
| 2015 |
Wakabayashi M, Kyono Y, Sugiyama N, Ishihama Y. Extended Coverage of Singly and Multiply Phosphorylated Peptides from a Single Titanium Dioxide Microcolumn Analytical Chemistry. 87: 10213-10221. DOI: 10.1021/Acs.Analchem.5B01216 |
0.365 |
|
| 2014 |
Imamura H, Sugiyama N, Wakabayashi M, Ishihama Y. Large-scale identification of phosphorylation sites for profiling protein kinase selectivity. Journal of Proteome Research. 13: 3410-9. PMID 24869485 DOI: 10.1021/Pr500319Y |
0.366 |
|
| 2014 |
Murakami H, Kawamura R, Sakakibara T, Esaka Y, Ishihama Y, Uno B. Facile and effective pretreatment using stop and go extraction tips for LC-MS/MS analysis of trace amounts of DNA adducts. Analytical Sciences : the International Journal of the Japan Society For Analytical Chemistry. 30: 519-22. PMID 24717664 DOI: 10.2116/Analsci.30.519 |
0.305 |
|
| 2014 |
Ishihama Y, Imami K. [Quantitation of cellular phosphorylation dynamics by phosphoproteomics approaches]. Yakugaku Zasshi : Journal of the Pharmaceutical Society of Japan. 134: 521-7. PMID 24694813 DOI: 10.1248/Yakushi.13-00251-4 |
0.364 |
|
| 2014 |
Kume H, Muraoka S, Kuga T, Adachi J, Narumi R, Watanabe S, Kuwano M, Kodera Y, Matsushita K, Fukuoka J, Masuda T, Ishihama Y, Matsubara H, Nomura F, Tomonaga T. Discovery of colorectal cancer biomarker candidates by membrane proteomic analysis and subsequent verification using selected reaction monitoring (SRM) and tissue microarray (TMA) analysis. Molecular & Cellular Proteomics : McP. 13: 1471-84. PMID 24687888 DOI: 10.1074/Mcp.M113.037093 |
0.317 |
|
| 2014 |
Horie K, Kamakura T, Ikegami T, Wakabayashi M, Kato T, Tanaka N, Ishihama Y. Hydrophilic interaction chromatography using a meter-scale monolithic silica capillary column for proteomics LC-MS. Analytical Chemistry. 86: 3817-24. PMID 24666247 DOI: 10.1021/Ac4038625 |
0.366 |
|
| 2014 |
Wakabayashi M, Yoshihara H, Masuda T, Tsukahara M, Sugiyama N, Ishihama Y. Phosphoproteome analysis of formalin-fixed and paraffin-embedded tissue sections mounted on microscope slides. Journal of Proteome Research. 13: 915-24. PMID 24328109 DOI: 10.1021/Pr400960R |
0.319 |
|
| 2014 |
Zhou Y, Tanaka T, Sugiyama N, Yokoyama S, Kawasaki Y, Sakuma T, Ishihama Y, Saiki I, Sakurai H. p38-Mediated phosphorylation of Eps15 endocytic adaptor protein. Febs Letters. 588: 131-7. PMID 24269888 DOI: 10.1016/J.Febslet.2013.11.020 |
0.32 |
|
| 2014 |
Ikawa K, Satou A, Fukuhara M, Matsumura S, Sugiyama N, Goto H, Fukuda M, Inagaki M, Ishihama Y, Toyoshima F. Inhibition of endocytic vesicle fusion by Plk1-mediated phosphorylation of vimentin during mitosis. Cell Cycle (Georgetown, Tex.). 13: 126-37. PMID 24196446 DOI: 10.4161/Cc.26866 |
0.306 |
|
| 2013 |
Umezawa T, Sugiyama N, Takahashi F, Anderson JC, Ishihama Y, Peck SC, Shinozaki K. Genetics and phosphoproteomics reveal a protein phosphorylation network in the abscisic acid signaling pathway in Arabidopsis thaliana. Science Signaling. 6: rs8. PMID 23572148 DOI: 10.1126/Scisignal.2003509 |
0.364 |
|
| 2013 |
Yamana R, Iwasaki M, Wakabayashi M, Nakagawa M, Yamanaka S, Ishihama Y. Rapid and deep profiling of human induced pluripotent stem cell proteome by one-shot NanoLC-MS/MS analysis with meter-scale monolithic silica columns. Journal of Proteome Research. 12: 214-21. PMID 23210603 DOI: 10.1021/Pr300837U |
0.402 |
|
| 2013 |
Muraoka S, Kume H, Adachi J, Shiromizu T, Watanabe S, Masuda T, Ishihama Y, Tomonaga T. In-depth membrane proteomic study of breast cancer tissues for the generation of a chromosome-based protein list. Journal of Proteome Research. 12: 208-13. PMID 23153008 DOI: 10.1021/Pr300824M |
0.327 |
|
| 2012 |
Imami K, Sugiyama N, Imamura H, Wakabayashi M, Tomita M, Taniguchi M, Ueno T, Toi M, Ishihama Y. Temporal profiling of lapatinib-suppressed phosphorylation signals in EGFR/HER2 pathways. Molecular & Cellular Proteomics : McP. 11: 1741-57. PMID 22964224 DOI: 10.1074/Mcp.M112.019919 |
0.333 |
|
| 2012 |
Helmy M, Sugiyama N, Tomita M, Ishihama Y. Mass spectrum sequential subtraction speeds up searching large peptide MS/MS spectra datasets against large nucleotide databases for proteogenomics. Genes to Cells : Devoted to Molecular & Cellular Mechanisms. 17: 633-44. PMID 22686349 DOI: 10.1111/J.1365-2443.2012.01615.X |
0.345 |
|
| 2012 |
Imamura H, Wakabayashi M, Ishihama Y. Analytical strategies for shotgun phosphoproteomics: status and prospects. Seminars in Cell & Developmental Biology. 23: 836-42. PMID 22683501 DOI: 10.1016/J.Semcdb.2012.05.007 |
0.396 |
|
| 2012 |
Chiyoda T, Sugiyama N, Shimizu T, Naoe H, Kobayashi Y, Ishizawa J, Arima Y, Tsuda H, Ito M, Kaibuchi K, Aoki D, Ishihama Y, Saya H, Kuninaka S. LATS1/WARTS phosphorylates MYPT1 to counteract PLK1 and regulate mammalian mitotic progression. The Journal of Cell Biology. 197: 625-41. PMID 22641346 DOI: 10.1083/Jcb.201110110 |
0.314 |
|
| 2012 |
Helmy M, Sugiyama N, Tomita M, Ishihama Y. The Rice Proteogenomics Database OryzaPG-DB: Development, Expansion, and New Features. Frontiers in Plant Science. 3: 65. PMID 22639657 DOI: 10.3389/Fpls.2012.00065 |
0.339 |
|
| 2012 |
Takahata Y, Inoue M, Kim K, Iio Y, Miyamoto M, Masui R, Ishihama Y, Kuramitsu S. Close proximity of phosphorylation sites to ligand in the phosphoproteome of the extreme thermophile Thermus thermophilus HB8. Proteomics. 12: 1414-30. PMID 22589190 DOI: 10.1002/Pmic.201100573 |
0.329 |
|
| 2012 |
Horie K, Sato Y, Kimura T, Nakamura T, Ishihama Y, Oda Y, Ikegami T, Tanaka N. Estimation and optimization of the peak capacity of one-dimensional gradient high performance liquid chromatography using a long monolithic silica capillary column. Journal of Chromatography. A. 1228: 283-91. PMID 22265351 DOI: 10.1016/J.Chroma.2011.12.088 |
0.339 |
|
| 2012 |
Iwasaki M, Sugiyama N, Tanaka N, Ishihama Y. Human proteome analysis by using reversed phase monolithic silica capillary columns with enhanced sensitivity. Journal of Chromatography. A. 1228: 292-7. PMID 22078304 DOI: 10.1016/J.Chroma.2011.10.059 |
0.381 |
|
| 2012 |
Kitagawa D, Gouda M, Kirii Y, Sugiyama N, Ishihama Y, Fujii I, Narumi Y, Akita K, Yokota K. Characterization of kinase inhibitors using different phosphorylation states of colony stimulating factor-1 receptor tyrosine kinase. Journal of Biochemistry. 151: 47-55. PMID 21880693 DOI: 10.1093/Jb/Mvr112 |
0.308 |
|
| 2011 |
Masuda T, Sugiyama N, Tomita M, Ishihama Y. Microscale phosphoproteome analysis of 10,000 cells from human cancer cell lines. Analytical Chemistry. 83: 7698-703. PMID 21888424 DOI: 10.1021/Ac201093G |
0.385 |
|
| 2011 |
Helmy M, Tomita M, Ishihama Y. OryzaPG-DB: rice proteome database based on shotgun proteogenomics. Bmc Plant Biology. 11: 63. PMID 21486466 DOI: 10.1186/1471-2229-11-63 |
0.302 |
|
| 2011 |
Yachie N, Saito R, Sugiyama N, Tomita M, Ishihama Y. Integrative features of the yeast phosphoproteome and protein-protein interaction map. Plos Computational Biology. 7: e1001064. PMID 21298081 DOI: 10.1371/Journal.Pcbi.1001064 |
0.396 |
|
| 2010 |
Ujihara S, Oishi T, Mouri R, Tamate R, Konoki K, Matsumori N, Murata M, Oshima Y, Sugiyama N, Tomita M, Ishihama Y. Detection of Rap1A as a yessotoxin binding protein from blood cell membranes. Bioorganic & Medicinal Chemistry Letters. 20: 6443-6. PMID 20943388 DOI: 10.1016/J.Bmcl.2010.09.080 |
0.334 |
|
| 2010 |
Kyono Y, Sugiyama N, Tomita M, Ishihama Y. Chemical dephosphorylation for identification of multiply phosphorylated peptides and phosphorylation site determination. Rapid Communications in Mass Spectrometry : Rcm. 24: 2277-82. PMID 20623713 DOI: 10.1002/Rcm.4627 |
0.389 |
|
| 2010 |
Nakagami H, Sugiyama N, Mochida K, Daudi A, Yoshida Y, Toyoda T, Tomita M, Ishihama Y, Shirasu K. Large-scale comparative phosphoproteomics identifies conserved phosphorylation sites in plants. Plant Physiology. 153: 1161-74. PMID 20466843 DOI: 10.1104/Pp.110.157347 |
0.346 |
|
| 2010 |
Imamura H, Yachie N, Saito R, Ishihama Y, Tomita M. Towards the systematic discovery of signal transduction networks using phosphorylation dynamics data. Bmc Bioinformatics. 11: 232. PMID 20459641 DOI: 10.1186/1471-2105-11-232 |
0.336 |
|
| 2010 |
Iwasaki M, Miwa S, Ikegami T, Tomita M, Tanaka N, Ishihama Y. One-dimensional capillary liquid chromatographic separation coupled with tandem mass spectrometry unveils the Escherichia coli proteome on a microarray scale. Analytical Chemistry. 82: 2616-20. PMID 20222674 DOI: 10.1021/Ac100343Q |
0.372 |
|
| 2010 |
Imami K, Sugiyama N, Tomita M, Ishihama Y. Quantitative proteome and phosphoproteome analyses of cultured cells based on SILAC labeling without requirement of serum dialysis. Molecular Biosystems. 6: 594-602. PMID 20174688 DOI: 10.1039/B921379A |
0.323 |
|
| 2010 |
Shinoda K, Tomita M, Ishihama Y. emPAI Calc--for the estimation of protein abundance from large-scale identification data by liquid chromatography-tandem mass spectrometry. Bioinformatics (Oxford, England). 26: 576-7. PMID 20031975 DOI: 10.1093/Bioinformatics/Btp700 |
0.343 |
|
| 2010 |
Imami K, Tomita M, Ishihama Y. Development of Dual Stable Isotope Labeling by Amino Acids in Cell Culture and Application to Quantitative Proteomics Journal of the Mass Spectrometry Society of Japan. 58: 81-87. DOI: 10.5702/Massspec.58.81 |
0.319 |
|
| 2010 |
Kyono Y, Sugiyama N, Imami K, Miyazaki S, Ohira M, Tomita M, Ishihama Y. Development of Titania Particles Used for Phosphopeptide Enrichment in Mass Spectrometry-Based Phosphoproteomics Journal of the Mass Spectrometry Society of Japan. 58: 129-138. DOI: 10.5702/Massspec.58.129 |
0.33 |
|
| 2009 |
Umezawa T, Sugiyama N, Mizoguchi M, Hayashi S, Myouga F, Yamaguchi-Shinozaki K, Ishihama Y, Hirayama T, Shinozaki K. Type 2C protein phosphatases directly regulate abscisic acid-activated protein kinases in Arabidopsis. Proceedings of the National Academy of Sciences of the United States of America. 106: 17588-93. PMID 19805022 DOI: 10.1073/Pnas.0907095106 |
0.33 |
|
| 2009 |
Masuda T, Saito N, Tomita M, Ishihama Y. Unbiased quantitation of Escherichia coli membrane proteome using phase transfer surfactants. Molecular & Cellular Proteomics : McP. 8: 2770-7. PMID 19767571 DOI: 10.1074/Mcp.M900240-Mcp200 |
0.362 |
|
| 2009 |
Ravichandran A, Sugiyama N, Tomita M, Swarup S, Ishihama Y. Ser/Thr/Tyr phosphoproteome analysis of pathogenic and non-pathogenic Pseudomonas species. Proteomics. 9: 2764-75. PMID 19405024 DOI: 10.1002/Pmic.200800655 |
0.389 |
|
| 2009 |
Iwasaki M, Masuda T, Tomita M, Ishihama Y. Chemical cleavage-assisted tryptic digestion for membrane proteome analysis. Journal of Proteome Research. 8: 3169-75. PMID 19348461 DOI: 10.1021/Pr900074N |
0.347 |
|
| 2009 |
Yachie N, Saito R, Sugahara J, Tomita M, Ishihama Y. In silico analysis of phosphoproteome data suggests a rich-get-richer process of phosphosite accumulation over evolution. Molecular & Cellular Proteomics : McP. 8: 1061-71. PMID 19136663 DOI: 10.1074/Mcp.M800466-Mcp200 |
0.389 |
|
| 2009 |
Masuda T, Ishihama Y. Sample Preparation Methods for Large-Scale Analysis of Membrane Proteins Using Shotgun Proteomics Journal of the Mass Spectrometry Society of Japan. 57: 145-151. DOI: 10.5702/Massspec.57.145 |
0.363 |
|
| 2008 |
Kyono Y, Sugiyama N, Imami K, Tomita M, Ishihama Y. Successive and selective release of phosphorylated peptides captured by hydroxy acid-modified metal oxide chromatography. Journal of Proteome Research. 7: 4585-93. PMID 18767875 DOI: 10.1021/Pr800305Y |
0.312 |
|
| 2008 |
Shinoda K, Tomita M, Ishihama Y. Aligning LC peaks by converting gradient retention times to retention index of peptides in proteomic experiments. Bioinformatics (Oxford, England). 24: 1590-5. PMID 18492686 DOI: 10.1093/Bioinformatics/Btn240 |
0.357 |
|
| 2008 |
Imami K, Ishihama Y, Terabe S. On-line selective enrichment and ion-pair reaction for structural determination of sulfated glycopeptides by capillary electrophoresis-mass spectrometry. Journal of Chromatography. A. 1194: 237-42. PMID 18466910 DOI: 10.1016/J.Chroma.2008.04.050 |
0.311 |
|
| 2008 |
Sugiyama N, Nakagami H, Mochida K, Daudi A, Tomita M, Shirasu K, Ishihama Y. Large-scale phosphorylation mapping reveals the extent of tyrosine phosphorylation in Arabidopsis. Molecular Systems Biology. 4: 193. PMID 18463617 DOI: 10.1038/Msb.2008.32 |
0.369 |
|
| 2008 |
Ishihama Y, Schmidt T, Rappsilber J, Mann M, Hartl FU, Kerner MJ, Frishman D. Protein abundance profiling of the Escherichia coli cytosol. Bmc Genomics. 9: 102. PMID 18304323 DOI: 10.1186/1471-2164-9-102 |
0.311 |
|
| 2008 |
Shinoda K, Sugimoto M, Tomita M, Ishihama Y. Informatics for peptide retention properties in proteomic LC-MS. Proteomics. 8: 787-98. PMID 18214845 DOI: 10.1002/Pmic.200700692 |
0.336 |
|
| 2008 |
Imami K, Sugiyama N, Kyono Y, Tomita M, Ishihama Y. Automated phosphoproteome analysis for cultured cancer cells by two-dimensional nanoLC-MS using a calcined titania/C18 biphasic column. Analytical Sciences : the International Journal of the Japan Society For Analytical Chemistry. 24: 161-6. PMID 18187866 DOI: 10.2116/Analsci.24.161 |
0.356 |
|
| 2008 |
Masuda T, Tomita M, Ishihama Y. Phase transfer surfactant-aided trypsin digestion for membrane proteome analysis. Journal of Proteome Research. 7: 731-40. PMID 18183947 DOI: 10.1021/Pr700658Q |
0.362 |
|
| 2007 |
Hashimoto M, Ishihama Y, Tomita M, Soga T. Microelectrospray interface with coaxial sheath flow for high-resolution capillary electrophoresis/mass spectrometry separation. Rapid Communications in Mass Spectrometry : Rcm. 21: 3579-84. PMID 17935119 DOI: 10.1002/Rcm.3256 |
0.303 |
|
| 2007 |
Rappsilber J, Mann M, Ishihama Y. Protocol for micro-purification, enrichment, pre-fractionation and storage of peptides for proteomics using StageTips. Nature Protocols. 2: 1896-906. PMID 17703201 DOI: 10.1038/Nprot.2007.261 |
0.365 |
|
| 2007 |
Kotake Y, Sagane K, Owa T, Mimori-Kiyosue Y, Shimizu H, Uesugi M, Ishihama Y, Iwata M, Mizui Y. Splicing factor SF3b as a target of the antitumor natural product pladienolide. Nature Chemical Biology. 3: 570-5. PMID 17643112 DOI: 10.1038/Nchembio.2007.16 |
0.312 |
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| 2007 |
Sato T, Ishihama Y, Oda Y. Quantitative proteomics of mouse brain and specific protein-interaction studies using stable isotope labeling. Methods in Molecular Biology (Clifton, N.J.). 359: 53-70. PMID 17484110 DOI: 10.1007/978-1-59745-255-7_4 |
0.394 |
|
| 2007 |
Imami K, Monton MR, Ishihama Y, Terabe S. Simple on-line sample preconcentration technique for peptides based on dynamic pH junction in capillary electrophoresis-mass spectrometry. Journal of Chromatography. A. 1148: 250-5. PMID 17382949 DOI: 10.1016/J.Chroma.2007.03.014 |
0.314 |
|
| 2007 |
Ishihama Y, Wei FY, Aoshima K, Sato T, Kuromitsu J, Oda Y. Enhancement of the efficiency of phosphoproteomic identification by removing phosphates after phosphopeptide enrichment. Journal of Proteome Research. 6: 1139-44. PMID 17330947 DOI: 10.1021/Pr060452W |
0.376 |
|
| 2007 |
Sugiyama N, Masuda T, Shinoda K, Nakamura A, Tomita M, Ishihama Y. Phosphopeptide enrichment by aliphatic hydroxy acid-modified metal oxide chromatography for nano-LC-MS/MS in proteomics applications. Molecular & Cellular Proteomics : McP. 6: 1103-9. PMID 17322306 DOI: 10.1074/Mcp.T600060-Mcp200 |
0.341 |
|
| 2007 |
Ishihama Y. Optimization of Nano-Liquid Chromatography Coupled with Mass Spectrometry Systems for Proteomics Journal of the Mass Spectrometry Society of Japan. 55: 157-164. DOI: 10.5702/Massspec.55.157 |
0.352 |
|
| 2006 |
Saito H, Oda Y, Sato T, Kuromitsu J, Ishihama Y. Multiplexed two-dimensional liquid chromatography for MALDI and nanoelectrospray ionization mass spectrometry in proteomics. Journal of Proteome Research. 5: 1803-7. PMID 16823989 DOI: 10.1021/Pr0601178 |
0.361 |
|
| 2006 |
Murata K, Mano N, Asakawa N, Ishihama Y. Simplified gradient generator for micro- and nano-liquid chromatography. Journal of Chromatography. A. 1123: 47-52. PMID 16714026 DOI: 10.1016/J.Chroma.2006.05.004 |
0.349 |
|
| 2006 |
Ishihama Y, Rappsilber J, Mann M. Modular stop and go extraction tips with stacked disks for parallel and multidimensional Peptide fractionation in proteomics. Journal of Proteome Research. 5: 988-94. PMID 16602707 DOI: 10.1021/Pr050385Q |
0.381 |
|
| 2005 |
Kokubu M, Ishihama Y, Sato T, Nagasu T, Oda Y. Specificity of immobilized metal affinity-based IMAC/C18 tip enrichment of phosphopeptides for protein phosphorylation analysis. Analytical Chemistry. 77: 5144-54. PMID 16097752 DOI: 10.1021/Ac050404F |
0.373 |
|
| 2005 |
Kerner MJ, Naylor DJ, Ishihama Y, Maier T, Chang HC, Stines AP, Georgopoulos C, Frishman D, Hayer-Hartl M, Mann M, Hartl FU. Proteome-wide analysis of chaperonin-dependent protein folding in Escherichia coli. Cell. 122: 209-20. PMID 16051146 DOI: 10.1016/J.Cell.2005.05.028 |
0.313 |
|
| 2005 |
Ishihama Y, Oda Y, Tabata T, Sato T, Nagasu T, Rappsilber J, Mann M. Exponentially modified protein abundance index (emPAI) for estimation of absolute protein amount in proteomics by the number of sequenced peptides per protein. Molecular & Cellular Proteomics : McP. 4: 1265-72. PMID 15958392 DOI: 10.1074/Mcp.M500061-Mcp200 |
0.38 |
|
| 2005 |
Ishihama Y. Proteomic LC-MS systems using nanoscale liquid chromatography with tandem mass spectrometry. Journal of Chromatography. A. 1067: 73-83. PMID 15844511 DOI: 10.1016/J.Chroma.2004.10.107 |
0.344 |
|
| 2004 |
Katayama H, Tabata T, Ishihama Y, Sato T, Oda Y, Nagasu T. Efficient in-gel digestion procedure using 5-cyclohexyl-1-pentyl-beta-D-maltoside as an additive for gel-based membrane proteomics. Rapid Communications in Mass Spectrometry : Rcm. 18: 2388-94. PMID 15386632 DOI: 10.1002/Rcm.1637 |
0.381 |
|
| 2003 |
Rappsilber J, Ishihama Y, Mann M. Stop and go extraction tips for matrix-assisted laser desorption/ionization, nanoelectrospray, and LC/MS sample pretreatment in proteomics. Analytical Chemistry. 75: 663-70. PMID 12585499 DOI: 10.1021/Ac026117I |
0.316 |
|
| 2002 |
Lasonder E, Ishihama Y, Andersen JS, Vermunt AMW, Pain A, Sauerwein RW, Eling WMC, Hall N, Waters AP, Stunnenberg HG, Mann M. Analysis of the Plasmodium falciparum proteome by high-accuracy mass spectrometry Nature. 419: 537-542. PMID 12368870 DOI: 10.1038/Nature01111 |
0.336 |
|
| 2002 |
Ishihama Y, Katayama H, Asakawa N, Oda Y. Highly robust stainless steel tips as microelectrospray emitters. Rapid Communications in Mass Spectrometry. 16: 913-918. PMID 11968120 DOI: 10.1002/Rcm.647 |
0.313 |
|
| 2000 |
Ishihama Y, Katayama H, Asakawa N. Surfactants Usable for Electrospray Ionization Mass Spectrometry Analytical Biochemistry. 287: 45-54. PMID 11078582 DOI: 10.1006/Abio.2000.4836 |
0.371 |
|
| 2000 |
Katayama H, Ishihama Y, Oda Y, Asakawa N. Electrophoretic mobility-assisted identification of proteins by nanoelectrospray capillary electrophoresis/mass spectrometry under methanolic conditions. Rapid Communications in Mass Spectrometry. 14: 1167-1178. PMID 10918364 DOI: 10.1002/1097-0231(20000730)14:14<1167::Aid-Rcm5>3.0.Co;2-R |
0.392 |
|
| 1998 |
Takenawa T, Oda Y, Ishihama Y, Iwakura M. Cyanocysteine-Mediated Molecular Dissection of Dihydrofolate Reductase: Occurrence of Intra- and Inter-Molecular Reactions Forming a Peptide Bond Journal of Biochemistry. 123: 1137-1144. PMID 9604003 DOI: 10.1093/Oxfordjournals.Jbchem.A022053 |
0.306 |
|
| 1997 |
Ishihama Y, Oda Y, Asakawa N, Iwakura M. Nano-Scale Monitoring of the Thermally-Induced Unfolding of Proteins Using Capillary Electrophoresis with In-Column Incubation Analytical Sciences. 13: 931-938. DOI: 10.2116/Analsci.13.931 |
0.312 |
|
| 1995 |
Mano N, Ishihama Y, Oda Y, Asakawa N. Relationship between the Association Constant and Enantioselectivity on the Flavoprotein-Conjugated Chiral Stationary Phase for High-Performance Liquid Chromatography Analytical Sciences. 11: 983-987. DOI: 10.2116/Analsci.11.983 |
0.301 |
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