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1.

図書

図書
edited by Nils G. Walter
出版情報: San Diego, Calif. ; Tokyo : Academic Press, 2010  l, 663 p., [30] p. of plates ; 24 cm
シリーズ名: Methods in enzymology / editors in chief, Sidney P. Colowick, Nathan O. Kaplan ; v. 475 . Single molecule tools ; pt. B
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Watching single DNA replication loops under flow extension / Antoine Van Oijen1:
Star polymer surface passivation for single molecule detection / Jürgen Groll ; Martin Möller2:
Ultrahigh resolution detection of single active motor proteins in live cells / Paul Selvin ; Erdal Toprak ; Comert Kural3:
Molecules and Methods for Superresolution Imaging / W.E. Moerner ; Michael Thompson ; Sam Lord ; Julie Biteen ; Nick Conley +.4:
Aqueous nanodroplets for studying single molecules / Lori Goldner5:
High-speed atomic force microscopy techniques for visualizing dynamic behavior of biological macromolecules / Toshio Ando6:
Single-Biomolecule Spectroscopy Using Microfluidic Platforms / Richard Zare ; Dr. Olga Dudko ; Dr. Jérôme Mathé7:
DNA Looping Kinetics Analyzed by Tethered Particle Microscopy / Laura Finzi8:
Single molecule observation of proteins in vivo / Shimon Weiss ; Gopal Iyer9:
DNA curtains as a high-throughput approach to single molecule imaging / tEric Greene10:
Single-molecule enzymology of protein synthesis / Ruben Gonzalez11:
Single molecule fluorescence studies of intrinsically disordered proteins / Ashok Deniz12:
Nanovesicle trapping for studying transient protein-protein interactions by single molecule FRET / Peng Chen13:
Tracking single motor proteins in the cytoplasm of mammalian cells / Edgar Meyhöfer14:
Conformational States of F1-ATPase by Single-Molecule Rotation / Hiroyuki Noji15:
Single Molecule Sequencing by Fluorescence Imaging / Patrice Milos16:
Real-Time DNA Sequencing from Single Polymerase Molecules / Jonas Korlach17:
Micropatterning and single molecule imaging for quantitative analysis of protein-protein interactions in living cells / Gerhard Schütz18:
Probing virus-receptor interactions by atomic force spectroscopy / Peter Hinterdorfer19:
Single-Molecule Fluorescence Spectroscopy of Cytochrome P450 in Nanodiscs / Elizabeth Rhoades ; William M. Atkins20:
Analysis of complex single molecule FRET time traces / Nils Walter ; Mario Blanco21:
Application of super-resolution imaging to single particle tracking in nanotechnology / Chamaree de Silva ; Anthony Manzo22:
Scanning FCS for the characterization of protein dynamics in live cells / Petra Schwille23:
Single mRNA molecule tracking in live cells / Rob Singer24:
Single-molecule high-resolution colocalization (SHREC) or Single-molecule optical-trap analyses of protein structure / James Spudich25:
Nanopore force Spectroscopy tools for analyzing single bio-complexes / Amit Meller26:
Use of plasmon coupling to reveal DNA dynamics at the single molecule level / Jan Liphardt27:
"Fluorescence-force spectroscopy" or "Suppression of fluorophore blinking and bleaching" or "Spontaneous intersubunit rotation of the ribosome" / Taekjip Ha28:
Multiplexed single mRNA imaging in fixed cells / Sanjay Tyagi ; Arjun Raj29:
Size-Minimized Quantum Dots for Single-Molecule and Intracellular Imaging / Shuming Nie30:
The ABEL trap / Adam Cohen ; Alex Fields31:
An optical torque wrench / Steve Block ; Arthur La Porta32:
Determining the Stoichiometry of Protein Hetero-complexes in Living Cells with Fluorescence Fluctuation Spectroscopy / Joachim Mueller33:
Fluorescent Visualization of Single Protein-DNA Complexes / Steve Kowalzcykowski34:
Direct Measurement of Tertiary Contact Cooperativity in RNA Folding by single molecule FRET / Daniel Herschlag35:
Nanometer-localized multiple single-molecule (NALMS) or Single-molecule nonequilibrium periodic Mg2+-concentration jump experiments / Norbert Scherer36:
Multiparameter single molecule fluorescence detection with applications to FRET / Claus Seidel37:
single-particle tracking-photoactivated localization microscopy (sptPALM) within live cells / Jennifer Lippincott-Schwartz ; Suliana Manley38:
Site-specific incoporation of fluorescent probes into RNA polymerase / Richard Ebright39:
Quantitative single-molecule imaging by confocal laser scanning microscopy / Rudolph Rigler40:
Studies of DNA-replication at the single molecule level using magnetic tweezers / David Bensimon ; Vincent Croquette41:
RNA labeled for single molecule FRET analysis from ligation with T4 RNA ligases / John Abelson42:
Combining optical tweezers, single-molecule fluorescence microscopy and microfluidics for studying reversible protein-DNA interactions / Gijs Wuite ; G. Farge ; P. Gross ; E.J.G. Peterman43:
How dwell time distributions and other such observables in single molecule analysis can be used to extract information from molecular systems / Carlos Bustamante ; Jeff Moffitt ; Yann Robert Chemla44:
Atomic force microscopy studies of human rhinovirus: topology and molecular forces / 45:
Watching single DNA replication loops under flow extension / Antoine Van Oijen1:
Star polymer surface passivation for single molecule detection / Jürgen Groll ; Martin Möller2:
Ultrahigh resolution detection of single active motor proteins in live cells / Paul Selvin ; Erdal Toprak ; Comert Kural3:
2.

図書

図書
edited by Paul M. Wassarman and Philippe M. Soriano
出版情報: San Diego, Calif. ; Tokyo : Academic Press, 2010  xlviii, 482 p., [8] p. of plates ; 24 cm
シリーズ名: Methods in enzymology / editors in chief, Sidney P. Colowick, Nathan O. Kaplan ; v. 476 . Guide to techniques in mouse development ; pt. A
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General Resources / Section I:
A survey of internet resources for mouse development / Thomas L. Saunders1:
Handling Mouse Lines / Section II:
Transport of mouse lines by shipment of live embryos / Kevin A. Kelley2:
Strategies and considerations for distributing and recovering mouse lines / Yubin Du ; Wen Xie ; Chengyu Liu3:
Archiving and distributing mouse lines by sperm cryopreservation, IVF, and embryo transfer / Hideko Takahashi4:
Gametes and Embryos / Section III:
Isolation and manipulation of mouse gametes and embryos / Eveline S. Litscher ; Paul M. Wassarman5:
Cryopreservation of mouse gametes and embryos / Carlisle P. Landel6:
Ovarian follicle culture systems for mammals / David F. Albertini ; Gokhan Akkoyunlu7:
Production of mouse chimaeras by aggregating pluripotent stem cells with embryos / Andras Nagy ; Kristina Nagy ; Marina Gertsenstein8:
Production of cloned mice from somatic cells, ES cells, and frozen bodies / Sayaka Wakayama ; Eiji Mizutani ; Teruhiko Wakayama9:
Nuclear transfer in mouse oocytes and embryos / Zhiming Han ; Yong Cheng ; Cheng-Guang Liang ; Keith E. Latham10:
Culture of whole mouse embryos at early post-implantation to organogenesis stages: developmental staging and methods / Jaime A. Rivera-Perez ; Vanessa Jones ; Patrick P. L. Tam11:
In utero and ex utero surgery on rodent embryos / Valerie Ngo-Muller ; Ken Mueoka12:
Fertilization / Section IV:
Enhancement of IVF in the mouse by zona-drilling / 13:
ICSI in the mouse / Paula Stein ; Richard M. Schultz14:
ES and iPS Cells / Section V:
A simple procedure for the efficient derivation of mouse ES cells / Esther Wong ; Kenneth Ban ; Rafidah Mutalif ; Nancy A. Jenkins ; Neal G. Copeland ; Colin L. Stewart15:
Producing fully ES cell-derived mice from 8-cell stage embryo injections / Thomas M. DeChiara ; William T. Poueymirou ; Wojtek Auerbach ; David Frendewey ; George D. Yancopoulos ; David M. Valenzuela16:
The loss-of-allele assay for ES cell screening and mouse genotyping / Rostislav Chernomorsky ; Lakeisha Esau ; Jinsop Om ; Yingzi Xue ; Andrew J. Murphy17:
Induced pluripotent stem (iPS) cells / Holm Zaehres ; Jeong Beom Kim ; Hans R. Schöler18:
Imaging Mouse Development / Section VI:
Imaging mouse embryonic development / Ryan S. Udan ; Mary E. Dickinson19:
Imaging mouse development with confocal time-lapse microscopy / Sonja Nowotschin ; Anna Ferrer-Vaquer ; Anna-Katerina Hadjantonakis20:
Ultrasound and magnetic resonance microimaging of mouse development / Brian J. Nieman ; Daniel H. Turnbull21:
Hematopoiesis / Section VII:
Use of transgenic fluorescent reporter mouse lines to monitor hematopoietic and erythroid development during embryogenesis / Stuart T. Fraser ; Joan Isern ; Margaret H. Baron22:
Identification and in vivo analysis of murine hematopoietic stem cells / Serine Avagyan ; Yacine M. Amrani ; Hans-Willem Snoeck23:
General Resources / Section I:
A survey of internet resources for mouse development / Thomas L. Saunders1:
Handling Mouse Lines / Section II:
3.

図書

図書
edited by Paul M. Wassarman and Philippe M. Soriano
出版情報: San Diego, Calif. ; Tokyo : Academic Press, 2010  xlviii, 580 p., [8] p. of plates ; 24 cm
シリーズ名: Methods in enzymology / editors in chief, Sidney P. Colowick, Nathan O. Kaplan ; v. 477 . Guide to techniques in mouse development ; pt. B
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Transgenesis / Section I:
Lentivirus transgenesis / Alexander Pfeifer ; Katrin Zimmermann1:
Germline modification using mouse spermatogonial stem cells / Mito Kanatsu-Shinohara ; Takashi Shinohara2:
Embryonic in vivo electroporation in the mouse / Tetsuichiro Saito3:
Transposons / Section II:
Current applications of transposons in mouse genetics / Adam J. Dupuy4:
Functional genomics in the mouse using the Sleeping Beauty transposon system / Kyoji Horie ; Chikara Kokubu ; Junji Takeda5:
The use of DNA transposons for cancer gene discovery in mice / George Vassiliou ; Roland Rad ; Allan Bradley6:
Recombinases / Section III:
A practical summary of site specific recombination, conditional mutagenesis, and tamoxifen induction of CreERT2 / Konstantinos Anastassiadis ; Stefan Glaser ; Andrea Kranz ; Kaj Berhardt ; A. Francis Stewart7:
A recombineering pipeline to make conditional targeting constructs / Jun Fu ; Madeleine Teucher ; William Skarnes8:
Confirmation of recombination site functionality in gene targeting vectors using recombinase-expressing bacteria / M. David Stewart ; Richard R. Behringer9:
Genetic fate mapping using site-specific recombinases / Emilie Legué ; Alexandra L. Joyner10:
Mapping cell fate and function using recombinase-based intersectional strategies / Susan M. Dymecki ; Russell S. Ray ; Jun C. Kim11:
Mutagenesis / Section IV:
Genome-wide forward genetic screens in mouse ES cells / Meng Amy Li ; Stephen J. Pettitt ; Kosuke Yusa12:
Gene trap mutagenesis in the mouse / Roland H. Friedel ; Philippe Soriano13:
A wider context for gene trap mutagenesis / Joshua M. Brickman ; Anestis Tsakiridis ; Christine To ; William L. Stanford14:
Mouse mutagenesis with the chemical supermutagen ENU / Frank J. Probst ; Monica J. Justice15:
Phenotype-driven mouse ENU mutagenesis screens / Tamara Caspary16:
Using ENU mutagenesis for phenotype-driven analysis of the mouse / Rolf W. Stottmann ; David R. Beier17:
Gene Knockdowns / Section V:
Exploration of self-renewal and pluripotency in ES cells using RNAi / Christoph Schaniel ; Dung-Fang Lee ; Ihor R. Lemischka18:
Transgenic RNAi applications in the mouse / Jost Seibler ; Frieder Schwenk19:
Gene knockdown in the mouse through RNAi / Aljoscha Kleinhammer ; Wolfgang Wurst ; Ralf Kühn20:
In vivo analysis of gene knock-down in tetracycline-inducible shRNA mice / Christopher S. Raymond ; Lei Zhu ; Myung K. Shin21:
The power of reversibility: Regulating gene activities via tetracycline controlled transcription / Kai Schönig ; Hermann Bujard ; Manfred Gossen22:
Gene Expression Profiling / Section VI:
Gene expression profiling of mouse oocytes and preimplantation embryos / Francesca E. Duncan ; Richard M. Schultz23:
Interrogating the transcriptome of oocytes and preimplantation embryos / Anne E. Peaston ; Joel Graber ; Barbara B. Knowles ; Wilhelmine N. de Vries24:
Gene expression profiling of mouse embryos with microarrays / Alexei A. Sharov ; Yulan Piao ; Minoru S. H. Ko25:
Transgenesis / Section I:
Lentivirus transgenesis / Alexander Pfeifer ; Katrin Zimmermann1:
Germline modification using mouse spermatogonial stem cells / Mito Kanatsu-Shinohara ; Takashi Shinohara2:
4.

図書

図書
edited by Minoru Fukuda
出版情報: San Diego, Calif. ; Tokyo : Academic Press, 2010  liv, 611 p., [12] p. of plates ; 24 cm
シリーズ名: Methods in enzymology / editors in chief, Sidney P. Colowick, Nathan O. Kaplan ; v. 478
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Glycomics / Section I:
Mass spectrometric analysis of acidic oligosaccharides / K-H. Khoo1:
Mass Spectrometric Analysis of mutant mice / Anne Dell2:
Electrospray mass spectrometry including ESI FTICR-MS / Robert Linhardt3:
Mass spectrometric data base for N-glycan and O-glycan / H. Narimatsu4:
Mass spectrometric analysis of cancer-associated N-glycans / Shinichiro Nishimura5:
Fucosylation as cancer marker / Eiji Miyoshi6:
Development of lectin microarray for glycan profiling and its application to disease-related biomarker development / Jun Hirabayashi ; Atsushi Kuno7:
Cellular glycomics and versatile applications of lectin microarray / Jul Hirabayashi ; Hiroaki Tateno8:
Carbohydrate-binding protein array / Richard Cummings ; David Smith9:
Detection of weak binding sugar activity using membrane-based carbohydrates / Kazuo Yamamoto10:
Binding to synthetic glycopeptides / Anne Lepannen11:
Glycan array and Malectin / Ten Feizi12:
Imaging mass spectrometry / Naoko Goto-Inoue13:
Chemical Glycobiology / Section II:
NMR / Yoshiki Yamaguchi14:
Self/non-self recognition / Koichi Fukase15:
Multivalent ligand for CD22 / Mary O'Reilly ; Jim Paulson16:
Intramolecular interaction / David Live17:
Bacterial furanosides / Todd Lowary18:
1,2-Cis glycoside of amino sugar / Shino Manabe19:
Aminoglycoside antibiotics / Timor Baasov20:
Solid phase carbohydrate synthesis / Peter Seeberger ; Steffen Eller ; Markus Weishaupt21:
Novel synthesis of functional mucin glycopeptides containing both N- and O-glycans / Shin-itiro Nishimura22:
Chemoenzymatic synthesis of N-glycan / Wei Huang23:
Sialyl glycopeptides synthesis / Yosuhiro Kajihara24:
Synthesis of sialosides / Makoto Kiso25:
Metabolic glycosylation / Jennifer Kohler26:
Targeting tumors using homing peptides / Michiko Fukuda27:
Glycomics / Section I:
Mass spectrometric analysis of acidic oligosaccharides / K-H. Khoo1:
Mass Spectrometric Analysis of mutant mice / Anne Dell2:
5.

図書

図書
edited by Minoru Fukuda
出版情報: San Diego, Calif. ; Tokyo : Academic Press, 2010  xlviii, 447 p., [16] p. of plates ; 24 cm
シリーズ名: Methods in enzymology / editors in chief, Sidney P. Colowick, Nathan O. Kaplan ; v. 479
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Stem Cell / Section I:
ß1,4-galactosyltransferase V in growth regulation / Jianxin Gu1:
Roles of Polysialic acid in neural stem cells / Kiyohiko Angata2:
Chondroitin sulfate in neural stem cells / Andreas Faissner3:
Transcription in Stem Cell / Kelly Moremen4:
Directing stem cell trafficking through GPS / Robert. Sackstein5:
Gene knockout and mutant mice / Section II:
Cosmc-chaperone / Richard Cummings Ju6:
Core 3 O-glycan / Lijuan Xia7:
Core3 glycan as tumor suppressor / Lee Fukuda8:
Core 4 O-glycan / Jamey Marth ; Minoru Fukuda9:
b3GlcNAcT2, a major polylacosamine synthase / Akira. Togayachi ; Hisashi Narimatsu10:
GalNAcT-1 / Mari Tenno. Jamey Marth11:
GlcNAcT-IVa-Diabetes / Kazuaki Ohtsubo12:
Ashwell receptor / Prabhijt. Grewal13:
Roles ofGlcNAc-6-O-sulfotransferases in lymphoid and non-lymphoid tissues Hiroto Kawashima / 14:
ß3GlcNAcT3-core 2GlCNAcT1-selectin ligand / Junya. Mitoma15:
ManII-ManIIX / Michiko Fukuda16:
Histochemical analysis carbohydrate antigens in inflammation / Motohiro Kobayashi ; Jun Nakayama17:
Alpha-Dystroglycan and tumor / Section III:
Genetic defect in muscular dystrophy / Paul Martin18:
POMT1 knockout / Sabine Strahl ; Jesus Cruces19:
POMGnT1 Mutation in human / Tamao ; Endo20:
POMGnT1 Knockout mice / Huaiyu Hu21:
Large mutation and Large 2 / Jane. Hewitt22:
a-dystroglycan glycans as tumor suppressor / Xingfeng Bao23:
Tumor formation assay / Shingo Hatakeyama ; Chikara Ohyama24:
Stem Cell / Section I:
ß1,4-galactosyltransferase V in growth regulation / Jianxin Gu1:
Roles of Polysialic acid in neural stem cells / Kiyohiko Angata2:
6.

図書

図書
edited by Minoru Fukuda
出版情報: San Diego, Calif. ; Tokyo : Academic Press, 2010  lii, 581 p., [16] p. of plates ; 24 cm
シリーズ名: Methods in enzymology / editors in chief, Sidney P. Colowick, Nathan O. Kaplan ; v. 480
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Proteoglycans and Sulfotransferases / Section I:
3-O-sulfotransferases / Nicholas Scworak1:
Proteoglycan and signal transduction / Michael Simon2:
Glypican function / Xinhua Lin3:
Glycomics profiling of heparan sulfate / Jeremy Turnbull4:
Infection and lectin / Section II:
Recognition of carbohydrates by natural killer T cells / Mitch Kronenberg5:
Microbial glycoconjugates in innate immunology / Antonio Molinaro6:
Schistosome glycolipids and their role in innate immunity / Irma Van Die ; Rudolf Guyer7:
Carbohydrate-specific signaling through the DC-SIGN / Teunis Geijtenbeek8:
Natural and engineered carbohydrate-recognition domains for targeted glycoproteomic analysis of cell surface glycosylation and identification of ligands for glycan-binding receptors / Kurt Drickamer9:
MRH-domain containing lectin ERAD / Nobuko Hirosawa10:
Galectin and the control of immune tolerance / Gabriel Rabinovich11:
Galectin and cell signaling / Michel Demetriou12:
Galectin-1 and HIV infection / Sachiko Sato13:
Drosophila / Secion III:
Drosophila N- and O-glycans / Michael Tiemeyer14:
Drosophila proteoglycans / Shoko Nishihara15:
Notch Signaling / Section IV:
O-GlcNAc modification of EGF domain of notch / Tetsuya Okajima17:
Regulation of Notch signaling via O-glycosylation / Jafar-Nejad Hamed18:
New Development / Section V:
O-fucosylation of Thrombospondin type 1 repeats / Robert Haltiwanger19:
Unique glycans attached to unique glycoproteins / Michael Pierce20:
Autoantibodies against carbohydrates / Michel Hollingsworth21:
GPRH is critical for Golgi apparatus function / Yusuke Maeda ; Taroh Kinoshita22:
Genome-wide RNAi screen for N-glycosylation loci / Weston B Struwe23:
Fucosyl glycans that bind to Helicobacter pylori / Tatsuo Miyazaki ; Katsumi Ajisaka24:
Seven-pass transmembrane glycoprotein, a glucose-responding receptor / Yoshio Hirabayashi25:
Proteoglycans and Sulfotransferases / Section I:
3-O-sulfotransferases / Nicholas Scworak1:
Proteoglycan and signal transduction / Michael Simon2:
7.

図書

図書
edited by Grant J. Jensen
出版情報: San Diego, Calif. ; Tokyo : Academic Press, 2010  xlv, 410 p., [10] p. of plates ; 24 cm
シリーズ名: Methods in enzymology / editors in chief, Sidney P. Colowick, Nathan O. Kaplan ; v. 481 . Cryo-EM ; pt. A
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Historical perspective 3D reconstruction from electron micrographs: a personal account of its development / David DeRosier
Preparation of 2-D crystals / Henning Stahlberg
Helical Crystallization of Soluble and Membrane Binding Proteins / Elizabeth M. Wilson-Kubalek ; Christopher Arthur ; Joshua S. Chappie
Plunge Freezing for Electron Cryomicroscopy / Alasdair W. McDowall ; Megan J. Dobro ; Linda A. Melanson ; Grant J. Jensen
A Practical Guide to the Use of Monolayer Purification and Affinity Grids / Thomas Walz ; Deborah F. Kelly ; Danijela Dukovski
GraFix: Stabilization of fragile macromolecular complexes for single Particle cryo-EM / Holger Stark
Cryo-negative staining of macromolecular assemblies / Sacha De Carlo
Liposomes on a streptavidin crystal: a system to study membrane proteins by cryo-EM / Fred J. Sigworth ; Liguo Wang
Micromanipulator-Assisted Vitreous Cryosectioning and Sample Preparation by High-Pressure Freezing / Mark S. Ladinsky
Site-Specific Biomolecule Labeling with Gold Clusters / Christopher J. Ackerson ; Richard D. Powell ; James F. Hainfeld
How to Operate a Cryo-Electron Microscope / Huilin Li ; Jingchuan Sun
Collecting electron crystallographic data of two-dimensional protein crystals / Richard K. Hite ; Andreas D. Schenk ; Zongli Li ; Yifan Cheng
Automated Data Collection for Electron Microscopic Tomography / David Agard ; Shawn Q. Zheng ; J. W. Sedat
Correlated Light and Electron Cryomicroscopy / Ariane Briegel ; Songye Chen ; Abraham J. Kosterc ; Jürgen M. Plitzkod ; Cindi L. Schwartz
Phase Plates for Transmission Electron Microscopy / Radostin Danev ; Kuniaki Nagayama
Radiation damage in electron cryomicroscopy / John L. Rubinstein ; Lindsay A. Baker
Historical perspective 3D reconstruction from electron micrographs: a personal account of its development / David DeRosier
Preparation of 2-D crystals / Henning Stahlberg
Helical Crystallization of Soluble and Membrane Binding Proteins / Elizabeth M. Wilson-Kubalek ; Christopher Arthur ; Joshua S. Chappie
8.

図書

図書
edited by Grant J. Jensen
出版情報: San Diego, Calif. ; Tokyo : Academic Press, 2010  xlv, 410 p., [15] p. of plates ; 24 cm
シリーズ名: Methods in enzymology / editors in chief, Sidney P. Colowick, Nathan O. Kaplan ; v. 482 . Cryo-EM ; pt. B
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Fundamentals of three-dimensional reconstruction from projections / Pawel A. Penczek
Image Restoration in Cryo-electron Microscopy
Resolution measures in molecular electron microscopy
3D reconstruction from 2D crystal image and diffraction data / Andreas Schenk ; Daniel Castaño-Díez ; Bryant Gipson ; Marcel Arheit ; Xiangyan Zeng ; Henning Stahlberg
Fourier-Bessel Reconstruction of Helical Assemblies / David L Stokes ; Ruben Diaz ; William ; J. Rice
Reconstruction of Helical Filaments and Tubes / Edward H Egelman
Three-Dimensional Asymmetric Reconstruction of Tailed Bacteriophage / Jinghua Tang ; Robert S. Sinkovits ; Timothy S. Baker
Single Particle Analysis at High Resolution / Yao Cong ; Steven J. Ludtke
The Orthogonal Tilt Reconstruction method / Andres Leschziner
An introduction to maximum-likelihood methods in cryo-EM / Fred J. Sigworth ; Peter C. Doerschuk ; Jose-Maria Carazo ; Sjors H.W. Scheres
Classification of structural heterogeneity by maximum-likelihood methods
Methods for three-dimensional reconstruction of heterogeneous assemblies / Elena V Orlova ; Helen R. Saibil
Alignment of cryo-electron tomography datasets / Fernando Amat ; Daniel Castaño-Diez ; Albert Lawrence ; Farshid Moussavi ; Hanspeter Winkler ; Mark Horowitz
Correcting for the Ewald sphere in high resolution single Particle reconstructions / Grant J Jensen ; Peter A. Leong ; Xuekui Yu ; Z. Hong Zhou
Software Tools For Molecular Microscopy: An Open-Text Wikibook / Bridget Carragher ; Neil R. Voss ; Clinton S. Potter ; Ross Smith
Fundamentals of three-dimensional reconstruction from projections / Pawel A. Penczek
Image Restoration in Cryo-electron Microscopy
Resolution measures in molecular electron microscopy
9.

図書

図書
edited by Grant J. Jensen
出版情報: San Diego, Calif. ; Tokyo : Academic Press, 2010  xlv, 360 p., [16] p. of plates ; 24 cm
シリーズ名: Methods in enzymology / editors in chief, Sidney P. Colowick, Nathan O. Kaplan ; v. 483 . Cryo-EM ; pt. C
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Analyses of Subnanometer Resolution Cryo-EM Density Maps / Matthew L. Baker ; Mariah R. Baker Corey F. Hryc Frank DiMaio
Methods for Segmentation and interpretation of cryo-EM data / Niels Volkmann
Integration of Cryo-EM with atomic and protein: protein interaction data / Friedrich Forster
Unified Data Resource for CryoEM / Catherine L. Lawson
Electron crystallography and aquaporins / Thomas Walz ; Andreas D. Schenk ; Richard K. Hite ; Andreas Engel ; Yoshinori Fujiyoshi
Cryo-Electron Microscopy Applications in the Study of Tubulin Structure, Microtubule Architecture, Dynamics and Assemblies, and Interaction of Microtubules with Motors / Kenneth H. Downin ; Eva Nogales
Helical crystallization of two example membrane proteins: MsbA and the Ca2+-ATPase / Howard S. Young ; John Paul Glaves ; Lauren Fisher ; Andrew Ward
Multi-Particle cryo-EM of ribosomes / Christian M.T. Spahn ; Justus Loerke ; Jan Giesebrecht
Single-Particle electron microscopy of animal fatty acid synthase: Describing macromolecular rearrangements that enable catalysis / Francisco Asturias ; Edward J. Brignole
Tomography of actin cytoskeletal networks / Dorit Hanein
Visual Proteomics / Friedrich Förster ; Bong-Gyoon Han ; Martin Beck
Cryo-Electron Tomography of Eukaryotic Cells / Ohad Medalia ; Asaf Mader ; Nadav Elad
3d Visualization Of Hiv Virions By Cryo Electron Tomography / Jun Liu ; Elizabeth R. Wright ; Hanspeter Winkler
Automation in Single-Particle Electron Microscopy: Connecting the Pieces / Bridget Carragher ; Dmitry Lyumkis ; Arne Moeller ; Anchi Cheng ; Amber Herold ; Eric Hou ; Christopher Irving ; Erica L. Jacovetty ; Pick-Wei Lau ; Anke Mulder ; James Pulokas ; Joel D. Quispe ; Neil R. Voss ; Clinton S. Potter
Analyses of Subnanometer Resolution Cryo-EM Density Maps / Matthew L. Baker ; Mariah R. Baker Corey F. Hryc Frank DiMaio
Methods for Segmentation and interpretation of cryo-EM data / Niels Volkmann
Integration of Cryo-EM with atomic and protein: protein interaction data / Friedrich Forster
10.

図書

図書
edited by Nils G. Walter
出版情報: San Diego, Calif. ; Tokyo : Academic Press, 2010  l, 476 p., [32] p. of plates ; 24 cm
シリーズ名: Methods in enzymology / editors in chief, Sidney P. Colowick, Nathan O. Kaplan ; v. 472 . Single molecule tools ; pt. A
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Contributors
Preface
Volume in Series
Star Polymer Surface Passivation for Single-Molecule Detection / Jürgen Groll ; Martin Moeller1:
Introduction
Surface Grafting of PEO and Protein Repellence / 2:
The NCO-sP(EO-stat-PO) System / 3:
Preparation of sP(EO-stat-PO)-Coated Substrates for Single-Molecule Experiments / 4:
Analysis of Protein Structure and Function on NCO-sP(EO-stat-PO) Surfaces / 5:
Acknowledgments
References
Azide-Specific Labeling of Biomolecules by Staudinger-Bertozzi Ligation: Phosphine Derivatives of Fluorescent Probes Suitable for Single-Molecule Fluorescence Spectroscopy / Anirban Chakraborty ; Dongye Wang ; Yon W. Ebright ; Richard H. Ebright
Materials and Methods
Preparation of Fluorescent Pre-mRNA Substrates for an smFRET Study of Pre-mRNA Splicing in Yeast / John Abelson ; Haralambos Hadjivassiliou ; Christine Guthrie
Identification of a Yeast Pre-mRNA with a Small Intron that is Spliced Efficiently In Vitro
Synthetic Fluorescent Ubc4 Pre-mRNA
Do the Dyes Affect the Efficiency of Splicing?
Mutant Pre-mRNAs
Tethering the Pre-mRNA to the Microscope Slide / 6:
Summary and Conclusion / 7:
Nanovesicle Trapping for Studying Weak Protein Interactions by Single-Molecule FRET / Jaime J. Benítez ; Aaron M. Keller ; Peng Chen
Nanovesicle Trapping Approach
smFRET Measurements of Weak Protein-Protein Interactions
Single-Molecule Kinetic Analysis of Three-State Protein-Protein Interactions
Further Developments
Concluding Remarks
Droplet Confinement and Fluorescence Measurement of Single Molecules / Lori S. Goldner ; Ana M. Jofre ; Jianyong Tang
Methods for Droplet Generation
Methods for Droplet Manipulation
Droplet Coalescence and Mixing
Experimental Considerations for Single Fluorophore Detection
Single-Molecule Measurements in Droplets
Future Prospects
Single-Molecule Fluorescence Spectroscopy Using Phospholipid Bilayer Nanodiscs / Abhinav Nath ; Adam J. Trexler ; Peter Koo ; Andrew D. Miranker ; William M. Atkins ; Elizabeth Rhoades
Nanodiscs and HDL Particles
Single-Molecule Techniques and Applications to Membrane Proteins
Cytochrome P450 3A4 and Its Allosteric Behavior
Image Filtering by Singular-Value Decomposition
Islet Amyloid Polypeptide Binding to Nanodiscs
?-Synuclein Conformations on Nanodiscs
Summary / 8:
Single-Molecule Spectroscopy Using Microfluidic Platforms / Samuel Kim ; Richard N. Zare
Microchip Fabrication
Instrumentation for Fluorescence Detection
Detergent-Assisted Microchannel Electrophoresis
Fluorescence Correlation Spectroscopy
Detection of Protein-Protein Interactions in the Live Cell Plasma Membrane by Quantifying Prey Redistribution upon Bait Micropatterning / Julian Weghuber ; Mario Brameshuber ; Stefan Sunzenauer ; Manuela Lehner ; Christian Paar ; Thomas Haselgrübler ; Michaela Schwarzenbacher ; Martin Kaltenbrunner ; Clemens Hesch ; Wolfgang Paster ; Bettina Heise ; Alois Sonnleitner ; Hannes Stockinger ; Gerhard J. Schütz
Methodological Requirements
The Micropatterning Technique
Experimental Design
Procedure
Interpretation of Results
Figures of Merit
Conclusions
Analysis of Complex Single-Molecule FRET Time Trajectories / Mario Blanco ; Nils G. Walter9:
Analysis of Simple Trajectories
Analysis of Complex Trajectories
Post-HMM Processing and Data Visualization
Acknowledgment
Single-Molecule Fluorescence Studies of Intrinsically Disordered Proteins / Allan Chris M. Ferreon ; Crystal R. Moran ; Yann Gambin ; Ashok A. Deniz10:
Single-Molecule Fluorescence Methods
Site-Specific Labeling of Intrinsically Disordered Proteins
Examples of SMF Characterization of IDP Structure and Dynamics
Measuring the Energetic Coupling of Tertiary Contacts in RNA Folding using Single Molecule Fluorescence Resonance Energy Transfer / Max Greenfeld ; Daniel Herschlag11:
Thermodynamic Cooperativity Overview
Measuring Folding Equilibrium in RNA
Designing an smFRET Experiment to Measure Cooperativity
Additional Comments
A Highly Purified, Fluorescently Labeled In Vitro Translation System for Single-Molecule Studies of Protein Synthesis / Jingyi Fei ; Jiangning Wang ; Samuel H. Sternberg ; Daniel D. MacDougall ; Margaret M. Elvekrog ; Dileep K. Pulukkunat ; Michael T. Englander ; Ruben L. Gonzalez Jr12:
A Highly Purified, Escherichia coli-Based In Vitro Translation System
Biochemical Assays
Preparation of Fluorescently Labeled Translation Components
Conclusions and Future Perspectives
Watching Individual Proteins Acting on Single Molecules of DNA / Ichiro Amitani ; Bian Liu ; Christopher C. Dombrowski ; Ronald J. Baskin ; Stephen C. Kowalczykowski13:
Preparation of DNA Substrates
Preparation of Fluorescent Proteins
Instrument
Single-Molecule Imaging of Proteins on DNA
Data Analysis Methods
DNA Curtains for High-Throughput Single-Molecule Optical Imaging / Eric C. Greene ; Shalom Wind ; Teresa Fazio ; Jason Gorman ; Mari-Liis Visnapuu14:
Total Internal Reflection Fluorescence Microscopy
DNA Curtains
Visualizing Protein-DNA Interactions
Conclusions and Future Directions
Scanning FCS for the Characterization of Protein Dynamics in Live Cells / Zdenek Petrásek ; Jonas Ries ; Petra Schwille15:
Implementation
Data Analysis
Applications
Conclusion
Observing Protein Interactions and Their Stoichiometry in Living Cells by Brightness Analysis of Fluorescence Fluctuation Experiments / Yan Chen ; Jolene Johnson ; Patrick Macdonald ; Bin Wu ; Joachim D. Mueller16:
Brightness Classification of Fluorescent Molecules
Brightness Measurements in Cells
Detection of Individual Endogenous RNA Transcripts In Situ Using Multiple Singly Labeled Probes / Arjun Raj ; Sanjay Tyagi17:
Design and Synthesis of Fluorescent Oligonucleotide Probe Sets
Preparation of Samples for In Situ Hybridization
Hybridization
Imaging
Image Analysis
Single mRNA Tracking in Live Cells / Hye Yoon Park ; Adina R. Buxbaum ; Robert H. Singer18:
Significance of Tracking mRNA
Labeling mRNA in Living Cells
Imaging mRNA Movements
Analyzing mRNA Motions
Single-Molecule Sequencing: Sequence Methods to Enable Accurate Quantitation / Christopher Hart ; Doron Lipson ; Fatih Ozsolak ; Tal Raz ; Kathleen Steinmann ; John Thompson ; Patrice M. Milos19:
Basic Principles of Single-Molecule Sequencing
Preparation of Genomic DNA for Single-Molecule Sequencing
Bacterial Genome Sequencing
Human Genome Sequencing and Quantitation
Chromatin Immunoprecipitation Studies
Digital Gene Expression for Transcriptome Quantitation
Real-Time DNA Sequencing from Single Polymerase Molecules / Jonas Korlach ; Keith P. Bjornson ; Bidhan P. Chaudhuri ; Ronald L. Cicero ; Benjamin A. Flusberg ; Jeremy J. Gray ; David Holden ; Ravi Saxena ; Jeffrey Wegener ; Stephen W. Turner20:
Principle of Single-Molecule, Real-Time DNA Sequencing
Components of SMRT Sequencing
Single-Molecule DNA Polymerase Dynamics
Author index
Subject Index
Contributors
Preface
Volume in Series
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