PDF电子书：蛋白质组学最新版Introduction to Proteomics [Liebler[1].Humana.2002] - 经典PDF电子书下载区干细胞之家



免疫细胞治疗专区	欢迎关注干细胞微信公众号

12 3 4 5 6 7 8 9 10 ... 29 下一页

返回列表

查看: 1017907\|回复: 286	go [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]

dahui

高级会员

Rank: 4

积分: 1343
威望: 1343
包包: 387

金话筒优秀会员热心会员小小研究员积极份子帅哥研究员

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 ( A  R7 i/ z% P7 T' q

Proteomics in Practice
A Guide to Successful Experimental Design9 T( f! C$ }! U4 f
  y) o. c; b7 @# Q- u. Q
Abbreviations, Symbols, Units XV
Introduction 1
1 History 1" O' [/ d6 ^" f6 a5 v
2 Critical Points 81 c4 m0 e& \0 `. R& O
2.1 Challenges of the Protein Samples 8! i* |* o' z; A6 D; v8 y5 [
2.1 Challenges of the Analysis Systems 11
3 Proteomics Strategies 12+ _% J, l4 Q2 K' S. F. ?  M4 \
3.1 Proteome Mapping 12
3.2 Differential Analysis 12( `- p& {6 N. ?7 d0 g
3.3 Time Point Experiments 133 C6 }0 G9 ]! d" z+ M" T+ F
3.4 Verification of Targets or Biomarkers 13
3.5 Integration of Results into Biological Context 13( q% B7 k, w' F; u3 I0 t
3.6 Systems Biology 13. {# g& g1 h: I1 G6 Q
4 Concept of Experimental Planning 14) P7 |. G) P3 @) Q9 t9 ^
4.1 Biological Replicates 14
4.2 Pooling of Samples: Yes or No? 14
4.3 Pre-fractionation of Samples: Yes or No? 14& R4 c* Q$ j# L$ V1 D
4.4 Which is the Best Workflow to Start With? 15$ Q& s7 s% U! J/ k" f
Part I: Proteomics Technology
1 Electrophoretic Techniques 19
1.1 The Principle of Electrophoresis and Some Methodological
Background 19# R2 f: X+ \8 C" p. b" H* `. o' [
1.1.1 Free Flow Electrophoretic Methods 20
1.1.2 Gels for Electrophoretic Techniques 21: c1 m" R: j) i7 T$ m: j, {, l
1.1.3 Electroendosmosis Effects 21
1.2 Polyacrylamide Gel Electrophoresis 22) c$ z6 h* p4 F# _

1.2.1 The Polyacrylamide Gel 224 c1 y2 A6 P5 b3 T
1.2.2 SDS Polyacrylamide Gel Electrophoresis 27
1.2.3 Blue Native Electrophoresis 32
1.2.4 Cationic Detergent Electrophoresis 34: }& W4 K7 y3 a
1.3 Blotting 35
1.3.1 Electrophoretic Transfer 36$ I* ^% e1 K! M4 P
1.3.2 Protein Detection on the Membrane 36
1.4 Isoelectric Focusing 38
1.4.1 Theoretical Background 39
1.4.2 Preparation of IEF Gels 44
1.4.3 Isoelectric Focusing in Proteomics 45
1.5 Two-dimensional Electrophoresis 53
1.5.1 Sample Preparation 53$ p- n5 d+ i# `8 q$ A9 G
1.5.2 Pre-labeling of Proteins for Difference Gel Electrophoresis 68  H1 B6 R( w( H: \  [
1.5.3 First Dimension: Isoelectric Focusing in IPG Strips 77
1.5.4 Second Dimension: SDS Electrophoresis 100, Z( b; Q2 J; b3 G& i/ t4 @
1.5.5 Detection of Protein Spots 119' P- X% ]( t! ^2 `( b: i8 C
1.6 Image Analysis 125( `# z8 j3 \- T5 F( ~6 N, G
1.6.1 Image Acquisition 125
1.6.2 Image Analysis and Evaluation 129, H+ H+ s7 H# ?4 O8 i- I
1.6.3 Use of 2-D Electrophoresis Data 137
1.7 Spot Handling 137" ~% J0 u7 n  I' d
1.7.1 Spot Picking 139
1.7.2 Protein Cleavage 141
Liquid Chromatography Techniques 151/ X% _7 M' I4 e! f- o# V
2.1 Basic Principles of Important Liquid Chromatography9 _; y4 t4 W: v
Techniques 151
2.1.1 Ion Exchange Chromatography 153
2.1.2 Reversed Phase Chromatography 162
2.1.3 Affinity Chromatography 167
2.1.4 Gel Filtration 172
2.2 Strategic Approach and General Applicability 174
2.3 Liquid Chromatography Techniques and Applications in Proteome3 j$ M1 B9 s7 \, Z( l
Analysis 1767 l, `4 c6 j& i1 ~# b
2.3.1 Peptide Separation 176' N( ^% C) N) C% d: [
2.3.2 2DLC Peptide Separation 179
2.3.3 Affinity Chromatography and LC-MS/MS 187
2.3.4 Protein Pre-fractionation 189. f; P* _- d' k) c. p$ c
2.4 Practical Considerations and Application of LC-based Protein* ^( v( @- x4 E% N& l, K
Pre-fractionation 194# X3 Y% V/ z% c  d
2.4.1 Sample Extraction and Preparation 196! F- ?( F+ E7 L3 ~, Z; @" x) Q
2.4.2 Experimental Setup 197
2.4.3 Ion Exchange Chromatography and
Protein Pre-fractionation 198/ h  M6 X3 j' u4 I
Contents
2.4.4 Reversed Phase Chromatography and/ Z" j; o- ^- y4 Y- b: m2 t
Protein Pre-fractionation 205; e& \% [- p, d$ g' X4 `
2.4.5 Fraction Size and Number of Fractions 2101 Y) G" H) D( J2 Q
2.5 Critical Review and Outlook 211
3 Mass Spectrometry 215
3.1 Ionization 218
3.1.1 Matrix Assisted Laser Desorption Ionization 218. y! p8 M8 y; q
3.1.2 Electrospray Ionization 222$ \7 r, i& o0 R! G- s7 M. z6 L
3.2 Ion Separation 225
3.2.1 Time-of-Flight Analyzer 225/ z% C. `7 c3 t8 {/ T4 o0 ?  q
3.2.2 Triple Quadrupole Analyzer 227
3.2.3 Quadrupole Ion Trap 228
3.2.4 Quadrupole Time-of-Flight 230, r6 h: H( x1 p/ I3 p! {6 W
3.2.5 Hybrid Triple Quadrupole Linear Ion Trap 231
3.2.6 TOF/TOF Analyzer 231+ U) R( Y* n- p2 G/ l) ~# T: E* {
3.2.7 Fourier Transform Ion Cyclotron 2321 l9 e$ m8 u6 o! U9 [
3.2.8 Orbitrap 233
3.3 Generating MS Data for Protein Identification 233- O5 l* c0 E& D: o4 J9 G
3.3.1 Peptide Mass Fingerprint 234
3.3.2 Peptide Mass Fingerprint Combined With Composition
Information 237
3.3.3 Peptide Mass Fingerprint Combined With Partial Sequence
Information 238- I4 _$ Z* W3 l
3.3.4 Tandem Mass Spectrometry 242' ~3 M$ o: ~* E% |
3.4 Protein Characterization 258
3.4.1 Phosphorylation Analysis 259
3.4.2 Affinity Chromatography 260( M  `4 b2 A+ ^- M, X- I. Q
3.4.3 Chemical Derivatization 261
3.4.4 Glycosylation 263
3.5 Protein Quantification Using Mass Spectrometry 264" r: T) {9 Y* M) j) ]# x* c0 B
3.5.1 Stable Isotope Labeling Approaches 264
3.5.2 Isotope-coded Affinity Tags 265; `! F) z3 s- ]$ c2 g
3.5.3 Stable Isotope Labeling with Amino Acids in Cell Culture 266: D) _; n* B( L1 w% B8 d
3.5.4 AQUA 267- Y: H: C5 d3 O# E3 J
3.5.5 iTRAQ 267- T' r2 g7 o5 Y# l: w" F
3.5.6 Non-labeling Software Approaches 268
3.6 MS Strategies 271* q9 Q/ k7 g/ ]9 {
3.6.1 Bottom up Approach 2711 ?3 c% f% o( P, K5 a0 K, F
3.6.2 Top down Approach 272
4 Functional Proteomics: Studies of Protein–Protein Interactions 2736 l, g. G1 j' P$ ]& D/ }
4.1 Non-immunological Methods 273
4.1.1 Separation of Intact Multi-protein Complexes 273
4.1.2 Probing with Interaction Partners 273
4.1.3 Surface Plasmon Resonance 274
4.2 Antibody-based Techniques 275+ v- B, x* R3 D
4.2.1 Western Blotting and Dot Blots 275
4.2.2 Protein Microarrays 276
Part II: Practical Manual of Proteome Analysis 279' Q/ c4 J# S  ?& \
Equipment, Consumables, Reagents 281
Step 1: Sample Preparation 287# e' E- I- a+ i3 l+ T5 n
Step 2: Fluorescence Difference Gel Electrophoresis 299: y0 [  \3 A" u3 l
Step 3: Isoelectric Focusing 309) H' w& g5 q/ I) \' ]* U9 T# C
Step 4: SDS Polyacrylamide Gel Electrophoresis 323$ ]6 A" e" z$ l( K+ |. u& k% _# `$ C) r
Step 5: Scanning of Gels Containing Pre-labeled Proteins 357
Step 6: Staining of Gels 3613 E- Z9 \( n4 Q, v
Step 7: Image Analysis and Evaluation of DIGE Gels 373
Step 8: Spot Excision 383  `- k1 `5 L5 W+ h+ |$ W( E- E8 h
Step 9: Sample Destaining 3871 r0 W) C! q' _
Step 10: Protein Digestion 3893 X1 }: O- q* \& |: b  X
Step 11: Microscale Desalting and Concentrating of Sample 393
Step 12: Chemical Derivatization of the Peptide Digest 397
Step 13: MS Analysis 399- T0 D2 ?: R7 N' k! a
Step 14: Calibration of MALDI-ToF MS 403
Step 15: Preparing for a Database Search 407% Q, }3 @* l& ?& _( Z5 \
Part III: Trouble Shooting 411
1 Two-dimensional Electrophoresis 413) L# ^  e! x. F% l
1.1 Sample Preparation 413
1.2 Isoelectric focusing in IGPG strips 414
1.3 SDS PAGE 416
1.4 Staining 4175 v% r  P% o: z
1.5 DIGE Fluorescence Labeling 418
1.6 Results in 2-D Electrophoresis 421+ i+ Y: Z0 q. p7 y
2 Mass Spectrometry 429

[hide][/hide]

附件: 你需要登录才可以下载或查看附件。没有帐号？注册