Capillary electrophoresis-mass spectrometry for proteomics and metabolomics: principles and applications
Gespeichert in:
| Weitere Verfasser: | , |
|---|---|
| Format: | Buch |
| Sprache: | English |
| Veröffentlicht: |
Weinheim, Germany
Wiley-VCH
[2023]
|
| Schlagworte: | |
| Online-Zugang: | http://www.wiley-vch.de/publish/dt/books/ISBN978-3-527-34921-0/ Inhaltsverzeichnis Inhaltsverzeichnis |
| Beschreibung: | xiv, 386 Seiten Illustrationen, Diagramme 25 cm, 682 g |
| ISBN: | 9783527349210 3527349219 |
Internformat
MARC
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| 245 | 1 | 0 | |a Capillary electrophoresis-mass spectrometry for proteomics and metabolomics |b principles and applications |c edited by Rawi Ramautar and David D.Y. Chen |
| 264 | 1 | |a Weinheim, Germany |b Wiley-VCH |c [2023] | |
| 300 | |a xiv, 386 Seiten |b Illustrationen, Diagramme |c 25 cm, 682 g | ||
| 336 | |b txt |2 rdacontent | ||
| 337 | |b n |2 rdamedia | ||
| 338 | |b nc |2 rdacarrier | ||
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| 650 | 0 | 7 | |a Proteomanalyse |0 (DE-588)4596545-6 |2 gnd |9 rswk-swf |
| 653 | |a Bioanalytical Chemistry | ||
| 653 | |a Bioanalytische Chemie | ||
| 653 | |a Biowissenschaften | ||
| 653 | |a Chemie | ||
| 653 | |a Chemistry | ||
| 653 | |a Genomforschung u. Proteomik | ||
| 653 | |a Genomics & Proteomics | ||
| 653 | |a Kapillarelektrophorese | ||
| 653 | |a Life Sciences | ||
| 653 | |a Mass Spectrometry | ||
| 653 | |a Massenspektrometrie | ||
| 653 | |a Metabolomics | ||
| 653 | |a Proteomics | ||
| 653 | |a CH16: Massenspektrometrie | ||
| 653 | |a CH1D: Bioanalytische Chemie | ||
| 653 | |a LS33: Genomforschung u. Proteomik | ||
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| 700 | 1 | |a Ramautar, Rawi |0 (DE-588)116333376X |4 edt | |
| 700 | 1 | |a Chen, David D.Y. |4 edt | |
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Datensatz im Suchindex
| _version_ | 1804184904573911040 |
|---|---|
| adam_text | CONTENTS
PREFACE
XIII
1
CAPILLARY
ELECTROPHORESIS-MASS
SPECTROMETRY
INTERFACING:
PRINCIPLES
AND
RECENT
DEVELOPMENTS
1
LUKAS
NAUMANN,
JASMIN
SCHAIRER,
ALISA
HOCHSMANN,
ELAHE
NAGHDI,
AND
CHRISTIAN
NEUSILFI
1.1
1.2
1.2.1
1.2.2
1.2.3
1.3
1.3.1
1.3.2
1.4
1.4.1
1.4.2
1.5
1.5.1
1.5.2
1.6
1.7
1.7.1
1.7.2
1.8
INTRODUCTION
1
GENERAL
CONSIDERATIONS
OF
CE-ESI-MS
2
ELECTROSPRAY
IONIZATION
3
ELECTRICAL
CIRCUIT
IN
CE-ESI-MS
4
CE
MODES
AND
CONDITIONS
IN
CE-MS
5
SHEATH
LIQUID
INTERFACES
5
COAXIAL
SHEATH-FLOW
ESI-MS
INTERFACE
6
NANOFLOW
SHEATH
LIQUID
ESI-MS
INTERFACE
9
SHEATHLESS
INTERFACES
14
POROUS-TIP
INTERFACE
15
OTHER
SHEATHLESS
INTERFACES
17
OTHER
CE-ESI-MS
INTERFACES
19
LIQUID
JUNCTION
19
INTERFACE-FREE
CE-MS
21
MICROCHIP
ELECTROPHORESIS-MS
INTERFACES
22
ALTERNATIVE
IONIZATION
TECHNIQUES
FOR
CE-MS
26
CE
AND
MCE
COMBINED
WITH
MALDI-MS
26
CE-ICP-MS
27
CONCLUDING
REMARKS
AND
OUTLOOK
27
LIST
OF
ABBREVIATIONS
28
REFERENCES
28
2
DATA
ANALYSIS
STRATEGIES
IN
CE-MS
FOR
METABOLOMICS
35
NICOLAS
DROUIN,
JULIEN
BOCCARD,
SERGE
RUDAZ,
AND
VICTOR
GONZALEZ-RUIZ
2.1
2.2
INTRODUCTION
35
THE
ANNOTATION
CHALLENGE
IN
CE-MS-BASED
UNTARGETED
METABOLOMICS
36
VI
CONTENTS
2.2.1
2.2.2
2.2.3
2.2.3.1
2.2.3.2
2.2.3.3
2.2.4
2.2.5
2.2.6
2.2.7
2.3
2.3.1
2.3.2
2.3.3
2.4
2.5
PEAK
PICKING
IN
CE-MS
METABOLOMICS
37
ALIGNMENT
APPROACHES
38
HEF
TRANSFORMATION
39
HISTORICAL
EVOLUTION
AND
CURRENT
STATE
39
QUANTITATIVE
ASPECTS
OF
THE
USE
OF
MOBILOGRAMS
43
TECHNICAL
CONSIDERATIONS
OF
THE
HE#
TRANSFORMATION
45
REPRODUCIBILITY
AND
EXCHANGE
OF
HEFF
INFORMATION
USING
LIBRARIES
46
INTERLABORATORY
REPRODUCIBILITY
49
ROMANCE
51
ION
MOBILITY
51
DATA
PRETREATMENT
53
AREA
NORMALIZATION
54
ANALYTICAL
QUALITY
MONITORING
54
DATA
FILTERING
55
DATA
TREATMENT
56
CONCLUDING
REMARKS
58
ACKNOWLEDGMENT
58
REFERENCES
59
3
DATA-PROCESSING
WORKFLOW
FOR
RELATIVE
QUANTIFICATION
FROM
LABEL-FREE
AND
ISOBARIC
LABELING-BASED
UNTARGETED
SHOTGUN
PROTEOMICS:
FROM
DATABASE
SEARCH
TO
DIFFERENTIAL
EXPRESSION
ANALYSIS
65
JENNY
J.
ZHONG,
GREGG
B.
MORIN,
AND
DAVID
D.
Y.
CHEN
3.1
3.2
3.2.1
3.2.1.1
3.2.1.2
3.2.1.3
3.2.1.4
3.2.2
3.2.3
3.2.3.1
3.2.3.2
3.2.3.3
3.2.4
3.3
3.3.1
3.3.2
3.3.2.1
3.3.2.2
3.3.2.3
INTRODUCTION
65
SPECTRA
ACQUISITION
AND
DATABASE
SEARCH
68
PARAMETERS
AFFECTING
SEQUENCE
DATABASE
SEARCH
69
DATABASE
SELECTION
73
ENZYME
SPECIFICITY
AND
MISSED
CLEAVAGES
74
POSTTRANSLATIONAL
MODIFICATIONS
77
PRECURSOR
MASS
TOLERANCE
77
TARGET-DECOY
SEARCH
STRATEGY
FOR
FALSE
DISCOVERY
RATE
ESTIMATION
81
DATABASE
SEARCH
ENGINES
83
SEQUEST
83
MASCOT
85
MULTIPLE
SEARCH
ENGINES
85
PROTEIN
INFERENCE
86
RELATIVE
PROTEIN
QUANTIFICATION
87
FILTERING
87
MISSING
VALUE
IMPUTATION
87
IMPUTATION
METHODS
92
COMPARATIVE
STUDIES
93
NORMALIZATION
99
CONTENTS
VII
3.3.3
3.3.4
3.4
SUMMARIZATION
104
DIFFERENTIAL
EXPRESSION
ANALYSIS
104
CONCLUSIONS
107
REFERENCES
108
4
DATA
PROCESSING
IN
METABOLOMICS
CAPILLARY
ELECTROPHORESIS-MASS
SPECTROMETRY
121
JIAHUA
TAN,
ZI-AO
HUANG,
GREGG
B.
MORIN,
AND
DAVID
D.
Y.
CHEN
4.1
4.2
4.2.1
4.2.2
4.2.3
4.2.4
4.3
4.3.1
4.3.2
4.3.3
4.3.4
4.3.5
4.3.6
4.3.7
4.4
DATA
EXTRACTION
AND
THE
INTERPRETATION
OF
THE
EXTRACTED
DATA
121
DATA
PREPROCESSING
123
HANDLING
MISSING
VALUES
124
NORMALIZATION
124
TRANSFORMATION
127
SCALING
127
STATISTICAL
ANALYSIS
128
TWO-SAMPLE
T-TEST
128
PRINCIPAL
COMPONENT
ANALYSIS
(PCA)
130
PARTIAL
LEAST-SQUARES
DISCRIMINANT
ANALYSIS
(PLS-DA)
132
SUPPORT
VECTOR
MACHINE
132
LOGISTIC
REGRESSION
136
RANDOM
FOREST
MODEL
137
EVALUATION
OF
CLASSIFICATION
MODELS
138
METABOLITE
IDENTIFICATION
142
REFERENCES
142
5
UTILITY
AND
ADVANCES
OF
CAPILLARY
ELECTROPHORESIS-MASS
SPECTROMETRY
FOR
METABOLOMICS
147
WEI
ZHANG
AND
RAWI
RAMAUTAR
5.1
5.2
5.2.1
5.2.2
5.2.3
5.2.4
5.2.5
5.3
5.3.1
5.3.2
5.3.3
5.4
INTRODUCTION
147
TECHNOLOGICAL
DEVELOPMENTS
148
IMPROVING
SENSITIVITY
148
INCREASING
METABOLOME
COVERAGE
158
INCREASING
ANNOTATION
CAPACITY
158
TACKLING
ANIONIC
PROFILING
160
INCREASING
SAMPLE
THROUGHPUT
162
APPLICATIONS
163
BIOMEDICAL
SAMPLES
163
MICROBIAL
EXTRACTS
167
PLANTS
169
CONCLUDING
REMARKS
171
ACKNOWLEDGMENT
171
CONFLICT
OF
INTEREST
172
REFERENCES
172
VIII
CONTENTS
6
COMPREHENSIVE
LIPID
PROFILING
BY
MULTISEGMENT
INJECTION-NONAQUEOUS
CAPILLARY
ELECTROPHORESIS-MASS
SPECTROMETRY:
EXPANDING
COVERAGE
BEYOND
HYDROPHILIC
METABOLITES
179
RITCHIE
LY,
SANDI
M.
AZAB,
MEERA
SHANMUGANATHAN,
AND
PHILIP
BRITZ-MCKIBBIN
6.1
6.2
THE
EARLY
ORIGINS
OF
LIPIDOMICS
179
MAJOR
INSTRUMENTAL
PLATFORMS
IN
LIPIDOMICS:
THE
ROLE
OF
SEPARATION
SCIENCE
180
6.3
6.4
6.5
6.6
NACE-MS:
AN
EMERGING
SEPARATION
PLATFORM
FOR
LIPIDOMICS?
181
MULTIPLEXED
SEPARATIONS
FOR
FATTY
ACIDS
BY
MSI-NACE-MS
181
COMPREHENSIVE
LIPID
PROFILING
STRATEGIES
BY
MSI-NACE-MS
186
FUTURE
PERSPECTIVES
AND
SUMMARY
188
REFERENCES
189
7
STRATEGIES
FOR
IDENTIFICATION
OF
MODIFIED
AMINO
ACIDS
WITH
CE-MS
IN
METABOLOMICS
195
PAULA
CUEVAS-DELGADO,
ANA
GRADILLAS,
AND
CORAL
BARBAS
7.1
7.1.1
7.1.2
7.2
7.3
INTRODUCTION
195
POST-TRANSLATIONAL
MODIFICATIONS
AND
MODIFIED
AMINO
ACIDS
195
MODIFIED
AMINO
ACIDS
AS
BIOMARKERS
OF
PATHOLOGIES
197
METHODS
FOR
THE
DETECTION
OF
MODIFIED
AMINO
ACIDS
198
CAPILLARY
ELECTROPHORESIS
COUPLED
TO
MASS
SPECTROMETRY
TO
ANALYZE
MODIFIED
AMINO
ACIDS
203
7.3.1
7.4
APPLICATIONS
OF
CE-MS
FOR
ANALYSIS
OF
MODIFIED
AMINO
ACIDS
205
RECENT
DEVELOPMENTS
TO
ENHANCE
AND
FACILITATE
THE
ANNOTATION
PROCESS
IN
CE-MS
208
ACKNOWLEDGMENTS
212
REFERENCES
212
8
CE-MS
APPROACHES
FOR
SINGLE-CELL
METABOLOMICS
221
TAKAYUKI
KAWAI
8.1
8.2
8.2.1
8.2.2
8.2.3
8.3
8.3.1
INTRODUCTION
221
TECHNIQUES
FOR
SINGLE-CELL
METABOLOME
ANALYSIS
222
HIGHLY
SENSITIVE
CE-MS
INTERFACING
222
ONLINE
SAMPLE
PRECONCENTRATION
TECHNIQUES
223
ISOLATION
OF
SINGLE
CELLS
224
APPLICATION
TO
SINGLE-CELL
METABOLOME
ANALYSIS
225
METABOLOME
ANALYSIS
OF
LARGE
SINGLE
CELLS
WITH
HIGHLY
SENSITIVE
INTERFACE
225
8.3.2
SINGLE-CELL
METABOLOME
ANALYSIS
WITH
HIGHLY
SENSITIVE
INTERFACE
AND
OSP
METHOD
226
8.3.3
SINGLE-CELL
METABOLOME
ANALYSIS
BY
ONLINE
SAMPLING
AND
HIGHLY
SENSITIVE
INTERFACE
229
CONTENTS
IX
8.4
CONCLUSIONS
230
REFERENCES
230
9
CE-MS
APPROACHES
FOR
PEPTIDOMICS
235
SILLE
STEPANOVA
AND
VACLAV
KASICKA
9.1
9.2
9.3
9.3.1
9.3.2
9.3.3
9.4
9.4.1
9.4.2
9.4.3
9.5
INTRODUCTION
235
SAMPLE
PREPARATION
238
CE-MS
240
BASIC
CHARACTERIZATION
240
PEPTIDE
IDENTIFICATION
242
PEPTIDE
QUANTITATION
244
APPLICATIONS
245
SEARCH,
IDENTIFICATION,
AND
DETERMINATION
OF
BIOMARKERS
245
FOOD
PEPTIDOMICS
248
OTHER
APPLICATIONS
249
CONCLUSIONS
250
ACKNOWLEDGMENTS
250
LIST
OF
ABBREVIATIONS
251
REFERENCES
251
10
CAPILLARY
ZONE
ELECTROPHORESIS-MASS
SPECTROMETRY
FOR
TOP-DOWN
PROTEOMICS:
TECHNOLOGICAL
DEVELOPMENT
AND
BIOLOGICAL
APPLICATIONS
261
LIANGLIANG
SUN
10.1
10.2
10.2.1
10.2.2
10.2.3
10.2.4
INTRODUCTION
261
TECHNOLOGICAL
DEVELOPMENT
263
CE-MS
INTERFACE
263
CAPILLARY
COATING
264
SAMPLE
LOADING
CAPACITY
AND
SEPARATION
WINDOW
265
COUPLING
NOVEL
GAS-PHASE
FRAGMENTATION
TECHNIQUES
TO
CZE-MS/MS
FORTDP
267
10.2.5
10.3
10.3.1
ELECTROPHORETIC
MOBILITY
PREDICTION
OF
PROTEOFORMS
268
APPLICATIONS
OF
CZE-MS-BASED
TDP
269
DELINEATION
OF
PROTEOFORMS
OF
COMPLEX
PROTEOMES,
DISEASE
BIOMARKERS,
AND
BIOPHARMACEUTICALS
269
10.3.2
10.4
CZE-MS
FOR
NATIVE
TDP
270
CONCLUSIONS
AND
PERSPECTIVES
272
ACKNOWLEDGMENTS
272
REFERENCES
272
11
CE-MS
METHODS
FOR
THE
CHARACTERIZATION
OF
MONOCLONAL
ANTIBODIES
281
TESSA
REINERT,
ALAIN
BECK,
PASCAL
HOUZE,
RABAH
GAHOUAL,
AND
YANNIS
FRANCOIS
11.1
11.2
INTRODUCTION
281
MAB
CHARACTERIZATION
APPROACHES
283
X
CONTENTS
11.3
11.3.1
11.3.1.1
11.3.1.2
11.3.1.3
APPLICATIONS
288
PRIMARY
STRUCTURE
CHARACTERIZATION
OF
MONOCLONAL
ANTIBODIES
288
ANALYTICAL
WORKFLOW
288
AMINO
ACID
SEQUENCE
CHARACTERIZATION
USING
CE-MS(/MS)
290
PTMS
CHARACTERIZATION
AND
RELATIVE
QUANTIFICATION
USING
CE-MS(/MS)
291
11.3.1.4
11.3.2
11.3.2.1
11.3.2.2
11.3.2.3
11.3.3
11.3.3.1
11.3.3.2
11.3.3.3
11.3.4
11.4
GLYCOSYLATION
DETERMINATION
USING
CE-MS(/MS)
294
MIDDLE-UP/MIDDLE-DOWN
ANALYSIS
296
ANALYTICAL
WORKFLOW
296
MAB
ANALYSIS
USING
MIDDLE-UP
STRATEGY
298
MAB
ANALYSIS
USING
MIDDLE-DOWN
STRATEGY
299
INTACT
ANALYSIS
299
ANALYTICAL
WORKFLOW
300
MAB
ANALYSIS
IN
DENATURING
CONDITIONS
USING
CE-MS
300
MAB
ANALYSIS
IN
NATIVE
CONDITIONS
USING
CE-MS
301
AUTOMATION:
FUTURE
OF
CE-MS
FOR
MAB
ANALYSIS
302
CONCLUSION
304
REFERENCES
305
12
CE
AND
CE-MS
APPROACHES
FOR
GLYCAN
ANALYSIS
313
DANIEL
SARKOZY
AND
ANDRAS
GUTTMAN
12.1
12.2
12.2.1
12.2.2
12.2.3
12.2.4
12.3
12.3.1
THE
IMPORTANCE
OF
GLYCOSYLATION
313
CAPILLARY
ELECTROPHORESIS
IN
ANALYTICAL
GLYCOMICS
314
SAMPLE
PREPARATION
FOR
CE-BASED
GLYCAN
ANALYSIS
315
ANALYSIS
OF
OLIGOSACCHARIDES
FROM
BIOLOGICAL
SAMPLES
316
STRUCTURAL ELUCIDATION
OF
CARBOHYDRATES:
THE
GU
VALUE
APPROACH
318
LIF
SENSITIVITY
AND
QUANTIFICATION
321
CE-MS
OF
OLIGOSACCHARIDES
322
MAJOR
PARAMETERS
TO
SET
THE
ESI
FOR
CE-MS
OF
DERIVATIZED
OLIGOSACCHARIDES
322
12.3.2
12.3.3
12.4
CE-MS
FOR
QUANTITATIVE
CARBOHYDRATE
ANALYSIS
323
CE-MS
FOR
GLYCOMIC
STUDIES
326
CONCLUSIONS
AND
FUTURE
PROSPECTIVE
328
ACKNOWLEDGMENT
329
REFERENCES
329
13
CE
-
MS
APPROACHES
FOR
GLYCO(PROTEO)MIC
ANALYSIS
335
WEI
WANG,
WENJUN
WANG,
AND
GUINEVERE
S.M.
LAGEVEEN-KAMMEIJER
13.1
13.1.1
13.1.2
13.1.3
13.1.4
13.1.5
13.2
INTRODUCTION
335
N
LINKED
GLYCOSYLATION
336
O-LINKED
GLYCOSYLATION
337
GLYCOSYLATION
WORKFLOWS
338
ANALYTICAL
APPROACHES
340
CE-MS
INTERFACES
342
GLYCAN
ANALYSIS
BY
CE-MS
345
CONTENTS
XI
13.2.1
13.3
13.3.1
13.3.2
13.3.3
13.4
13.4.1
13.4.2
13.4.3
13.5
GLYCAN
DERIVATIZATION
STRATEGIES
346
GLYCOPEPTIDE
ANALYSIS
349
SAMPLE
TREATMENT
350
SEPARATION
CONDITIONS
351
APPLICATIONS
353
PROTEIN
ANALYSIS
355
SAMPLE
TREATMENT
356
SEPARATION
CONDITIONS
357
APPLICATIONS
358
CONCLUSIONS
AND
OUTLOOK
362
ACKNOWLEDGMENTS
363
LIST
OF
ABBREVIATIONS
363
REFERENCES
365
INDEX
377
|
| adam_txt |
CONTENTS
PREFACE
XIII
1
CAPILLARY
ELECTROPHORESIS-MASS
SPECTROMETRY
INTERFACING:
PRINCIPLES
AND
RECENT
DEVELOPMENTS
1
LUKAS
NAUMANN,
JASMIN
SCHAIRER,
ALISA
HOCHSMANN,
ELAHE
NAGHDI,
AND
CHRISTIAN
NEUSILFI
1.1
1.2
1.2.1
1.2.2
1.2.3
1.3
1.3.1
1.3.2
1.4
1.4.1
1.4.2
1.5
1.5.1
1.5.2
1.6
1.7
1.7.1
1.7.2
1.8
INTRODUCTION
1
GENERAL
CONSIDERATIONS
OF
CE-ESI-MS
2
ELECTROSPRAY
IONIZATION
3
ELECTRICAL
CIRCUIT
IN
CE-ESI-MS
4
CE
MODES
AND
CONDITIONS
IN
CE-MS
5
SHEATH
LIQUID
INTERFACES
5
COAXIAL
SHEATH-FLOW
ESI-MS
INTERFACE
6
NANOFLOW
SHEATH
LIQUID
ESI-MS
INTERFACE
9
SHEATHLESS
INTERFACES
14
POROUS-TIP
INTERFACE
15
OTHER
SHEATHLESS
INTERFACES
17
OTHER
CE-ESI-MS
INTERFACES
19
LIQUID
JUNCTION
19
INTERFACE-FREE
CE-MS
21
MICROCHIP
ELECTROPHORESIS-MS
INTERFACES
22
ALTERNATIVE
IONIZATION
TECHNIQUES
FOR
CE-MS
26
CE
AND
MCE
COMBINED
WITH
MALDI-MS
26
CE-ICP-MS
27
CONCLUDING
REMARKS
AND
OUTLOOK
27
LIST
OF
ABBREVIATIONS
28
REFERENCES
28
2
DATA
ANALYSIS
STRATEGIES
IN
CE-MS
FOR
METABOLOMICS
35
NICOLAS
DROUIN,
JULIEN
BOCCARD,
SERGE
RUDAZ,
AND
VICTOR
GONZALEZ-RUIZ
2.1
2.2
INTRODUCTION
35
THE
ANNOTATION
CHALLENGE
IN
CE-MS-BASED
UNTARGETED
METABOLOMICS
36
VI
CONTENTS
2.2.1
2.2.2
2.2.3
2.2.3.1
2.2.3.2
2.2.3.3
2.2.4
2.2.5
2.2.6
2.2.7
2.3
2.3.1
2.3.2
2.3.3
2.4
2.5
PEAK
PICKING
IN
CE-MS
METABOLOMICS
37
ALIGNMENT
APPROACHES
38
HEF
TRANSFORMATION
39
HISTORICAL
EVOLUTION
AND
CURRENT
STATE
39
QUANTITATIVE
ASPECTS
OF
THE
USE
OF
MOBILOGRAMS
43
TECHNICAL
CONSIDERATIONS
OF
THE
HE#
TRANSFORMATION
45
REPRODUCIBILITY
AND
EXCHANGE
OF
HEFF
INFORMATION
USING
LIBRARIES
46
INTERLABORATORY
REPRODUCIBILITY
49
ROMANCE
51
ION
MOBILITY
51
DATA
PRETREATMENT
53
AREA
NORMALIZATION
54
ANALYTICAL
QUALITY
MONITORING
54
DATA
FILTERING
55
DATA
TREATMENT
56
CONCLUDING
REMARKS
58
ACKNOWLEDGMENT
58
REFERENCES
59
3
DATA-PROCESSING
WORKFLOW
FOR
RELATIVE
QUANTIFICATION
FROM
LABEL-FREE
AND
ISOBARIC
LABELING-BASED
UNTARGETED
SHOTGUN
PROTEOMICS:
FROM
DATABASE
SEARCH
TO
DIFFERENTIAL
EXPRESSION
ANALYSIS
65
JENNY
J.
ZHONG,
GREGG
B.
MORIN,
AND
DAVID
D.
Y.
CHEN
3.1
3.2
3.2.1
3.2.1.1
3.2.1.2
3.2.1.3
3.2.1.4
3.2.2
3.2.3
3.2.3.1
3.2.3.2
3.2.3.3
3.2.4
3.3
3.3.1
3.3.2
3.3.2.1
3.3.2.2
3.3.2.3
INTRODUCTION
65
SPECTRA
ACQUISITION
AND
DATABASE
SEARCH
68
PARAMETERS
AFFECTING
SEQUENCE
DATABASE
SEARCH
69
DATABASE
SELECTION
73
ENZYME
SPECIFICITY
AND
MISSED
CLEAVAGES
74
POSTTRANSLATIONAL
MODIFICATIONS
77
PRECURSOR
MASS
TOLERANCE
77
TARGET-DECOY
SEARCH
STRATEGY
FOR
FALSE
DISCOVERY
RATE
ESTIMATION
81
DATABASE
SEARCH
ENGINES
83
SEQUEST
83
MASCOT
85
MULTIPLE
SEARCH
ENGINES
85
PROTEIN
INFERENCE
86
RELATIVE
PROTEIN
QUANTIFICATION
87
FILTERING
87
MISSING
VALUE
IMPUTATION
87
IMPUTATION
METHODS
92
COMPARATIVE
STUDIES
93
NORMALIZATION
99
CONTENTS
VII
3.3.3
3.3.4
3.4
SUMMARIZATION
104
DIFFERENTIAL
EXPRESSION
ANALYSIS
104
CONCLUSIONS
107
REFERENCES
108
4
DATA
PROCESSING
IN
METABOLOMICS
CAPILLARY
ELECTROPHORESIS-MASS
SPECTROMETRY
121
JIAHUA
TAN,
ZI-AO
HUANG,
GREGG
B.
MORIN,
AND
DAVID
D.
Y.
CHEN
4.1
4.2
4.2.1
4.2.2
4.2.3
4.2.4
4.3
4.3.1
4.3.2
4.3.3
4.3.4
4.3.5
4.3.6
4.3.7
4.4
DATA
EXTRACTION
AND
THE
INTERPRETATION
OF
THE
EXTRACTED
DATA
121
DATA
PREPROCESSING
123
HANDLING
MISSING
VALUES
124
NORMALIZATION
124
TRANSFORMATION
127
SCALING
127
STATISTICAL
ANALYSIS
128
TWO-SAMPLE
T-TEST
128
PRINCIPAL
COMPONENT
ANALYSIS
(PCA)
130
PARTIAL
LEAST-SQUARES
DISCRIMINANT
ANALYSIS
(PLS-DA)
132
SUPPORT
VECTOR
MACHINE
132
LOGISTIC
REGRESSION
136
RANDOM
FOREST
MODEL
137
EVALUATION
OF
CLASSIFICATION
MODELS
138
METABOLITE
IDENTIFICATION
142
REFERENCES
142
5
UTILITY
AND
ADVANCES
OF
CAPILLARY
ELECTROPHORESIS-MASS
SPECTROMETRY
FOR
METABOLOMICS
147
WEI
ZHANG
AND
RAWI
RAMAUTAR
5.1
5.2
5.2.1
5.2.2
5.2.3
5.2.4
5.2.5
5.3
5.3.1
5.3.2
5.3.3
5.4
INTRODUCTION
147
TECHNOLOGICAL
DEVELOPMENTS
148
IMPROVING
SENSITIVITY
148
INCREASING
METABOLOME
COVERAGE
158
INCREASING
ANNOTATION
CAPACITY
158
TACKLING
ANIONIC
PROFILING
160
INCREASING
SAMPLE
THROUGHPUT
162
APPLICATIONS
163
BIOMEDICAL
SAMPLES
163
MICROBIAL
EXTRACTS
167
PLANTS
169
CONCLUDING
REMARKS
171
ACKNOWLEDGMENT
171
CONFLICT
OF
INTEREST
172
REFERENCES
172
VIII
CONTENTS
6
COMPREHENSIVE
LIPID
PROFILING
BY
MULTISEGMENT
INJECTION-NONAQUEOUS
CAPILLARY
ELECTROPHORESIS-MASS
SPECTROMETRY:
EXPANDING
COVERAGE
BEYOND
HYDROPHILIC
METABOLITES
179
RITCHIE
LY,
SANDI
M.
AZAB,
MEERA
SHANMUGANATHAN,
AND
PHILIP
BRITZ-MCKIBBIN
6.1
6.2
THE
EARLY
ORIGINS
OF
LIPIDOMICS
179
MAJOR
INSTRUMENTAL
PLATFORMS
IN
LIPIDOMICS:
THE
ROLE
OF
SEPARATION
SCIENCE
180
6.3
6.4
6.5
6.6
NACE-MS:
AN
EMERGING
SEPARATION
PLATFORM
FOR
LIPIDOMICS?
181
MULTIPLEXED
SEPARATIONS
FOR
FATTY
ACIDS
BY
MSI-NACE-MS
181
COMPREHENSIVE
LIPID
PROFILING
STRATEGIES
BY
MSI-NACE-MS
186
FUTURE
PERSPECTIVES
AND
SUMMARY
188
REFERENCES
189
7
STRATEGIES
FOR
IDENTIFICATION
OF
MODIFIED
AMINO
ACIDS
WITH
CE-MS
IN
METABOLOMICS
195
PAULA
CUEVAS-DELGADO,
ANA
GRADILLAS,
AND
CORAL
BARBAS
7.1
7.1.1
7.1.2
7.2
7.3
INTRODUCTION
195
POST-TRANSLATIONAL
MODIFICATIONS
AND
MODIFIED
AMINO
ACIDS
195
MODIFIED
AMINO
ACIDS
AS
BIOMARKERS
OF
PATHOLOGIES
197
METHODS
FOR
THE
DETECTION
OF
MODIFIED
AMINO
ACIDS
198
CAPILLARY
ELECTROPHORESIS
COUPLED
TO
MASS
SPECTROMETRY
TO
ANALYZE
MODIFIED
AMINO
ACIDS
203
7.3.1
7.4
APPLICATIONS
OF
CE-MS
FOR
ANALYSIS
OF
MODIFIED
AMINO
ACIDS
205
RECENT
DEVELOPMENTS
TO
ENHANCE
AND
FACILITATE
THE
ANNOTATION
PROCESS
IN
CE-MS
208
ACKNOWLEDGMENTS
212
REFERENCES
212
8
CE-MS
APPROACHES
FOR
SINGLE-CELL
METABOLOMICS
221
TAKAYUKI
KAWAI
8.1
8.2
8.2.1
8.2.2
8.2.3
8.3
8.3.1
INTRODUCTION
221
TECHNIQUES
FOR
SINGLE-CELL
METABOLOME
ANALYSIS
222
HIGHLY
SENSITIVE
CE-MS
INTERFACING
222
ONLINE
SAMPLE
PRECONCENTRATION
TECHNIQUES
223
ISOLATION
OF
SINGLE
CELLS
224
APPLICATION
TO
SINGLE-CELL
METABOLOME
ANALYSIS
225
METABOLOME
ANALYSIS
OF
LARGE
SINGLE
CELLS
WITH
HIGHLY
SENSITIVE
INTERFACE
225
8.3.2
SINGLE-CELL
METABOLOME
ANALYSIS
WITH
HIGHLY
SENSITIVE
INTERFACE
AND
OSP
METHOD
226
8.3.3
SINGLE-CELL
METABOLOME
ANALYSIS
BY
ONLINE
SAMPLING
AND
HIGHLY
SENSITIVE
INTERFACE
229
CONTENTS
IX
8.4
CONCLUSIONS
230
REFERENCES
230
9
CE-MS
APPROACHES
FOR
PEPTIDOMICS
235
SILLE
STEPANOVA
AND
VACLAV
KASICKA
9.1
9.2
9.3
9.3.1
9.3.2
9.3.3
9.4
9.4.1
9.4.2
9.4.3
9.5
INTRODUCTION
235
SAMPLE
PREPARATION
238
CE-MS
240
BASIC
CHARACTERIZATION
240
PEPTIDE
IDENTIFICATION
242
PEPTIDE
QUANTITATION
244
APPLICATIONS
245
SEARCH,
IDENTIFICATION,
AND
DETERMINATION
OF
BIOMARKERS
245
FOOD
PEPTIDOMICS
248
OTHER
APPLICATIONS
249
CONCLUSIONS
250
ACKNOWLEDGMENTS
250
LIST
OF
ABBREVIATIONS
251
REFERENCES
251
10
CAPILLARY
ZONE
ELECTROPHORESIS-MASS
SPECTROMETRY
FOR
TOP-DOWN
PROTEOMICS:
TECHNOLOGICAL
DEVELOPMENT
AND
BIOLOGICAL
APPLICATIONS
261
LIANGLIANG
SUN
10.1
10.2
10.2.1
10.2.2
10.2.3
10.2.4
INTRODUCTION
261
TECHNOLOGICAL
DEVELOPMENT
263
CE-MS
INTERFACE
263
CAPILLARY
COATING
264
SAMPLE
LOADING
CAPACITY
AND
SEPARATION
WINDOW
265
COUPLING
NOVEL
GAS-PHASE
FRAGMENTATION
TECHNIQUES
TO
CZE-MS/MS
FORTDP
267
10.2.5
10.3
10.3.1
ELECTROPHORETIC
MOBILITY
PREDICTION
OF
PROTEOFORMS
268
APPLICATIONS
OF
CZE-MS-BASED
TDP
269
DELINEATION
OF
PROTEOFORMS
OF
COMPLEX
PROTEOMES,
DISEASE
BIOMARKERS,
AND
BIOPHARMACEUTICALS
269
10.3.2
10.4
CZE-MS
FOR
NATIVE
TDP
270
CONCLUSIONS
AND
PERSPECTIVES
272
ACKNOWLEDGMENTS
272
REFERENCES
272
11
CE-MS
METHODS
FOR
THE
CHARACTERIZATION
OF
MONOCLONAL
ANTIBODIES
281
TESSA
REINERT,
ALAIN
BECK,
PASCAL
HOUZE,
RABAH
GAHOUAL,
AND
YANNIS
FRANCOIS
11.1
11.2
INTRODUCTION
281
MAB
CHARACTERIZATION
APPROACHES
283
X
CONTENTS
11.3
11.3.1
11.3.1.1
11.3.1.2
11.3.1.3
APPLICATIONS
288
PRIMARY
STRUCTURE
CHARACTERIZATION
OF
MONOCLONAL
ANTIBODIES
288
ANALYTICAL
WORKFLOW
288
AMINO
ACID
SEQUENCE
CHARACTERIZATION
USING
CE-MS(/MS)
290
PTMS
CHARACTERIZATION
AND
RELATIVE
QUANTIFICATION
USING
CE-MS(/MS)
291
11.3.1.4
11.3.2
11.3.2.1
11.3.2.2
11.3.2.3
11.3.3
11.3.3.1
11.3.3.2
11.3.3.3
11.3.4
11.4
GLYCOSYLATION
DETERMINATION
USING
CE-MS(/MS)
294
MIDDLE-UP/MIDDLE-DOWN
ANALYSIS
296
ANALYTICAL
WORKFLOW
296
MAB
ANALYSIS
USING
MIDDLE-UP
STRATEGY
298
MAB
ANALYSIS
USING
MIDDLE-DOWN
STRATEGY
299
INTACT
ANALYSIS
299
ANALYTICAL
WORKFLOW
300
MAB
ANALYSIS
IN
DENATURING
CONDITIONS
USING
CE-MS
300
MAB
ANALYSIS
IN
NATIVE
CONDITIONS
USING
CE-MS
301
AUTOMATION:
FUTURE
OF
CE-MS
FOR
MAB
ANALYSIS
302
CONCLUSION
304
REFERENCES
305
12
CE
AND
CE-MS
APPROACHES
FOR
GLYCAN
ANALYSIS
313
DANIEL
SARKOZY
AND
ANDRAS
GUTTMAN
12.1
12.2
12.2.1
12.2.2
12.2.3
12.2.4
12.3
12.3.1
THE
IMPORTANCE
OF
GLYCOSYLATION
313
CAPILLARY
ELECTROPHORESIS
IN
ANALYTICAL
GLYCOMICS
314
SAMPLE
PREPARATION
FOR
CE-BASED
GLYCAN
ANALYSIS
315
ANALYSIS
OF
OLIGOSACCHARIDES
FROM
BIOLOGICAL
SAMPLES
316
STRUCTURAL ELUCIDATION
OF
CARBOHYDRATES:
THE
GU
VALUE
APPROACH
318
LIF
SENSITIVITY
AND
QUANTIFICATION
321
CE-MS
OF
OLIGOSACCHARIDES
322
MAJOR
PARAMETERS
TO
SET
THE
ESI
FOR
CE-MS
OF
DERIVATIZED
OLIGOSACCHARIDES
322
12.3.2
12.3.3
12.4
CE-MS
FOR
QUANTITATIVE
CARBOHYDRATE
ANALYSIS
323
CE-MS
FOR
GLYCOMIC
STUDIES
326
CONCLUSIONS
AND
FUTURE
PROSPECTIVE
328
ACKNOWLEDGMENT
329
REFERENCES
329
13
CE
-
MS
APPROACHES
FOR
GLYCO(PROTEO)MIC
ANALYSIS
335
WEI
WANG,
WENJUN
WANG,
AND
GUINEVERE
S.M.
LAGEVEEN-KAMMEIJER
13.1
13.1.1
13.1.2
13.1.3
13.1.4
13.1.5
13.2
INTRODUCTION
335
N
LINKED
GLYCOSYLATION
336
O-LINKED
GLYCOSYLATION
337
GLYCOSYLATION
WORKFLOWS
338
ANALYTICAL
APPROACHES
340
CE-MS
INTERFACES
342
GLYCAN
ANALYSIS
BY
CE-MS
345
CONTENTS
XI
13.2.1
13.3
13.3.1
13.3.2
13.3.3
13.4
13.4.1
13.4.2
13.4.3
13.5
GLYCAN
DERIVATIZATION
STRATEGIES
346
GLYCOPEPTIDE
ANALYSIS
349
SAMPLE
TREATMENT
350
SEPARATION
CONDITIONS
351
APPLICATIONS
353
PROTEIN
ANALYSIS
355
SAMPLE
TREATMENT
356
SEPARATION
CONDITIONS
357
APPLICATIONS
358
CONCLUSIONS
AND
OUTLOOK
362
ACKNOWLEDGMENTS
363
LIST
OF
ABBREVIATIONS
363
REFERENCES
365
INDEX
377 |
| any_adam_object | 1 |
| any_adam_object_boolean | 1 |
| author2 | Ramautar, Rawi Chen, David D.Y |
| author2_role | edt edt |
| author2_variant | r r rr d d c dd ddc |
| author_GND | (DE-588)116333376X |
| author_facet | Ramautar, Rawi Chen, David D.Y |
| building | Verbundindex |
| bvnumber | BV048815966 |
| classification_rvk | VG 9800 |
| ctrlnum | (OCoLC)1355329223 (DE-599)DNB1258092069 |
| dewey-full | 572.636 572.5 |
| dewey-hundreds | 500 - Natural sciences and mathematics |
| dewey-ones | 572 - Biochemistry |
| dewey-raw | 572.636 572.5 |
| dewey-search | 572.636 572.5 |
| dewey-sort | 3572.636 |
| dewey-tens | 570 - Biology |
| discipline | Chemie / Pharmazie Biologie |
| discipline_str_mv | Chemie / Pharmazie Biologie |
| format | Book |
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| genre | (DE-588)4143413-4 Aufsatzsammlung gnd-content |
| genre_facet | Aufsatzsammlung |
| id | DE-604.BV048815966 |
| illustrated | Illustrated |
| index_date | 2024-07-03T21:31:33Z |
| indexdate | 2024-07-10T09:46:45Z |
| institution | BVB |
| institution_GND | (DE-588)16179388-5 |
| isbn | 9783527349210 3527349219 |
| language | English |
| oai_aleph_id | oai:aleph.bib-bvb.de:BVB01-034081796 |
| oclc_num | 1355329223 |
| open_access_boolean | |
| owner | DE-703 DE-19 DE-BY-UBM |
| owner_facet | DE-703 DE-19 DE-BY-UBM |
| physical | xiv, 386 Seiten Illustrationen, Diagramme 25 cm, 682 g |
| publishDate | 2023 |
| publishDateSearch | 2023 |
| publishDateSort | 2023 |
| publisher | Wiley-VCH |
| record_format | marc |
| spelling | Capillary electrophoresis-mass spectrometry for proteomics and metabolomics principles and applications edited by Rawi Ramautar and David D.Y. Chen Weinheim, Germany Wiley-VCH [2023] xiv, 386 Seiten Illustrationen, Diagramme 25 cm, 682 g txt rdacontent n rdamedia nc rdacarrier Kapillarelektrophorese (DE-588)4290002-5 gnd rswk-swf Metabolomik (DE-588)1138059420 gnd rswk-swf Massenspektrometrie (DE-588)4037882-2 gnd rswk-swf Proteomanalyse (DE-588)4596545-6 gnd rswk-swf Bioanalytical Chemistry Bioanalytische Chemie Biowissenschaften Chemie Chemistry Genomforschung u. Proteomik Genomics & Proteomics Kapillarelektrophorese Life Sciences Mass Spectrometry Massenspektrometrie Metabolomics Proteomics CH16: Massenspektrometrie CH1D: Bioanalytische Chemie LS33: Genomforschung u. Proteomik (DE-588)4143413-4 Aufsatzsammlung gnd-content Proteomanalyse (DE-588)4596545-6 s Metabolomik (DE-588)1138059420 s Kapillarelektrophorese (DE-588)4290002-5 s Massenspektrometrie (DE-588)4037882-2 s DE-604 Ramautar, Rawi (DE-588)116333376X edt Chen, David D.Y. edt Wiley-VCH (DE-588)16179388-5 pbl Erscheint auch als Online-Ausgabe, PDF 978-3-527-83308-5 Erscheint auch als Online-Ausgabe, EPUB 978-3-527-83310-8 Erscheint auch als Online-Ausgabe 978-3-527-83309-2 X:MVB http://www.wiley-vch.de/publish/dt/books/ISBN978-3-527-34921-0/ B:DE-101 application/pdf https://d-nb.info/1258092069/04 Inhaltsverzeichnis DNB Datenaustausch application/pdf http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=034081796&sequence=000001&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA Inhaltsverzeichnis 1\p dnb 20230203 DE-101 https://d-nb.info/provenance/plan#dnb 2\p dnb 20230203 DE-101 https://d-nb.info/provenance/plan#dnb 3\p dnb 20230203 DE-101 https://d-nb.info/provenance/plan#dnb |
| spellingShingle | Capillary electrophoresis-mass spectrometry for proteomics and metabolomics principles and applications Kapillarelektrophorese (DE-588)4290002-5 gnd Metabolomik (DE-588)1138059420 gnd Massenspektrometrie (DE-588)4037882-2 gnd Proteomanalyse (DE-588)4596545-6 gnd |
| subject_GND | (DE-588)4290002-5 (DE-588)1138059420 (DE-588)4037882-2 (DE-588)4596545-6 (DE-588)4143413-4 |
| title | Capillary electrophoresis-mass spectrometry for proteomics and metabolomics principles and applications |
| title_auth | Capillary electrophoresis-mass spectrometry for proteomics and metabolomics principles and applications |
| title_exact_search | Capillary electrophoresis-mass spectrometry for proteomics and metabolomics principles and applications |
| title_exact_search_txtP | Capillary electrophoresis-mass spectrometry for proteomics and metabolomics principles and applications |
| title_full | Capillary electrophoresis-mass spectrometry for proteomics and metabolomics principles and applications edited by Rawi Ramautar and David D.Y. Chen |
| title_fullStr | Capillary electrophoresis-mass spectrometry for proteomics and metabolomics principles and applications edited by Rawi Ramautar and David D.Y. Chen |
| title_full_unstemmed | Capillary electrophoresis-mass spectrometry for proteomics and metabolomics principles and applications edited by Rawi Ramautar and David D.Y. Chen |
| title_short | Capillary electrophoresis-mass spectrometry for proteomics and metabolomics |
| title_sort | capillary electrophoresis mass spectrometry for proteomics and metabolomics principles and applications |
| title_sub | principles and applications |
| topic | Kapillarelektrophorese (DE-588)4290002-5 gnd Metabolomik (DE-588)1138059420 gnd Massenspektrometrie (DE-588)4037882-2 gnd Proteomanalyse (DE-588)4596545-6 gnd |
| topic_facet | Kapillarelektrophorese Metabolomik Massenspektrometrie Proteomanalyse Aufsatzsammlung |
| url | http://www.wiley-vch.de/publish/dt/books/ISBN978-3-527-34921-0/ https://d-nb.info/1258092069/04 http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=034081796&sequence=000001&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA |
| work_keys_str_mv | AT ramautarrawi capillaryelectrophoresismassspectrometryforproteomicsandmetabolomicsprinciplesandapplications AT chendaviddy capillaryelectrophoresismassspectrometryforproteomicsandmetabolomicsprinciplesandapplications AT wileyvch capillaryelectrophoresismassspectrometryforproteomicsandmetabolomicsprinciplesandapplications |
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