Transcription Factor Regulatory Networks

ISBN-13: 9781071628140 / Angielski / Twarda / 2022 / 226 str.

Qi Song; Zhipeng Tao

Opis

This book covers various state-of-the-art techniques regarding the associations between transcription factors (TFs) and genes, with a focus on providing methodological and practical references for researchers. The contents cover diverse protocols and summaries of TFs including screening of TF-DNA interactions, detection of open chromatin regions, identification of epigenetic regulations, engineering TFs with genome editing tools, detection of transcriptional activities, computational analysis of TF networks, functions and druggabilities of TFs in biomedical research, and much more. Written for the highly successful Methods in Molecular Biology series, chapters feature the kind of detailed implementation advice from the experts to ensure successful research results. 

Authoritative and cutting-edge, Transcription Factor Regulatory Networks aims to benefit readers who are interested in using state-of-the-art techniques to study TFs and their myriad effects in cellular life.

Spis treści

1. The TARGET System: Rapid Identification of Direct Targets of Transcription Factors by Gene Regulation in Plant Cells

            Matthew D. Brooks, Kelsey M. Reed, Gabriel Krouk, Gloria M. Coruzzi, and Bastiaan O.R. Bargmann

 

2. The Method of Screening and Identification of Transcription Factor in Klebiella

            Qiang Wu, Gao-Qiang Liu, Jiang-Shan Ma, and Qiang Li

 

3. Genome-Wide Identification of Open Chromatin in Plants Using MH-Seq

            Aicen Zhang, Xinxu Li, Hainan Zhao, Jiming Jiang, and Wenli Zhang

 

4. Post-Bisulfite Adaptor Tagging with a Highly Efficient Single-Stranded DNA Ligation Technique

            Fumihito Miura and Takashi Ito

 

5. Perturbation of Gene Regulation by Genome Editing

            Nan Cher Yeo and George M. Church

 

6. Analysis of Neutrophil Morphology and Function under Genetic Perturbation of Transcription Factors In Vitro

            Julia Salafranca, Zhichao Ai, Lihui Wang, Irina A Udalova, and Erinke van Grinsven

 

7. Detection of TP53 Mutation in Acute Myeloid Leukemia by RT-PCR-Based Sanger Sequencing

            Emily R. Novak, Anagha Deshpande, Darren Finlay, James R. Mason, Aniruddha J. Deshpande, Peter D. Adams, and Sha Li

 

8. Assessing the Activity of Transcription Factor FoxO1

            Limin Shi, Zhipeng Tao, and Zhiyong Cheng

 

9. Targeting Transcription Factors in Cancer: From “Undruggable” to “Druggable”

            Zhipeng Tao and Xu Wu

 

10. A Survey of Transcription Factors in Cell Fate Control

            Emal Lesha, Haydy George, Mark M. Zaki, Cory J. Smith, Parastoo Khoshakhlagh, and Alex H.M. Ng

 

11. Single Cell mRNA-Seq of In Vitro-Derived Human Neurons Using Smart-Seq2

            Christoph Schweingruber, Jik Nijssen, Julio Aguila Benitez, and Eva Hedlund

 

12. Computational Analysis of Single Cell RNA-Seq Data

            Byungjin Hwang

 

13. Database for Plant Transcription Factor Binding Sites

            Wen-Chi Chang and Chi-Nga Chow

 

14. MicroRNA Regulatory Network Analysis Using miRNet 2.0

            Le Chang and Jianguo Xia

 

15. Modeling Plant Transcription Factor Networks Using ConSReg

            Qi Song and Song Li

 

16. Identification of Plant Co-Regulatory Modules Using CoReg

            Qi Song and Song Li