Plant functional genomics: methods and protocols
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| Other Authors: | |
|---|---|
| Format: | Book |
| Language: | English |
| Published: |
New York, NY [u.a.]
Humana Press
2015
|
| Edition: | 2. ed. |
| Series: | Methods in molecular biology
1284 |
| Subjects: | |
| Online Access: | Inhaltsverzeichnis |
| Physical Description: | XV, 532 S. Ill., graph. Darst. |
| ISBN: | 9781493924431 |
Staff View
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Record in the Search Index
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| adam_text | Titel: Plant functional genomics
Autor: Alonso, José M
Jahr: 2015
Contents
Preface.......................................................... v
Contributors.......................................................... xi
Part I Epigenetics
1 Epigenome Profiling of Specific Plant Cell Types Using a Streamlined
INTACT Protocol and ChlP-seq.................................. 3
Dongxue Wang and Roger B. Deal
2 Whole-Genome DNA Methylation Profiling with Nucleotide Resolution .... 27
Tzung-Fu Hsieh
3 High-Throughput Nuclease-Mediated Probing of RNA Secondary
Structure in Plant Transcriptomes.................................. 41
Lee E. Vandivier, Fan Li, and Brian D. Gregory
4 Genome-Wide Mapping of DNase I Hypersensitive Sites in Plants.......... 71
Wenli Zhang andjiming Jiang
Part II Transcriptional, Translational, and Metabolic Analysis
5 Characterization of In Vivo DNA-Binding Events of Plant Transcription
Factors by ChlP-seq: Experimental Protocol and Computational Analysis .... 93
Hilda van Mourik, Jose M. Muino, Alice Pajoro, Gereo C. Angenent,
and Kerstin Kaufmann
6 Identification of Direct Targets of Plant Transcription Factors
Using the GR Fusion Technique................................... 123
Nobutoshi Yamaguchi, Cara M. Winter, Frank Wellmer,
and Doris Wagner
7 Ribosome Profiling: A Tool for Quantitative Evaluation
of Dynamics in mRNA Translation................................. 139
Piyada Juntawong, Maureen Hummel, Jeremie Bazin,
and Julia Bailey-Serres
8 Tissue-Specific Gene Expression Profiling by Cell Sorting................ 175
Pui-Leng Ip and Kenneth D. Birnbaum
9 Translating Ribosome Affinity Purification (TRAP) Followed
by RNA Sequencing Technology (TRAP-SEQ) for Quantitative
Assessment of Plant Translatomes.................................. 185
Mauricio A. Reynoso, Piyada Juntawong, Marcos Lancia,
Flavio A. Blanco, Julia Bailey-Serres, and Maria Eugenia Zanetti
10 Rapid Immunopurification of Ribonucleoprotein Complexes of Plants...... 209
Reed Sorenson and Julia Bailey-Serres
11 Metabolomic Profiling of Plant Tissues.............................. 221
JoseL. Rambla, M.P. Ldpez-Gresa, J.M. Belles, and Antonio Granell
Part III Forward and Reverse Genetics
12 Targeted Plant Genome Editing via the CRISPR/Cas9 Technology........ 239
Jian-Feng Li, Dandan Zhang, and Jen Sheen
13 QTL Mapping Using High-Throughput Sequencing................... 257
Tiffany M. Jamann, Peter J. Balint-Kurti, and James B. Holland
14 Quantitating Plant MicroRNA-Mediated Target Repression
Using a Dual-Luciferase Transient Expression System................... 287
Qikun Liu and Michael J. Axtell
15 Persistent Virus-Induced Gene Silencing in Asymptomatic Accessions
of Arabidopsis................................................. 305
Miguel A. Flores, Maria I. Reyes, Dominique (Niki) Robertson,
and Susanne Kjemtrup
16 A User s Guide to the Arabidopsis T-DNA Insertion Mutant Collections .... 323
Ronan C. O Malley, Cesar C. Barragan, and Joseph R. Ecker
17 Genome-Wide Association Mapping in Plants Exemplified
for Root Growth in Arabidopsis thaliana............................. 343
Riadka Slovak, Christian Goschl, LfmitSeren, and Wolfgang Busch
18 Tilling by Sequencing........................................... 359
Helen Tsai, Kathie Ngo, Meric Lieberman, Victor Missirian,
and Luca Comai
19 SHOREmap v3.0: Fast and Accurate Identification
of Causal Mutations from Forward Genetic Screens..................... 381
Hequan Sun and Korbinian Schneeberger
Part IV Tools to Accelerate Gene Functional Analysis
and Plant Synthetic Biology
20 Software-Assisted Stacking of Gene Modules Using GoldenBraid
2.0 DNA-Assembly Framework.................................... 399
Marta Vazquez-Vilar, Alejandro Sarrion-Perdigones, Peio Ziarsolo,
Jose Blanca, Antonio Granell, and Diego Orzaez
21 Ligation-Independent Cloning for Plant Research...................... 421
Jos R. Wendrich, Che-Tang Liao, Willy A.M. van den Berg,
Bert De Rybel, and Dolf Weijers
22 Gene Functional Analysis Using Protoplast Transient Assays.............. 433
Ha-il Jung, Jiapei Tan, ZhiyangZhai, and Olena K. Vatamaniuk
Part V Computational Approaches to Functional Genomics
23 Descriptive vs. Mechanistic Network Models in Plant Development
in the Post-Genomic Era......................................... 455
J. Davila-Velderrain, J.C. Martinez-Garcia, andE.R. Alvarez-Buylla
24 Analysis and Visualization of RNA-Seq Expression Data
Using RStudio, Bioconductor, and Integrated Genome Browser........... 481
Ann E. Loraine, Ivory Clabaugh Blakley, Sridharan Jagadeesan,
Jeff Harper, Gad Miller, and Nurit Firon
25 Constructing Simple Biological Networks for Understanding
Complex High-Throughput Data in Plants........................... 503
Tomds C. Moyano, Elena A. Vidal, Orlando Contreras-Lopez,
and Rodrigo A. Gutierrez
Index
527
|
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| spelling | Plant functional genomics methods and protocols ed. by Jose M. Alonso ... 2. ed. New York, NY [u.a.] Humana Press 2015 XV, 532 S. Ill., graph. Darst. txt rdacontent n rdamedia nc rdacarrier Methods in molecular biology 1284 Springer protocols Genanalyse (DE-588)4200230-8 gnd rswk-swf Pflanzen (DE-588)4045539-7 gnd rswk-swf (DE-588)4143413-4 Aufsatzsammlung gnd-content Pflanzen (DE-588)4045539-7 s Genanalyse (DE-588)4200230-8 s DE-604 Alonso, José M. (DE-588)1069605301 edt Erscheint auch als Online-Ausgabe 978-1-4939-2444-8 Methods in molecular biology 1284 (DE-604)BV035362695 1284 HBZ Datenaustausch application/pdf http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=028010900&sequence=000002&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA Inhaltsverzeichnis |
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| title | Plant functional genomics methods and protocols |
| title_auth | Plant functional genomics methods and protocols |
| title_exact_search | Plant functional genomics methods and protocols |
| title_full | Plant functional genomics methods and protocols ed. by Jose M. Alonso ... |
| title_fullStr | Plant functional genomics methods and protocols ed. by Jose M. Alonso ... |
| title_full_unstemmed | Plant functional genomics methods and protocols ed. by Jose M. Alonso ... |
| title_short | Plant functional genomics |
| title_sort | plant functional genomics methods and protocols |
| title_sub | methods and protocols |
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