Microarrays: 2 Applications and data analysis
Gespeichert in:
Format: | Buch |
---|---|
Sprache: | English |
Veröffentlicht: |
Totowa, NJ
Humana Press
2007
|
Ausgabe: | 2. ed. |
Schriftenreihe: | Methods in molecular biology
382 |
Schlagworte: | |
Online-Zugang: | Inhaltsverzeichnis Klappentext |
Beschreibung: | XX, 450 S. Ill., graph. Darst. |
ISBN: | 9781588299444 1588299449 |
Internformat
MARC
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Datensatz im Suchindex
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---|---|
adam_text | Contents
Dedication
........................................................................................................
v
Preface
...........................................................................................................
vii
Contents of the Companion Volume
...............................................................xv
Contributors
..................................................................................................xvii
1
The Use of Microarray Technology in Nonmammalian
Vertebrate Systems
Conor W.
Sipe
and Margaret S. Sana
................................................... /
2
Quality Considerations and Selection of Surface Chemistry
for Glass-Based
DNA, Peptide,
Antibody, Carbohydrate,
and Small Molecule Microarrays
Jens
Sobek,
Catharine Aquino, and Ralph Schlapbach
...................... 17
3
Optimization Workflow for the Processing of High Quality
Glass-Based Microarrays: Applications in
DNA, Peptide,
Antibody, and Carbohydrate Microarraying
Jens
Sobek,
Catharine Aquino, and Ralph Schlapbach
......................33
4
Processing Protocols for High Quality Glass-Based
Microarrays: Applications in
DNA, Peptide,
Antibody,
and Carbohydrate Microarraying
Jens
Sobek,
Catharine Aquino, and Ralph Schlapbach
......................53
5
Specific Detection of Bacterial Pathogens
Using Oligonucleotide Microarrays Generated
From Hydrolysis PCR Probe Sequences
Philip
/.
R. Day
....................................................................................67
6
Uses of Microarray Platforms in Cancer: A Correlative Study
Between Genomic Copy Number Changes and Their
Expression at mRNA and Protein Levels
Fahd
ΑΙ
-Mulla
and
Raba Al-Tamimi
....................................................77
7
Microarray Technology for Use in Molecular Epidemiology
Suzanne D. Vernon and
Toni
Whistler
___.........................................97
8
Utilization of Microarray Platforms in Clinical Practice:
An Insight on the Preparation and Amplification
of Nucleic Acids From Frozen and Fixed Tissues
Fahd Al-Mulla
....................................................................................
Ï
15
xi
i
Contents
9
A
Microarray-Based Method to
Protile
Global mitroRNA
Expression in Human and Mouse
Ranjan f.
Perera
................................................................................ 137
10
Cenotyping of Single-Nucleotide Polymorphisms
by Arrayed Primer Extension
Scott f. Tebbutt
................................................................................. 149
11
Protein Chip for Detection of
DNA
Mutations
Xian-En Zhang and Li-fun Bi
........,....................................................163
12
Screening of cDNA Libraries on Glass Slide Microarrays
Dave K.
Berger,
Bridget G. Crampton,
Ingo Hein,
and
Wiesner
Vos
...........................................................................177
13
ArrayPIex SA: A
Turn-Key Automated
Gene
Expression
Target
Preparation
System
Handy Yowanto................................................................................205
14
Tumor-Stroma Interactions of Metastatic Prostate Cancer
Cells Lines: Analyses Using Microarrays
Nicolas Wernert, Annette
Kaminski,
El-Mustapha Haddouti,
and
Jens Claus Hahne.,.........................................
,
.......................223
15
Identification of Small Molecule Targets on Functional
Protein Microarrays
Michael Salcius, Gregory A. Michaud, Barry Schweitzer,
and Paul f.
Prędki
.........................................................................239
16
Quantification of Small Molecules Using Microarray Technology
Martin Duiva and
Claus
В
.
V. Christensen
.......................................249
17
Antibody-Microarrays on Hybrid Polymeric Thin Film-Coated
Slides for Multiple-Protein Immunoassays
Xichun Zhou and Jizhong Zhou
........................................................259
18
Overprint Immunoassay Using Protein A Microarrays
Robert S. Matson, Raymond
С
Milton,
fang B.
Rampai,
Tom S. Chan, and Michael C. Cress
.............................................273
1
Ч
μ
Parafio™
Biochip
for Nucleic Acid and Protein Analysis
QiZhu, Ailing Hong, Nijing Sheng, Xiaolin Zhang, Anna
Matejko,
Kyu-Yeon
Jun,
Onnop Srivannavit, Erdogan Gulari,
Xiaolian
Gao,
and Xiaochuan Zhou
......................................,........287
20
Applic ation of ProteinChip Array Profiling in Serum
Biomarker
[Discovery for Patients Suffering
From Severe Acute Respiratory Syndrome
Timothy
Т. С
Yip, William
C. S.
Cho, Wai-Wai Cheng,
Johnny W. M. Chan,
Víctor W.
S. Ma,
Tai-Tung Yip,
Christine
N.
B.
Lau
Yip, Roger
К. С
Ngan,
and Stephen
С. К.
Law
.................................................................313
Contents xiii
21 Volumetrie
Mass Spectrometry
Protein
Arrays
Dobrin
Nedelkov, Urban
Α.
Kiernan, Eric f. Niederkofler,
KemmonsA. Tubbs, and Randall W. Nelson................................333
22 Microarray Data
Classified by Artificial Neural Networks
Roland Under,
Tereza
Richards, and
Mathias
Wagner
....................345
23
Methods for Microarray Data Analysis
Véronique De
Bruyne, Fahd
Al-Mulla,
and Bruno Pot
..................... 373
24
Predicting
DNA
Duplex Stability on Oligonucleotide Arrays
Arnold Vainrub, Norha Deluge, Xiaolin Zhang,
Xiaochuan Zhou, and Xiaolian
Gao
.............................................393
25
Bioinformatics: Microarray Data Clustering
and Functional Classification
Hsueh-Fen fuan and Hsuan-Cheng Huang
.......................................405
26
In Silico Gene Selection for Custom Oligonucleotide
Microarray Design
Conor W.
Sipe,
Vijay
R.
Dondeti, and Margaret S. Saha
.................417
27
Integrated Analysis of Microarray Results
Olga G. Troyanskaya
........................................................................429
Index
............................................................................................................439
Microarrays
Volume
2,
Applications and Data Analysis, Second Edition
Edited by
Jang B.
Rampai, PhD
Beckman
Coulter, Inc.,
Brea,
CA
Microarrays, Volumes
1
and
2,
present information for designing and fabricating arrays and binding
stu
biological analytes, while providing the reader with a broad range of microarray technology tools and their
>
studies with
heir potential
applications. The first volume deals with methods and protocols for the preparation of microarrays. The second volume
details applications and data analysis, which ¡s important in analyzing the enormous amount of data coming out of
microarray experiments.
Among the topics discussed in Volume
1:
Synthesis Methods, are matrices in the synthesis of microarrays, array
optimization processes, array-based comparative genomic hybridization, 60-mer oligonucleotide probes,
bifunctional reagents NTMTA and NTPAC, and high-density arrays using digital microarray synthesis platforms. Other
topics include multiplex ligation-dependent probe amplification (MLPA), hybridization conditions for in s/tu-synthesized
oligonucleotide arrays,
peptide
arrays, high-density replication tools (HDRT), protocols for the quantification of oligo
hybridization, glyco-bead arrays, and an investigation into the emerging nanotechnology.
Volume
2:
Applications and Data Analysis includes insight into processes and protocols for high-quality glass-based
microarrays used to study nonmammaiian vertebrate systems. It describes applications in
DNA, peptide,
antibody, and
carbohydrate microarraying, oligonucleotide microarrays generated from hydrolysis PCR probe sequences, microarray
platforms in clinical practice, and screening of cDNA libraries on glass slide microarrays. Authors in this volume also
uParaflo 1
biochip
for nucleic acid and protein analysis, volumetric mass spectrometry protein arrays, protocols
¡icting
DNA
duplex stability on oligonucleotide arrays, and integrated analysis of microarray results.
icroarrays, Volumes
/and2,provideample
information toall levels of scientist, from the novice to those intimately
discuss
μ
for predU
Microarrays,
familiar with array technology.
FEATURES
Meticulous exploration into state-of-the-art methods and protocols for microarray technology
Authors examine bioinformatics, an important aspect in analyzing large amounts of data that emerge during experiments
COSIEST*
The Use of Microarray Technology in Nonmammaiian
Vertebrate Systems. Quality Considerations and Selection
of Surface Chemistry for Class-Based
DNA, Peptide,
Antibody, Carbohydrate, and Small-Molecule Microarrays.
Optimization Workflow for the Processing of High Quality
Class-Based Microarrays: Applications in
DNA, Peptide,
Antibody, and Carbohydrate Microarraying. Processing
Protocols for High Quality Class-Based Microarrays:
Applications in
DNA, Peptide,
Antibody, and Carbohydrate
Microarraying. Specific Detection of Bacterial Pathogens
Using Oligonucleotide Microarrays Generated From
Hydrolysis PCR Probe Sequences. Uses of Microarray
Platforms in Cancer: A Correlative Study Between Genomic
Copy Number Changes and Their Expression at mRNA and
Protein Levels. Microarray Technology for Use in Molecular
Epidemiology. Utilization of Microarray Platforms in
Clinical Practice: An Insight on the Preparation and
Amplification of Nucleic Acids From Frozen and Fixed
Tissues. A Microarray-Based Method to Profile Global
microRNA Expression in Human and Mouse. Genotyping
of Single-Nucleotide Polymorphisms by Arrayed Primer
Extension. Protein Chip for Detection of
DNA Mutations.
Screening of cDNA Libraries on Glass Slide Microarrays.
ArrayPlex
SA: A
Turn-Key Automated
Cene
Expression
Target Preparation System. Tumor-Stroma Interactions of
Metastatic Prostate Cancer Cells Lines: Analyses Using
Microarrays. Identification of Small Molecule Targets on
Functional Protein Microarrays. Quantification of Small
Molecules Using Microarray Technology. Antibody-
Microarrays on Hybrid Polymeric Thin Film-Coated Slides
for Multiple-Protein Immunoassays. Overprint Immunoassay
Using Protein A Microarrays. pParaflo
Biochip
for Nucleic
Acid and Protein Analysis. Application of ProteinChip Array
Profiling in Serum
Biomarker
Discovery for Patients Suffering
From Severe Acute Respiratory Syndrome. Volumetric Mass
Spectrometry Protein Arrays. Microarray Data Classified by
Artificial Neural Networks. Methods for Microarray Data
Analysis. Predicting
DNA
Duplex Stability on
Oligonucleotide Arrays. Bioinformatics: Microarray Data
Clustering and Functional Classification, in Silico Gene
Selection for Custom Oligonucleotide Microarray Design.
Integrated Analysis of Microarray Results. Index.
|
adam_txt |
Contents
Dedication
.
v
Preface
.
vii
Contents of the Companion Volume
.xv
Contributors
.xvii
1
The Use of Microarray Technology in Nonmammalian
Vertebrate Systems
Conor W.
Sipe
and Margaret S. Sana
. /
2
Quality Considerations and Selection of Surface Chemistry
for Glass-Based
DNA, Peptide,
Antibody, Carbohydrate,
and Small Molecule Microarrays
Jens
Sobek,
Catharine Aquino, and Ralph Schlapbach
. 17
3
Optimization Workflow for the Processing of High Quality
Glass-Based Microarrays: Applications in
DNA, Peptide,
Antibody, and Carbohydrate Microarraying
Jens
Sobek,
Catharine Aquino, and Ralph Schlapbach
.33
4
Processing Protocols for High Quality Glass-Based
Microarrays: Applications in
DNA, Peptide,
Antibody,
and Carbohydrate Microarraying
Jens
Sobek,
Catharine Aquino, and Ralph Schlapbach
.53
5
Specific Detection of Bacterial Pathogens
Using Oligonucleotide Microarrays Generated
From Hydrolysis PCR Probe Sequences
Philip
/.
R. Day
.67
6
Uses of Microarray Platforms in Cancer: A Correlative Study
Between Genomic Copy Number Changes and Their
Expression at mRNA and Protein Levels
Fahd
ΑΙ
-Mulla
and
Raba Al-Tamimi
.77
7
Microarray Technology for Use in Molecular Epidemiology
Suzanne D. Vernon and
Toni
Whistler
_.97
8
Utilization of Microarray Platforms in Clinical Practice:
An Insight on the Preparation and Amplification
of Nucleic Acids From Frozen and Fixed Tissues
Fahd Al-Mulla
.
Ï
15
xi
i
Contents
9
A
Microarray-Based Method to
Protile
Global mitroRNA
Expression in Human and Mouse
Ranjan f.
Perera
. 137
10
Cenotyping of Single-Nucleotide Polymorphisms
by Arrayed Primer Extension
Scott f. Tebbutt
. 149
11
Protein Chip for Detection of
DNA
Mutations
Xian-En Zhang and Li-fun Bi
.,.163
12
Screening of cDNA Libraries on Glass Slide Microarrays
Dave K.
Berger,
Bridget G. Crampton,
Ingo Hein,
and
Wiesner
Vos
.177
13
ArrayPIex SA: A
Turn-Key Automated
Gene
Expression
Target
Preparation
System
Handy Yowanto.205
14
Tumor-Stroma Interactions of Metastatic Prostate Cancer
Cells Lines: Analyses Using Microarrays
Nicolas Wernert, Annette
Kaminski,
El-Mustapha Haddouti,
and
Jens Claus Hahne.,.
,
.223
15
Identification of Small Molecule Targets on Functional
Protein Microarrays
Michael Salcius, Gregory A. Michaud, Barry Schweitzer,
and Paul f.
Prędki
.239
16
Quantification of Small Molecules Using Microarray Technology
Martin Duiva and
Claus
В
.
V. Christensen
.249
17
Antibody-Microarrays on Hybrid Polymeric Thin Film-Coated
Slides for Multiple-Protein Immunoassays
Xichun Zhou and Jizhong Zhou
.259
18
Overprint Immunoassay Using Protein A Microarrays
Robert S. Matson, Raymond
С
Milton,
fang B.
Rampai,
Tom S. Chan, and Michael C. Cress
.273
1
Ч
μ
Parafio™
Biochip
for Nucleic Acid and Protein Analysis
QiZhu, Ailing Hong, Nijing Sheng, Xiaolin Zhang, Anna
Matejko,
Kyu-Yeon
Jun,
Onnop Srivannavit, Erdogan Gulari,
Xiaolian
Gao,
and Xiaochuan Zhou
.,.287
20
Applic ation of ProteinChip Array Profiling in Serum
Biomarker
[Discovery for Patients Suffering
From Severe Acute Respiratory Syndrome
Timothy
Т. С
Yip, William
C. S.
Cho, Wai-Wai Cheng,
Johnny W. M. Chan,
Víctor W.
S. Ma,
Tai-Tung Yip,
Christine
N.
B.
Lau
Yip, Roger
К. С
Ngan,
and Stephen
С. К.
Law
.313
Contents xiii
21 Volumetrie
Mass Spectrometry
Protein
Arrays
Dobrin
Nedelkov, Urban
Α.
Kiernan, Eric f. Niederkofler,
KemmonsA. Tubbs, and Randall W. Nelson.333
22 Microarray Data
Classified by Artificial Neural Networks
Roland Under,
Tereza
Richards, and
Mathias
Wagner
.345
23
Methods for Microarray Data Analysis
Véronique De
Bruyne, Fahd
Al-Mulla,
and Bruno Pot
. 373
24
Predicting
DNA
Duplex Stability on Oligonucleotide Arrays
Arnold Vainrub, Norha Deluge, Xiaolin Zhang,
Xiaochuan Zhou, and Xiaolian
Gao
.393
25
Bioinformatics: Microarray Data Clustering
and Functional Classification
Hsueh-Fen fuan and Hsuan-Cheng Huang
.405
26
In Silico Gene Selection for Custom Oligonucleotide
Microarray Design
Conor W.
Sipe,
Vijay
R.
Dondeti, and Margaret S. Saha
.417
27
Integrated Analysis of Microarray Results
Olga G. Troyanskaya
.429
Index
.439
Microarrays
Volume
2,
Applications and Data Analysis, Second Edition
Edited by
Jang B.
Rampai, PhD
Beckman
Coulter, Inc.,
Brea,
CA
Microarrays, Volumes
1
and
2,
present information for designing and fabricating arrays and binding
stu
biological analytes, while providing the reader with a broad range of microarray technology tools and their
>
studies with
heir potential
applications. The first volume deals with methods and protocols for the preparation of microarrays. The second volume
details applications and data analysis, which ¡s important in analyzing the enormous amount of data coming out of
microarray experiments.
Among the topics discussed in Volume
1:
Synthesis Methods, are matrices in the synthesis of microarrays, array
optimization processes, array-based comparative genomic hybridization, 60-mer oligonucleotide probes,
bifunctional reagents NTMTA and NTPAC, and high-density arrays using digital microarray synthesis platforms. Other
topics include multiplex ligation-dependent probe amplification (MLPA), hybridization conditions for in s/tu-synthesized
oligonucleotide arrays,
peptide
arrays, high-density replication tools (HDRT), protocols for the quantification of oligo
hybridization, glyco-bead arrays, and an investigation into the emerging nanotechnology.
Volume
2:
Applications and Data Analysis includes insight into processes and protocols for high-quality glass-based
microarrays used to study nonmammaiian vertebrate systems. It describes applications in
DNA, peptide,
antibody, and
carbohydrate microarraying, oligonucleotide microarrays generated from hydrolysis PCR probe sequences, microarray
platforms in clinical practice, and screening of cDNA libraries on glass slide microarrays. Authors in this volume also
uParaflo"1
biochip
for nucleic acid and protein analysis, volumetric mass spectrometry protein arrays, protocols
¡icting
DNA
duplex stability on oligonucleotide arrays, and integrated analysis of microarray results.
icroarrays, Volumes
/and2,provideample
information toall levels of scientist, from the novice to those intimately
discuss
μ
for predU
Microarrays,
familiar with array technology.
FEATURES
Meticulous exploration into state-of-the-art methods and protocols for microarray technology
Authors examine bioinformatics, an important aspect in analyzing large amounts of data that emerge during experiments
COSIEST*
The Use of Microarray Technology in Nonmammaiian
Vertebrate Systems. Quality Considerations and Selection
of Surface Chemistry for Class-Based
DNA, Peptide,
Antibody, Carbohydrate, and Small-Molecule Microarrays.
Optimization Workflow for the Processing of High Quality
Class-Based Microarrays: Applications in
DNA, Peptide,
Antibody, and Carbohydrate Microarraying. Processing
Protocols for High Quality Class-Based Microarrays:
Applications in
DNA, Peptide,
Antibody, and Carbohydrate
Microarraying. Specific Detection of Bacterial Pathogens
Using Oligonucleotide Microarrays Generated From
Hydrolysis PCR Probe Sequences. Uses of Microarray
Platforms in Cancer: A Correlative Study Between Genomic
Copy Number Changes and Their Expression at mRNA and
Protein Levels. Microarray Technology for Use in Molecular
Epidemiology. Utilization of Microarray Platforms in
Clinical Practice: An Insight on the Preparation and
Amplification of Nucleic Acids From Frozen and Fixed
Tissues. A Microarray-Based Method to Profile Global
microRNA Expression in Human and Mouse. Genotyping
of Single-Nucleotide Polymorphisms by Arrayed Primer
Extension. Protein Chip for Detection of
DNA Mutations.
Screening of cDNA Libraries on Glass Slide Microarrays.
ArrayPlex
SA: A
Turn-Key Automated
Cene
Expression
Target Preparation System. Tumor-Stroma Interactions of
Metastatic Prostate Cancer Cells Lines: Analyses Using
Microarrays. Identification of Small Molecule Targets on
Functional Protein Microarrays. Quantification of Small
Molecules Using Microarray Technology. Antibody-
Microarrays on Hybrid Polymeric Thin Film-Coated Slides
for Multiple-Protein Immunoassays. Overprint Immunoassay
Using Protein A Microarrays. pParaflo"
Biochip
for Nucleic
Acid and Protein Analysis. Application of ProteinChip Array
Profiling in Serum
Biomarker
Discovery for Patients Suffering
From Severe Acute Respiratory Syndrome. Volumetric Mass
Spectrometry Protein Arrays. Microarray Data Classified by
Artificial Neural Networks. Methods for Microarray Data
Analysis. Predicting
DNA
Duplex Stability on
Oligonucleotide Arrays. Bioinformatics: Microarray Data
Clustering and Functional Classification, in Silico Gene
Selection for Custom Oligonucleotide Microarray Design.
Integrated Analysis of Microarray Results. Index. |
any_adam_object | 1 |
any_adam_object_boolean | 1 |
building | Verbundindex |
bvnumber | BV022282037 |
ctrlnum | (OCoLC)613119515 (DE-599)BVBBV022282037 |
dewey-full | 572.86 570.28 |
dewey-hundreds | 500 - Natural sciences and mathematics |
dewey-ones | 572 - Biochemistry 570 - Biology |
dewey-raw | 572.86 570.28 |
dewey-search | 572.86 570.28 |
dewey-sort | 3572.86 |
dewey-tens | 570 - Biology |
discipline | Biologie |
discipline_str_mv | Biologie |
edition | 2. ed. |
format | Book |
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id | DE-604.BV022282037 |
illustrated | Illustrated |
index_date | 2024-07-02T16:49:42Z |
indexdate | 2024-07-09T20:54:04Z |
institution | BVB |
isbn | 9781588299444 1588299449 |
language | English |
oai_aleph_id | oai:aleph.bib-bvb.de:BVB01-015492330 |
oclc_num | 613119515 |
open_access_boolean | |
owner | DE-355 DE-BY-UBR DE-M49 DE-BY-TUM |
owner_facet | DE-355 DE-BY-UBR DE-M49 DE-BY-TUM |
physical | XX, 450 S. Ill., graph. Darst. |
publishDate | 2007 |
publishDateSearch | 2007 |
publishDateSort | 2007 |
publisher | Humana Press |
record_format | marc |
series | Methods in molecular biology |
series2 | Methods in molecular biology |
spelling | Microarrays 2 Applications and data analysis ed. by Jang G. Rampal 2. ed. Totowa, NJ Humana Press 2007 XX, 450 S. Ill., graph. Darst. txt rdacontent n rdamedia nc rdacarrier Methods in molecular biology 382 Methods in molecular biology ... Molekularbiologie (DE-588)4039983-7 gnd rswk-swf Microarray (DE-588)4544227-7 gnd rswk-swf Microarray (DE-588)4544227-7 s Molekularbiologie (DE-588)4039983-7 s DE-604 Rampal, Jang B. Sonstige oth (DE-604)BV022282008 2 Methods in molecular biology 382 (DE-604)BV035362695 382 Digitalisierung UB Regensburg application/pdf http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=015492330&sequence=000003&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA Inhaltsverzeichnis Digitalisierung UB Regensburg application/pdf http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=015492330&sequence=000004&line_number=0002&func_code=DB_RECORDS&service_type=MEDIA Klappentext |
spellingShingle | Microarrays Methods in molecular biology Molekularbiologie (DE-588)4039983-7 gnd Microarray (DE-588)4544227-7 gnd |
subject_GND | (DE-588)4039983-7 (DE-588)4544227-7 |
title | Microarrays |
title_auth | Microarrays |
title_exact_search | Microarrays |
title_exact_search_txtP | Microarrays |
title_full | Microarrays 2 Applications and data analysis ed. by Jang G. Rampal |
title_fullStr | Microarrays 2 Applications and data analysis ed. by Jang G. Rampal |
title_full_unstemmed | Microarrays 2 Applications and data analysis ed. by Jang G. Rampal |
title_short | Microarrays |
title_sort | microarrays applications and data analysis |
topic | Molekularbiologie (DE-588)4039983-7 gnd Microarray (DE-588)4544227-7 gnd |
topic_facet | Molekularbiologie Microarray |
url | http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=015492330&sequence=000003&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=015492330&sequence=000004&line_number=0002&func_code=DB_RECORDS&service_type=MEDIA |
volume_link | (DE-604)BV022282008 (DE-604)BV035362695 |
work_keys_str_mv | AT rampaljangb microarrays2 |