共 17 条
Reanalysis of Tyrannosaurus rex Mass Spectra
被引:54
作者:

Bern, Marshall
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h-index: 0
机构:
Palo Alto Res Ctr, Palo Alto, CA 94304 USA Palo Alto Res Ctr, Palo Alto, CA 94304 USA

Phinney, Brett S.
论文数: 0 引用数: 0
h-index: 0
机构:
Univ Calif Davis, Genome Ctr, Davis, CA 95616 USA Palo Alto Res Ctr, Palo Alto, CA 94304 USA

Goldberg, David
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h-index: 0
机构:
Palo Alto Res Ctr, Palo Alto, CA 94304 USA Palo Alto Res Ctr, Palo Alto, CA 94304 USA
机构:
[1] Palo Alto Res Ctr, Palo Alto, CA 94304 USA
[2] Univ Calif Davis, Genome Ctr, Davis, CA 95616 USA
关键词:
dinosaur;
fossil;
collagen;
hemoglobin;
contamination;
PROTEIN IDENTIFICATION DATA;
DATABASE SEARCH;
SEQUENCES;
MASTODON;
D O I:
10.1021/pr900349r
中图分类号:
Q5 [生物化学];
学科分类号:
071010 ;
081704 ;
摘要:
Asara et al. reported the detection of collagen peptides in a 68-million-year-old Tyrannosaurus rex bone by shotgun proteomics. This finding has been called into question as a possible statistical artifact. We reanalyze Asara et al.'s tandem mass spectra using a different search engine and different statistical tools. Our reanalysis shows a sample containing common laboratory contaminants, soil bacteria, and bird-like hemoglobin and collagen.
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页码:4328 / 4332
页数:5
相关论文
共 17 条
[1]
Response to comment on "protein sequences from mastodon and Tyrannosaurus rex revealed by mass spectrometry"
[J].
Asara, John M.
;
Schweitzer, Mary H.
.
SCIENCE,
2008, 319 (5859)

Asara, John M.
论文数: 0 引用数: 0
h-index: 0
机构:
Beth Israel Deaconess Med Ctr, Div Signal Transduct, Boston, MA 02115 USA
Harvard Univ, Sch Med, Dept Pathol, Boston, MA 02115 USA Beth Israel Deaconess Med Ctr, Div Signal Transduct, Boston, MA 02115 USA

Schweitzer, Mary H.
论文数: 0 引用数: 0
h-index: 0
机构:
N Carolina State Univ, Dept Marine Earth & Atmospher Sci, Raleigh, NC 27695 USA
N Carolina Museum Nat Sci, Raleigh, NC 27601 USA Beth Israel Deaconess Med Ctr, Div Signal Transduct, Boston, MA 02115 USA
[2]
Interpreting sequences from mastodon and T-rex
[J].
Asara, John M.
;
Garavelli, John S.
;
Slatter, David A.
;
Schweitzer, Mary H.
;
Freimark, Lisa M.
;
Phillips, Matthew
;
Cantley, Lewis C.
.
SCIENCE,
2007, 317 (5843)
:1324-1325

Asara, John M.
论文数: 0 引用数: 0
h-index: 0
机构:
Beth Israel Deaconess Med Ctr, Div Signal Transduct, Boston, MA 02115 USA Beth Israel Deaconess Med Ctr, Div Signal Transduct, Boston, MA 02115 USA

Garavelli, John S.
论文数: 0 引用数: 0
h-index: 0
机构: Beth Israel Deaconess Med Ctr, Div Signal Transduct, Boston, MA 02115 USA

Slatter, David A.
论文数: 0 引用数: 0
h-index: 0
机构: Beth Israel Deaconess Med Ctr, Div Signal Transduct, Boston, MA 02115 USA

Schweitzer, Mary H.
论文数: 0 引用数: 0
h-index: 0
机构: Beth Israel Deaconess Med Ctr, Div Signal Transduct, Boston, MA 02115 USA

Freimark, Lisa M.
论文数: 0 引用数: 0
h-index: 0
机构: Beth Israel Deaconess Med Ctr, Div Signal Transduct, Boston, MA 02115 USA

Phillips, Matthew
论文数: 0 引用数: 0
h-index: 0
机构: Beth Israel Deaconess Med Ctr, Div Signal Transduct, Boston, MA 02115 USA

Cantley, Lewis C.
论文数: 0 引用数: 0
h-index: 0
机构: Beth Israel Deaconess Med Ctr, Div Signal Transduct, Boston, MA 02115 USA
[3]
Protein sequences from mastodon and Tyrannosaurus rex revealed by mass spectrometry
[J].
Asara, John M.
;
Schweitzer, Mary H.
;
Freimark, Lisa M.
;
Phillips, Matthew
;
Cantley, Lewis C.
.
SCIENCE,
2007, 316 (5822)
:280-285

Asara, John M.
论文数: 0 引用数: 0
h-index: 0
机构:
Beth Israel Deaconess Med Ctr, Div Signal Transduct, Boston, MA 02115 USA Beth Israel Deaconess Med Ctr, Div Signal Transduct, Boston, MA 02115 USA

Schweitzer, Mary H.
论文数: 0 引用数: 0
h-index: 0
机构: Beth Israel Deaconess Med Ctr, Div Signal Transduct, Boston, MA 02115 USA

Freimark, Lisa M.
论文数: 0 引用数: 0
h-index: 0
机构: Beth Israel Deaconess Med Ctr, Div Signal Transduct, Boston, MA 02115 USA

Phillips, Matthew
论文数: 0 引用数: 0
h-index: 0
机构: Beth Israel Deaconess Med Ctr, Div Signal Transduct, Boston, MA 02115 USA

Cantley, Lewis C.
论文数: 0 引用数: 0
h-index: 0
机构: Beth Israel Deaconess Med Ctr, Div Signal Transduct, Boston, MA 02115 USA
[4]
Response to comment on "protein sequences from mastodon and Tyrannosaurus rex revealed by mass spectrometry"
[J].
Asara, John M.
;
Schweitzer, Mary H.
;
Cantley, Lewis C.
;
Cottrell, John S.
.
SCIENCE,
2008, 321 (5892)

Asara, John M.
论文数: 0 引用数: 0
h-index: 0
机构:
Beth Israel Deaconess Med Ctr, Boston, MA 02115 USA
Harvard Univ, Sch Med, Boston, MA 02115 USA Beth Israel Deaconess Med Ctr, Boston, MA 02115 USA

Schweitzer, Mary H.
论文数: 0 引用数: 0
h-index: 0
机构:
N Carolina State Univ, Raleigh, NC 27695 USA Beth Israel Deaconess Med Ctr, Boston, MA 02115 USA

Cantley, Lewis C.
论文数: 0 引用数: 0
h-index: 0
机构:
Beth Israel Deaconess Med Ctr, Boston, MA 02115 USA
Harvard Univ, Sch Med, Boston, MA 02115 USA Beth Israel Deaconess Med Ctr, Boston, MA 02115 USA

Cottrell, John S.
论文数: 0 引用数: 0
h-index: 0
机构:
Matrix Sci Ltd, London, England Beth Israel Deaconess Med Ctr, Boston, MA 02115 USA
[5]
Improved ranking functions for protein and modification-site identifications
[J].
Bern, Marshall
;
Goldberg, David
.
JOURNAL OF COMPUTATIONAL BIOLOGY,
2008, 15 (07)
:705-719

Bern, Marshall
论文数: 0 引用数: 0
h-index: 0
机构:
Xerox Corp, Palo Alto Res Ctr, Palo Alto, CA 94304 USA Xerox Corp, Palo Alto Res Ctr, Palo Alto, CA 94304 USA

Goldberg, David
论文数: 0 引用数: 0
h-index: 0
机构:
Xerox Corp, Palo Alto Res Ctr, Palo Alto, CA 94304 USA Xerox Corp, Palo Alto Res Ctr, Palo Alto, CA 94304 USA
[6]
Lookup peaks: A hybrid of de novo sequencing and database search for protein identification by tandem mass spectrometry
[J].
Bern, Marshall
;
Cai, Yuhan
;
Goldberg, David
.
ANALYTICAL CHEMISTRY,
2007, 79 (04)
:1393-1400

Bern, Marshall
论文数: 0 引用数: 0
h-index: 0
机构:
Palo Alto Res Ctr, Palo Alto, CA 94304 USA Palo Alto Res Ctr, Palo Alto, CA 94304 USA

Cai, Yuhan
论文数: 0 引用数: 0
h-index: 0
机构:
Palo Alto Res Ctr, Palo Alto, CA 94304 USA Palo Alto Res Ctr, Palo Alto, CA 94304 USA

Goldberg, David
论文数: 0 引用数: 0
h-index: 0
机构:
Palo Alto Res Ctr, Palo Alto, CA 94304 USA Palo Alto Res Ctr, Palo Alto, CA 94304 USA
[7]
Reporting protein identification data - The next generation of guidelines
[J].
Bradshaw, RA
;
Burlingame, AL
;
Carr, S
;
Aebersold, R
.
MOLECULAR & CELLULAR PROTEOMICS,
2006, 5 (05)
:787-788

Bradshaw, RA
论文数: 0 引用数: 0
h-index: 0

Burlingame, AL
论文数: 0 引用数: 0
h-index: 0

Carr, S
论文数: 0 引用数: 0
h-index: 0

Aebersold, R
论文数: 0 引用数: 0
h-index: 0
[8]
Comment on "protein sequences from mastodon and Tyrannosaurus rex revealed by mass spectrometry"
[J].
Buckley, Mike
;
Walker, Angela
;
Ho, Simon Y. W.
;
Yang, Yue
;
Smith, Colin
;
Ashton, Peter
;
Oates, Jane Thomas
;
Cappellini, Enrico
;
Koon, Hannah
;
Penkman, Kirsty
;
Elsworth, Ben
;
Ashford, Dave
;
Solazzo, Caroline
;
Andrews, Phillip
;
Strahler, John
;
Shapiro, Beth
;
Ostrom, Peggy
;
Gandhi, Hasand
;
Miller, Webb
;
Raney, Brian
;
Zylber, Maria Ines
;
Gilbert, M. Thomas P.
;
Prigodich, Richard V.
;
Ryan, Michael
;
Rijsdijk, Kenneth F.
;
Janoo, Anwar
;
Collins, Matthew J.
.
SCIENCE,
2008, 319 (5859)

Buckley, Mike
论文数: 0 引用数: 0
h-index: 0
机构:
Univ York, Dept Biol, BioArch, York YO10 5YW, N Yorkshire, England
Univ York, Dept Archaeol, BioArch, York YO10 5YW, N Yorkshire, England
Univ York, Dept Chem, BioArch, York YO10 5YW, N Yorkshire, England
Univ York, Dept Technol Facil, BioArch, York YO10 5YW, N Yorkshire, England Univ York, Dept Biol, BioArch, York YO10 5YW, N Yorkshire, England

Walker, Angela
论文数: 0 引用数: 0
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机构:
Univ Michigan, Sch Med, Dept Biol Chem, Ann Arbor, MI 48109 USA Univ York, Dept Biol, BioArch, York YO10 5YW, N Yorkshire, England

Ho, Simon Y. W.
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h-index: 0
机构:
Univ Oxford, Dept Zool, Evolutionary Biol Grp, Oxford OX1 3PS, England Univ York, Dept Biol, BioArch, York YO10 5YW, N Yorkshire, England

Yang, Yue
论文数: 0 引用数: 0
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机构:
Univ York, Dept Biol, BioArch, York YO10 5YW, N Yorkshire, England
Univ York, Dept Archaeol, BioArch, York YO10 5YW, N Yorkshire, England
Univ York, Dept Chem, BioArch, York YO10 5YW, N Yorkshire, England
Univ York, Dept Technol Facil, BioArch, York YO10 5YW, N Yorkshire, England Univ York, Dept Biol, BioArch, York YO10 5YW, N Yorkshire, England

Smith, Colin
论文数: 0 引用数: 0
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机构:
Max Planck Inst Evolutionary Anthropol, Dept Human Evolut, D-04103 Leipzig, Germany Univ York, Dept Biol, BioArch, York YO10 5YW, N Yorkshire, England

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Oates, Jane Thomas
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Univ York, Dept Biol, BioArch, York YO10 5YW, N Yorkshire, England
Univ York, Dept Archaeol, BioArch, York YO10 5YW, N Yorkshire, England
Univ York, Dept Chem, BioArch, York YO10 5YW, N Yorkshire, England
Univ York, Dept Technol Facil, BioArch, York YO10 5YW, N Yorkshire, England Univ York, Dept Biol, BioArch, York YO10 5YW, N Yorkshire, England

Cappellini, Enrico
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Univ York, Dept Biol, BioArch, York YO10 5YW, N Yorkshire, England
Univ York, Dept Archaeol, BioArch, York YO10 5YW, N Yorkshire, England
Univ York, Dept Chem, BioArch, York YO10 5YW, N Yorkshire, England
Univ York, Dept Technol Facil, BioArch, York YO10 5YW, N Yorkshire, England Univ York, Dept Biol, BioArch, York YO10 5YW, N Yorkshire, England

Koon, Hannah
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Univ York, Dept Biol, BioArch, York YO10 5YW, N Yorkshire, England
Univ York, Dept Archaeol, BioArch, York YO10 5YW, N Yorkshire, England
Univ York, Dept Chem, BioArch, York YO10 5YW, N Yorkshire, England
Univ York, Dept Technol Facil, BioArch, York YO10 5YW, N Yorkshire, England Univ York, Dept Biol, BioArch, York YO10 5YW, N Yorkshire, England

Penkman, Kirsty
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Univ York, Dept Biol, BioArch, York YO10 5YW, N Yorkshire, England
Univ York, Dept Archaeol, BioArch, York YO10 5YW, N Yorkshire, England
Univ York, Dept Chem, BioArch, York YO10 5YW, N Yorkshire, England
Univ York, Dept Technol Facil, BioArch, York YO10 5YW, N Yorkshire, England Univ York, Dept Biol, BioArch, York YO10 5YW, N Yorkshire, England

Elsworth, Ben
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Univ York, Dept Biol, BioArch, York YO10 5YW, N Yorkshire, England
Univ York, Dept Archaeol, BioArch, York YO10 5YW, N Yorkshire, England
Univ York, Dept Chem, BioArch, York YO10 5YW, N Yorkshire, England
Univ York, Dept Technol Facil, BioArch, York YO10 5YW, N Yorkshire, England Univ York, Dept Biol, BioArch, York YO10 5YW, N Yorkshire, England

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Andrews, Phillip
论文数: 0 引用数: 0
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Univ Michigan, Sch Med, Dept Biol Chem, Ann Arbor, MI 48109 USA Univ York, Dept Biol, BioArch, York YO10 5YW, N Yorkshire, England

Strahler, John
论文数: 0 引用数: 0
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Univ Michigan, Sch Med, Dept Biol Chem, Ann Arbor, MI 48109 USA Univ York, Dept Biol, BioArch, York YO10 5YW, N Yorkshire, England

Shapiro, Beth
论文数: 0 引用数: 0
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Penn State Univ, Dept Biol, University Pk, PA 16802 USA Univ York, Dept Biol, BioArch, York YO10 5YW, N Yorkshire, England

Ostrom, Peggy
论文数: 0 引用数: 0
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Michigan State Univ, Dept Zool, E Lansing, MI 48824 USA Univ York, Dept Biol, BioArch, York YO10 5YW, N Yorkshire, England

Gandhi, Hasand
论文数: 0 引用数: 0
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Michigan State Univ, Dept Zool, E Lansing, MI 48824 USA Univ York, Dept Biol, BioArch, York YO10 5YW, N Yorkshire, England

Miller, Webb
论文数: 0 引用数: 0
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机构:
Penn State Univ, Dept Biol, University Pk, PA 16802 USA Univ York, Dept Biol, BioArch, York YO10 5YW, N Yorkshire, England

Raney, Brian
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Univ Calif Santa Cruz, Ctr Biomol Sci & Engn, Santa Cruz, CA 95064 USA Univ York, Dept Biol, BioArch, York YO10 5YW, N Yorkshire, England

Zylber, Maria Ines
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Hebrew Univ Jerusalem, Kuvin Ctr, Dept Parasitol, IL-91905 Jerusalem, Israel Univ York, Dept Biol, BioArch, York YO10 5YW, N Yorkshire, England

Gilbert, M. Thomas P.
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Univ Copenhagen, Inst Biol, DK-2100 Copenhagen, Denmark Univ York, Dept Biol, BioArch, York YO10 5YW, N Yorkshire, England

Prigodich, Richard V.
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Trinity Coll, Dept Chem, Hartford, CT 06106 USA Univ York, Dept Biol, BioArch, York YO10 5YW, N Yorkshire, England

Ryan, Michael
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Cleveland Museum Nat Hist, Cleveland, OH 44106 USA Univ York, Dept Biol, BioArch, York YO10 5YW, N Yorkshire, England

Rijsdijk, Kenneth F.
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Natl Museum Nat Hist Naturalis, NL-2300 RA Leiden, Netherlands Univ York, Dept Biol, BioArch, York YO10 5YW, N Yorkshire, England

Janoo, Anwar
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Mauritius Inst, Natl Heritage Trust Fund Mauritius, Port Louis, Mauritius Univ York, Dept Biol, BioArch, York YO10 5YW, N Yorkshire, England

Collins, Matthew J.
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h-index: 0
机构:
Univ York, Dept Biol, BioArch, York YO10 5YW, N Yorkshire, England
Univ York, Dept Archaeol, BioArch, York YO10 5YW, N Yorkshire, England
Univ York, Dept Chem, BioArch, York YO10 5YW, N Yorkshire, England
Univ York, Dept Technol Facil, BioArch, York YO10 5YW, N Yorkshire, England Univ York, Dept Biol, BioArch, York YO10 5YW, N Yorkshire, England
[9]
Target-decoy search strategy for increased confidence in large-scale protein identifications by mass spectrometry
[J].
Elias, Joshua E.
;
Gygi, Steven P.
.
NATURE METHODS,
2007, 4 (03)
:207-214

Elias, Joshua E.
论文数: 0 引用数: 0
h-index: 0
机构: Harvard Univ, Sch Med, Dept Cell Biol, Boston, MA 02115 USA

Gygi, Steven P.
论文数: 0 引用数: 0
h-index: 0
机构: Harvard Univ, Sch Med, Dept Cell Biol, Boston, MA 02115 USA
[10]
Determining the overall merit of protein identification data sets:: rho-diagrams and rho-scores
[J].
Fenyo, David
;
Phinney, Brett S.
;
Beavis, Ronald C.
.
JOURNAL OF PROTEOME RESEARCH,
2007, 6 (05)
:1997-2004

Fenyo, David
论文数: 0 引用数: 0
h-index: 0
机构: Rockefeller Univ, New York, NY 10019 USA

Phinney, Brett S.
论文数: 0 引用数: 0
h-index: 0
机构: Rockefeller Univ, New York, NY 10019 USA

Beavis, Ronald C.
论文数: 0 引用数: 0
h-index: 0
机构: Rockefeller Univ, New York, NY 10019 USA