PDF电子书：Gel-Free Proteomics

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Gel-Free Proteomics8 V9 R3 x; D4 q) ~2 y7 @
Contents
! {" }! _6 W" QPreface . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . v
' Y* w/ q4 C5 f# p" m6 T6 SContributors . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ix
, a% _' @, S$ ?8 G1. Mass Spectrometry-Driven Proteomics: An Introduction . . . . . . . . . . . . . 1
7 s( f( d3 z& O8 f8 j; T! F, E0 L, ]Kenny Helsens, Lennart Martens, Joël Vandekerckhove,
0 C2 S" v! z7 p! C* L$ Yand Kris Gevaert8 Q9 w3 e4 t' {) E$ M+ @9 n
2. Metabolic Labeling of Model Organisms Using Heavy Nitrogen (15N) . . . . . . 29
- o% ^) _7 I7 e1 U7 dJoost W. Gouw, Bastiaan B.J. Tops, and Jeroen Krijgsveld
& V; t" e9 a& ~5 s3 v+ X3. Trypsin-Catalyzed Oxygen-18 Labeling for Quantitative Proteomics . . . . . . . 43
1 [% m5 a3 U8 d7 DWei-Jun Qian, Brianne O. Petritis, Carrie D. Nicora,% v+ w( d+ Z4 M4 c# M5 u' q
and Richard D. Smith  Y) Q- O" g" r! _7 W
4. ICPL Labeling Strategies for Proteome Research . . . . . . . . . . . . . . . . . 55% `5 l* G( U4 t+ S8 p/ {# j8 c
Friedrich Lottspeich and Josef Kellermann
/ Z% x$ [; c: x" Z( @8 l5. Quantitative Proteome Analysis Using Isobaric Peptide Termini# G8 s- m% `- o3 l/ a
Labeling (IPTL) . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 65+ J2 W5 v; o9 ~" ^6 q3 j7 V8 V
Magnus Ø. Arntzen, Christian J. Koehler, Achim Treumann, and Bernd Thiede
# \% `2 l) k& o' A! t- A1 i6. Complete Chemical Modification of Amine and Acid Functional Groups
5 [% i6 E; ^6 A# ~of Peptides and Small Proteins . . . . . . . . . . . . . . . . . . . . . . . . . . . 77
" w  q4 x. p& {- M3 E' I. ?& jCasey J. Krusemark, Brian L. Frey, Lloyd M. Smith, and Peter J. Belshaw
  f9 t: m( n; n5 y! D7. Production and Use of Stable Isotope-Labeled Proteins for Absolute
. o* c6 e& _7 H1 g! |/ S5 DQuantitative Proteomics . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 93# b# z# |( F6 K( Y0 Z* s
Dorothée Lebert, Alain Dupuis, Jérôme Garin, Christophe Bruley,
+ f* t6 P4 S6 J. e& O6 ~% z9 Aand Virginie Brun8 ?( j0 Z, o, ?9 e4 L  z% x. H
8. Organelle Proteomics . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 117
) f3 i( J# u2 D% Y0 {5 l( }Sophie Duclos and Michel Desjardins* H1 C- e4 L$ y3 A, G
9. Membrane Protein Digestion – Comparison of LPI HexaLane
7 Z! N! Y/ U- ]4 c& F/ H2 Rwith Traditional Techniques . . . . . . . . . . . . . . . . . . . . . . . . . . . . 129' F. t/ B: q# b
Ping Sui, Tasso Miliotis, Max Davidson, Roger Karlsson, and Anders Karlsson
! l0 ]* ~% b3 h0 m1 \10. GeLCMS for In-Depth Protein Characterization and Advanced Analysis
1 ?  X$ A: J- c5 z3 yof Proteomes . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 1437 K* G3 I4 n# L& r
Alicia Lundby and Jesper V. Olsen
/ N# ?4 R6 c; n$ m$ y11. Exploring New Proteome Space: Combining Lys-N Proteolytic Digestion* A6 r1 W+ p. P
and Strong Cation Exchange (SCX) Separation in Peptide-Centric
% R* J% q9 d3 i+ HMS-Driven Proteomics . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 157
: C+ h' D" j% c5 r" n$ n" S12. Quantitation of Newly Synthesized Proteins by Pulse Labeling
6 W' k" e* Q3 S) T" _with Azidohomoalanine . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 169
6 e1 b; A9 Y9 H5 {Gertjan Kramer, Piotr T. Kasper, Luitzen de Jong, and Chris G. de Koster
! y0 b; |3 N* o& E, `% F# h5 ^! l13. Analytical Strategies in Mass Spectrometry-Based Phosphoproteomics . . . . . . . 1837 q0 y( n" u( l) c0 a+ z/ F: ?
Heidi Rosenqvist, Juanying Ye, and Ole N. Jensen
/ T- _" t! l- M6 A8 q14. A Protocol on the Use of Titanium Dioxide Chromatography
6 A3 p9 i7 X* mfor Phosphoproteomics . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 2156 I5 c; _7 @/ x) `9 }
Martijn W.H. Pinkse, Simone Lemeer, and Albert J.R. Heck" G4 }' c! g3 z$ L- x( f
15. Positional Proteomics at the N-Terminus as a Means of Proteome Simplification . 229
, Y& d0 I9 w5 B2 h! F/ h, OGemma R. Davidson, Stuart D. Armstrong, and Robert J. Beynon
( e, Y, |' o) G: i. N. i7 u* B16. N-Terminomics: A High-Content Screen for Protease Substrates; u9 T1 B" @) U& V. ?1 |
and Their Cleavage Sites . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 243
% A! `9 h8 D! f5 `& Y/ g: pJohn C. Timmer and Guy S. Salvesen
% }1 U# ]1 w! v6 T17. Protease Specificity Profiling by Tandem Mass Spectrometry Using
) R, q) Z  h) D7 bProteome-Derived Peptide Libraries . . . . . . . . . . . . . . . . . . . . . . . . 2570 M; Q2 ?4 d: I$ m, M
Oliver Schilling, Ulrich auf dem Keller, and Christopher M. Overall
- Z/ m& x7 ^2 p: G' A1 t1 h18. Identification of Proteolytic Products and Natural Protein N-Termini
4 r  s+ N# u, W0 d$ d9 F; wby Terminal Amine Isotopic Labeling of Substrates (TAILS) . . . . . . . . . . . . 273  w4 o+ `1 m3 O& ~/ f5 v, S
Alain Doucet, Oded Kleifeld, Jayachandran N. Kizhakkedathu,
+ l: ?2 J1 D" V$ l, ]! l! band Christopher M. Overall
: J  L+ H7 m3 R4 s19. Lectins as Tools to Select for Glycosylated Proteins . . . . . . . . . . . . . . . . 289
1 d6 t: z, _8 i3 _' B7 ?5 S4 T, SEls J.M. Van Damme! x3 w& H# S2 s/ E) }% c; _
20. Strong Cation Exchange Chromatography for Analysis of Sialylated Glycopeptides 2999 C$ U- ?3 c+ J/ ~! g2 k* b; P
Katharina Lohrig, Albert Sickmann, and Urs Lewandrowski/ \4 D. f5 o% t2 X% L" W. u
21. Titanium Dioxide Enrichment of Sialic Acid-Containing Glycopeptides . . . . . . 309
& {$ t( C' X& c) J, {& S. qGiuseppe Palmisano, Sara E. Lendal, and Martin R. Larsen3 c0 i; p2 \6 H
22. Chemical De-O-glycosylation of Glycoproteins for Applications
! Y6 f+ n5 A+ g2 M, {. zin LC-Based Proteomics . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 323+ e# r1 }* n. t+ s, @$ @: F
Franz-Georg Hanisch
& x% _' \; K6 C+ M: |$ |1 x) A; g23. Ubiquitination and Degradation of Proteins . . . . . . . . . . . . . . . . . . . . 335
1 m& `) Z% x6 i  T3 a* TYelena Kravtsova-Ivantsiv and Aaron Ciechanover
. {0 x: R0 K1 k1 N24. Bioinformatics Challenges in Mass Spectrometry-Driven Proteomics . . . . . . . 359
& o4 q* V; K- h3 a. O6 gLennart Martens) B1 A% L( F. v& I( X1 q) i! }$ v
25. A Case Study on the Comparison of Different Software Tools
7 }4 i' N, A$ kfor Automated Quantification of Peptides . . . . . . . . . . . . . . . . . . . . . 373" i4 q. {1 y- U& Z, Y7 W" v
Niklaas Colaert, Joël Vandekerckhove, Lennart Martens,+ Z$ {$ c0 O4 H( S
and Kris Gevaert
% Y6 G: S  f: w: t: [% q( `Subject Index . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 399, c6 F6 B# G, c4 }/ A# l
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