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| benchling guide rna design: Cilia Vito Mennella, 2023-11-20 This volume covers the latest advancements in the study of ciliary complexity. Protocols cover genomic, proteomic, imaging, and functional analysis of different ciliated tissues and their wide applicability in cilia biology. Chapters in this book primarily focus on methods to study multiciliated cells, and discuss topics such as SARS-CoV-2 infections of human primary nasal multiciliated epithelial cells; expansion microscopy of ciliary proteins; live-imaging centriole amplification in mouse brain multiciliated cells; biophysical properties of cilia motility; and mucociliary transport device construction. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Cutting-edge and thorough, Cilia: Methods and Protocols is a valuable resource for researchers who are interested in learning more about this developing field. |
| benchling guide rna design: CRISPR Guide RNA Design Tudor A. Fulga, David J. H. F. Knapp, Quentin R. V. Ferry, 2020-11-19 This detailed volume focuses on the CRISPR-associated guide RNA and how it can be designed, modified, and validated for a broad repertoire of purposes. Beginning with a section on computational design of target-specific guide RNAs, the book continues by covering chemical modifications to alter guide RNA stability, specificity, and efficiency, as well as to create inducible guide RNAs, append additional functional domains, and express guide RNAs in a conditional manner. It concludes with methods for measuring off-target guide RNA activity. Written for the highly successful Methods in Molecular Biology series, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and essential, CRISPR Guide RNA Design: Methods and Protocols provides a comprehensive pipeline for guide RNA design and aims to be an invaluable resource in applying this powerful technology to basic research and therapeutic applications. |
| benchling guide rna design: CRISPR and RNAi Systems Kamel A Abd-Elsalam, Ki-Taek Lim, 2021-02-27 Plants are vulnerable to pathogens including fungi, bacteria, and viruses, which cause critical problems and deficits. Crop protection by plant breeding delivers a promising solution with no obvious effect on human health or the local ecosystem. Crop improvement has been the most powerful approach for producing unique crop cultivars since domestication occurred, making possible the main innovations in feeding the globe and community development. Genome editing is one of the genetic devices that can be implemented, and disease resistance is frequently cited as the most encouraging application of CRISPR/Cas9 technology in agriculture. Nanobiotechnology has harnessed the power of genome editing to develop agricultural crops. Nanosized DNA or RNA nanotechnology approaches could contribute to raising the stability and performance of CRISPR guide RNAs. This book brings together the latest research in these areas. CRISPR and RNAi Systems: Nanobiotechnology Approaches to Plant Breeding and Protection presents a complete understanding of the RNAi and CRISPR/Cas9 techniques for controlling mycotoxins, fighting plant nematodes, and detecting plant pathogens. CRISPR/Cas genome editing enables efficient targeted modification in most crops, thus promising to accelerate crop improvement. CRISPR/Cas9 can be used for management of plant insects, and various plant pathogens. The book is an important reference source for both plant scientists and environmental scientists who want to understand how nano biotechnologically based approaches are being used to create more efficient plant protection and plant breeding systems. - Shows how nanotechnology is being used as the basis for new solutions for more efficient plant breeding and plant protection - Outlines the major techniques and applications of both CRISPR and RNAi technologies - Assesses the major challenges of escalating these technologies on a mass scale |
| benchling guide rna design: Reprogramming the Genome: Applications of CRISPR-Cas in non-mammalian systems part B , 2021-04-29 Reprogramming the Genome: Applications of CRISPR-Cas in Non-mammalian Systems Part B, represents the collation of chapters written by eminent scientists worldwide. CRISPR-Cas9 system is an RNA-mediated immune system of bacteria and archaea that protects from bacteriophage infections. It is one of the revolutionized technologies to uplift biology to the next stages. It is a simple, rapid, precise, and cost-effective tool for genome editing and regulation of a wide range of organisms. It has gained scientific and public attention worldwide. This volume mainly covers insect cell line, protozoans, zebrafish, drosophila, CRISPRi, patents as well as technology transfer, and many more. This book is a key source of information available in a single volume. This book will be useful for not only beginners in genome engineering, but also students, researchers, scientists, policymakers, and stakeholders interested in harnessing the potential of reprogramming of the genomes in several areas. - Offers basic understanding and a clear picture of genome editing CRISPR-Cas systems in different organisms - Explains how to create an animal model for disease diagnosis/research and reprogram CRISPR for insect cell line, protozoans, zebrafish, drosophila, and many more - Discusses the advances, patents, applications, challenges and opportunities in CRISPR-Cas9 systems in basic sciences, biomedicine, molecular biology and many more |
| benchling guide rna design: Plant Functional Genomics Fatemeh Maghuly, |
| benchling guide rna design: Hematopoietic Stem Cells Louis M. Pelus, Jonathan Hoggatt, 2022-10-18 This detailed volume collects updates on the technical advances in hematopoietic stem cell research and incorporates new techniques focused on the molecular/genetic, cellular, and whole organism levels. Exploring methods that apply stress to hematopoiesis, the book also contains chapters focused on better understanding the role of hematopoietic niches and their cellular components, as well as in vivo models that test and quantitate stem cell function and are key to further development of therapeutic applications. Written for the highly successful Methods in Molecular Biology series, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step and readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and up-to-date, Hematopoietic Stem Cells: Methods and Protocols serves as a valued addition to laboratories focused on understanding hematopoietic stem cell biology and the therapeutic advances that can be derived from it. |
| benchling guide rna design: Genome Engineering via CRISPR-Cas9 System Vijai Singh, Pawan K. Dhar, 2020-02-18 Genome Engineering via CRISPR-Cas9 Systems presents a compilation of chapters from eminent scientists from across the globe who have established expertise in working with CRISPR-Cas9 systems. Currently, targeted genome engineering is a key technology for basic science, biomedical and industrial applications due to the relative simplicity to which they can be designed, used and applied. However, it is not easy to find relevant information gathered in a single source. The book contains a wide range of applications of CRISPR in research of bacteria, virus, algae, plant and mammalian and also discusses the modeling of drosophila, zebra fish and protozoan, among others. Other topics covered include diagnosis, sensor and therapeutic applications, as well as ethical and regulatory issues. This book is a valuable source not only for beginners in genome engineering, but also researchers, clinicians, stakeholders, policy makers, and practitioners interested in the potential of CRISPR-Cas9 in several fields. - Provides basic understanding and a clear picture on how to design, use and implement the CRISPR-Cas9 system in different organisms - Explains how to create an animal model for disease research and screening purposes using CRISPR - Discusses the application of CRISPR-Cas9 systems in basic sciences, biomedicine, virology, bacteriology, molecular biology, neurology, cancer, industry, and many more |
| benchling guide rna design: Translational Research Methods in Neurodevelopmental Disorders Stéphane Martin, Frédéric Laumonnier, 2022-09-29 This volume explores the latest techniques used to study neurodevelopmental diseases (NDD) that range from molecular aspects to integrated research approaches and brain imaging in living rodents. Chapters in this book cover topics such as protocols to deliver shRNA in vitro and in vivo using lentiviral particles to knock-down specific protein expression; experimental procedures to use recombinant fluorescent probes to visualize endogenous proteins at the mammalian synapse; CRISPR/Cas9 toolkit to assess either gain- or loss-of-gene function in brain organoids; detailed protocols to use in vivo manipulations to correct the behavioral phenotypes in cognitive disorder mouse lines; and experimental approaches to genetically engineer macaque models of NDDs and investigate how genetic predisposition may cause neural and functional alterations. In the Neuromethods series style, chapters include the kind of detail and key advice from the specialists needed to get successful results in your laboratory. Cutting-edge and practical, Translational Research Methods in Neurodevelopmental Disorders is a valuable resource for all researchers who want to learn more about this important and developing field. |
| benchling guide rna design: DNA Damage and Chromosomal Instability , 2024-02-13 DNA Damage and Chromosomal Instability, Volume 182 in the Methods in Cell Biology series, presents interesting chapters on a variety of timely topics, including Induction of chromosome-specific micronuclei and chromothripsis by centromere inactivation, Generation of aneuploid cells and assessment of their ability to survive in presence of chemotherapeutic agents, Genetic reporters to detect and quantify homologous recombination in yeast, Mapping histone variant genomic distribution: exploiting SNAP- Tag labelling to follow the dynamics of incorporation of H3 variants, Enrichment of DNA replication intermediates by EdU pull down, Nascent DNA sequencing and its diverse applications in genome integrity research, and much more. Additional chapters cover Enrichment of DNA replication intermediates by EdU pull down, DNA curtains for studying phase separation mechanisms of DNA-organizing proteins, Visualizing the Dynamics of DNA Replication and Repair at the Single-Molecule Molecule Level, Cloning and Expansion of Repetitive DNA Sequences, Using an ImageJ-based script to detect replication stress and associated cell cycle exit from G2 phase by fluorescence microscopy Arne Lindqvist - Provides the authority and expertise of leading contributors from an international board of authors - Presents the latest release in the Methods in Cell Biology series - Updated release includes the latest information on the DNA Damage and Chromosomal Instability |
| benchling guide rna design: Applications of Genome Modulation and Editing Paul John Verma, Huseyin Sumer, Jun Liu, 2022-06-13 This volume details generation of gene-edited cell lines and organisms as models for human diseases, pest control, and large animal welfare and production outcomes. Chapters guide readers through gene regulation, editing, screening of cell lines, genome editing, and an overview of the tools for efficient genome editing including; ZFNs, TALENs, and CRISPR. Written in the format of the highly successful Methods in Molecular Biology series, each chapter includes an introduction to the topic, lists necessary materials and reagents, includes tips on troubleshooting and known pitfalls, and step- by-step, readily reproducible protocols. Authoritative and cutting-edge, Applications of Genome Modulation and Editing aims to be a useful and practical guide for researchers to commence or advance their study in this field. |
| benchling guide rna design: Next-Generation Plant Breeding Approaches for Stress Resilience in Cereal Crops Mallana Gowdra Mallikarjuna, S. Chandra Nayaka, Tanushri Kaul, 2022-09-15 This edited book highlights the gravity and efficacy of next-generation breeding tools for the enhancement of stress-resilience in cereals, especially in the context of climate change, pests, diseases, and abiotic stresses. The content of the book helps in understanding the application of emerging genetic concepts and neoteric genomic approaches in cereal breeding. It collates all the latest information about enhancing the stress resilience in cereal crops for overcoming food security issues. Cereals have predominantly been used as a staple food since time immemorial and contribute more than 50% of the caloric requirement of the global population. However, in cereals, the yield losses due to various stresses are very high, considering the crop growth stage and stress sensitivity. Therefore, to feed and nourish the generations in the era of climate change, it is imperative to develop stress-resilient cereal cultivars. This book explores newly developed next-generation breeding tools, viz., genome-wide association studies, genomic prediction, genome editing, and accelerated generation advancement methodologies, which revealed promising outcomes by enhancing the stress resilience in cereals with yield potential. This book is useful for postgraduate students specializing in plant breeding, plant stress physiology, plant genomics, agriculture, and agronomy. It is of immense value to scientific community involved in teaching, research, and extension activities related to cereal cultivation. |
| benchling guide rna design: Memory B-Cells Kim L. Good-Jacobson, |
| benchling guide rna design: Giardia and Giardiasis - Part B , 2020-02-28 Giardia and Giardiasis Volume 107-Part B, in the Advances in Parasitology series, is dedicated to aspects of cytoskeletal structure of this parasite with an emphasis on insights of new components and their function in trophozoites. Further, microtubule function and its critical involvement in motility, attachment, mitosis and cell division as well as in transitions between developmental stages are reviewed. Also a comprehensive revision in the progress of tools to explore and understand the functional biology of Giardia, its coding and non-coding genes, features and cellular and molecular biology is contained in this volume. Additionally, an exciting perspective on the interactions between Giardia and intestinal epithelial cell by reviewing transcriptomic and proteomic investigations is included along with a state-of-the art of the understanding pathophysiology of giardiasis and of how Giardia can cause post-infectious and extra-intestinal complications. A complete review of current knowledge including commonly prescribed drugs, causes of therapeutic fails, drug resistance mechanisms, strategies for the discovery of new agents for alternative drug therapies is covered. - Informs and updates on all the latest developments in the field of parasitology - Includes medical studies of parasites of major influence - Features reviews of more traditional areas, such as zoology, taxonomy and life history which help to shape current thinking and applications |
| benchling guide rna design: Peroxisomes Michael Schrader, 2023-03-23 This fully updated volume assembles a comprehensive collection of methods, techniques, and strategies to investigate the molecular and cellular biology of peroxisomes in different organisms. Peroxisome research is on the rise, as novel functions and proteins of this dynamic organelle are still being discovered through studies in model systems including humans, mice, flies, plants, fungi, and yeast, and this progress is reflected in the chapters included in this collection. Written for the highly successful Methods in Molecular Biology series, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step and readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and up-to-date, Peroxisomes: Methods and Protocols, Second Edition serves as an ideal guide for researchers working on peroxisome- and organelle-based research questions. |
| benchling guide rna design: Biochemical Pathways and Environmental Responses in Plants: Part A , 2022-10-22 Biochemical Pathways and Environmental Responses in Plants, Part A, Volume 676 in the Methods in Enzymology series highlights new advances in the field with this new volume presenting interesting chapters on topics such as Structure, function, and engineering of plant polyketide synthases, A sensitive LC-MS/MS assay for enzymatic characterization of methylthioalkylmalate synthase involved in glucosinolate side-chain elongation, Assaying formate-tetrahydrofolate ligase with monoglutamylated and polyglutamylated substrates using a fluorescence-HPLC based assay, An Approach to Nearest Neighbor Analysis of Pigmented Protein Complexes by Using Chemical Crosslinking in Combination with Mass Spectrometry, and much more. Other chapters cover Biochemical characterization of plant aromatic aminotransferases, Functional Analysis of Phosphoethanolamine N-methyltransferase (PMT) in Plants and Parasites, A structure-guided computational screening approach for predicting plant enzyme-metabolite interactions, Plant metacaspase: an example of microcrystal structure determination and analysis, Biocatalytic system for comparative assessment of functional association of cytochrome P450 monooxygenases with their redox partners, Dirigent Protein Family Function and Structure, and more. - Provides the authority and expertise of leading contributors from an international board of authors - Presents the latest release in Methods in Enzymology series - Includes the latest information on Biochemical pathways and environmental responses in plants |
| benchling guide rna design: Genome Editing in Animals Izuho Hatada, 2023-02-11 This second edition provides new and updated protocols that can be used for generation of knockout animals. Chapters guide the reader through basic protocols for three genome editing technologies, target design tools, and specific protocols for each animal. Written in the successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible protocols, and notes on troubleshooting and avoiding known pitfalls. Authoritative and cutting-edge, Genome Editing in Animals: Methods and Protocols, Second Edition aims to be a useful practical guide to researches to help further their study in this field. |
| benchling guide rna design: Genome Editing and Biological Weapons Katherine Paris, 2022-12-15 This monograph introduces current genome editing technologies—clustered regularly interspaced short palindromic repeat (CRISPR)-CRISPR-associated (Cas) systems, transcription activator-like effector nucleases (TALENs), and zinc-finger nucleases (ZFNs)—and provides an assessment of the risk of misuse of these technologies based on the following parameters: accessibility, ease of misuse, magnitude of potential harm, and imminence of potential misuse. The findings from this assessment are applied to analyze and evaluate the threat posed by the intentional misuse of genome editing technologies to develop biological weapons. Furthermore, the book discusses the implications of misuse for different applications of genome editing, such as making existing pathogens more dangerous, modifying the human microbiome, weaponizing gene drives, engineering super soldiers, and augmenting the general population to confer economic advantages. Technologies that enable genome editing with programmable nucleases—including CRISPR, TALEN, and ZFN—allow for the precise genetic modification of organisms and cultured cells. While these technologies are used for a variety of beneficial applications, intelligence and defense experts have raised concerns that genome editing technologies, especially CRISPR, could be misused to develop new and improved biological weapons. Furthermore, experts worry that the number and type of actors who could potentially misuse genome editing is dramatically increasing given the democratization of biology, which is allowing biology to become more accessible to everyone including nonexperts. The book provides a comprehensive assessment of how feasible it is for users with different levels of knowledge and skill to acquire and then to apply the technologies to develop a biological weapon. It also provides an assessment of governability and a tailored set of recommendations that address security concerns. These recommendations are sensitive to the cost-benefit trade-off of regulating genome editing technologies. The book targets researchers as well as intelligence analysts, defense and security personnel, and policymakers. |
| benchling guide rna design: Global Climate Change and Plant Stress Management Mohammad Wahid Ansari, Anil Kumar Singh, Narendra Tuteja, 2023-11-20 Understand the impact of climate change on plant growth with this timely introduction Climate change has had unprecedented consequences for plant metabolism and plant growth. In botany, adverse effects of this kind are called plant stress conditions; in recent years, the plant stress conditions generated by climate change have been the subject of considerable study. Plants have exhibited increased photosynthesis, increased water requirements, and more. There is an urgent need to understand and address these changes as we adapt to drastic changes in the global climate. Global Climate Change and Plant Stress Management presents a comprehensive guide to the effects of global climate change on plants and plant metabolism. It introduces and describes each climate change-related condition and its components, offering a detailed analysis of the resulting stress conditions, the environmental factors which ameliorate or exacerbate them, and possible solutions. The result is a thorough, rigorous introduction to this critical subject for the future of our biome. Readers will also find: Analysis of global climate change impact on various agricultural practices Socio-economic consequences of climate change and plant stress conditions, and possible solutions Strategies for sustainable agriculture Global Climate Change and Plant Stress Management is essential for researchers, scientists, and industry professionals working in the life sciences, as well as for advanced graduate students. |
| benchling guide rna design: Plant Genome Engineering Bing Yang, Wendy Harwood, Qiudeng Que, 2023-03-30 This volume provides readers with a collection of the latest protocols used to study plant genome editing and trait engineering. The chapters in this book are organized into five parts: genome engineering systems; machinery design and validation; delivery tools; generation and analysis of engineering materials; and crop genome engineering applications. The chapters cover topics such as methods of applying the popular CRISPR-Cas9 or CRISPR-Cas12 systems for editing genomes in different crop species, the use of small synthetic plastome for potato genome engineering, and the use of CRISPR-Cas9 for algal cell genome engineering. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Cutting-edge and comprehensive, Plant Genome Engineering: Methods and Protocols is a valuable tool for researchers interested in learning more about this developing and important field. |
| benchling guide rna design: Enzymes in Synthetic Biology , 2018-08-30 Volume 608 of the series Methods in Enzymology covers key aspects of enzyme discovery, engineering tools and platforms, and examples of applications in the enzymology of synthetic biology. Detailed methods for laboratory use of enzymes in synthetic biology applications Informative case history examples illustrating how enzyme and metabolic engineering are used to generate new products Emphasises latest developments in laboratory automation for the engineering of biology Covers many aspects of the design, build, test, learn cycle used in synthetic biology |
| benchling guide rna design: Cell Culture Engineering Gyun Min Lee, Helene Faustrup Kildegaard, 2020-01-13 Offers a comprehensive overview of cell culture engineering, providing insight into cell engineering, systems biology approaches and processing technology In Cell Culture Engineering: Recombinant Protein Production, editors Gyun Min Lee and Helene Faustrup Kildegaard assemble top class authors to present expert coverage of topics such as: cell line development for therapeutic protein production; development of a transient gene expression upstream platform; and CHO synthetic biology. They provide readers with everything they need to know about enhancing product and bioprocess attributes using genome-scale models of CHO metabolism; omics data and mammalian systems biotechnology; perfusion culture; and much more. This all-new, up-to-date reference covers all of the important aspects of cell culture engineering, including cell engineering, system biology approaches, and processing technology. It describes the challenges in cell line development and cell engineering, e.g. via gene editing tools like CRISPR/Cas9 and with the aim to engineer glycosylation patterns. Furthermore, it gives an overview about synthetic biology approaches applied to cell culture engineering and elaborates the use of CHO cells as common cell line for protein production. In addition, the book discusses the most important aspects of production processes, including cell culture media, batch, fed-batch, and perfusion processes as well as process analytical technology, quality by design, and scale down models. -Covers key elements of cell culture engineering applied to the production of recombinant proteins for therapeutic use -Focuses on mammalian and animal cells to help highlight synthetic and systems biology approaches to cell culture engineering, exemplified by the widely used CHO cell line -Part of the renowned Advanced Biotechnology book series Cell Culture Engineering: Recombinant Protein Production will appeal to biotechnologists, bioengineers, life scientists, chemical engineers, and PhD students in the life sciences. |
| benchling guide rna design: DNA-Protein Interactions Marcos Simoes-Costa, 2022-11-25 This volume details protocols emphasizing systems-level approaches that can be applied to genomic analyses. Chapters detail techniques for optimized application in in vivo systems, spatial, physiological, environmental contexts, imaging-based techniques, single-molecule approaches, CRISPR systems, new genomic approaches, and measurements of kinetics governing. Written in the format of the highly successful Methods in Molecular Biology series, each chapter includes an introduction to the topic, lists necessary materials and reagents, includes tips on troubleshooting and known pitfalls, and step-by-step, readily reproducible protocols. Authoritative and cutting-edge, DNA-Protein Interactions: Methods and Protocols aims to present genome-wide techniques that will complement the biochemistry-based protocols to aid researchers in their studies. |
| benchling guide rna design: Epigenome Editing Albert Jeltsch, |
| benchling guide rna design: Methods in iPSC Technology Alexander Birbrair, 2021-06-02 The series Advances in Stem Cell Biology is a timely and expansive collection of comprehensive information and new discoveries in the field of stem cell biology. Methods in iPSC Technology, Volume 9 addresses the different methods used for induced pluripotent stem cell (iPSC) formation, maintenance, expansion, and differentiation. The ability to reprogram different cell types to iPSCs offers an opportunity to generate pluripotent patient-specific cell lines that can help in the understanding of multiple human disorders. This volume addresses a variety of current methods used in the generation and manipulation of iPSCs, such as magnetic nanoparticles, piggyBac vectors, lentiviral vectors, bioscaffolds, somatic cell nuclear transfer, CRISPR/Cas9, bacteria, and much more. This volume is written for researchers and scientists interested in stem cell therapy, cell biology, regenerative medicine, and organ transplantation and is contributed by world-renowned authors in the field. - Provides overview of the fast-moving field of stem cell biology and function, regenerative medicine, and therapeutics - Covers the different methods used for iPSC formation, maintenance, expansion, and differentiation - Is contributed by world-renowned experts in the field |
| benchling guide rna design: RNA at a breaking point? cytoplasmic cleavage and other post-transcriptional RNA processing in neurodevelopment and disease Catia Andreassi, Monika Piwecka, Raphaëlle Luisier, 2023-06-29 |
| benchling guide rna design: Preparing for Future Products of Biotechnology National Academies of Sciences, Engineering, and Medicine, Division on Earth and Life Studies, Board on Chemical Sciences and Technology, Board on Agriculture and Natural Resources, Board on Life Sciences, Committee on Future Biotechnology Products and Opportunities to Enhance Capabilities of the Biotechnology Regulatory System, 2017-07-28 Between 1973 and 2016, the ways to manipulate DNA to endow new characteristics in an organism (that is, biotechnology) have advanced, enabling the development of products that were not previously possible. What will the likely future products of biotechnology be over the next 5â€10 years? What scientific capabilities, tools, and/or expertise may be needed by the regulatory agencies to ensure they make efficient and sound evaluations of the likely future products of biotechnology? Preparing for Future Products of Biotechnology analyzes the future landscape of biotechnology products and seeks to inform forthcoming policy making. This report identifies potential new risks and frameworks for risk assessment and areas in which the risks or lack of risks relating to the products of biotechnology are well understood. |
| benchling guide rna design: CRISPR-Cas Enzymes , 2019-01-25 CRISPR-Cas Enzymes, Volume 616, the latest release in the Methods in Enzymology series, continues the legacy of this premier serial with quality chapters authored by leaders in the field. Topics covered in this release include CRISPR bioinformatics, A method for one-step assembly of Class 2 CRISPR arrays, Biochemical reconstitution and structural analysis of ribonucleoprotein complexes in Type I-E CRISPR-Cas systems, Mechanistic dissection of the CRISPR interference pathway in Type I-E CRISPR-Cas system, Site-specific fluorescent labeling of individual proteins within CRISPR complexes, Fluorescence-based methods for measuring target interference by CRISPR-Cas systems, Native State Structural Characterization of CRISRP Associated Complexes using Mass Spectrometry, and more. - Provides the authority and expertise of leading contributors from an international board of authors - Presents the latest release in the Methods in Enzymology series - Updated release includes the latest information on the CRISPR-Cas Enzymes |
| benchling guide rna design: Salamanders Ashley W. Seifert, Joshua D. Currie, 2022-10-22 This volume provides a comprehensive reference for researchers aiming to bring new techniques and approaches to their scientific research using urodeles. Chapters are authored by leaders in the field and meant to guide readers through laboratory colony husbandry, traditional molecular techniques, experimental manipulation and surgeries, bioinformatics and genomics, transgenics and lineage-tracing, and physiological and organismal techniques. In addition to laboratory methods, this volume highlights techniques developed for field studies and work with wild-caught animals. Written in the successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible protocols, and notes on troubleshooting and avoiding known pitfalls. Authoritative and state-of-the-art, Methods in Salamander Research aims to be a practical guide for researchers interested in deploying new methodologies in their lab or in the field. |
| benchling guide rna design: Genome Editing Applications in Animal Research Jun Song, Bradford Daigneault, Zhanjun Li, Huaqiang Yang, 2022-02-18 |
| benchling guide rna design: Transcription Factor Regulatory Networks Qi Song, Zhipeng Tao, 2022-10-20 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. |
| benchling guide rna design: Poly(ADP-Ribose) Polymerase Alexei V. Tulin, 2022-12-14 This detailed volume explores poly(ADP-ribose) polymerases (PARPs) in the biology of eukaryotes and their relevance to human health. Beginning with a section on the detection and quantification of poly(ADP-ribose) polymer (pADPr), the book continues by delving into the identification of protein targets, functional analysis, the poly(ADP-ribosyl)ating pathway in chromatin and genes expression, as well as the use of animal models and PARP1 inhibitor design and testing, and more. Written for the highly successful Methods in Molecular Biology series, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step and readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and up-to-date, Poly(ADP-Ribose) Polymerase: Methods and Protocols, Third Edition presents essential new and classical methods for studying the pADPr-pathway. |
| benchling guide rna design: Gene Editing in Plants , 2017-07-14 Gene Editing in Plants, Volume 149 aims to provide the reader with an up-to-date survey of cutting-edge research with gene editing tools and an overview of the implications of this research on the nutritional quality of fruits, vegetables and grains. New chapters in the updated volume include topics relating to Genome Engineering and Agriculture: Opportunities and Challenges, the Use of CRISPR/Cas9 for Crop Improvement in Maize and Soybean, the Use of Zinc-Finger Nucleases for Crop Improvement, Gene Editing in Polyploid Crops: Wheat, Camelina, Canola, Potato, Cotton, Peanut, Sugar Cane, and Citrus, and Gene Editing With TALEN and CRISPR/Cas in Rice. This ongoing serial contain contributions from leading scientists and researchers in the field of gene editing in plants who describe the results of their own research in this rapidly expanding area of science. - Shows the importance of revolutionary gene editing technology on plant biology research and its application to agricultural production - Provides insight into what may lie ahead in this rapidly expanding area of plant research and development - Contains contributions from major leaders in the field of plant gene editing |
| benchling guide rna design: Genome Editing in Cardiovascular and Metabolic Diseases Junjie Xiao, 2022-12-01 This book provides the latest research progress on genome editing in cardiovascular and metabolic diseases and includes bioinformatics research methodology of genome editing. Genome editing is a genetic engineering technique precisely modified specific target genes of organism genome, which has been applied to basic theoretical research and production applications from plants and animals to gene therapy of human beings. Cardiovascular and metabolic diseases have become major factors affecting human health worldwide. This book contains information about bioinformatics, genome editing in cardiovascular diseases, genome editing in metabolic diseases and therapeutic effects. It will be useful for biologist, cardiologist, cardiovascular surgeons, endocrinologist, internists, nurses, undergraduate and graduate students in medicine and cell biology and others interested in cardiovascular and metabolic medicine. |
| benchling guide rna design: Epigenetic Reprogramming During Mouse Embryogenesis Katia Ancelin, Maud Borensztein, 2020-10-20 This volume explores the latest techniques used to study and understand chromatin reprogramming in embryos and germ cells. Various culture systems are presented, which consist of invaluable tools to investigate many developmental processes. This book also looks at methods for direct examination of DNA, RNA, and proteins in embryos, along with low-input and single-cell assays for exploring these features at the genome-wide scale. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Cutting-edge and thorough, Epigenetics Reprogramming During Mouse Embryogenesis: Methods and Protocols is a valuable resource for any scientist and researcher looking to make new discoveries in this fascinating field of chromatin reprogramming. |
| benchling guide rna design: The Epstein-Barr Virus M. A. Epstein, B. G. Achong, 2012-12-06 The Epstein-Barr virus was discovered 15 years ago. Since that time an immense body of information has been accumu lated on this agent which has come to assume great signifi cance in many different fields of biological science. Thus, the virus has very special relevance in human medicine and oncology, in tumor virology, in immunology, and in mole cular virology, since it is the cause of infectious mononu cleosis and also the first human cancer virus, etiologically related to endemic Burkitt's lymphoma and probably to nasopharyngeal carcinoma. In addition, continuous human lymphoid cell lines initiated and maintained by the transform ing function of the virus genome provide a laboratory tool with wide and ever-growing applications. Innumerable papers on the Epstein-Barr virus have ap peared over recent years and reports of work with this agent now constitute a veritable flood. The present book provides the first and only comprehensive, authoritative over-view of all aspects of the virus by authors who have been the original and major contributors in their particular disciplines. A complete and up-to-date survey of this unique and important agent is thus provided which should be of great interest to experts, teachers, and students engaged in cancer research, virology, immunology, molecular biology, epide miology, and cell culture. Where topics have been dealt with from more than one of these viewpoints, some inevitable overlap and duplication has resulted; although this has been kept to a minimum, it has been retained in some places because of positive usefulness. |
| benchling guide rna design: Omics Approach to Manage Abiotic Stress in Cereals Aryadeep Roychoudhury, Tariq Aftab, Krishnendu Acharya, 2022-05-30 The edited book highlights various emerging Omics tools and techniques that are currently being used in the analysis of responses to different abiotic stress in agronomically important cereals and their applications in enhancing tolerance mechanism. Plants are severely challenged by diverse abiotic stress factors such as low water availability (drought), excess water (flooding/ waterlogging), extremes of temperatures (cold, chilling, frost, and heat), salinity, mineral deficiency, and heavy metal toxicity. Agronomically important cereal crops like Rice, Wheat, Maize, Sorghum, Pearl Millet, Barley, Oats, Rye, Foxtail Millets etc. that are the major sources of food material and nutritional components for human health are mostly exposed to abiotic stresses during the critical phases of flowering and grain yield. Different Omics platforms like genomics, transcriptomics proteomics, metabolomics and phenomics, in conjunction with breeding and transgenic technology, and high throughput technologies like next generation sequencing, epigenomics, genome editing and CRISPR-Cas technology have emerged altogether in understanding abiotic stress response and strengthening defense and tolerance mechanism of different cereals. This book is beneficial to different universities and research institutes working with different cereal crops in the areas of stress physiology, stress-associated genes and proteins, genomics, proteomics, genetic engineering, and other fields of molecular plant physiology. The book can also be used as advanced textbook for the course work of research and master’s level students. It will be of use to people involved in ecological studies and sustainable agriculture. The proposed book bring together the global leaders working on environmental stress in different cereal crops and motivate scientists to explore new horizons in the relevant areas of research. |
| benchling guide rna design: CRISPR-aided bioengineering for value-added product development Anindya Bandyopadhyay, Michael Köpke, Tae Seok Moon, 2024-01-08 |
| benchling guide rna design: The CRISPR/Cas Tool Kit for Genome Editing Aftab Ahmad, Sultan Habibullah Khan, Zulqurnain Khan, 2022-01-01 This book discusses CRISPR/Cas- one of the most powerful tools available to scientists for genome editing. CRISPR/Cas is not only a genome editing tool, but researchers have also engineered it for gene regulation, genome imaging, base editing and epigenome regulations. This book describes the entire toolkit for CRISPR/Cas. The opening section gives an introduction to the technique and compares it with other genome editing tools. Further section gives a historical perspective of the tool, along with its detailed classification. The next chapters describe bioinformatic tools in CRISPR/Cas, and delivery methods for CRISPR/Cas. The book also discusses about the applications of CRISPR/Cas beyond genome editing and use of CRISPR for rewriting genetic codes. The book dedicates a section to the use of CRISPR in plants. The book culminates with a chapter on the current status, challenges and shortcomings of the CRISPR/Cas genome editing tool. The book would be highly interesting to students and researchers in molecular biology, biochemistry, biotechnology, food science, agriculture and plant sciences. |
| benchling guide rna design: Diabetic Nephropathy Luigi Gnudi, David A. Long, 2019-11-08 This book provides a toolkit of novel research approaches for investigators to study diabetic nephropathy, including critical experimental models from the fly to the fish, cells in culture, and in vivo mammalian approaches. The collection also explores powerful techniques to image the kidney, such as traditional histological techniques as well as electron, confocal, and two-photon microscopy, pathophysiology of the diabetic kidney, and gene editing and regenerative medicine. Written for the highly successful Methods in Molecular Biology series, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and practical, Diabetic Nephropathy: Methods and Protocols seeks to foster new research directions and inspire ideas to enhance our understanding of diabetic nephropathy and to develop treatments for this condition. |
| benchling guide rna design: Mammalian Synthetic Biology Jamie A. Davies, Paul S. Freemont, 2020 This primer introduces the challenges and opportunities of applying synthetic biological techniques to mammalian cells, tissues, and organisms. It covers the special features that make engineering mammalian systems different from engineering bacteria, fungi, and plants, and provides an overview of current techniques. A variety of cutting-edge examples illustrate the different purposes of mammalian synthetic biology, including pure biomedical research, drug production, tissue engineering, and regenerative medicine. |
Cloud-based platform for biotech R&D | Benchling
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Benchling’s industry-leading, cloud-native platform is built to match the flexibility and speed of modern life science R&D.
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Benchling's mission is to accelerate CRISPR gene engineering, cell therapies, lab-grown meat, synthetic biology, biofuels, and biomaterials.
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Leverage Benchling to standardize sequence analysis and registration across teams while improving hand-offs and reducing redundancy of work.
Cloud-based platform for biotech R&D | Benchling
Benchling is a cloud-based platform for biotechnology research and development and the only biology-first platform for scientific data, collaboration, and insights.
The Benchling Platform
Benchling’s industry-leading, cloud-native platform is built to match the flexibility and speed of modern life science R&D.
About Benchling
Benchling's mission is to accelerate CRISPR gene engineering, cell therapies, lab-grown meat, synthetic biology, biofuels, and biomaterials.
Benchling Features
Benchling is designed to power scientific work, from everyday lab activities through end-to-end program management. Request a demo Explore Benchling capabilities designed for today’s …
Sign In - Benchling
Sign in with Google. Need an account? Sign up
Benchling for Academics
Benchling's cloud-based Notebook, CRISPR, Molecular Biology, Primer Design, Sequence Alignments, and more are free for academics.
CRISPR Guide RNA Design Tool | Benchling
The CRISPR Guide RNA design tool allows you to visualize, optimize, and annotate multiple gRNA sequences at a time. Get on and off-target scores in seconds to compare and optimize …
Sign Up · Benchling
We help scientists make breakthrough discoveries faster Continue. or
Customers in Life Sciences R&D - Benchling
Hundreds of biotech and pharmaceutical companies use the Benchling Life Sciences R&D Cloud for their large molecule research and development.
Benchling Molecular Bio Software: Build, Share & Record DNA …
Leverage Benchling to standardize sequence analysis and registration across teams while improving hand-offs and reducing redundancy of work.
