Nuclear bodies and noncoding RNAs : methods and protocols /
Nuclear bodies and noncoding RNAs : methods and protocols /
edited by Shinichi Nakagawa, Tetsuro Hirose.
- 1 online resource (xiiI, 351 pages) : illustrations (some color)
- Methods in Molecular Biology, 1262 1940-6029 ; .
- Methods in molecular biology (Clifton, N.J.) ; v. 1262. .
Includes bibliographical references and index.
Visualization of lncRNA by single-molecule fluorescence in situ hybridization / Super-resolution imaging of nuclear bodies by STED microscopy / High-resolution 3D DNA FISH using plasmid probes and computational correction of optical aberrations to study chromatin structure at the sub-megabase scale / Time-lapse imaging of nuclear bodies / Visualization of nucleic acids with synthetic exciton- controlled fluorescent oligonucleotide probes / Live CLEM imaging to analyze nuclear structures at high resolution / Ultrastructural analysis of nuclear bodies using electron microscopy / Analyses of nuclear proteins and nucleic acid structures using atomic force microscopy / Genome-wide co-localization screening of nuclear body components using a fluorescently tagged FLJ cDNA clone library / Purification of specific chromatin regions using oligonucleotides : capture hybridization analysis of RNA targets (CHART) / RNA antisense purification (RAP) for mapping RNA interactions with chromatin / In situ dissection of RNA functional subunits by domain- specific chromatin isolation by RNA purification (dChIRP) / Extracting, enriching, and identifying nuclear body sub-complexes using label-based quantitative mass spectrometry / Studying RNA-binding protein interactions with target mRNAs in eukaryotic cells : native ribonucleoprotein immunoprecipitation (RIP) assays / Cross-linking and immunoprecipitation of nuclear RNA- binding proteins / Purification of noncoding RNA and bound proteins using FLAG peptide-conjugated antisense-oligonucleotides / MMCT-mediated chromosome engineering technique applicable to functional analysis of lncRNA and nuclear dynamics / Reconstitution of nucleocytoplasmic transport using digitonin-permeabilized cells / Genome-wide analysis of long noncoding RNA turnover / Knockdown of nuclear-retained long noncoding RNAs using modified DNA antisense oligonucleotides / siRNA screening of nuclear proteins / Margaret Dunagin, Moran N. Cabili, John Rinn, and Arjun Raj -- Yasushi Okada and Shinichi Nakagawa -- Luca Giorgetti, Tristan Piolot, and Edith Heard -- Saskia Hutten, Samuel Swift, and Angus I. Lamond -- Dan Ohtan Wang and Akimitsu Okamoto -- Tokuko Haraguchi, Hiroko Osakada, and Takako Koujin -- Sylvie Souquere and Gérard Pierron -- Jamie L. Gilmore [and others] -- Tetsuro Hirose and Naoki Goshima -- Christopher P. Davis and Jason A. West -- Jesse Engreitz, Eric S. Lander, and Mitchell Guttman -- Jeffrey J. Quinn and Howard Y. Chang -- Archa Fox [and others] -- Joseph A. Cozzitorto [and others] -- Quan Li, Yuri Uemura, and Yukio Kawahara -- Shungo Adachi and Tohru Natsume -- Makiko Meguro-Horike and Shin-ichi Horike -- Shingo Kose, Tomoko Funakoshi, and Naoko Imamoto -- Hidenori Tani [and others] -- Xinying Zong [and others] -- Yuko Hasegawa and Shinichi Nakagawa.
This volume focuses on cytological, biochemical, and molecular biological methods to identify and examine the function of each nuclear body, with an emphasis on the analysis of long non-coding RNAs. Chapters focus on exploring recent studies that reveal how certain long non protein-coding RNAs accumulate in specific nuclear bodies and regulate the function of the bodies by serving as architectural components or controlling the dynamics of associating protein components. Written in the highly successful "Methods of 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 key tips on troubleshooting and avoiding known pitfalls. Authoritative and practical, "Nuclear Bodies and Noncoding RNAs: Methods and Protocols "serves as a guideline for further study into the sophisticated regulation of gene expression.
9781493922536 149392253X 1493922521 9781493922529
10.1007/978-1-4939-2253-6 doi 9781493922529
com.springer.onix.9781493922536 Springer Nature
2014956519
GBB8M4787 bnb
019140325 Uk
Non-coding RNA--Laboratory manuals.
Nuclear proteins--Laboratory manuals.
RNA.
Cell organelles.
Medical laboratory technology.
Metabolism.
Proteins.
Biology.
Nucleic acids.
Life sciences.
Cells.
Physical sciences.
Cytoplasm.
Anatomy.
Cell nuclei.
Nuclear proteins.
Cytology--Technique.
Non-coding RNA.
RNA
Organelles
Clinical Laboratory Techniques
Metabolism
Intracellular Space
Proteins
Publication Formats
Biology
Publication Characteristics
Nucleic Acids
Cellular Structures
Cytoplasmic Structures
Biological Science Disciplines
Investigative Techniques
Amino Acids, Peptides, and Proteins
Phenomena and Processes
Chemicals and Drugs
Cells
Natural Science Disciplines
Cytoplasm
Analytical, Diagnostic and Therapeutic Techniques and Equipment
Nucleic Acids, Nucleotides, and Nucleosides
Anatomy
Disciplines and Occupations
Cell Nucleus
Laboratory Manuals
Genetics
Nuclear Proteins
Cell Nucleus Structures
Cytological Techniques
RNA, Untranslated
ARN non codants--Manuels de laboratoire.
Protéines nucléaires--Manuels de laboratoire.
ARN.
Organites cellulaires.
Médecine--Laboratoires--Technique.
Métabolisme.
Protéines.
Biologie.
Acides nucléiques.
Sciences de la vie.
Cellules.
Sciences physiques.
Cytoplasme.
Anatomie.
Noyau (Cellule)
Protéines nucléaires.
Cytologie--Technique.
ARN non codants.
metabolism (biological concept)
protein.
biology.
biological sciences.
physical sciences.
anatomy.
Medical genetics.
Medical--Genetics.
RNA
Proteins
Physical sciences
Nucleic acids
Metabolism
Medical laboratory technology
Life sciences
Cytoplasm
Cytology--Technique
Cells
Cell organelles
Cell nuclei
Biology
Anatomy
Non-coding RNA
Nuclear proteins
biomedische wetenschappen biomedicine moleculaire genetica molecular genetics humane genetica human genetics Medicine (General) Geneeskunde (algemeen)
Laboratory Manual
Laboratory manuals
Laboratory manuals.
Manuels de laboratoire.
QP623
572.8/8
W1 / ME9616J v.1262 2015 QU 25
Includes bibliographical references and index.
Visualization of lncRNA by single-molecule fluorescence in situ hybridization / Super-resolution imaging of nuclear bodies by STED microscopy / High-resolution 3D DNA FISH using plasmid probes and computational correction of optical aberrations to study chromatin structure at the sub-megabase scale / Time-lapse imaging of nuclear bodies / Visualization of nucleic acids with synthetic exciton- controlled fluorescent oligonucleotide probes / Live CLEM imaging to analyze nuclear structures at high resolution / Ultrastructural analysis of nuclear bodies using electron microscopy / Analyses of nuclear proteins and nucleic acid structures using atomic force microscopy / Genome-wide co-localization screening of nuclear body components using a fluorescently tagged FLJ cDNA clone library / Purification of specific chromatin regions using oligonucleotides : capture hybridization analysis of RNA targets (CHART) / RNA antisense purification (RAP) for mapping RNA interactions with chromatin / In situ dissection of RNA functional subunits by domain- specific chromatin isolation by RNA purification (dChIRP) / Extracting, enriching, and identifying nuclear body sub-complexes using label-based quantitative mass spectrometry / Studying RNA-binding protein interactions with target mRNAs in eukaryotic cells : native ribonucleoprotein immunoprecipitation (RIP) assays / Cross-linking and immunoprecipitation of nuclear RNA- binding proteins / Purification of noncoding RNA and bound proteins using FLAG peptide-conjugated antisense-oligonucleotides / MMCT-mediated chromosome engineering technique applicable to functional analysis of lncRNA and nuclear dynamics / Reconstitution of nucleocytoplasmic transport using digitonin-permeabilized cells / Genome-wide analysis of long noncoding RNA turnover / Knockdown of nuclear-retained long noncoding RNAs using modified DNA antisense oligonucleotides / siRNA screening of nuclear proteins / Margaret Dunagin, Moran N. Cabili, John Rinn, and Arjun Raj -- Yasushi Okada and Shinichi Nakagawa -- Luca Giorgetti, Tristan Piolot, and Edith Heard -- Saskia Hutten, Samuel Swift, and Angus I. Lamond -- Dan Ohtan Wang and Akimitsu Okamoto -- Tokuko Haraguchi, Hiroko Osakada, and Takako Koujin -- Sylvie Souquere and Gérard Pierron -- Jamie L. Gilmore [and others] -- Tetsuro Hirose and Naoki Goshima -- Christopher P. Davis and Jason A. West -- Jesse Engreitz, Eric S. Lander, and Mitchell Guttman -- Jeffrey J. Quinn and Howard Y. Chang -- Archa Fox [and others] -- Joseph A. Cozzitorto [and others] -- Quan Li, Yuri Uemura, and Yukio Kawahara -- Shungo Adachi and Tohru Natsume -- Makiko Meguro-Horike and Shin-ichi Horike -- Shingo Kose, Tomoko Funakoshi, and Naoko Imamoto -- Hidenori Tani [and others] -- Xinying Zong [and others] -- Yuko Hasegawa and Shinichi Nakagawa.
This volume focuses on cytological, biochemical, and molecular biological methods to identify and examine the function of each nuclear body, with an emphasis on the analysis of long non-coding RNAs. Chapters focus on exploring recent studies that reveal how certain long non protein-coding RNAs accumulate in specific nuclear bodies and regulate the function of the bodies by serving as architectural components or controlling the dynamics of associating protein components. Written in the highly successful "Methods of 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 key tips on troubleshooting and avoiding known pitfalls. Authoritative and practical, "Nuclear Bodies and Noncoding RNAs: Methods and Protocols "serves as a guideline for further study into the sophisticated regulation of gene expression.
9781493922536 149392253X 1493922521 9781493922529
10.1007/978-1-4939-2253-6 doi 9781493922529
com.springer.onix.9781493922536 Springer Nature
2014956519
GBB8M4787 bnb
019140325 Uk
Non-coding RNA--Laboratory manuals.
Nuclear proteins--Laboratory manuals.
RNA.
Cell organelles.
Medical laboratory technology.
Metabolism.
Proteins.
Biology.
Nucleic acids.
Life sciences.
Cells.
Physical sciences.
Cytoplasm.
Anatomy.
Cell nuclei.
Nuclear proteins.
Cytology--Technique.
Non-coding RNA.
RNA
Organelles
Clinical Laboratory Techniques
Metabolism
Intracellular Space
Proteins
Publication Formats
Biology
Publication Characteristics
Nucleic Acids
Cellular Structures
Cytoplasmic Structures
Biological Science Disciplines
Investigative Techniques
Amino Acids, Peptides, and Proteins
Phenomena and Processes
Chemicals and Drugs
Cells
Natural Science Disciplines
Cytoplasm
Analytical, Diagnostic and Therapeutic Techniques and Equipment
Nucleic Acids, Nucleotides, and Nucleosides
Anatomy
Disciplines and Occupations
Cell Nucleus
Laboratory Manuals
Genetics
Nuclear Proteins
Cell Nucleus Structures
Cytological Techniques
RNA, Untranslated
ARN non codants--Manuels de laboratoire.
Protéines nucléaires--Manuels de laboratoire.
ARN.
Organites cellulaires.
Médecine--Laboratoires--Technique.
Métabolisme.
Protéines.
Biologie.
Acides nucléiques.
Sciences de la vie.
Cellules.
Sciences physiques.
Cytoplasme.
Anatomie.
Noyau (Cellule)
Protéines nucléaires.
Cytologie--Technique.
ARN non codants.
metabolism (biological concept)
protein.
biology.
biological sciences.
physical sciences.
anatomy.
Medical genetics.
Medical--Genetics.
RNA
Proteins
Physical sciences
Nucleic acids
Metabolism
Medical laboratory technology
Life sciences
Cytoplasm
Cytology--Technique
Cells
Cell organelles
Cell nuclei
Biology
Anatomy
Non-coding RNA
Nuclear proteins
biomedische wetenschappen biomedicine moleculaire genetica molecular genetics humane genetica human genetics Medicine (General) Geneeskunde (algemeen)
Laboratory Manual
Laboratory manuals
Laboratory manuals.
Manuels de laboratoire.
QP623
572.8/8
W1 / ME9616J v.1262 2015 QU 25