Mammalian Transcription Analysis and Methods

Mammalian Transcription Analysis and Methods
Author: Ananda Roy
Publsiher: Unknown
Total Pages: 135
Release: 2022
ISBN 10: 9780444520166
ISBN 13: 0444520163
Language: EN, FR, DE, ES & NL

Mammalian Transcription Analysis and Methods Book Review:

Mammalian Transcription Analysis and Methods

Mammalian Transcription Analysis and Methods
Author: Anonim
Publsiher: Unknown
Total Pages: 135
Release: 2020
ISBN 10: 9780080931135
ISBN 13: 0080931138
Language: EN, FR, DE, ES & NL

Mammalian Transcription Analysis and Methods Book Review:

Gene Transcription

Gene Transcription
Author: K. Docherty
Publsiher: Wiley
Total Pages: 121
Release: 1996
ISBN 10: 1928374650XXX
ISBN 13: UOM:39015038564822
Language: EN, FR, DE, ES & NL

Gene Transcription Book Review:

The major recent advances in our understanding of the regulation of gene transcription have stemmed largely from our ability to quantify and characterize mRNA. This book describes the methods used for the analysis of RNA, for DNA transfection into mammalian cells, and reporter technology for mapping transcription control elements. Other techniques used in cloning and characterizing transcription factors and in detailed analysis of regulatory sequences are provided in the companion volume to this book, Gene Transcription: DNA Binding Proteins. The Essential Techniques Series books are designed to provide you with immediate access to the protocols you require every day. These handy pocket-sized manuals are easy to carry around, and conveniently spiral bound making them ideal for lab bench work. Written by experienced laboratory researchers, each book in the Essential Techniques Series gives up-to-date, tried and tested practical information for the life scientist. For each key technique these books: introduce the most commonly used methods, explain the advantages and disadvantages of the methods, and give advice on which procedure to use, provide easy to follow step-by-step protocols, with experimental notes and tips on where to pause, plus information on safety and suppliers.

Gene Expression and Regulation in Mammalian Cells

Gene Expression and Regulation in Mammalian Cells
Author: Fumiaki Uchiumi
Publsiher: BoD – Books on Demand
Total Pages: 372
Release: 2018-02-28
ISBN 10: 9535138677
ISBN 13: 9789535138679
Language: EN, FR, DE, ES & NL

Gene Expression and Regulation in Mammalian Cells Book Review:

Sixty years after the "central dogma," great achievements have been developed in molecular biology. We have also learned the important functions of noncoding RNAs and epigenetic regulations. More importantly, whole genome sequencing and transcriptome analyses enabled us to diagnose specific diseases. This book is not only intended for students and researchers working in laboratory but also physicians and pharmacists. This volume consists of 14 chapters, divided into 4 parts. Each chapter is written by experts investigating biological stresses, epigenetic regulation, and functions of transcription factors in human diseases. All articles presented in this volume by excellent investigators provide new insights into the studies in transcriptional control in mammalian cells and will inspire us to develop or establish novel therapeutics against human diseases.

The Evolving Chromatin and Transcriptional Landscapes Emerging Methods Tools and Techniques

The Evolving Chromatin and Transcriptional Landscapes     Emerging Methods  Tools and Techniques
Author: Jean-Philippe Lambert,Steve Bilodeau,Christoph Franz Kurat
Publsiher: Frontiers Media SA
Total Pages: 135
Release: 2022-01-03
ISBN 10: 2889719219
ISBN 13: 9782889719211
Language: EN, FR, DE, ES & NL

The Evolving Chromatin and Transcriptional Landscapes Emerging Methods Tools and Techniques Book Review:

Human Molecular Genetics

Human Molecular Genetics
Author: Anonim
Publsiher: Academic Press
Total Pages: 500
Release: 1996-05-23
ISBN 10: 0080536417
ISBN 13: 9780080536415
Language: EN, FR, DE, ES & NL

Human Molecular Genetics Book Review:

Human Molecular Genetics is a practical guide to the applications of molecular biology and genetics techniques to human cells. A wide range of experimental procedures for investigating human genes and genomes are presented. * * Mutation Detection in Human Genes - chemical mismatch cleavage, DNA mini-sequencing, SSCP method, RT-PCR, electrophoretic mobility shift assay (EMSA), protein truncation test, chromosome deletion analysis. * Gene Mapping, Cloning, Sequencing - gene linkage determination, large-capacity cloning system, cDNA isolation, differential display method, primer-based DNA sequencing. * Transcription: Promoters, Transcription Factors, mRNA, - promotor mutation analysis, transcription factor identification, mRNA-protein interaction characterization. * RNA Editing, Ribozymes, Antisense RNA-mammalian RNA editing assays, ribozymes as genetic tools, antisense RNA technology. * Genome Recombination, Amplification - recombination assays for mammalian cells, gene amplification measurement. * Receptors, Signal Transduction - intra-cellular receptor characterization, analysis of signal transduction genes. * The Mouse as a Model System for Human Molecular Genetics - mouse genome methods (mouse crosses, somatic cell hybrids, YACs), mouse model for cardiovascular disease.

Decoding Mammalian Gene Regulatory Programs Through Efficient Microarray ChIP chip and Sequence Analysis

Decoding Mammalian Gene Regulatory Programs Through Efficient Microarray  ChIP chip and Sequence Analysis
Author: Hongkai Ji
Publsiher: Unknown
Total Pages: 172
Release: 2007
ISBN 10: 9780549039952
ISBN 13: 0549039953
Language: EN, FR, DE, ES & NL

Decoding Mammalian Gene Regulatory Programs Through Efficient Microarray ChIP chip and Sequence Analysis Book Review:

An empirical hierarchical Bayes approach was proposed to analyze gene expression data collected from microarray experiments. Through a closed-form variance shrinkage estimator, information from multiple genes is pooled to increase the statistical power of multiple hypothesis testing. The approach allows various types of subject matter knowledge to be incorporated conveniently. Caveats in controlling false discovery rate (FDR) will be discussed. When variance shrinkage estimator is employed, inappropriate use of permutations may result in underestimation of FDR.

Computational Analysis of the Mammalian Cis regulatory Landscape

Computational Analysis of the Mammalian Cis regulatory Landscape
Author: Anonim
Publsiher: Stanford University
Total Pages: 135
Release: 2011
ISBN 10: 1928374650XXX
ISBN 13: STANFORD:jh459nm5080
Language: EN, FR, DE, ES & NL

Computational Analysis of the Mammalian Cis regulatory Landscape Book Review:

Improvements in DNA sequencing technologies have made it possible to determine the genetic makeup of many organisms. Computational analyses of the massive amounts of sequence data available have produced many insights into evolutionary and developmental biology. For example, comparison of the full genome sequences of human and mouse discovered that the majority of functional sequence in the human genome does not code for protein. Much of this functional non-coding sequence appears to act in a regulatory role, dictating the precise tissues and developmental time points in which each protein should be produced. This dissertation describes three major contributions to the computational analysis of regulatory elements. First, I describe the Genomic Regions Enrichment of Annotations Tool (GREAT), a novel statistical method and associated web-based tool developed to infer the biological functions of regulatory elements based on the functions of their putative target genes. I demonstrate its marked improvement over current methods at interpreting functional enrichment signals for a variety of regulatory element types. Next, I discuss a computational methodology developed to identify medium- to large-scale (10-100,000 nucleotide) genomic deletions from whole genome sequences of multiple mammals. Using this methodology, I quantify the dispensability of highly conserved non-coding elements (CNEs) as their likelihood to be deleted in a subset of species. Despite their genomic prevalence and apparent redundancy in function, CNEs are very rarely lost in extant species. Even more surprisingly, there is a very weak relationship between dispensability and nucleotide conservation level. Sequences under purifying selection at moderate levels of nucleotide conservation are lost at a rate similar to those at perfect sequence conservation. Instead, evolutionary resistance to loss is more strongly correlated with depth of sequence homology, as ancient enhancers are more resistant to deletion than ones that arose more recently in evolution. Finally, I present the discovery and analysis of human-specific genomic deletions. By comparing the genome sequences of five species including human and our nearest ape relative, the chimpanzee, I identified 583 regions present in non-human species that contain highly-conserved sequence but are surprisingly deleted in humans. Statistical analyses indicate that these deletions occur preferentially near steroid hormone receptor genes and brain-expressed genes that are known to inhibit proliferation. Experimental results provide particular examples that may have contributed to unique human traits: the loss of an AR enhancer is correlated with the human loss of penile spines and sensory vibrissae, and the loss of a GADD45G enhancer is correlated with the human expansion of the cerebral cortex.

Transcriptional Regulation in Eukaryotes

Transcriptional Regulation in Eukaryotes
Author: Michael Carey,Michael F. Carey,Stephen T. Smale
Publsiher: CSHL Press
Total Pages: 640
Release: 2000
ISBN 10: 9780879696351
ISBN 13: 0879696354
Language: EN, FR, DE, ES & NL

Transcriptional Regulation in Eukaryotes Book Review:

In the genome era, the analysis of gene expression has become a critical requirement in many laboratories. But there has been no comprehensive source of strategic, conceptual, and technical information to guide this often complex task. Transcriptional Regulation in Eukaryotes answers that need. Written by two experienced investigators, Michael Carey and Stephen Smale at the UCLA School of Medicine, and based in part on the Gene Expression course taught at Cold Spring Harbor Laboratory, this book directly addresses all the concerns of a laboratory studying the regulation of a newly isolated gene and the biochemistry of a new transcription factor. This important and unique book is essential reading for anyone pursuing the analysis of gene expression in model systems or disease states.

Biophysical Methods in Cell Biology

Biophysical Methods in Cell Biology
Author: Anonim
Publsiher: Academic Press
Total Pages: 568
Release: 2015-01-29
ISBN 10: 0128013265
ISBN 13: 9780128013267
Language: EN, FR, DE, ES & NL

Biophysical Methods in Cell Biology Book Review:

This new volume of Methods in Cell Biology looks at methods for analyzing of biophysical methods in cell biology. Chapters cover such topics as AFM, traction force microscopy, digital holographic microscopy, single molecule imaging, video force microscopy and 3D multicolor super-resolution screening Covers sections on model systems and functional studies, imaging-based approaches and emerging studies Chapters are written by experts in the field Cutting-edge material

Systems Biological Approaches in Infectious Diseases

Systems Biological Approaches in Infectious Diseases
Author: Helena I. Boshoff,Clifton E. Barry
Publsiher: Springer Science & Business Media
Total Pages: 350
Release: 2007-01-15
ISBN 10: 3764375671
ISBN 13: 9783764375676
Language: EN, FR, DE, ES & NL

Systems Biological Approaches in Infectious Diseases Book Review:

This book brings together the various fields of functional genomics and systems biology that provide information on metabolic function. There is special emphasis on the identification of drug targets. The book includes practical examples from the various "omic" sciences as well as theoretical examples of how integrated knowledge of these sciences can be applied to drug discovery. It is of interest to researchers in the pharmaceutical drug discovery environment.

Functional Analysis of Mammalian Mediator

Functional Analysis of Mammalian Mediator
Author: Gregory Toivo Cantin
Publsiher: Unknown
Total Pages: 180
Release: 2003
ISBN 10: 1928374650XXX
ISBN 13: UCLA:L0087458840
Language: EN, FR, DE, ES & NL

Functional Analysis of Mammalian Mediator Book Review:

Molecular Biology of the Cell

Molecular Biology of the Cell
Author: Bruce Alberts
Publsiher: Unknown
Total Pages: 135
Release: 2004
ISBN 10: 9780815332183
ISBN 13: 0815332181
Language: EN, FR, DE, ES & NL

Molecular Biology of the Cell Book Review:

The Daughter of an Empress

The Daughter of an Empress
Author: Louise Muhlbach
Publsiher: Unknown
Total Pages: 254
Release: 2012-01-04
ISBN 10: 9781468168297
ISBN 13: 1468168290
Language: EN, FR, DE, ES & NL

The Daughter of an Empress Book Review:

Louise Muhlbach

Gene Delivery to Mammalian Cells

Gene Delivery to Mammalian Cells
Author: William C. Heiser
Publsiher: Springer Science & Business Media
Total Pages: 592
Release: 2004
ISBN 10: 1592596509
ISBN 13: 9781592596508
Language: EN, FR, DE, ES & NL

Gene Delivery to Mammalian Cells Book Review:

Whether to assess the function of new genes identified from the Human Genome Project or to apply gene therapy successfully, it is often necessary to deliver genes to specific cells. In Gene Delivery to Mammalian Cells, highly experienced researchers describe in great detail methods that have proven most useful in delivering genes to mammalian cells. Volume 2: Viral Gene Transfer Techniques details procedures for delivering genes to cells in vitro and in vivo, including the use of lentiviral vectors, adenovirus, adeno-associated viruses, alphavirus, herpes simplex virus, baculovirus, and retrovirus. Many of these techniques have only been in practice for a few years and are still being refined and updated. Some are being used not only in basic science, but also in gene therapy applications. Each protocol contains step-by-step instructions, along with background notes, equipment and reagent lists, and tips on troubleshooting and avoiding known pitfalls. Introductory chapters review the delivery methods presented, discussing their advantages and disadvantages, how they have been used successfully for gene delivery, and the future of their technology. Book jacket.

The Analysis of Regulatory DNA Current Developments Knowledge and Applications Uncovering Gene Regulation

The Analysis of Regulatory DNA  Current Developments  Knowledge and Applications Uncovering Gene Regulation
Author: Kenneth Berendzen,Joachim Kilian ,Dierk Wanke
Publsiher: Bentham Science Publishers
Total Pages: 225
Release: 2013-10-29
ISBN 10: 1608054926
ISBN 13: 9781608054923
Language: EN, FR, DE, ES & NL

The Analysis of Regulatory DNA Current Developments Knowledge and Applications Uncovering Gene Regulation Book Review:

A major goal of integrative research is understanding regulatory networks to such an extent as to allow researchers to model developmental and stress responses. Regulatory networks of living systems include complex and vast interactions between proteins, metabolites, RNA, various signaling molecules and DNA. One aspect of systems biology is understanding the dynamics of protein-DNA interactions affecting gene expression that are caused by transcription factors (TFs) and chromatin remodeling factors. This e-book provides a resource for summarizing current knowledge eukaryotic transcription and explores cis-elements and methods for their analysis, prediction and discovery. The book also presents an overview of exploring gene regulatory networks, chromatin, and miRNAs. Information about state-of-the-art techniques for the determination of TF - cis-element interactions in vivo and in silico give cutting edge insights on how genomic-scale research is being approached. The Analysis of Regulatory DNA provides readers with both the necessary background knowledge and provocative, up-to-date insights aimed at sparking new and vibrant experimental designs for understanding and predicting cis-elements in the eukaryotic genome.

Systems Biology

Systems Biology
Author: Isidore Rigoutsos,Gregory Stephanopoulos
Publsiher: Oxford University Press on Demand
Total Pages: 335
Release: 2007
ISBN 10: 0195300807
ISBN 13: 9780195300802
Language: EN, FR, DE, ES & NL

Systems Biology Book Review:

The advent of genome sequencing and associated technologies has transformed biologists' ability to measure important classes of molecules and their interactions. This expanded cellular view has opened the field to thousands of interactions that previously were outside the researchers' reach. The processing and interpretation of these new vast quantities of interconnected data call for sophisticated mathematical models and computational methods. Systems biology meets this need by combining genomic knowledge with theoretical, experimental and computational approaches from a number of traditional scientific disciplines to create a mechanistic explanation of cellular systems and processes.Systems Biology I: Genomics and Systems Biology II: Networks, Models, and Applications offer a much-needed study of genomic principles and their associated networks and models. Written for a wide audience, each volume presents a timely compendium of essential information that is necessary for a comprehensive study of the subject. The chapters in the two volumes reflect the hierarchical nature of systems biology. Chapter authors-world-recognized experts in their fields-provide authoritative discussions on a wide range of topics along this hierarchy. Volume I explores issues pertaining to genomics that range from prebiotic chemistry to noncoding RNAs. Volume II covers an equally wide spectrum, from mass spectrometry to embryonic stem cells. The two volumes are meant to provide a reliable reference for students and researchers alike.

Dissection of the Precise Mechanisms of RNA Polymerase II Pausing and Elongation Using Nascent Transcript Analysis

Dissection of the Precise Mechanisms of RNA Polymerase II Pausing and Elongation Using Nascent Transcript Analysis
Author: Hojoong Kwak
Publsiher: Unknown
Total Pages: 183
Release: 2013
ISBN 10: 1928374650XXX
ISBN 13: OCLC:913719365
Language: EN, FR, DE, ES & NL

Dissection of the Precise Mechanisms of RNA Polymerase II Pausing and Elongation Using Nascent Transcript Analysis Book Review:

Limiting RNA polymerase II (Pol II) at various stages of the transcription cycle is critical for gene regulation, which often occurs during the elongation stage at promoter proximal pause sites and in gene bodies. To determine the distribution of Pol II along genes, I used nascent transcript analysis as a general method. First, I identified the precise positions of Pol II pausing near promoters using a genome-wide nuclear run-on, called Precision Run-On sequencing (PRO-seq) in Drosophila embryonic cells. Using this, I revealed how the position of pausing is associated with initiation and promoter DNA elements. To further dissect the precise dynamics of paused Pol II, I probed the stability of paused Pol II and its termination by analyzing steady-state turn-over of the nascent transcript associated with Drosophila Hsp70 promoter. This shows that paused Pol II on Hsp70 is stable for around 5 min and can either terminate or elongate into the gene body, which is consistent with optical measurements of paused Pol II. I also examined how Pol II elongates during the time course of rapid and robust inhibition of pause escape in mouse embryonic stem cells. The analysis of the elongation rates in nearly 1,000 genes showed tight interplay between promoter proximal pausing, early elongation rates, and co-transcriptional splicing at the beginning of the genes. Finally, I demonstrate that the nascent transcriptome analysis methods can be directly extended into mammalian tissues, and show possibility of linking the study of the fundamental mechanism of Pol II into biomedical applications.

Transcriptome Analysis

Transcriptome Analysis
Author: Miroslav Blumenberg
Publsiher: BoD – Books on Demand
Total Pages: 108
Release: 2019-11-20
ISBN 10: 1789843278
ISBN 13: 9781789843279
Language: EN, FR, DE, ES & NL

Transcriptome Analysis Book Review:

Transcriptome analysis is the study of the transcriptome, of the complete set of RNA transcripts that are produced under specific circumstances, using high-throughput methods. Transcription profiling, which follows total changes in the behavior of a cell, is used throughout diverse areas of biomedical research, including diagnosis of disease, biomarker discovery, risk assessment of new drugs or environmental chemicals, etc. Transcriptome analysis is most commonly used to compare specific pairs of samples, for example, tumor tissue versus its healthy counterpart. In this volume, Dr. Pyo Hong discusses the role of long RNA sequences in transcriptome analysis, Dr. Shinichi describes the next-generation single-cell sequencing technology developed by his team, Dr. Prasanta presents transcriptome analysis applied to rice under various environmental factors, Dr. Xiangyuan addresses the reproductive systems of flowering plants and Dr. Sadovsky compares codon usage in conifers.

Systems Biomedicine

Systems Biomedicine
Author: Edison T. Liu,Douglas A. Lauffenburger
Publsiher: Academic Press
Total Pages: 448
Release: 2009-09-17
ISBN 10: 9780080919836
ISBN 13: 0080919839
Language: EN, FR, DE, ES & NL

Systems Biomedicine Book Review:

Systems biology is a critical emerging field that quantifies and annotates the complexity of biological systems in order to construct algorithmic models to predict outcomes from component input. Applications in medicine are revolutionizing our understanding of biological processes and systems. Systems Biomedicine is organized around foundations, computational modeling, network biology, and integrative biology, with the extension of examples from human biology and pharmacology, to focus on the applications of systems approaches to medical problems. An integrative approach to the underlying genomic, proteomic, and computational biology principles provides researchers with guidance in the use of qualitative systems and hypothesis generators. To reflect the highly interdisciplinary nature of the field, careful detail has been extended to ensure explanations of complex mathematical and biological principles are clear with minimum technical jargon. Organized to reflect the important distinguishing characteristics of systems strategies in experimental biology and medicine Provides precise and comprehensive measurement tools for constructing a model of the system and tools for defining complexity as an experimental dependent variable Includes a thorough discussion of the applications of quantitative principles to biomedical problems