PDF电子书：Therapeutic Oligonucleotides (Springer MMB-V764, 2011).pdf

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Therapeutic Oligonucleotides
8 \  B, I- P/ eMethods and Protocols   Springer MMB-V764, 2011     9 e! Q1 l# w0 G8 t) Z6 Z$ g
Edited by
. }2 }+ ~" @& h1 u& u9 @John Goodchild
2 I- E$ x. T  ]# f. Z1 i# {4 WDepartment of Chemistry, Worcester State University,Worcester, MA, USA% F7 y$ G7 \; Y. W$ n3 o
1 }, @. k& Y8 I" F' D5 ]
Contents
9 h2 V  i9 |( U- d; f6 qPreface . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . v( |/ W& C; \1 n6 Q% |
Contributors . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ix
! u8 B5 W& s( ]5 ]+ ^3 O. ^1. Therapeutic Oligonucleotides . . . . . . . . . . . . . . . . . . . . . . . . . . . 1
* R8 D6 V1 ^; R: HJohn Goodchild3 U+ _' t* |' H8 N1 z  e' y
2. Dinucleotides Containing 3-S-Phosphorothiolate Linkages . . . . . . . . . . . . 17# V) }2 u  b% d# e1 R
James W. Gaynor and Richard Cosstick; G- J' P$ T, L3 \" x4 `6 D
3. 2-O,4-C-Methyleneoxymethylene Bridged Nucleic Acids (2,4-BNACOC) . . . . 31% X: h9 G$ Y  O) d1 P
Yoshiyuki Hari, Tetsuya Kodama, Takeshi Imanishi,1 |+ k- s" {% m1 ~
and Satoshi Obika
& d  V/ m/ _/ d+ q! H) T4. A Non-covalent Peptide-Based Strategy for Ex Vivo and In Vivo
  J" Y; Q& s. V! D0 iOligonucleotide Delivery . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 59/ b* h  F) J. \5 T& W, b+ W9 A
Laurence Crombez, May C. Morris, Frederic Heitz, and Gilles Divita& I* }4 Z2 ^/ g1 }8 ^
5. Cell-Penetrating Peptides-Based Strategies for the Delivery of Splice1 |8 b5 z' ]8 c8 K* \
Redirecting Antisense Oligonucleotides . . . . . . . . . . . . . . . . . . . . . . 75( x' i# h- O6 H+ g: m. n* A
Samir El Andaloussi, Fatouma Said Hassane, Prisca Boisguerin,
) \. y: r4 T# m4 FRannar Sillard, Ülo Langel, and Bernard Lebleu
- [; E3 p  {1 W5 ~; I6. A Nanoparticle for Tumor Targeted Delivery of Oligomers . . . . . . . . . . . . 91* z' d. y3 j; [! {
Xinrong Liu, Yi Wang, and Donald J. Hnatowich
3 F: q0 i, e1 f) i7. Light-Directed Delivery of Nucleic Acids . . . . . . . . . . . . . . . . . . . . . 107
' o. ]7 u1 e3 H! M+ |Sigurd Bøe, Lina Prasmickaite, Birgit Engesæter, and Eivind Hovig; E( z9 K- M" F9 {/ A/ J$ l7 t- d
8. Antibody Targeted siRNA Delivery . . . . . . . . . . . . . . . . . . . . . . . . 1231 z# F* m) t. R  r3 n9 {' L
Masoud M. Toloue and Lance P. Ford
+ {' w. A" T& ]5 q: H5 H7 ]9. Aptamer–Drug Conjugation for Targeted Tumor Cell Therapy . . . . . . . . . . 141
) N3 W! o$ J' l) O8 h# jMichael J. Donovan, Ling Meng, Tao Chen, Yunfei Zhang,
7 e3 V! J/ e2 a. o5 hKwame Sefah, and Weihong Tan
/ V$ t& V5 N/ I( ?( n" l) Y6 F10. Five-Step Process for Screening Antisense Compounds for Efficacy: Gene$ o3 J# M" ]1 @
Target IL-12Rb2 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 153
& ~! f6 i2 M  l2 V  b( O2 k" pNikki B. Marshall, Laura L. Hauck, and Dan V. Mourich
  e' J3 O) h6 M. j11. Diverse Small Non-coding RNAs in RNA Interference Pathways . . . . . . . . . 169
0 f! A2 m3 s9 ]Liande Li and Yi Liu8 y# s/ V) k8 P+ z. O3 f. J( L0 l
12. Quantification of siRNAs In Vitro and In Vivo . . . . . . . . . . . . . . . . . . . 183# l+ o6 @+ Y; D/ N. e
Angie Cheng, Alexander V. Vlassov, and Susan Magdaleno6 T+ w, l2 D0 K  J! P% q
vii
* a8 c9 L% n3 K2 i& Pviii Contents
) A" _+ n' n7 t% z1 o" c; F0 [% {13. Optimization of Transfection Conditions and Analysis of siRNA Potency: t$ G8 P% i" W9 U; c" @
Using Real-time PCR . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 199
3 C' u7 l  I! I, h8 NAngie Cheng, Susan Magdaleno, and Alexander V. Vlassov
4 Y/ R: C1 m% L# ~. J14. siRNA Knockdown of Gene Expression in Endothelial Cells . . . . . . . . . . . . 215
+ d7 T: u$ S! D9 V5 e( D7 }Emily Dennstedt and Brad Bryan
) T8 h; k! R7 {% F' n6 p* w$ y9 c15. Using RNA Interference in Schistosoma mansoni . . . . . . . . . . . . . . . . . . 2237 a: z/ d5 j9 W
Rita Bhardwaj, Greice Krautz-Peterson, and Patrick J. Skelly( x, `* u; }% |  B
16. Performing the Labeled microRNA Pull-Down (LAMP) Assay System:& D4 K5 @, z& @8 z
An Experimental Approach for High-Throughput Identification of
) z9 D- d- o8 cmicroRNA-Target mRNAs . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 2415 X$ S" B# |: N* S# t
Ren-Jun Hsu and Huai-Jen Tsai+ O7 ]  Z( J6 B& J4 [; T0 x) N
17. Synthesis, Purification, and Characterization of Oligoribonucleotides that
0 S7 K; e( h$ }' v- l9 ~6 J- h% PAct as Agonists of TLR7 and/or TLR8 . . . . . . . . . . . . . . . . . . . . . . 249
* _* o8 \2 }6 R1 o: i+ [# Z+ d5 sTao Lan and Ekambar R. Kandimalla
; b9 x% i- \9 O1 z* R18. Synthesis, Purification, and Characterization of Immune-Modulatory
5 _( `. D+ P% ~% x$ H( \; Y' Z- u4 HOligodeoxynucleotides that Act as Agonists of Toll-Like Receptor 9 . . . . . . . . 263
( U3 Z( o* e2 B; ?& J' z# k) ^Mallikarjuna Reddy Putta, Dong Yu, and Ekambar R. Kandimalla9 I; _+ m0 Z6 s
19. Surface Plasmon Resonance Investigation of RNA Aptamer–RNA Ligand
% d% F+ V9 N: T9 yInteractions . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 279
% c) f! d- q3 j* H( M" s& ECarmelo Di Primo, Eric Dausse, and Jean-Jacques Toulmé- D" c; ^3 s% K: A! D: O
20. Practical Considerations for Analyzing Antigene RNAs (agRNAs): RNA
- @. b8 ]& w# pImmunoprecipitation of Argonaute Protein . . . . . . . . . . . . . . . . . . . . 3012 n( Z. \  O* o8 ~8 K5 v4 N6 X" }2 `
Jacob C. Schwartz and David R. Corey
; G9 h3 |* ~0 Y& H, D21. Inhibition of Human Papillomavirus Expression Using DNAzymes . . . . . . . . 3172 p: `: e! Q8 L; Z% F
María Luisa Benítez-Hess, Pablo Reyes-Gutiérrez,
  C+ M  j, D" [, J! p5 v. F7 }and Luis Marat Alvarez-Salas
1 M8 t$ ]8 y6 S* Z  u; iIndex . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 337

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