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- 积分
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Chromatin Remodeling2 R. \2 |& a+ G$ H
6 [, `! |3 O5 n! e) q& c4 R
Contents1 n, X. R1 Q; ]- F+ [* l( D& ~
Preface. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . v5 ^) T5 L1 O. u* y5 w& i i5 c1 E
Contributors. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ix
$ s$ Z# J: `5 o+ n8 H& N1 Strain Construction and Screening Methods for a Yeast Histone H3/H4
1 r' u, T9 l# E5 Y1 Z% m( _* `Mutant Library. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 1. d$ G' I% J" X% Y# G; x9 n
Junbiao Dai and Jef D. Boeke
/ Z2 T& ]4 s% g( ]2 Measuring Dynamic Changes in Histone Modifications and Nucleosome
{( L" V# q& f. N; r% fDensity during Activated Transcription in Budding Yeast . . . . . . . . . . . . . . . . . . . . 155 J( v( i) d$ S% Q9 X8 j
Chhabi K. Govind, Daniel Ginsburg, and Alan G. Hinnebusch) x/ X4 Q/ r5 k
3 Monitoring the Effects of Chromatin Remodelers on Long-Range
M8 b& w" `1 j% h6 ~& [9 G, wInteractions In Vivo . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 299 j( b8 B; ?, @4 U( G, ?
Christine M. Kiefer and Ann Dean, h1 G5 Y6 Z* c7 u- O/ J5 ~/ ^# d: v
4 Measuring Nucleosome Occupancy In Vivo by Micrococcal Nuclease . . . . . . . . . . . 47
3 }" K& {+ i `9 K' s. lGene O. Bryant+ I R% r' I! y5 S
5 Analysis of Nucleosome Positioning Using a Nucleosome-Scanning Assay. . . . . . . . 633 y5 `; v" K' H* }, \7 P& d
Juan Jose Infante, G. Lynn Law, and Elton T. Young
- a" K1 j' S5 Y+ E" `6 Assaying Chromatin Structure and Remodeling by Restriction Enzyme4 q6 B; Q, T0 f+ ^0 Q7 y/ ]
Accessibility . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 893 c! t; i. n. }
Kevin W. Trotter and Trevor K. Archer/ [* k8 C; F) k" [7 P+ W% D" C6 W: N+ J
7 Generation of DNA Circles in Yeast by Inducible Site-Specific- k2 H* N2 ?0 w' ^
Recombination . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 103
z6 I$ H* H8 q) }1 L( D, J! }Marc R. Gartenberg
7 {. K6 |! @* u: D8 An Efficient Purification System for Native Minichromosome
& h& P. F1 o% q7 F# {' {5 o3 cfrom Saccharomyces cerevisiae . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 1157 C0 K% V8 w. R& q3 Z
Ashwin Unnikrishnan, Bungo Akiyoshi, Sue Biggins, and Toshio Tsukiyama
z3 ^( I* j# c9 y% ~* o9 Simultaneous Single-Molecule Detection of Endogenous C-5 DNA
+ m: Q/ z& X$ ^( jMethylation and Chromatin Accessibility Using MAPit. . . . . . . . . . . . . . . . . . . . . . 125
- d: A2 W4 ?. `7 D0 _ F' aRussell P. Darst, Carolina E. Pardo, Santhi Pondugula,9 L1 {! A* I/ L( E3 G
Vamsi K. Gangaraju, Nancy H. Nabilsi, Blaine Bartholomew,* s$ b# ]: `, Y# E' F; t# D: G
and Michael P. Kladde- Q( H8 \; M; I1 R& l" {
10 Analysis of Stable and Transient Protein–Protein Interactions . . . . . . . . . . . . . . . . . 143
* H) g1 n5 o! x7 TStephanie Byrum, Sherri K. Smart, Signe Larson, and Alan J. Tackett
% V% ~$ ^2 N* Y1 [& E/ l2 N) f11 Monitoring Dynamic Binding of Chromatin Proteins In Vivo
- z# V: i" P. B+ X8 R4 |, p aby Fluorescence Recovery After Photobleaching . . . . . . . . . . . . . . . . . . . . . . . . . . . 153% s/ n9 c' d- S$ c5 g( N7 b
Florian Mueller, Tatiana S. Karpova, Davide Mazza,0 F e; y) U. }; c" l- \" F
and James G. McNally
6 l& Z3 v0 _% b. O" e5 b% I12 Monitoring Dynamic Binding of Chromatin Proteins In Vivo by Fluorescence2 R) {* b) \2 e7 l5 G( c
Correlation Spectroscopy and Temporal Image Correlation Spectroscopy . . . . . . . . 177' p4 V$ L; Z/ [5 R) C
Davide Mazza, Timothy J. Stasevich, Tatiana S. Karpova,
! {) I& J" m: p- eand James G. McNally9 Q8 I* { i1 O& P9 ]/ F: } I
13 Analysis of Chromatin Structure in Plant Cells . . . . . . . . . . . . . . . . . . . . . . . . . . . . 201
1 x' c- B# Q+ _3 V4 m+ JMala Singh, Amol Ranjan, Krishan Mohan Rai, Sunil Kumar Singh,7 f# g; I9 L4 q" n3 i" S E
Verandra Kumar, Ila Trivedi, Niraj Lodhi, and Samir V. Sawant. \; }1 M4 N h1 E5 k$ `) {- [: ], ]
14 Analysis of Histones and Histone Variants in Plants. . . . . . . . . . . . . . . . . . . . . . . . . 2252 }! q! X O9 t) \
Ila Trivedi, Krishan Mohan Rai, Sunil Kumar Singh, m/ |9 o5 C8 y/ ^3 p
Verandra Kumar, Mala Singh, Amol Ranjan, Niraj Lodhi,
x \1 J8 O p& _: s. r5 s" [and Samir V. Sawant
( T8 z0 l# [$ E% |15 Reconstitution of Modified Chromatin Templates for In Vitro9 F3 K2 F" R- U4 p6 f7 B+ Z' k
Functional Assays . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 237
* Y+ `) e' _8 q& }Miyong Yun, Chun Ruan, Jae-Wan Huh, and Bing Li+ U8 [$ q* z' g7 I1 x2 ~
16 A Defined In Vitro System to Study ATP-Dependent Remodeling
8 X, f7 N1 x9 {( Oof Short Chromatin Fibers . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 255
: C6 m5 s5 w# [8 D' RVerena K. Maier and Peter B. Becker: h; x! n; |2 d* k9 S0 [
17 In Vitro Reconstitution of In Vivo-Like Nucleosome Positioning$ ? J0 p& x4 w
on Yeast DNA . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 271
! |9 `: b3 C) M9 A1 ?1 Q& eChristian J. Wippo and Philipp Korber
) k+ _, B2 ~* z9 L18 Activator-Dependent Acetylation of Chromatin Model Systems. . . . . . . . . . . . . . . . 2890 ]' a& m6 z7 r) G/ Y" k8 E
Heather J. Szerlong and Jeffrey C. Hansen# E3 @* }# H' A
19 Mapping Assembly Favored and Remodeled Nucleosome Positions
3 Q" F6 B: [1 @6 E5 e+ C% Kon Polynucleosomal Templates . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 311
% n4 H1 c9 Q3 XHillel I. Sims, Chuong D. Pham, and Gavin R. Schnitzler
9 s. ^. O( V9 z4 g: H* O20 Analysis of Changes in Nucleosome Conformation Using Fluorescence+ p0 k: s8 ^- \) M
Resonance Energy Transfer. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 337# \3 h1 `! q' H1 _* ?! J6 p
Tina Shahian and Geeta J. Narlikar& d8 ?! j9 z+ \" y" J! r5 G
21 Preparation of Nucleosomes Containing a Specific H2A–H2A Cross-Link
- b8 m( n( a8 WForming a DNA-Constraining Loop Structure . . . . . . . . . . . . . . . . . . . . . . . . . . . . 351
1 D- Z& g' c; N- P1 j' MNing Liu and Jeffrey J. Hayes; x) Y& N) X% d/ y. Q
22 Sulfyhydryl-Reactive Site-Directed Cross-Linking as a Method for Probing8 E" _- i/ F! c! f3 f% |
the Tetrameric Structure of Histones H3 and H4 . . . . . . . . . . . . . . . . . . . . . . . . . . 373
1 T% p$ [6 |& N0 R, sAndrew Bowman and Tom Owen-Hughes
! N$ x) ?6 \# j+ M! C" V3 {8 u6 m3 U4 ^23 Genomic Approaches for Determining Nucleosome Occupancy in Yeast . . . . . . . . . 389
6 B; }) a3 S! [( D4 l# GKyle Tsui, Tanja Durbic, Marinella Gebbia, and Corey Nislow0 x. b2 m o' o/ M( y5 R* U2 y
24 Genome-Wide Approaches to Determining Nucleosome Occupancy- r2 b5 G0 c4 Y S$ E
in Metazoans Using MNase-Seq . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 413/ Y5 t& n8 z& m+ v
Kairong Cui and Keji Zhao
4 h; g k( @( i0 J) }0 D25 Salt Fractionation of Nucleosomes for Genome-Wide Profiling . . . . . . . . . . . . . . . . 421
) O) r* A0 Z6 B% b: y& uSheila S. Teves and Steven Henikoff
" s$ P: |% X/ o5 v& d1 J+ e- `' N26 Quantitative Analysis of Genome-Wide Chromatin Remodeling . . . . . . . . . . . . . . . 433
: Q- x$ D4 n" W: FSongjoon Baek, Myong-Hee Sung, and Gordon L. Hager1 t s b0 \7 A6 f) t8 Z2 w8 @4 _
27 Computational Analysis of Nucleosome Positioning . . . . . . . . . . . . . . . . . . . . . . . . 443
: r O6 O& G8 h2 HItay Tirosh! L `+ H) r& P0 {; w2 Z6 L0 M
Index . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 451' n* p2 {% ~' z) V# X i
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发表于 2013-5-6 14:06
