PDF电子书：Gel-Free Proteomics

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; V, {+ I+ O( c2 C8 gGel-Free Proteomics5 x( y. k- i$ f9 R. y
Contents" u6 u, i7 K' X' B; k
Preface . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . v
0 _! c  }/ m9 f, i" gContributors . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ix
' ^3 Q0 [* J5 k4 D2 J. C" B1. Mass Spectrometry-Driven Proteomics: An Introduction . . . . . . . . . . . . . 1! R2 |8 @) ]8 c- c4 d
Kenny Helsens, Lennart Martens, Joël Vandekerckhove,: G3 j7 I: n4 A+ j! A
and Kris Gevaert$ N* V2 I* }6 G  @) {$ Z2 c$ r
2. Metabolic Labeling of Model Organisms Using Heavy Nitrogen (15N) . . . . . . 297 s: S$ {6 ?% C" K
Joost W. Gouw, Bastiaan B.J. Tops, and Jeroen Krijgsveld
$ ^! J( A7 S) Q5 n/ J: @3. Trypsin-Catalyzed Oxygen-18 Labeling for Quantitative Proteomics . . . . . . . 43
- M  X2 `# E$ t' C& }Wei-Jun Qian, Brianne O. Petritis, Carrie D. Nicora,% J0 y& y8 y0 F( v2 H# O0 n
and Richard D. Smith
: m/ e' V' u, [8 S+ ]5 X4. ICPL Labeling Strategies for Proteome Research . . . . . . . . . . . . . . . . . 55
8 n5 ~, f' w" X$ \4 A  RFriedrich Lottspeich and Josef Kellermann
! F" Q& [! d1 L) G8 {5. Quantitative Proteome Analysis Using Isobaric Peptide Termini6 p& o9 V0 P0 W+ o' g
Labeling (IPTL) . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 655 f8 ~( f7 @+ H) S; }4 `
Magnus Ø. Arntzen, Christian J. Koehler, Achim Treumann, and Bernd Thiede" c& o; ?, t1 i6 z
6. Complete Chemical Modification of Amine and Acid Functional Groups1 O1 W) S6 O& F  P9 s
of Peptides and Small Proteins . . . . . . . . . . . . . . . . . . . . . . . . . . . 773 J  ~5 q! B+ j6 E# f7 h
Casey J. Krusemark, Brian L. Frey, Lloyd M. Smith, and Peter J. Belshaw) I8 X  X( W8 H+ a1 [& ^
7. Production and Use of Stable Isotope-Labeled Proteins for Absolute
; U0 ?+ R; F% F8 h9 D5 vQuantitative Proteomics . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 93
- d, ~% s' }5 A. jDorothée Lebert, Alain Dupuis, Jérôme Garin, Christophe Bruley,# ?! n% W3 V" e4 F5 L7 O
and Virginie Brun
& m+ S8 ~. E' r! n9 \# [# |" V. E8. Organelle Proteomics . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 117
9 j  i& z: @: ?! B; NSophie Duclos and Michel Desjardins, M: X' a# i6 E3 d
9. Membrane Protein Digestion – Comparison of LPI HexaLane
$ c5 W  i9 F- M  v- z5 D) iwith Traditional Techniques . . . . . . . . . . . . . . . . . . . . . . . . . . . . 129
9 I2 {: R  t4 Q: sPing Sui, Tasso Miliotis, Max Davidson, Roger Karlsson, and Anders Karlsson
3 M7 T* |" t% X10. GeLCMS for In-Depth Protein Characterization and Advanced Analysis' E* [0 H$ F; q- X
of Proteomes . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 143/ }$ H- ^* A- q' @; W( j# b
Alicia Lundby and Jesper V. Olsen  k+ k. r& ]) u  q) J8 b
11. Exploring New Proteome Space: Combining Lys-N Proteolytic Digestion
: i/ u! y2 Q, W- I1 Q/ q( j7 pand Strong Cation Exchange (SCX) Separation in Peptide-Centric
+ C+ _7 k" m6 r) f& IMS-Driven Proteomics . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 157
6 k# g5 f8 j3 s- _; L6 z) {/ g12. Quantitation of Newly Synthesized Proteins by Pulse Labeling
9 n* l9 P3 T- C0 t! i6 bwith Azidohomoalanine . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 1695 Z; g0 l& Q; X2 C) @. D- Y
Gertjan Kramer, Piotr T. Kasper, Luitzen de Jong, and Chris G. de Koster
2 F! \' w9 k  H13. Analytical Strategies in Mass Spectrometry-Based Phosphoproteomics . . . . . . . 183
$ N% `7 j+ k6 c" P3 Y% @3 K; r  _Heidi Rosenqvist, Juanying Ye, and Ole N. Jensen1 B+ }6 C5 G0 x- [4 s8 q; d
14. A Protocol on the Use of Titanium Dioxide Chromatography
" S+ b: G' }: @3 h6 x' _; N! g& ^for Phosphoproteomics . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 2150 C  I" U  t2 W
Martijn W.H. Pinkse, Simone Lemeer, and Albert J.R. Heck' k& |5 j4 T* S2 Q% N" h
15. Positional Proteomics at the N-Terminus as a Means of Proteome Simplification . 229
* P( ^& d! S& a/ a& A6 O# A) k/ BGemma R. Davidson, Stuart D. Armstrong, and Robert J. Beynon/ P( `9 o- t3 v3 }
16. N-Terminomics: A High-Content Screen for Protease Substrates
9 y7 C/ v1 c; U# Zand Their Cleavage Sites . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 243
! V3 W, p& W9 H8 t, A: o- L/ MJohn C. Timmer and Guy S. Salvesen
$ S! V5 i7 e5 s" s( {0 L  |* L17. Protease Specificity Profiling by Tandem Mass Spectrometry Using6 P7 E+ l# ]1 o9 l$ J& C0 g1 n
Proteome-Derived Peptide Libraries . . . . . . . . . . . . . . . . . . . . . . . . 257
3 {" m) F& N+ x$ J: x. T6 yOliver Schilling, Ulrich auf dem Keller, and Christopher M. Overall
) K5 m4 I' Y8 ^5 i# E1 H6 h18. Identification of Proteolytic Products and Natural Protein N-Termini2 d" W2 K2 r# F% F
by Terminal Amine Isotopic Labeling of Substrates (TAILS) . . . . . . . . . . . . 273
. x0 O: ?8 ~9 n/ ?2 RAlain Doucet, Oded Kleifeld, Jayachandran N. Kizhakkedathu,
$ \% P3 E& H, Q/ U' D5 k6 aand Christopher M. Overall9 P- K2 j$ J# }0 m! V& B) @
19. Lectins as Tools to Select for Glycosylated Proteins . . . . . . . . . . . . . . . . 289' J" r0 u2 R# |0 M- A" k
Els J.M. Van Damme
' U+ z. q, g5 o, v4 z4 i20. Strong Cation Exchange Chromatography for Analysis of Sialylated Glycopeptides 299: t! f' F0 d: ~: @% `3 D
Katharina Lohrig, Albert Sickmann, and Urs Lewandrowski! H) e  ], L* |
21. Titanium Dioxide Enrichment of Sialic Acid-Containing Glycopeptides . . . . . . 309
4 V) D& p7 f( S2 N9 G! p# |, ~( SGiuseppe Palmisano, Sara E. Lendal, and Martin R. Larsen
) _4 b1 U( z+ q+ [' F$ Y22. Chemical De-O-glycosylation of Glycoproteins for Applications) q- R# n4 n/ d
in LC-Based Proteomics . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 323
! Z0 H6 s7 O0 _Franz-Georg Hanisch. s5 r  B3 W, v! V6 M9 N" k
23. Ubiquitination and Degradation of Proteins . . . . . . . . . . . . . . . . . . . . 335) J7 `2 X5 c! I7 s& [0 J
Yelena Kravtsova-Ivantsiv and Aaron Ciechanover
0 g, `- W% o; ~6 Q6 \4 F1 r24. Bioinformatics Challenges in Mass Spectrometry-Driven Proteomics . . . . . . . 359
4 r7 n0 O7 k6 G$ y+ g9 {Lennart Martens: D& }+ x- g4 j8 ~: c! @
25. A Case Study on the Comparison of Different Software Tools
  X1 Z0 [. }. M( rfor Automated Quantification of Peptides . . . . . . . . . . . . . . . . . . . . . 373
1 V  Q+ a$ i6 d; o- {Niklaas Colaert, Joël Vandekerckhove, Lennart Martens,
" o, J2 x; z& Y6 l0 x) K0 M, }and Kris Gevaert' [2 o; M/ k/ V
Subject Index . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 399% h3 ~6 t6 a' `+ d6 X7 x
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