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Chromatin Remodeling8 [4 h6 e" W: |2 B1 T8 w u" U H2 `
/ ~9 f% \4 Q7 ?- m* ]& l5 n/ dContents! H$ g* L0 u1 l4 c8 e4 z \
Preface. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . v
/ X% Y4 I+ ?* K: z/ }) F9 rContributors. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ix
0 p( ?1 f7 t# X/ Y- ^1 Strain Construction and Screening Methods for a Yeast Histone H3/H4- Y: P. [- ?( |4 N t* t4 B
Mutant Library. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 1: n6 ^4 ~; W% y9 l8 c* l& d) z
Junbiao Dai and Jef D. Boeke; m9 O/ \ { i8 v; M5 S$ P% i
2 Measuring Dynamic Changes in Histone Modifications and Nucleosome6 V) G, Z& t5 I1 y& H. k3 C
Density during Activated Transcription in Budding Yeast . . . . . . . . . . . . . . . . . . . . 151 e4 }% U8 L0 L
Chhabi K. Govind, Daniel Ginsburg, and Alan G. Hinnebusch
2 t- q$ `% E' ~8 a3 Monitoring the Effects of Chromatin Remodelers on Long-Range
5 K, a' ~+ h9 U. i4 nInteractions In Vivo . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 29/ m2 ]" e3 _, M3 U; X2 H
Christine M. Kiefer and Ann Dean3 B# U; {: D O9 p" ^) \0 R8 ?
4 Measuring Nucleosome Occupancy In Vivo by Micrococcal Nuclease . . . . . . . . . . . 47
% u m- w7 v Y; t7 ?! L0 J% e- IGene O. Bryant
5 L7 J' h1 j+ D; g1 X- Q( q$ v5 Analysis of Nucleosome Positioning Using a Nucleosome-Scanning Assay. . . . . . . . 63
) Z3 d; }; G" \6 c" nJuan Jose Infante, G. Lynn Law, and Elton T. Young
% U0 f, d; P# E ~9 D4 k( D) p9 T6 Assaying Chromatin Structure and Remodeling by Restriction Enzyme
. }! C2 X( \% Q8 D# _Accessibility . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 89
6 z3 @! e: H8 hKevin W. Trotter and Trevor K. Archer
3 n6 ?* y) M7 t3 N! J- p7 Generation of DNA Circles in Yeast by Inducible Site-Specific
; f% g# M1 k( N( A( N) @0 z! v( KRecombination . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 103
6 }9 \5 a3 l% v u: p# ]0 U& NMarc R. Gartenberg
' m) w7 u$ [$ v8 R/ R9 j* H! y8 An Efficient Purification System for Native Minichromosome! c$ K( C3 W0 L3 K4 u5 w
from Saccharomyces cerevisiae . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 115
; H+ y* F4 {3 b# E4 _9 CAshwin Unnikrishnan, Bungo Akiyoshi, Sue Biggins, and Toshio Tsukiyama
7 B9 W; l9 F" P; B6 W0 c1 \9 Simultaneous Single-Molecule Detection of Endogenous C-5 DNA
p$ h3 x6 U/ q0 N' l: LMethylation and Chromatin Accessibility Using MAPit. . . . . . . . . . . . . . . . . . . . . . 125
" K" C: t7 u0 {. D+ HRussell P. Darst, Carolina E. Pardo, Santhi Pondugula,
$ J; Z, e6 Z: vVamsi K. Gangaraju, Nancy H. Nabilsi, Blaine Bartholomew,8 \: \) T; y x% T4 C, r
and Michael P. Kladde
. q3 z& x" ?/ T6 f, Y% Q9 N" z10 Analysis of Stable and Transient Protein–Protein Interactions . . . . . . . . . . . . . . . . . 1434 R$ r+ W/ A! `% l h; ~; t
Stephanie Byrum, Sherri K. Smart, Signe Larson, and Alan J. Tackett
& U8 k6 ~, ^0 u7 o6 E; [6 t11 Monitoring Dynamic Binding of Chromatin Proteins In Vivo- f8 p; N- `: ?6 ~/ Y7 y0 s
by Fluorescence Recovery After Photobleaching . . . . . . . . . . . . . . . . . . . . . . . . . . . 153% }) W3 K% x/ q6 R. H
Florian Mueller, Tatiana S. Karpova, Davide Mazza,, B* K9 X; C' t1 y0 q2 D
and James G. McNally
& e3 X' D/ C A$ _( }/ i# H12 Monitoring Dynamic Binding of Chromatin Proteins In Vivo by Fluorescence
n7 Z) c0 |1 F* @; ^Correlation Spectroscopy and Temporal Image Correlation Spectroscopy . . . . . . . . 177% V {! s2 y' p* z) a
Davide Mazza, Timothy J. Stasevich, Tatiana S. Karpova,. o" K9 K1 ~# \' E2 R |4 {
and James G. McNally; P4 |8 ?. p7 }7 _ g5 _ m
13 Analysis of Chromatin Structure in Plant Cells . . . . . . . . . . . . . . . . . . . . . . . . . . . . 201# b5 P, o0 Z* C# E, u" Z4 _% Q
Mala Singh, Amol Ranjan, Krishan Mohan Rai, Sunil Kumar Singh,( u& k+ @( R0 L2 e+ n
Verandra Kumar, Ila Trivedi, Niraj Lodhi, and Samir V. Sawant
$ M, o7 a& Q1 c) ~14 Analysis of Histones and Histone Variants in Plants. . . . . . . . . . . . . . . . . . . . . . . . . 225/ m) R. c8 A8 g+ D w
Ila Trivedi, Krishan Mohan Rai, Sunil Kumar Singh,
, t% Q) ]! d4 W8 K* pVerandra Kumar, Mala Singh, Amol Ranjan, Niraj Lodhi,
9 G9 k" J0 B$ o) B, Nand Samir V. Sawant
- F$ Q( B' g0 H9 W, E3 _' t15 Reconstitution of Modified Chromatin Templates for In Vitro
]! o2 w# S- g" o' QFunctional Assays . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 237
" j' R W8 _2 O" | G+ HMiyong Yun, Chun Ruan, Jae-Wan Huh, and Bing Li
' X$ Z) X$ j4 F16 A Defined In Vitro System to Study ATP-Dependent Remodeling
% W n5 |1 a3 {& O. D( eof Short Chromatin Fibers . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 2551 G0 U3 n- w7 Y" p% Y, g+ i
Verena K. Maier and Peter B. Becker1 G! F' V7 F; Z6 a+ y
17 In Vitro Reconstitution of In Vivo-Like Nucleosome Positioning
6 f; b. A9 p* u/ yon Yeast DNA . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 271
# O6 j% Y, ]; AChristian J. Wippo and Philipp Korber/ R" i! {, s$ |0 U
18 Activator-Dependent Acetylation of Chromatin Model Systems. . . . . . . . . . . . . . . . 289* T3 X9 @: X2 b9 l! G
Heather J. Szerlong and Jeffrey C. Hansen; N, I7 k# ^$ o
19 Mapping Assembly Favored and Remodeled Nucleosome Positions9 s, ?0 A% C; E5 o& m
on Polynucleosomal Templates . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 311! \2 A5 a; l/ \
Hillel I. Sims, Chuong D. Pham, and Gavin R. Schnitzler" _: ? W! A W2 y) s
20 Analysis of Changes in Nucleosome Conformation Using Fluorescence
' ~" Q9 V6 i* ~6 z0 U0 P GResonance Energy Transfer. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 3375 K; K6 O. i `" }8 M% A& X
Tina Shahian and Geeta J. Narlikar
3 C( b/ V8 l7 |2 b6 {" S21 Preparation of Nucleosomes Containing a Specific H2A–H2A Cross-Link$ w, S1 W$ x: s! Z9 I- U, G
Forming a DNA-Constraining Loop Structure . . . . . . . . . . . . . . . . . . . . . . . . . . . . 351$ e! v1 p R5 ~) r/ ?! x$ e
Ning Liu and Jeffrey J. Hayes
; z: P4 l8 V- b" C$ j) k# w3 S22 Sulfyhydryl-Reactive Site-Directed Cross-Linking as a Method for Probing
( U3 j7 J4 k0 Q& c' Athe Tetrameric Structure of Histones H3 and H4 . . . . . . . . . . . . . . . . . . . . . . . . . . 373
5 S$ s% b2 |! p" _Andrew Bowman and Tom Owen-Hughes
1 _& c7 B7 u: K/ U- r& _9 j4 B23 Genomic Approaches for Determining Nucleosome Occupancy in Yeast . . . . . . . . . 389+ S2 l- R" ` ?2 f7 @& X- M3 U! b! @7 Q
Kyle Tsui, Tanja Durbic, Marinella Gebbia, and Corey Nislow) u1 h9 u; I9 h( P0 I' \
24 Genome-Wide Approaches to Determining Nucleosome Occupancy% {' Q0 j2 I% E- s
in Metazoans Using MNase-Seq . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 4139 W1 V8 {6 a( |. N8 G
Kairong Cui and Keji Zhao
$ L+ A. P2 m- L. B" a25 Salt Fractionation of Nucleosomes for Genome-Wide Profiling . . . . . . . . . . . . . . . . 4218 `. m7 P. [7 s; n4 t
Sheila S. Teves and Steven Henikoff8 w! ^9 I1 i7 a$ v
26 Quantitative Analysis of Genome-Wide Chromatin Remodeling . . . . . . . . . . . . . . . 433
; ] J: f9 t5 X* V. I2 A0 WSongjoon Baek, Myong-Hee Sung, and Gordon L. Hager
" e, s- z1 N2 ?$ w: P! f7 x- Q27 Computational Analysis of Nucleosome Positioning . . . . . . . . . . . . . . . . . . . . . . . . 443
7 k/ A3 ~5 a U9 m, {Itay Tirosh
* k0 j$ y( ~6 |$ b/ v5 c) t& o- zIndex . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 451
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发表于 2013-5-6 14:06
