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[生物学相关学科类] PDF电子书:蛋白质组学 最新版Introduction to Proteomics [Liebler[1].Humana.2002]     [复制链接]

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楼主
发表于 2010-6-27 21:10 |只看该作者 |倒序浏览 |打印
本帖最后由 细胞海洋 于 2010-6-28 11:09 编辑
0 y. c. O' K) Q8 H, i) a- B# }" c( |" p- l
Proteomics in Practice$ K; Y  J  j, g/ h0 S* X
A Guide to Successful Experimental Design
9 |. o- A; D& h/ w2 R. G$ f8 `* J: @6 V# F' l3 h! M
Abbreviations, Symbols, Units XV* n, q( u: T' ~2 u0 p9 x
Introduction 12 U% P0 g/ u+ \9 q7 b# o( y
1 History 1
( v- |# v  `2 u$ l0 o* I2 Critical Points 8, L! a9 t% G3 A# l" L7 W
2.1 Challenges of the Protein Samples 85 {$ Q  K% w0 w$ O6 j+ Q9 I
2.1 Challenges of the Analysis Systems 11) n6 W- a) Z3 s9 \3 T
3 Proteomics Strategies 12
. y" R# A; r# z5 y: |' }3.1 Proteome Mapping 12
1 H4 ]  g6 `: F0 V1 L3.2 Differential Analysis 12
: J( a! L2 X+ j' p% z$ J; g3.3 Time Point Experiments 13
3 }$ F/ f* @7 m7 r3.4 Verification of Targets or Biomarkers 13% W7 }4 M) X8 q9 y7 E' u7 B
3.5 Integration of Results into Biological Context 13
! W! v3 T  |& E# _0 y3.6 Systems Biology 13
8 v0 \; R8 A( `! r( h" k. {4 Concept of Experimental Planning 14) K1 p* K$ w4 d! b
4.1 Biological Replicates 14
  }2 S# K. M/ F' J$ h' ^4.2 Pooling of Samples: Yes or No? 14
, d7 D# R& k, r4.3 Pre-fractionation of Samples: Yes or No? 141 b0 v. g, \# s0 v
4.4 Which is the Best Workflow to Start With? 15
4 Q- W0 @& j2 s* pPart I: Proteomics Technology
2 k2 z3 |+ Q* `1 j( Q& q; Q1 Electrophoretic Techniques 199 Z3 e( e8 k! f8 v9 f$ K' ]5 i. u
1.1 The Principle of Electrophoresis and Some Methodological) L0 O2 q0 \* ^* l2 m
Background 19
( A6 _$ E2 A5 F6 Y1.1.1 Free Flow Electrophoretic Methods 20
" x% j  h( Y- ~' P) j  o/ D; w) j1.1.2 Gels for Electrophoretic Techniques 21
, l. N# M+ B5 f. G1.1.3 Electroendosmosis Effects 21
' [, M1 A9 E/ G0 X- y# j1.2 Polyacrylamide Gel Electrophoresis 22
3 v' Z" D6 J  n5 F3 o3 T/ }9 G5 c, o0 V
1.2.1 The Polyacrylamide Gel 222 p6 C1 I! `8 e- S6 ]- ]
1.2.2 SDS Polyacrylamide Gel Electrophoresis 273 X' C& c; J4 X# y/ E! l: e1 T; G  M
1.2.3 Blue Native Electrophoresis 32
$ Y5 I+ @$ {9 L$ q* z2 }2 l1.2.4 Cationic Detergent Electrophoresis 34
. M! h3 U) {8 F; N* p: s1.3 Blotting 35
4 A9 |. M( _, _1 D" s: m1.3.1 Electrophoretic Transfer 367 f) k8 b4 q- U- u
1.3.2 Protein Detection on the Membrane 36
: q0 H# {: P, r# r* D) B+ x5 p1.4 Isoelectric Focusing 38
& p# `( o; C! w/ X. @1.4.1 Theoretical Background 39
5 ?5 q* T% p, r9 Q% G( M2 R; M1.4.2 Preparation of IEF Gels 44
* D1 b; ?5 Q- k) S9 W1.4.3 Isoelectric Focusing in Proteomics 457 }) V$ N, R% f2 I5 R) {: H- }7 y
1.5 Two-dimensional Electrophoresis 531 M3 p' j, Z- `& J- j
1.5.1 Sample Preparation 53
: ~0 K* P. @9 G. W+ |& e; ?% [. l1.5.2 Pre-labeling of Proteins for Difference Gel Electrophoresis 68
. U" m; a* Z. y$ g1.5.3 First Dimension: Isoelectric Focusing in IPG Strips 77+ G: g' N: l# @1 K# ]
1.5.4 Second Dimension: SDS Electrophoresis 100
( Y+ m8 v: p. [3 A1.5.5 Detection of Protein Spots 1192 T/ b4 {6 j4 f. m
1.6 Image Analysis 125
5 c0 k! n8 Z9 B7 }  f  \1.6.1 Image Acquisition 125, a+ G  U* w$ |) \2 k
1.6.2 Image Analysis and Evaluation 129
& W. Z- V( F' D8 ?3 L4 T0 A1.6.3 Use of 2-D Electrophoresis Data 137& }  U+ S* f# U8 S6 E4 a- q# x
1.7 Spot Handling 137; D- [0 u0 W/ G- U2 D
1.7.1 Spot Picking 139* N; T5 }" @$ S: t3 }
1.7.2 Protein Cleavage 141
! R. n3 c, ?! ?6 r1 g: {) S* C/ j1 HLiquid Chromatography Techniques 1515 a* a; n4 _0 W1 `$ A" Y
2.1 Basic Principles of Important Liquid Chromatography
' l2 d5 ^5 w! {+ M7 c) N: eTechniques 151
/ Y( Y# x  h7 m  k- Z2.1.1 Ion Exchange Chromatography 153
/ `9 u1 s( A5 b1 O; X2.1.2 Reversed Phase Chromatography 162
3 F1 G6 I% a0 S( e% B) z3 {: q5 z7 w2.1.3 Affinity Chromatography 167
# r1 E/ ]4 {5 K+ y  u2.1.4 Gel Filtration 172
5 J- V) F/ q6 S! w5 Y7 o! U# F2.2 Strategic Approach and General Applicability 1746 W' H$ d% B* H( u+ A8 O
2.3 Liquid Chromatography Techniques and Applications in Proteome' n' E! n$ G8 _$ }
Analysis 176
* H4 j9 [0 x0 }: q$ u2.3.1 Peptide Separation 176
( n; t1 e/ i8 P4 i# Z/ g! t7 U2.3.2 2DLC Peptide Separation 1795 a, }0 O$ ~% C8 F, X8 s
2.3.3 Affinity Chromatography and LC-MS/MS 187
4 a% u* d+ r; M" _) C+ @2.3.4 Protein Pre-fractionation 189& h+ y# V% N, C3 l' P: H; i, {
2.4 Practical Considerations and Application of LC-based Protein
3 x3 V$ ^  s' Y4 I" Z+ V4 HPre-fractionation 194
: ]5 F: t1 Y/ Y1 D2.4.1 Sample Extraction and Preparation 196
" s# [) K/ \; u+ P# p0 J2.4.2 Experimental Setup 197# e1 K/ ~6 e% M5 t& B2 D# l
2.4.3 Ion Exchange Chromatography and
% X3 J7 H) @8 {! V& c. N( tProtein Pre-fractionation 198
: |! r3 ?9 P9 T8 x! ~& X) ~' dContents, ^: J9 z% l; A& G! e, c3 F; F* |
2.4.4 Reversed Phase Chromatography and- r1 n& ^% p4 {
Protein Pre-fractionation 205
! ]: |7 ?* `1 I5 G/ F2.4.5 Fraction Size and Number of Fractions 210
0 V9 y, T! V* [2.5 Critical Review and Outlook 211
; r( \: @& P! j8 p3 Mass Spectrometry 215
: a( a, j8 Q- W3.1 Ionization 218) I9 l; q4 P6 V
3.1.1 Matrix Assisted Laser Desorption Ionization 218
5 I% A6 P8 p6 }- f0 ]3.1.2 Electrospray Ionization 2223 \/ |# f" G9 I. [* X: W- o
3.2 Ion Separation 225: H* [2 V. ~7 @! W: Z, f' V
3.2.1 Time-of-Flight Analyzer 225
' Z6 q. S: x5 n" {3.2.2 Triple Quadrupole Analyzer 227
* O# V! F" b" Y9 ?3.2.3 Quadrupole Ion Trap 228
5 |3 @# H/ m# x0 e3.2.4 Quadrupole Time-of-Flight 230
$ k( z( Y  J' e$ P7 E6 M5 C+ H3.2.5 Hybrid Triple Quadrupole Linear Ion Trap 231
$ U: G7 W5 U% ]; o3.2.6 TOF/TOF Analyzer 231
  b/ E# T3 q' [5 C: m# T8 \- n3.2.7 Fourier Transform Ion Cyclotron 2328 c" y1 D+ X5 F5 a
3.2.8 Orbitrap 233
: E' M0 v4 T5 g" H7 L7 b3.3 Generating MS Data for Protein Identification 233
) v4 }0 C% l; a$ L9 z  w& z: w' `3.3.1 Peptide Mass Fingerprint 234; t+ d& u4 S  W
3.3.2 Peptide Mass Fingerprint Combined With Composition. w# e# J8 H: W7 l
Information 2373 Q9 c# M0 v) _+ L  I4 E
3.3.3 Peptide Mass Fingerprint Combined With Partial Sequence
- B  ?  m6 j: N% @/ C' ]Information 238! ^% D7 ^: ]* L2 b: \3 z. X
3.3.4 Tandem Mass Spectrometry 242& U  s) f6 M  _) @, l
3.4 Protein Characterization 2587 Q) U: ^% Q; ]9 E
3.4.1 Phosphorylation Analysis 2598 R3 {6 {% c0 N2 {; N' ~
3.4.2 Affinity Chromatography 260
$ @' P0 U8 F9 c* T, H; _" k, S3.4.3 Chemical Derivatization 261
+ \2 Q3 t  i1 v4 a. y3.4.4 Glycosylation 263. b5 d; ~8 @* F) }
3.5 Protein Quantification Using Mass Spectrometry 264
2 G9 m8 [2 u  u5 T3.5.1 Stable Isotope Labeling Approaches 264
- A# @1 W5 x- h2 ?, \+ ~* ?3.5.2 Isotope-coded Affinity Tags 265
* \7 f1 g" }! n9 |/ M2 y3.5.3 Stable Isotope Labeling with Amino Acids in Cell Culture 266- l* V% {8 e# B3 y
3.5.4 AQUA 267) K+ |8 [8 v, d. D7 M/ ^
3.5.5 iTRAQ 267
  Y' J8 E6 A) g3.5.6 Non-labeling Software Approaches 268$ \" `; q! u2 Y  M
3.6 MS Strategies 271
# ]2 {. L# h  \9 ?& }7 t8 F3.6.1 Bottom up Approach 271
5 e9 L! c( O  }, Y# P( ^- @3.6.2 Top down Approach 272
4 d; l  d5 U! R3 b4 Functional Proteomics: Studies of Protein–Protein Interactions 2735 P1 E+ D6 o" e! q
4.1 Non-immunological Methods 273- ]* o$ n6 \( R" S) c2 n3 {3 J% p
4.1.1 Separation of Intact Multi-protein Complexes 273
) a; w1 {* Z) \$ ]0 A1 F% S& t4.1.2 Probing with Interaction Partners 273
! }4 ^3 V8 T  K9 N4.1.3 Surface Plasmon Resonance 274; i6 `& S8 {) C7 _2 m6 h0 t
4.2 Antibody-based Techniques 275
8 D# b% E3 b- A* u9 a6 W4.2.1 Western Blotting and Dot Blots 275
" j( N# }# Z) {4 y/ S4.2.2 Protein Microarrays 276
6 x, r* R+ v4 |6 GPart II: Practical Manual of Proteome Analysis 279
, g, G. f) \1 ^4 N1 ^- fEquipment, Consumables, Reagents 2813 Y- B8 [- }- j& w9 S" p
Step 1: Sample Preparation 287; [/ D6 e! R( L" x2 _* s% a
Step 2: Fluorescence Difference Gel Electrophoresis 299" c( R$ P) m1 M: M4 ^
Step 3: Isoelectric Focusing 3095 q& m- _( k5 t1 E
Step 4: SDS Polyacrylamide Gel Electrophoresis 323
  B/ x$ ?& e( y% v( {0 A4 l) ?Step 5: Scanning of Gels Containing Pre-labeled Proteins 357
: Q. z! k( B7 y3 BStep 6: Staining of Gels 3619 P+ ?. q9 s/ `5 L/ C
Step 7: Image Analysis and Evaluation of DIGE Gels 3739 {+ U2 k8 h& l. s1 Q4 n7 i" a; R2 C$ H
Step 8: Spot Excision 383
% h9 [8 v# j, V0 D3 @6 YStep 9: Sample Destaining 387
+ a- u- h1 g( R( E' ~% OStep 10: Protein Digestion 389( O* Q' L4 I8 g8 W; U5 C; L( Y
Step 11: Microscale Desalting and Concentrating of Sample 393
. j: D) i" m( fStep 12: Chemical Derivatization of the Peptide Digest 397
4 O0 C* q& q, s/ L% K9 R5 j) D7 DStep 13: MS Analysis 399
) Y( w# j# Q6 }  P- [$ N" u7 `Step 14: Calibration of MALDI-ToF MS 403
! B$ l. y2 w" U/ p# hStep 15: Preparing for a Database Search 4074 R# J6 {, Y$ U5 Q
Part III: Trouble Shooting 411
' C) N2 j2 J; Y1 l1 Two-dimensional Electrophoresis 413% l9 q" H8 ^. R6 W$ p: }- E* o# D' V$ B
1.1 Sample Preparation 413# W0 g/ `* J( ]9 V" U
1.2 Isoelectric focusing in IGPG strips 414# x7 j: O  \/ T( n) j1 @( }4 S! a
1.3 SDS PAGE 416
& t# x) n2 m7 c. b1.4 Staining 4177 D) B# v) h  r  V
1.5 DIGE Fluorescence Labeling 418
8 X- o9 w' o$ E; g8 R2 k1.6 Results in 2-D Electrophoresis 4216 g2 ^* d! v; j2 z: W3 Y" T1 Z
2 Mass Spectrometry 429
0 `9 O2 ~) ?! [0 k  k2 k. y; t+ D) s% J* \* Z
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沙发
发表于 2010-7-3 13:43 |只看该作者
Humana的书好!

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藤椅
发表于 2010-7-5 23:12 |只看该作者
这是最新版啊?太搞笑了吧!!!!!!!!!!!

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板凳
发表于 2010-7-6 03:32 |只看该作者
干细胞之家微信公众号
回复 1# dahui / Q: }. W6 e- t& X
4 n) @, U* r) z: X) e6 h; L

+ j" |" h3 T+ E+ R    good job!

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报纸
发表于 2010-7-6 15:23 |只看该作者
回复 3# cz200203 ( I! P2 w0 B( q+ ^* m& W, L- q

7 M; Z+ x" I8 w9 g/ V% j1 L6 ?: Q最近没有对这个跟踪,如果已经有新版的出来,烦请您说明,也一并上传。谢谢指正。

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地板
发表于 2010-7-6 16:31 |只看该作者
发一本今年的版本,在这儿:9 P8 j4 S/ ?0 D! V: |  Y
http://www.stemcell8.cn/thread-23631-1-1.html

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7
发表于 2010-7-7 18:30 |只看该作者
谢谢分享

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发表于 2010-7-20 13:53 |只看该作者
好东西,找了好久,谢谢

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发表于 2010-7-24 15:24 |只看该作者
楼主我爱您

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10
发表于 2010-7-25 21:28 |只看该作者
回复 9# huangclong ; y9 i& B* W8 `/ D$ _

+ L. m4 E% `+ T" A' H呵呵,不用这样吧?
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