메뉴 건너뛰기




Volumn 15, Issue 3, 2016, Pages 976-982

Quantitation and Identification of Thousands of Human Proteoforms below 30 kDa

Author keywords

cellular senescence; differential mass spectrometry; Fourier transform mass spectrometry; GELFrEE; label free; proteoform; quantitative proteomics; top down proteomics

Indexed keywords

CYSTATIN B; GUANINE NUCLEOTIDE BINDING PROTEIN; HISTONE H2A; HISTONE H3; HISTONE H4; MITOCHONDRIAL PROTEIN; PROTEOME; ISOPROTEIN;

EID: 84960424167     PISSN: 15353893     EISSN: 15353907     Source Type: Journal    
DOI: 10.1021/acs.jproteome.5b00997     Document Type: Article
Times cited : (88)

References (40)
  • 1
    • 35848967374 scopus 로고    scopus 로고
    • Top-down proteomics on a chromatographic time scale using linear ion trap Fourier transform hybrid mass spectrometers
    • Parks, B. A.; Jiang, L.; Thomas, P. M.; Wenger, C. D.; Roth, M. J.; Boyne, M. T., II; Burke, P. V.; Kwast, K. E.; Kelleher, N. L. Top-down proteomics on a chromatographic time scale using linear ion trap Fourier transform hybrid mass spectrometers Anal. Chem. 2007, 79, 7984-7991 10.1021/ac070553t
    • (2007) Anal. Chem. , vol.79 , pp. 7984-7991
    • Parks, B.A.1    Jiang, L.2    Thomas, P.M.3    Wenger, C.D.4    Roth, M.J.5    Boyne, M.T.I.I.6    Burke, P.V.7    Kwast, K.E.8    Kelleher, N.L.9
  • 4
    • 84864604524 scopus 로고    scopus 로고
    • Evaluation of the Compact High-Field Orbitrap for Top-Down Proteomics of Human Cells
    • Ahlf, D. R.; Compton, P. D.; Tran, J. C.; Early, B. P.; Thomas, P. M.; Kelleher, N. L. Evaluation of the Compact High-Field Orbitrap for Top-Down Proteomics of Human Cells J. Proteome Res. 2012, 11, 4308-4314 10.1021/pr3004216
    • (2012) J. Proteome Res. , vol.11 , pp. 4308-4314
    • Ahlf, D.R.1    Compton, P.D.2    Tran, J.C.3    Early, B.P.4    Thomas, P.M.5    Kelleher, N.L.6
  • 6
    • 84874625369 scopus 로고    scopus 로고
    • Proteoform: A single term describing protein complexity
    • Smith, L. M.; Kelleher, N. L.; Proteomics, C. T. D. et al. Proteoform: a single term describing protein complexity Nat. Methods 2013, 10, 186-187 10.1038/nmeth.2369
    • (2013) Nat. Methods , vol.10 , pp. 186-187
    • Smith, L.M.1    Kelleher, N.L.2    Proteomics, C.T.D.3
  • 8
    • 84893603010 scopus 로고    scopus 로고
    • A utopilot: An Online Data Acquisition Control System for the Enhanced High-Throughput Characterization of Intact Proteins
    • Durbin, K. R.; Fellers, R. T.; Ntai, L.; Kelleher, N. L.; Compton, P. D. A utopilot: An Online Data Acquisition Control System for the Enhanced High-Throughput Characterization of Intact Proteins Anal. Chem. 2014, 86, 1485-1492 10.1021/ac402904h
    • (2014) Anal. Chem. , vol.86 , pp. 1485-1492
    • Durbin, K.R.1    Fellers, R.T.2    Ntai, L.3    Kelleher, N.L.4    Compton, P.D.5
  • 9
    • 84861860481 scopus 로고    scopus 로고
    • Targeted Data Extraction of the MS/MS Spectra Generated by Data-independent Acquisition: A New Concept for Consistent and Accurate Proteome Analysis
    • Gillet, L. C.; Navarro, P.; Tate, S.; Roest, H.; Selevsek, N.; Reiter, L.; Bonner, R.; Aebersold, R. Targeted Data Extraction of the MS/MS Spectra Generated by Data-independent Acquisition: A New Concept for Consistent and Accurate Proteome Analysis Mol. Cell. Proteomics 2012, 11, O111.016717 10.1074/mcp.O111.016717
    • (2012) Mol. Cell. Proteomics , vol.11 , pp. O111016717
    • Gillet, L.C.1    Navarro, P.2    Tate, S.3    Roest, H.4    Selevsek, N.5    Reiter, L.6    Bonner, R.7    Aebersold, R.8
  • 10
    • 84879391561 scopus 로고    scopus 로고
    • Improving Qualitative and Quantitative Performance for MSE-based Label-free Proteomics
    • Bond, N. J.; Shliaha, P. V.; Lilley, K. S.; Gatto, L. Improving Qualitative and Quantitative Performance for MSE-based Label-free Proteomics J. Proteome Res. 2013, 12, 2340-2353 10.1021/pr300776t
    • (2013) J. Proteome Res. , vol.12 , pp. 2340-2353
    • Bond, N.J.1    Shliaha, P.V.2    Lilley, K.S.3    Gatto, L.4
  • 11
    • 56149086397 scopus 로고    scopus 로고
    • Decision tree-driven tandem mass spectrometry for shotgun proteomics
    • Swaney, D. L.; McAlister, G. C.; Coon, J. J. Decision tree-driven tandem mass spectrometry for shotgun proteomics Nat. Methods 2008, 5, 959-964 10.1038/nmeth.1260
    • (2008) Nat. Methods , vol.5 , pp. 959-964
    • Swaney, D.L.1    McAlister, G.C.2    Coon, J.J.3
  • 12
    • 0036748309 scopus 로고    scopus 로고
    • Fourier-transform mass spectrometry for automated fragmentation and identification of 5-20 kDa proteins in mixtures
    • Johnson, J. R.; Meng, F. Y.; Forbes, A. J.; Cargile, B. J.; Kelleher, N. L. Fourier-transform mass spectrometry for automated fragmentation and identification of 5-20 kDa proteins in mixtures Electrophoresis 2002, 23, 3217-3223 10.1002/1522-2683(200209)23:18<3217::AID-ELPS3217>3.0.CO;2-K
    • (2002) Electrophoresis , vol.23 , pp. 3217-3223
    • Johnson, J.R.1    Meng, F.Y.2    Forbes, A.J.3    Cargile, B.J.4    Kelleher, N.L.5
  • 13
    • 84859393607 scopus 로고    scopus 로고
    • Comprehensive Analysis of Protein Modifications by Top-Down Mass Spectrometry
    • Zhang, H.; Ge, Y. Comprehensive Analysis of Protein Modifications by Top-Down Mass Spectrometry Circ.: Cardiovasc. Genet. 2011, 4, 711 10.1161/CIRCGENETICS.110.957829
    • (2011) Circ.: Cardiovasc. Genet. , vol.4 , pp. 711
    • Zhang, H.1    Ge, Y.2
  • 14
    • 77952366352 scopus 로고    scopus 로고
    • Quantitative analysis of intact apolipoproteins in human HDL by top-down differential mass spectrometry
    • Mazur, M. T.; Cardasis, H. L.; Spellman, D. S.; Liaw, A.; Yates, N. A.; Hendrickson, R. C. Quantitative analysis of intact apolipoproteins in human HDL by top-down differential mass spectrometry Proc. Natl. Acad. Sci. U. S. A. 2010, 107, 7728-7733 10.1073/pnas.0910776107
    • (2010) Proc. Natl. Acad. Sci. U. S. A. , vol.107 , pp. 7728-7733
    • Mazur, M.T.1    Cardasis, H.L.2    Spellman, D.S.3    Liaw, A.4    Yates, N.A.5    Hendrickson, R.C.6
  • 20
    • 0030944985 scopus 로고    scopus 로고
    • Oncogenic ras provokes premature cell senescence associated with accumulation of p53 and p16(INK4a)
    • Serrano, M.; Lin, A. W.; McCurrach, M. E.; Beach, D.; Lowe, S. W. Oncogenic ras provokes premature cell senescence associated with accumulation of p53 and p16(INK4a) Cell 1997, 88, 593-602 10.1016/S0092-8674(00)81902-9
    • (1997) Cell , vol.88 , pp. 593-602
    • Serrano, M.1    Lin, A.W.2    McCurrach, M.E.3    Beach, D.4    Lowe, S.W.5
  • 21
    • 0030964277 scopus 로고    scopus 로고
    • The biology of replicative senescence
    • Campisi, J. The biology of replicative senescence Eur. J. Cancer 1997, 33, 703-709 10.1016/S0959-8049(96)00058-5
    • (1997) Eur. J. Cancer , vol.33 , pp. 703-709
    • Campisi, J.1
  • 22
    • 77955525325 scopus 로고    scopus 로고
    • Ink4a/Arf and Oncogene-Induced Senescence Prevent Tumor Progression during Alternative Colorectal Tumorigenesis
    • Bennecke, M.; Kriegl, L.; Bajbouj, M.; Retzlaff, K.; Robine, S.; Jung, A.; Arkan, M. C.; Kirchner, T.; Greten, F. R. Ink4a/Arf and Oncogene-Induced Senescence Prevent Tumor Progression during Alternative Colorectal Tumorigenesis Cancer Cell 2010, 18, 135-146 10.1016/j.ccr.2010.06.013
    • (2010) Cancer Cell , vol.18 , pp. 135-146
    • Bennecke, M.1    Kriegl, L.2    Bajbouj, M.3    Retzlaff, K.4    Robine, S.5    Jung, A.6    Arkan, M.C.7    Kirchner, T.8    Greten, F.R.9
  • 24
    • 84883284389 scopus 로고    scopus 로고
    • Oncogene-induced cellular senescence elicits an anti-Warburg effect
    • Li, M.; Durbin, K. R.; Sweet, S. M.; Tipton, J. D.; Zheng, Y.; Kelleher, N. L. Oncogene-induced cellular senescence elicits an anti-Warburg effect Proteomics 2013, 13, 2585-2596 10.1002/pmic.201200298
    • (2013) Proteomics , vol.13 , pp. 2585-2596
    • Li, M.1    Durbin, K.R.2    Sweet, S.M.3    Tipton, J.D.4    Zheng, Y.5    Kelleher, N.L.6
  • 25
    • 79959854185 scopus 로고    scopus 로고
    • Transcriptional regulation of cellular senescence
    • Lanigan, F.; Geraghty, J. G.; Bracken, A. P. Transcriptional regulation of cellular senescence Oncogene 2011, 30, 2901-2911 10.1038/onc.2011.34
    • (2011) Oncogene , vol.30 , pp. 2901-2911
    • Lanigan, F.1    Geraghty, J.G.2    Bracken, A.P.3
  • 26
    • 42949129074 scopus 로고    scopus 로고
    • Many roads lead to oncogene-induced senescence
    • Courtois-Cox, S.; Jones, S. L.; Cichowski, K. Many roads lead to oncogene-induced senescence Oncogene 2008, 27, 2801-2809 10.1038/sj.onc.1210950
    • (2008) Oncogene , vol.27 , pp. 2801-2809
    • Courtois-Cox, S.1    Jones, S.L.2    Cichowski, K.3
  • 29
    • 74949127989 scopus 로고    scopus 로고
    • Protocols to detect senescence-associated beta-galactosidase (SA-beta gal) activity, a biomarker of senescent cells in culture and in vivo
    • Debacq-Chainiaux, F.; Erusalimsky, J. D.; Campisi, J.; Toussaint, O. Protocols to detect senescence-associated beta-galactosidase (SA-beta gal) activity, a biomarker of senescent cells in culture and in vivo Nat. Protoc. 2009, 4, 1798-1806 10.1038/nprot.2009.191
    • (2009) Nat. Protoc. , vol.4 , pp. 1798-1806
    • Debacq-Chainiaux, F.1    Erusalimsky, J.D.2    Campisi, J.3    Toussaint, O.4
  • 31
    • 0029927505 scopus 로고    scopus 로고
    • Mass spectrometric sequencing of proteins from silver stained polyacrylamide gels
    • Shevchenko, A.; Wilm, M.; Vorm, O.; Mann, M. Mass spectrometric sequencing of proteins from silver stained polyacrylamide gels Anal. Chem. 1996, 68, 850-858 10.1021/ac950914h
    • (1996) Anal. Chem. , vol.68 , pp. 850-858
    • Shevchenko, A.1    Wilm, M.2    Vorm, O.3    Mann, M.4
  • 32
    • 0021355340 scopus 로고
    • A method for the quantitative recovery of proteins in dilute-solution in the presence of detergents and lipids
    • Wessel, D.; Flugge, U. I. A method for the quantitative recovery of proteins in dilute-solution in the presence of detergents and lipids Anal. Biochem. 1984, 138, 141-143 10.1016/0003-2697(84)90782-6
    • (1984) Anal. Biochem. , vol.138 , pp. 141-143
    • Wessel, D.1    Flugge, U.I.2
  • 35
    • 38549116786 scopus 로고    scopus 로고
    • Profiling influences of senescent and aged fibroblasts on prostate carcinogenesis
    • Dean, J. P.; Nelson, P. S. Profiling influences of senescent and aged fibroblasts on prostate carcinogenesis Br. J. Cancer 2008, 98, 245-249 10.1038/sj.bjc.6604087
    • (2008) Br. J. Cancer , vol.98 , pp. 245-249
    • Dean, J.P.1    Nelson, P.S.2
  • 37
    • 33746752125 scopus 로고    scopus 로고
    • A novel role for high-mobility group a proteins in cellular senescence and heterochromatin formation
    • Narita, M.; Narita, M.; Krizhanovsky, V.; Nunez, S.; Chicas, A.; Hearn, S. A.; Myers, M. P.; Lowe, S. W. A novel role for high-mobility group a proteins in cellular senescence and heterochromatin formation Cell 2006, 126, 503-514 10.1016/j.cell.2006.05.052
    • (2006) Cell , vol.126 , pp. 503-514
    • Narita, M.1    Narita, M.2    Krizhanovsky, V.3    Nunez, S.4    Chicas, A.5    Hearn, S.A.6    Myers, M.P.7    Lowe, S.W.8
  • 38
    • 41149161152 scopus 로고    scopus 로고
    • Gel-eluted liquid fraction entrapment electrophoresis: An electrophoretic method for broad molecular weight range proteome separation
    • Tran, J. C.; Doucette, A. A. Gel-eluted liquid fraction entrapment electrophoresis: An electrophoretic method for broad molecular weight range proteome separation Anal. Chem. 2008, 80, 1568-1573 10.1021/ac702197w
    • (2008) Anal. Chem. , vol.80 , pp. 1568-1573
    • Tran, J.C.1    Doucette, A.A.2
  • 40
    • 84928955720 scopus 로고    scopus 로고
    • Analyzing internal fragmentation of electrosprayed ubiquitin ions during beam-type collisional dissociation
    • Durbin, K. R.; Skinner, O. S.; Fellers, R. T.; Kelleher, N. K. Analyzing internal fragmentation of electrosprayed ubiquitin ions during beam-type collisional dissociation J. Am. Soc. Mass Spectrom. 2015, 26, 782-787
    • (2015) J. Am. Soc. Mass Spectrom. , vol.26 , pp. 782-787
    • Durbin, K.R.1    Skinner, O.S.2    Fellers, R.T.3    Kelleher, N.K.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.