PDF电子书：Gel-Free Proteomics

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+ j1 n  u& I4 A. NGel-Free Proteomics& @+ t& d% i5 W6 Z  B
Contents
# x+ Z5 f. \/ \+ w, D" j1 wPreface . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . v
  k0 @( o2 s: [& O2 k$ r9 p' RContributors . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ix
( q  ~% g( m" y) }1. Mass Spectrometry-Driven Proteomics: An Introduction . . . . . . . . . . . . . 11 y6 v$ u' |! }+ V( \4 T
Kenny Helsens, Lennart Martens, Joël Vandekerckhove,
6 B3 @+ m* j3 Land Kris Gevaert0 z. V' q5 N& |; Q
2. Metabolic Labeling of Model Organisms Using Heavy Nitrogen (15N) . . . . . . 29) E, f# y# A) W6 B+ V& @
Joost W. Gouw, Bastiaan B.J. Tops, and Jeroen Krijgsveld
7 r& e- x1 a$ x0 y3. Trypsin-Catalyzed Oxygen-18 Labeling for Quantitative Proteomics . . . . . . . 43
* }, [) K% _9 |Wei-Jun Qian, Brianne O. Petritis, Carrie D. Nicora,
: u- K" F8 c' W7 I8 T) L) _& Vand Richard D. Smith
" d3 W: y* K) ~( c% D1 B2 `4. ICPL Labeling Strategies for Proteome Research . . . . . . . . . . . . . . . . . 55
! v. b8 w6 Y* y4 |8 f3 a$ _Friedrich Lottspeich and Josef Kellermann
7 X$ c) q/ O. B) a2 n9 Q% I5. Quantitative Proteome Analysis Using Isobaric Peptide Termini, s3 R+ s5 u& t2 z1 L3 ?- ?
Labeling (IPTL) . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 65
' s' V! `7 k0 \$ _' d/ z' TMagnus Ø. Arntzen, Christian J. Koehler, Achim Treumann, and Bernd Thiede8 l/ w4 z$ d& y$ Y, P$ P( r8 L7 g
6. Complete Chemical Modification of Amine and Acid Functional Groups9 _; A" Y8 i2 e' p; O, q# r
of Peptides and Small Proteins . . . . . . . . . . . . . . . . . . . . . . . . . . . 77
! ~2 W$ u" p* UCasey J. Krusemark, Brian L. Frey, Lloyd M. Smith, and Peter J. Belshaw
* S, k  h( F. Q9 n, u# I8 n: L7 R7. Production and Use of Stable Isotope-Labeled Proteins for Absolute  F8 N# s$ H1 `1 q) D
Quantitative Proteomics . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 939 {3 {% t4 r' o0 S* I# d; {- _+ n
Dorothée Lebert, Alain Dupuis, Jérôme Garin, Christophe Bruley,
: C* `$ L6 q) d0 ~, Zand Virginie Brun
: ]% H0 G. V! S, Y0 K' c8. Organelle Proteomics . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 117- }+ H4 @9 V/ K% G9 N; x0 C
Sophie Duclos and Michel Desjardins
4 T$ `; H6 C' y. a9. Membrane Protein Digestion – Comparison of LPI HexaLane
- {4 r6 |1 @+ l% o8 e( jwith Traditional Techniques . . . . . . . . . . . . . . . . . . . . . . . . . . . . 129" N$ C3 Z0 u5 L2 L# s0 y
Ping Sui, Tasso Miliotis, Max Davidson, Roger Karlsson, and Anders Karlsson8 A9 J7 k. W! N
10. GeLCMS for In-Depth Protein Characterization and Advanced Analysis- Y; {: M( h7 G% e, N3 l; h$ g
of Proteomes . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 1435 K$ E' {9 M6 R; s$ O9 x
Alicia Lundby and Jesper V. Olsen
; O$ B; u+ k+ I( h9 k# m8 X( H11. Exploring New Proteome Space: Combining Lys-N Proteolytic Digestion
3 e! X# u. j, R, G) `# jand Strong Cation Exchange (SCX) Separation in Peptide-Centric" i* K8 l- x/ d; U
MS-Driven Proteomics . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 157
; H: o- s6 Q* L4 U2 i12. Quantitation of Newly Synthesized Proteins by Pulse Labeling
* [0 \2 |$ l. |9 uwith Azidohomoalanine . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 169
/ w0 U' N* b! Z5 FGertjan Kramer, Piotr T. Kasper, Luitzen de Jong, and Chris G. de Koster8 H7 Z+ Q+ E9 y% m! }3 i: w
13. Analytical Strategies in Mass Spectrometry-Based Phosphoproteomics . . . . . . . 183/ q( z& y. o' Q6 F0 V
Heidi Rosenqvist, Juanying Ye, and Ole N. Jensen9 o1 P2 ^% F: s) t
14. A Protocol on the Use of Titanium Dioxide Chromatography  o' Y1 X4 f' ?' }! P9 P# b
for Phosphoproteomics . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 215
$ |9 Q* ~$ H5 @Martijn W.H. Pinkse, Simone Lemeer, and Albert J.R. Heck1 X; b) }* o5 i& _; {* O
15. Positional Proteomics at the N-Terminus as a Means of Proteome Simplification . 229) N& y" P" V6 ^0 H* K$ H( y! {
Gemma R. Davidson, Stuart D. Armstrong, and Robert J. Beynon
- l1 [! ?" s6 w16. N-Terminomics: A High-Content Screen for Protease Substrates
4 H$ U2 l8 }5 w9 _. X, r1 C3 Iand Their Cleavage Sites . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 243
8 b: `& T% \9 V$ @  mJohn C. Timmer and Guy S. Salvesen
0 i5 M9 Q8 x2 n+ c8 W5 _$ c17. Protease Specificity Profiling by Tandem Mass Spectrometry Using
3 b9 g6 O! u+ R# ~Proteome-Derived Peptide Libraries . . . . . . . . . . . . . . . . . . . . . . . . 257
9 Q8 b" Z, }& Q/ d! [" w2 ]* hOliver Schilling, Ulrich auf dem Keller, and Christopher M. Overall
6 `; W7 H( \" Z' [18. Identification of Proteolytic Products and Natural Protein N-Termini
( [+ u4 A6 D5 N8 n& kby Terminal Amine Isotopic Labeling of Substrates (TAILS) . . . . . . . . . . . . 2732 v' H" ~+ }! I0 M/ _
Alain Doucet, Oded Kleifeld, Jayachandran N. Kizhakkedathu,
- j5 X6 @3 B" U2 N( mand Christopher M. Overall
& W9 K4 L* Q% H- D. D19. Lectins as Tools to Select for Glycosylated Proteins . . . . . . . . . . . . . . . . 289
5 }& V, b, A# Z- l: N0 OEls J.M. Van Damme4 G: G1 t4 S8 m  S1 b1 |
20. Strong Cation Exchange Chromatography for Analysis of Sialylated Glycopeptides 299
$ X& W; t# R& @7 KKatharina Lohrig, Albert Sickmann, and Urs Lewandrowski  [0 ~8 V. Z4 x' s& O: L
21. Titanium Dioxide Enrichment of Sialic Acid-Containing Glycopeptides . . . . . . 309
& N  {2 N+ ^, x& AGiuseppe Palmisano, Sara E. Lendal, and Martin R. Larsen
% q# [8 I  P9 G7 }22. Chemical De-O-glycosylation of Glycoproteins for Applications0 }" c4 Q7 }0 `# `( k! v
in LC-Based Proteomics . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 3231 A9 W4 `: e( H; O9 E# d; j
Franz-Georg Hanisch/ F3 v0 _0 i6 {. T
23. Ubiquitination and Degradation of Proteins . . . . . . . . . . . . . . . . . . . . 335
% |- x4 [0 d* Y+ |Yelena Kravtsova-Ivantsiv and Aaron Ciechanover* _" l# h& s' z- _  X; u7 y
24. Bioinformatics Challenges in Mass Spectrometry-Driven Proteomics . . . . . . . 3590 L& m' T' H! d$ e( ~! w
Lennart Martens
2 I1 B4 @% \6 Z25. A Case Study on the Comparison of Different Software Tools8 u$ P! J# M$ d  C* q* n
for Automated Quantification of Peptides . . . . . . . . . . . . . . . . . . . . . 3735 |1 N: z2 g1 d: G( u
Niklaas Colaert, Joël Vandekerckhove, Lennart Martens,
) U  ?/ o3 k0 s" N0 i" {  W5 dand Kris Gevaert0 l& ]2 ?- p2 V/ e4 e! R8 {
Subject Index . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 3996 x6 @1 O8 o" I
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