Analysis and control of cellular ensembles: exploiting dimensionality reduction in single-cell data and models
Saved in:
| Main Author: | |
|---|---|
| Format: | Thesis Book |
| Language: | English |
| Published: |
Berlin
Logos Verlag
[2020]
|
| Subjects: | |
| Online Access: | Inhaltstext Inhaltsverzeichnis Inhaltsverzeichnis |
| Physical Description: | 127 Seiten Illustrationen, Diagramme 21 cm |
| ISBN: | 9783832552091 383255209X |
Staff View
MARC
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| 100 | 1 | |a Kuritz, Karsten |e Verfasser |4 aut | |
| 245 | 1 | 0 | |a Analysis and control of cellular ensembles |b exploiting dimensionality reduction in single-cell data and models |c Karsten Kuritz |
| 264 | 1 | |a Berlin |b Logos Verlag |c [2020] | |
| 300 | |a 127 Seiten |b Illustrationen, Diagramme |c 21 cm | ||
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| 502 | |b Dissertation |c Universität Stuttgart |d 2020 | ||
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| 653 | |a Differenzialgleichung | ||
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Record in the Search Index
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|---|---|
| adam_text | TABLE
OF
CONTENTS
ABSTRACT
IX
DEUTSCHE
KURZFASSUNG
XI
1
INTRODUCTION
I
1.1
MOTIVATION
AND
FOCUS
..............................................................................................
I
1.2
CONTRIBUTIONS
AND
OUTLINE
......................................................................................
3
PARTI
ANALYSIS
2
RECONSTRUCTING
TEMPORAL
AND
SPATIAL
DYNAMICS
FROM
SINGLE-CELL
PSEUDOTIME
N
2.1
BACKGROUND
AND
PROBLEM
FORMULATION
..................................................................
12
2.2
MAPIT
-
MAP
OF
PSEUDOTIME
INTO
REAL-TIME
......................................................
12
2.3
RECONSTRUCTING
SPHEROIDS
WITH
MAPIT
..................................................................
15
2.4
ANALYSING
CELL
CYCLE
PROGRESSION
WITH
MAPIT
......................................................
22
2.5
SUMMARY
AND
DISCUSSION
.....................................................................................
25
3
CELL
CYCLE
ANALYSIS
WITH
ERGODIC
PRINCIPLES
AND
AGE-STRUCTURED
POPULATION
MODELS
29
3.1
BACKGROUND
AND
PROBLEM
FORMULATION
..................................................................
29
3.2
AGE-STRUCTURED
POPULATION
MODELS
.......................................................................
30
3.3
RELATIONSHIP
BETWEEN
ERGODIC
ANALYSIS
AND
AGE-STRUCTURE
POPULATION
MODELS
.
31
3.4
CELL
CYCLE-DEPENDENT
EXPRESSION
OF CYCLIN
BI
......................................................
37
3.5
SUMMARY
AND
DISCUSSION
.....................................................................................
42
4
CELL
CYCLE
PROGRESSION
INFERENCE
45
4.1
BACKGROUND
AND
PROBLEM
FORMULATION
..................................................................
45
4.2
CELL
CYCLE
PROGRESSION
INFERENCE
WITH
SENSITIVITIES
..............................................
47
4.3
EVALUATION
WITH
IN
SILICO
DATA
................................................................................
51
4.4
ANALYSIS
OF
CELL
CYCLE
PROGRESSION
..........................................................................
53
4.5
SUMMARY
AND
DISCUSSION
.....................................................................................
54
PART
II
CONTROL
5
PASSIVITY-BASED
ENSEMBLE
CONTROL
FOR
CELL
CYCLE
SYNCHRONIZATION
59
5.1
BACKGROUND
AND
PROBLEM
FORMULATION
..................................................................
59
5.2
THEORETICAL
FOUNDATION
...........................................................................................
60
5.3
ENSEMBLE
CONTROL
FOR
CELL
CYCLE
SYNCHRONIZATION
.................................................
62
5.4
COMPUTATIONAL
STUDIES
...........................................................................................
66
5.5
SUMMARY
AND
DISCUSSION
.....................................................................................
71
6
ENSEMBLE
CONTROL
FOR
CELLULAR
OSCILLATORS
73
6.1
BACKGROUND
AND
PROBLEM
FORMULATION
..................................................................
73
6.2
ENSEMBLE
CONTROL
FOR
OSCILLATOR
MOMENTS
.............................................................
76
6.3
COMPUTATIONAL
STUDIES
............................................................................................
80
6.4
SUMMARY
AND
DISCUSSION
......................................................................................
83
7
CONCLUSIONS
85
7.1
SUMMARY
AND
DISCUSSION
......................................................................................
85
7.2
OUTLOOK
......................................................................................................................
88
APPENDICES
91
A
TECHNICAL
BACKGROUND
93
A.I
DYNAMICAL
SYSTEMS
AND
CONTROL
THEORY
...............................................................
93
A.
2
WEAKLY
CONNECTED
OSCILLATORS
.................................................................................
95
A.
3
FOURIER
COEFFICIENTS
AND
CIRCULAR
MOMENTS
............................................................
98
B
EXPERIMENTAL
PROTOCOLS
AND
DATA
PREPROCESSING
101
B.
I
ORDERING
CELLS
IN
PSEUDOTIME
..................................................................................
101
B.2
ESTABLISHMENT
OF
NCI-H460/GEMININ
CELL
LINE
......................................................
103
B.3
LIVE
CELL
MICROSCOPY
.................................................................................................
103
B.4
FLOW
CYTOMETRIC
ANALYSIS
...........................................................................................
104
B.5
CONSTRUCTION
OF
THE
AVERAGE
CELL
CYCLE
TRAJECTORY
...................................................
104
B.6
ESTIMATION
OF
CONSTANT
SPEED
AND
NOISE
FROM
CELL
CYCLE
LENGTHS
............................
105
C
SPHEROID
GROWTH
MODEL
107
D
CELL
CYCLE
MODEL
111
E
TECHNICAL
COMPUTATIONS
AND
PROOFS
113
E.I
SPEED
EQUATION
..........................................................................................................
113
E.2
DERIVATION
OF
ODE
FOR
(P
:
S
I-
X
.............................................................................
114
E.3
CALCULATION
OF
DIVISION
RATE
FROM
CELL
CYCLE
LENGTH
DISTRIBUTION
............................
115
E.4
PROOF
OF
LEMMA
6.1
....................................................................................................
116
BIBLIOGRAPHY
117
PUBLICATIONS
OF
THE
AUTHOR
127
VIII
|
| adam_txt |
TABLE
OF
CONTENTS
ABSTRACT
IX
DEUTSCHE
KURZFASSUNG
XI
1
INTRODUCTION
I
1.1
MOTIVATION
AND
FOCUS
.
I
1.2
CONTRIBUTIONS
AND
OUTLINE
.
3
PARTI
ANALYSIS
2
RECONSTRUCTING
TEMPORAL
AND
SPATIAL
DYNAMICS
FROM
SINGLE-CELL
PSEUDOTIME
N
2.1
BACKGROUND
AND
PROBLEM
FORMULATION
.
12
2.2
MAPIT
-
MAP
OF
PSEUDOTIME
INTO
REAL-TIME
.
12
2.3
RECONSTRUCTING
SPHEROIDS
WITH
MAPIT
.
15
2.4
ANALYSING
CELL
CYCLE
PROGRESSION
WITH
MAPIT
.
22
2.5
SUMMARY
AND
DISCUSSION
.
25
3
CELL
CYCLE
ANALYSIS
WITH
ERGODIC
PRINCIPLES
AND
AGE-STRUCTURED
POPULATION
MODELS
29
3.1
BACKGROUND
AND
PROBLEM
FORMULATION
.
29
3.2
AGE-STRUCTURED
POPULATION
MODELS
.
30
3.3
RELATIONSHIP
BETWEEN
ERGODIC
ANALYSIS
AND
AGE-STRUCTURE
POPULATION
MODELS
.
31
3.4
CELL
CYCLE-DEPENDENT
EXPRESSION
OF CYCLIN
BI
.
37
3.5
SUMMARY
AND
DISCUSSION
.
42
4
CELL
CYCLE
PROGRESSION
INFERENCE
45
4.1
BACKGROUND
AND
PROBLEM
FORMULATION
.
45
4.2
CELL
CYCLE
PROGRESSION
INFERENCE
WITH
SENSITIVITIES
.
47
4.3
EVALUATION
WITH
IN
SILICO
DATA
.
51
4.4
ANALYSIS
OF
CELL
CYCLE
PROGRESSION
.
53
4.5
SUMMARY
AND
DISCUSSION
.
54
PART
II
CONTROL
5
PASSIVITY-BASED
ENSEMBLE
CONTROL
FOR
CELL
CYCLE
SYNCHRONIZATION
59
5.1
BACKGROUND
AND
PROBLEM
FORMULATION
.
59
5.2
THEORETICAL
FOUNDATION
.
60
5.3
ENSEMBLE
CONTROL
FOR
CELL
CYCLE
SYNCHRONIZATION
.
62
5.4
COMPUTATIONAL
STUDIES
.
66
5.5
SUMMARY
AND
DISCUSSION
.
71
6
ENSEMBLE
CONTROL
FOR
CELLULAR
OSCILLATORS
73
6.1
BACKGROUND
AND
PROBLEM
FORMULATION
.
73
6.2
ENSEMBLE
CONTROL
FOR
OSCILLATOR
MOMENTS
.
76
6.3
COMPUTATIONAL
STUDIES
.
80
6.4
SUMMARY
AND
DISCUSSION
.
83
7
CONCLUSIONS
85
7.1
SUMMARY
AND
DISCUSSION
.
85
7.2
OUTLOOK
.
88
APPENDICES
91
A
TECHNICAL
BACKGROUND
93
A.I
DYNAMICAL
SYSTEMS
AND
CONTROL
THEORY
.
93
A.
2
WEAKLY
CONNECTED
OSCILLATORS
.
95
A.
3
FOURIER
COEFFICIENTS
AND
CIRCULAR
MOMENTS
.
98
B
EXPERIMENTAL
PROTOCOLS
AND
DATA
PREPROCESSING
101
B.
I
ORDERING
CELLS
IN
PSEUDOTIME
.
101
B.2
ESTABLISHMENT
OF
NCI-H460/GEMININ
CELL
LINE
.
103
B.3
LIVE
CELL
MICROSCOPY
.
103
B.4
FLOW
CYTOMETRIC
ANALYSIS
.
104
B.5
CONSTRUCTION
OF
THE
AVERAGE
CELL
CYCLE
TRAJECTORY
.
104
B.6
ESTIMATION
OF
CONSTANT
SPEED
AND
NOISE
FROM
CELL
CYCLE
LENGTHS
.
105
C
SPHEROID
GROWTH
MODEL
107
D
CELL
CYCLE
MODEL
111
E
TECHNICAL
COMPUTATIONS
AND
PROOFS
113
E.I
SPEED
EQUATION
.
113
E.2
DERIVATION
OF
ODE
FOR
(P
:
S
I-
X
.
114
E.3
CALCULATION
OF
DIVISION
RATE
FROM
CELL
CYCLE
LENGTH
DISTRIBUTION
.
115
E.4
PROOF
OF
LEMMA
6.1
.
116
BIBLIOGRAPHY
117
PUBLICATIONS
OF
THE
AUTHOR
127
VIII |
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| id | DE-604.BV047231500 |
| illustrated | Illustrated |
| index_date | 2024-07-03T17:00:52Z |
| indexdate | 2024-07-10T09:06:21Z |
| institution | BVB |
| institution_GND | (DE-588)1065538812 |
| isbn | 9783832552091 383255209X |
| language | English |
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| physical | 127 Seiten Illustrationen, Diagramme 21 cm |
| publishDate | 2020 |
| publishDateSearch | 2020 |
| publishDateSort | 2020 |
| publisher | Logos Verlag |
| record_format | marc |
| spelling | Kuritz, Karsten Verfasser aut Analysis and control of cellular ensembles exploiting dimensionality reduction in single-cell data and models Karsten Kuritz Berlin Logos Verlag [2020] 127 Seiten Illustrationen, Diagramme 21 cm txt rdacontent n rdamedia nc rdacarrier Dissertation Universität Stuttgart 2020 Einzelzellanalyse (DE-588)7657465-9 gnd rswk-swf Zellpopulation (DE-588)4351811-4 gnd rswk-swf Ensemble Control Regelungstechnik Einzelzellmessung Differenzialgleichung maschinelles Lernen (DE-588)4113937-9 Hochschulschrift gnd-content Einzelzellanalyse (DE-588)7657465-9 s Zellpopulation (DE-588)4351811-4 s DE-604 Logos Verlag Berlin (DE-588)1065538812 pbl X:MVB text/html http://deposit.dnb.de/cgi-bin/dokserv?id=24308409164e4edb9a1ef6f734341c2b&prov=M&dok_var=1&dok_ext=htm Inhaltstext B:DE-101 application/pdf https://d-nb.info/1222604515/04 Inhaltsverzeichnis DNB Datenaustausch application/pdf http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=032635957&sequence=000001&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA Inhaltsverzeichnis |
| spellingShingle | Kuritz, Karsten Analysis and control of cellular ensembles exploiting dimensionality reduction in single-cell data and models Einzelzellanalyse (DE-588)7657465-9 gnd Zellpopulation (DE-588)4351811-4 gnd |
| subject_GND | (DE-588)7657465-9 (DE-588)4351811-4 (DE-588)4113937-9 |
| title | Analysis and control of cellular ensembles exploiting dimensionality reduction in single-cell data and models |
| title_auth | Analysis and control of cellular ensembles exploiting dimensionality reduction in single-cell data and models |
| title_exact_search | Analysis and control of cellular ensembles exploiting dimensionality reduction in single-cell data and models |
| title_exact_search_txtP | Analysis and control of cellular ensembles exploiting dimensionality reduction in single-cell data and models |
| title_full | Analysis and control of cellular ensembles exploiting dimensionality reduction in single-cell data and models Karsten Kuritz |
| title_fullStr | Analysis and control of cellular ensembles exploiting dimensionality reduction in single-cell data and models Karsten Kuritz |
| title_full_unstemmed | Analysis and control of cellular ensembles exploiting dimensionality reduction in single-cell data and models Karsten Kuritz |
| title_short | Analysis and control of cellular ensembles |
| title_sort | analysis and control of cellular ensembles exploiting dimensionality reduction in single cell data and models |
| title_sub | exploiting dimensionality reduction in single-cell data and models |
| topic | Einzelzellanalyse (DE-588)7657465-9 gnd Zellpopulation (DE-588)4351811-4 gnd |
| topic_facet | Einzelzellanalyse Zellpopulation Hochschulschrift |
| url | http://deposit.dnb.de/cgi-bin/dokserv?id=24308409164e4edb9a1ef6f734341c2b&prov=M&dok_var=1&dok_ext=htm https://d-nb.info/1222604515/04 http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=032635957&sequence=000001&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA |
| work_keys_str_mv | AT kuritzkarsten analysisandcontrolofcellularensemblesexploitingdimensionalityreductioninsinglecelldataandmodels AT logosverlagberlin analysisandcontrolofcellularensemblesexploitingdimensionalityreductioninsinglecelldataandmodels |