-
1
-
-
77950668281
-
Highthroughput RNAi screening to dissect cellular pathways: a how-to guide
-
Falschlehner C, Steinbrink S, Erdmann G, et al. Highthroughput RNAi screening to dissect cellular pathways: a how-to guide. BiotechnolJ 2010;5:368-76.
-
(2010)
Biotechnol J
, vol.5
, pp. 368-376
-
-
Falschlehner, C.1
Steinbrink, S.2
Erdmann, G.3
-
3
-
-
33646187810
-
High-throughput RNAi screening in cultured cells: a user's guide
-
Echeverri CJ, Perrimon N. High-throughput RNAi screening in cultured cells: a user's guide. Nat Rev Genet 2006;7:373-84.
-
(2006)
Nat Rev Genet
, vol.7
, pp. 373-384
-
-
Echeverri, C.J.1
Perrimon, N.2
-
4
-
-
77953626646
-
Genomic screening with RNAi: results and challenges
-
Mohr S, Bakal C, Perrimon N. Genomic screening with RNAi: results and challenges. Annu Rev Biochem 2010;79: 37-64.
-
(2010)
Annu Rev Biochem
, vol.79
, pp. 37-64
-
-
Mohr, S.1
Bakal, C.2
Perrimon, N.3
-
5
-
-
19944430064
-
High-throughput RNA interference strategies for target discovery and validation by using synthetic short interfering RNAs: functional genomics investigations of biological pathways
-
Sachse C, Krausz E, Kronke A, et al. High-throughput RNA interference strategies for target discovery and validation by using synthetic short interfering RNAs: functional genomics investigations of biological pathways. Methods Enzymol 2005;392:242-77.
-
(2005)
Methods Enzymol
, vol.392
, pp. 242-277
-
-
Sachse, C.1
Krausz, E.2
Kronke, A.3
-
6
-
-
34347220153
-
Reverse transfection on cell arrays for high content screening microscopy
-
Erfle H, Neumann B, Liebel U, et al. Reverse transfection on cell arrays for high content screening microscopy. Nat Protoc 2007;2:392-9.
-
(2007)
Nat Protoc
, vol.2
, pp. 392-399
-
-
Erfle, H.1
Neumann, B.2
Liebel, U.3
-
7
-
-
49249126411
-
Work flow for multiplexing siRNA assays by solid-phase reverse transfection in multiwell plates
-
Erfle H, Neumann B, Rogers P, et al. Work flow for multiplexing siRNA assays by solid-phase reverse transfection in multiwell plates. J Biomol Screen 2008;13:575-80.
-
(2008)
J Biomol Screen
, vol.13
, pp. 575-580
-
-
Erfle, H.1
Neumann, B.2
Rogers, P.3
-
8
-
-
45549089565
-
The art and design of genetic screens: RNA interference
-
Boutros M, Ahringer J. The art and design of genetic screens: RNA interference. Nat Rev Genet 2008;9:554-66.
-
(2008)
Nat Rev Genet
, vol.9
, pp. 554-566
-
-
Boutros, M.1
Ahringer, J.2
-
9
-
-
61849165129
-
Automated high-throughput siRNA transfection in raw 264. 7 macrophages: a case study for optimization procedure
-
Carralot JP, Kim TK, Lenseigne B, et al. Automated high-throughput siRNA transfection in raw 264.7 macrophages: a case study for optimization procedure. J Biomol Screen 2009;14:151-60.
-
(2009)
J Biomol Screen
, vol.14
, pp. 151-160
-
-
Carralot, J.P.1
Kim, T.K.2
Lenseigne, B.3
-
10
-
-
11844270487
-
Mechanistic insights aid computational short interfering RNA design
-
Boese Q, Leake D, Reynolds A, et al. Mechanistic insights aid computational short interfering RNA design. Methods Enzymol 2005;392:73-96.
-
(2005)
Methods Enzymol
, vol.392
, pp. 73-96
-
-
Boese, Q.1
Leake, D.2
Reynolds, A.3
-
12
-
-
58449134534
-
Small silencing RNAs: an expanding universe
-
Ghildiyal M, Zamore PD. Small silencing RNAs: an expanding universe. Nat Rev Genet 2009;10:94-108.
-
(2009)
Nat Rev Genet
, vol.10
, pp. 94-108
-
-
Ghildiyal, M.1
Zamore, P.D.2
-
13
-
-
60149103676
-
The centrality of RNA
-
Sharp PA. The centrality of RNA. Cell 2009;136:577-80.
-
(2009)
Cell
, vol.136
, pp. 577-580
-
-
Sharp, P.A.1
-
14
-
-
77956499698
-
Re-annotation is an essential step in systems biology modeling of functional genomics data
-
van den Berg BH, McCarthy FM, Lamont SJ, et al. Re-annotation is an essential step in systems biology modeling of functional genomics data. PLoS One 2010;5: e10642.
-
(2010)
PLoS One
, vol.5
-
-
van den Berg, B.H.1
McCarthy, F.M.2
Lamont, S.J.3
-
15
-
-
77950387346
-
Phenotypic profiling of the human genome by time-lapse microscopy reveals cell division genes
-
Neumann B, Walter T, Heriche JK, et al. Phenotypic profiling of the human genome by time-lapse microscopy reveals cell division genes. Nature 2010;464:721-7.
-
(2010)
Nature
, vol.464
, pp. 721-727
-
-
Neumann, B.1
Walter, T.2
Heriche, J.K.3
-
16
-
-
34247873185
-
Genomewide resources of endoribonuclease-prepared short interfering RNAs for specific loss-of-function studies
-
Kittler R, Surendranath V, Heninger A-K, et al. Genomewide resources of endoribonuclease-prepared short interfering RNAs for specific loss-of-function studies. Nat Meth 2007;4:337-44.
-
(2007)
Nat Meth
, vol.4
, pp. 337-344
-
-
Kittler, R.1
Surendranath, V.2
Heninger, A.-K.3
-
17
-
-
23644462077
-
Different delivery methods-different expression profiles
-
Fedorov Y, King A, Anderson E, et al. Different delivery methods-different expression profiles. Nat Methods 2005;2: 241.
-
(2005)
Nat Methods
, vol.2
, pp. 241
-
-
Fedorov, Y.1
King, A.2
Anderson, E.3
-
18
-
-
77956905696
-
Confocal microscopy for the analysis of siRNA delivery by polymeric nanoparticles
-
Portis AM, Carballo G, Baker GL, et al. Confocal microscopy for the analysis of siRNA delivery by polymeric nanoparticles. Micros Res Techniq 2010;73:878-85.
-
(2010)
Micros Res Techniq
, vol.73
, pp. 878-885
-
-
Portis, A.M.1
Carballo, G.2
Baker, G.L.3
-
19
-
-
33645722623
-
Toxic effects of lipidmediated gene transfer in ventral mesencephalic explant cultures
-
Bauer M, Kristensen BW, Meyer M, et al. Toxic effects of lipidmediated gene transfer in ventral mesencephalic explant cultures. Basic Clin Pharmacol Toxicol 2006;98:395-400.
-
(2006)
Basic Clin Pharmacol Toxicol
, vol.98
, pp. 395-400
-
-
Bauer, M.1
Kristensen, B.W.2
Meyer, M.3
-
20
-
-
6344291687
-
Lipidic carriers of siRNA: differences in the formulation, cellular uptake, and delivery with plasmid DNA
-
Spagnou S, Miller AD, Keller M. Lipidic carriers of siRNA: differences in the formulation, cellular uptake, and delivery with plasmid DNA. Biochemistry 2004;43:13348-56.
-
(2004)
Biochemistry
, vol.43
, pp. 13348-13356
-
-
Spagnou, S.1
Miller, A.D.2
Keller, M.3
-
21
-
-
80051913491
-
First siRNA library screening in hard-to-transfect HUVEC cells
-
Zumbansen M, Altrogge LM, Spottke NU, et al. First siRNA library screening in hard-to-transfect HUVEC cells. JRNAi Gene Silencing 2010;6:354-60.
-
(2010)
JRNAi Gene Silencing
, vol.6
, pp. 354-360
-
-
Zumbansen, M.1
Altrogge, L.M.2
Spottke, N.U.3
-
22
-
-
77649160212
-
Comparative transfection of DNA into primary and transformed mammalian cells from different lineages
-
Maurisse R, De Semir D, Emamekhoo H, et al. Comparative transfection of DNA into primary and transformed mammalian cells from different lineages. BMC Biotechnol 2010;10:9.
-
(2010)
BMC Biotechnol
, vol.10
, pp. 9
-
-
Maurisse, R.1
De Semir, D.2
Emamekhoo, H.3
-
23
-
-
11844269265
-
Delivery of small interfering RNA to mammalian cells in culture by using cationic lipid/polymer-based transfection reagents
-
Brazas RM, Hagstrom JE. Delivery of small interfering RNA to mammalian cells in culture by using cationic lipid/polymer-based transfection reagents. Methods Enzymol 2005;392:112-24.
-
(2005)
Methods Enzymol
, vol.392
, pp. 112-124
-
-
Brazas, R.M.1
Hagstrom, J.E.2
-
24
-
-
18144418983
-
RNA interference: learning gene knock-down from cell physiology
-
Mocellin S, Provenzano M. RNA interference: learning gene knock-down from cell physiology. JTranslMed 2004; 2:39.
-
(2004)
J Transl Med
, vol.2
, pp. 39
-
-
Mocellin, S.1
Provenzano, M.2
-
25
-
-
77952474987
-
Cellular heterogeneity: do differences make a difference?
-
Altschuler SJ, Wu LF. Cellular heterogeneity: do differences make a difference? Cell 2010;141:559-63.
-
(2010)
Cell
, vol.141
, pp. 559-563
-
-
Altschuler, S.J.1
Wu, L.F.2
-
26
-
-
77956520011
-
Functional roles for noise in genetic circuits
-
Eldar A, Elowitz MB. Functional roles for noise in genetic circuits. Nature 2010;467:167-73.
-
(2010)
Nature
, vol.467
, pp. 167-173
-
-
Eldar, A.1
Elowitz, M.B.2
-
27
-
-
0037213715
-
Gene expression and the myth of the average cell
-
Levsky JM, Singer RH. Gene expression and the myth of the average cell. Trends Cell Biol 2003;13:4-6.
-
(2003)
Trends Cell Biol
, vol.13
, pp. 4-6
-
-
Levsky, J.M.1
Singer, R.H.2
-
28
-
-
47149099717
-
Lessons from genetics: interpreting complex phenotypes in RNAi screens
-
Sacher R, Stergiou L, Pelkmans L. Lessons from genetics: interpreting complex phenotypes in RNAi screens. Curr Opin Cell Biol 2008;20:483-9.
-
(2008)
Curr Opin Cell Biol
, vol.20
, pp. 483-489
-
-
Sacher, R.1
Stergiou, L.2
Pelkmans, L.3
-
29
-
-
79651474934
-
Cell-to-cell variability in PI3K protein level regulates PI3K-AKT pathway activity in cell populations
-
Yuan TL, Wulf G, Burga L, Cantley LC. Cell-to-cell variability in PI3K protein level regulates PI3K-AKT pathway activity in cell populations. Curr Biol 2011;21:173-83.
-
(2011)
Curr Biol
, vol.21
, pp. 173-183
-
-
Yuan, T.L.1
Wulf, G.2
Burga, L.3
Cantley, L.C.4
-
30
-
-
78951470515
-
Origins of regulated cell-to-cell variability
-
Snijder B, Pelkmans L. Origins of regulated cell-to-cell variability. Nat RevMol Cell Biol 2011;12:119-25.
-
(2011)
Nat RevMol Cell Biol
, vol.12
, pp. 119-125
-
-
Snijder, B.1
Pelkmans, L.2
-
31
-
-
77953640788
-
Use of cryopreserved cell aliquots in the high-throughput screening of small interfering RNA libraries
-
Swearingen EA, Fajardo F, Wang X, et al. Use of cryopreserved cell aliquots in the high-throughput screening of small interfering RNA libraries. J Biomol Screen 2010;15: 469-77.
-
(2010)
J Biomol Screen
, vol.15
, pp. 469-477
-
-
Swearingen, E.A.1
Fajardo, F.2
Wang, X.3
-
32
-
-
1542702936
-
A Simple technique for reducing edge effect in cell-based assays
-
Lundholt BK, Scudder KM, Pagliaro L. A Simple technique for reducing edge effect in cell-based assays. J Biomol Screen 2003;8:566-70.
-
(2003)
J Biomol Screen
, vol.8
, pp. 566-570
-
-
Lundholt, B.K.1
Scudder, K.M.2
Pagliaro, L.3
-
33
-
-
78751569531
-
Intra-tumour genetic heterogeneity and poor chemoradiotherapy response in cervical cancer
-
Cooke SL, Temple J, MacArthur S, et al. Intra-tumour genetic heterogeneity and poor chemoradiotherapy response in cervical cancer. Br J Cancer 2011;104:361-8.
-
(2011)
Br J Cancer
, vol.104
, pp. 361-368
-
-
Cooke, S.L.1
Temple, J.2
MacArthur, S.3
-
34
-
-
77958014613
-
How Darwinian models inform therapeutic failure initiated by clonal heterogeneity in cancer medicine
-
Gerlinger M, Swanton C. How Darwinian models inform therapeutic failure initiated by clonal heterogeneity in cancer medicine. Br J Cancer 2010;103:1139-43.
-
(2010)
Br J Cancer
, vol.103
, pp. 1139-1143
-
-
Gerlinger, M.1
Swanton, C.2
-
35
-
-
74949101897
-
Inferring tumor progression from genomic heterogeneity
-
Navin N, Krasnitz A, Rodgers L, et al. Inferring tumor progression from genomic heterogeneity. Genome Res 2010;20:68-80.
-
(2010)
Genome Res
, vol.20
, pp. 68-80
-
-
Navin, N.1
Krasnitz, A.2
Rodgers, L.3
-
36
-
-
66149125644
-
Challenges and opportunities in defining the essential cancer kinome
-
Manning BD. Challenges and opportunities in defining the essential cancer kinome. Sci Signal 2009;2:pe15.
-
(2009)
Sci Signal
, vol.2
-
-
Manning, B.D.1
-
37
-
-
77149130553
-
Automated microscopy for high-content RNAi screening
-
Conrad C, Gerlich DW. Automated microscopy for high-content RNAi screening. J Cell Biol 2010;188: 453-61.
-
(2010)
J Cell Biol
, vol.188
, pp. 453-461
-
-
Conrad, C.1
Gerlich, D.W.2
-
38
-
-
33644503868
-
Identification of pathways regulating cell size and cell-cycle progression by RNAi
-
Bjorklund M, Taipale M, Varjosalo M, et al. Identification of pathways regulating cell size and cell-cycle progression by RNAi. Nature 2006;439:1009-13.
-
(2006)
Nature
, vol.439
, pp. 1009-1013
-
-
Bjorklund, M.1
Taipale, M.2
Varjosalo, M.3
-
39
-
-
0346728473
-
Systematic genome-wide screens of gene function
-
Carpenter AE, Sabatini DM. Systematic genome-wide screens of gene function. Nat Rev Genet 2004;5:11-22.
-
(2004)
Nat Rev Genet
, vol.5
, pp. 11-22
-
-
Carpenter, A.E.1
Sabatini, D.M.2
-
40
-
-
8444223104
-
Multidimensional drug profiling by automated microscopy
-
Perlman ZE, Slack MD, Feng Y, et al. Multidimensional drug profiling by automated microscopy. Science 2004;306: 1194-8.
-
(2004)
Science
, vol.306
, pp. 1194-1198
-
-
Perlman, Z.E.1
Slack, M.D.2
Feng, Y.3
-
41
-
-
70350010207
-
An intermittent live cell imaging screen for siRNA enhancers and suppressors of a Kinesin-5 inhibitor
-
Tsui M, Xie T, Orth JD, et al. An intermittent live cell imaging screen for siRNA enhancers and suppressors of a Kinesin-5 inhibitor. PLoS One 2009;4:e7339.
-
(2009)
PLoS One
, vol.4
-
-
Tsui, M.1
Xie, T.2
Orth, J.D.3
-
42
-
-
48449098623
-
Cancer cells display profound intra- and interline variation following prolonged exposure to antimitotic drugs
-
Gascoigne KE, Taylor SS. Cancer cells display profound intra- and interline variation following prolonged exposure to antimitotic drugs. Cancer Cell 2008;14:111-22.
-
(2008)
Cancer Cell
, vol.14
, pp. 111-122
-
-
Gascoigne, K.E.1
Taylor, S.S.2
-
43
-
-
58049200628
-
Characterizing heterogeneous cellular responses to perturbations
-
Slack MD, Martinez ED, Wu LF, et al. Characterizing heterogeneous cellular responses to perturbations. Proc Natl Acad SciUSA 2008;105:19306-11.
-
(2008)
Proc Natl Acad Sci USA
, vol.105
, pp. 19306-19311
-
-
Slack, M.D.1
Martinez, E.D.2
Wu, L.F.3
-
44
-
-
77957241115
-
A screen of chemical modifications identifies position-specific modification by UNA to most potently reduce siRNA off-target effects
-
Bramsen JB, Pakula MM, Hansen TB, et al. A screen of chemical modifications identifies position-specific modification by UNA to most potently reduce siRNA off-target effects. Nucleic Acids Res 2010;38:5761-73.
-
(2010)
Nucleic Acids Res
, vol.38
, pp. 5761-5773
-
-
Bramsen, J.B.1
Pakula, M.M.2
Hansen, T.B.3
-
45
-
-
34347391035
-
Utilizing RNA interference to enhance cancer drug discovery
-
Iorns E, Lord CJ, Turner N, et al. Utilizing RNA interference to enhance cancer drug discovery. Nat Rev Drug Discov 2007;6:556-68.
-
(2007)
Nat Rev Drug Discov
, vol.6
, pp. 556-568
-
-
Iorns, E.1
Lord, C.J.2
Turner, N.3
-
46
-
-
68349112682
-
Statistical methods for analysis of high-throughput RNA interference screens
-
Birmingham A, Selfors LM, Forster T, etal. Statistical methods for analysis of high-throughput RNA interference screens. Nat Meth 2009;6:569-75.
-
(2009)
Nat Meth
, vol.6
, pp. 569-575
-
-
Birmingham, A.1
Selfors, L.M.2
Forster, T.3
-
48
-
-
32344448950
-
Statistical practice in high-throughput screening data analysis
-
Malo N, Hanley JA, Cerquozzi S, et al. Statistical practice in high-throughput screening data analysis. Nat Biotechnol 2006;24:167-75.
-
(2006)
Nat Biotechnol
, vol.24
, pp. 167-175
-
-
Malo, N.1
Hanley, J.A.2
Cerquozzi, S.3
-
49
-
-
77950643469
-
Web cellHTS2: a web-application for the analysis of high-throughput screening data
-
Pelz O, Gilsdorf M, Boutros M. Web cellHTS2: a web-application for the analysis of high-throughput screening data. BMC Bioinformatics 2010;11:185.
-
(2010)
BMC Bioinformatics
, vol.11
, pp. 185
-
-
Pelz, O.1
Gilsdorf, M.2
Boutros, M.3
-
50
-
-
39049097168
-
Median absolute deviation to improve hit selection for genome-scale RNAi screens
-
Chung N, Zhang XD, Kreamer A, et al. Median absolute deviation to improve hit selection for genome-scale RNAi screens. J Biomol Screen 2008;13:149-58.
-
(2008)
J Biomol Screen
, vol.13
, pp. 149-158
-
-
Chung, N.1
Zhang, X.D.2
Kreamer, A.3
-
51
-
-
78650142748
-
An effective method for controlling false discovery and false nondiscovery rates in genome-scale RNAi screens
-
Zhang XD. An effective method for controlling false discovery and false nondiscovery rates in genome-scale RNAi screens. J Biomol Screen 2010;15:1116-22.
-
(2010)
J Biomol Screen
, vol.15
, pp. 1116-1122
-
-
Zhang, X.D.1
-
52
-
-
63549086583
-
Determination of sample size in genome-scale RNAi screens
-
Zhang XD, Heyse JF. Determination of sample size in genome-scale RNAi screens. Bioinformatics 2009;25:841-4.
-
(2009)
Bioinformatics
, vol.25
, pp. 841-844
-
-
Zhang, X.D.1
Heyse, J.F.2
-
53
-
-
78650116448
-
The use of SSMD-based false discovery and false nondiscovery rates in genome-scale RNAi screens
-
Zhang XD, Lacson R, Yang R, et al. The use of SSMD-based false discovery and false nondiscovery rates in genome-scale RNAi screens. J Biomol Screen 2010;15: 1123-31.
-
(2010)
J Biomol Screen
, vol.15
, pp. 1123-1131
-
-
Zhang, X.D.1
Lacson, R.2
Yang, R.3
-
54
-
-
34548599605
-
Generating data with identical statistics but dissimilar graphics
-
Chatterjee S, Firat A. Generating data with identical statistics but dissimilar graphics. Am Stat 2007;61:248-254.
-
(2007)
Am Stat
, vol.61
, pp. 248-254
-
-
Chatterjee, S.1
Firat, A.2
-
55
-
-
77956013870
-
Factors affecting reproducibility between genome-scale siRNA-based screens
-
Barrows NJ, Sommer CL, Garcia-Blanco MA, et al. Factors affecting reproducibility between genome-scale siRNA-based screens. J Biomol Screen 2010;15:735-47.
-
(2010)
J Biomol Screen
, vol.15
, pp. 735-747
-
-
Barrows, N.J.1
Sommer, C.L.2
Garcia-Blanco, M.A.3
-
56
-
-
69549110058
-
Knowledge based identification of essential signaling from genome-scale siRNA experiments
-
Bankhead A, 3rd, Sach I, Ni C, et al. Knowledge based identification of essential signaling from genome-scale siRNA experiments. BMCSyst Biol 2009;3:80.
-
(2009)
BMCSyst Biol
, vol.3
, pp. 80
-
-
Bankhead 3rd, A.1
Sach, I.2
Ni, C.3
-
57
-
-
51249111048
-
An analysis of normalization methods for Drosophila RNAi genomic screens and development of a robust validation scheme
-
Wiles AM, Ravi D, Bhavani S, et al. An analysis of normalization methods for Drosophila RNAi genomic screens and development of a robust validation scheme. J Biomol Screen 2008;13:777-84.
-
(2008)
J Biomol Screen
, vol.13
, pp. 777-784
-
-
Wiles, A.M.1
Ravi, D.2
Bhavani, S.3
-
58
-
-
14044262340
-
RNA interference rescue by bacterial artificial chromosome transgenesis in mammalian tissue culture cells
-
Kittler R, Pelletier L, Ma C, et al. RNA interference rescue by bacterial artificial chromosome transgenesis in mammalian tissue culture cells. Proc Natl Acad Sci USA 2005;102: 2396-401.
-
(2005)
Proc Natl Acad Sci USA
, vol.102
, pp. 2396-2401
-
-
Kittler, R.1
Pelletier, L.2
Ma, C.3
-
59
-
-
36749016685
-
Genome-scale RNAi profiling of cell division in human tissue culture cells
-
Kittler R, Pelletier L, Heninger A-K, et al. Genome-scale RNAi profiling of cell division in human tissue culture cells. Nat Cell Biol 2007;9:1401-12.
-
(2007)
Nat Cell Biol
, vol.9
, pp. 1401-1412
-
-
Kittler, R.1
Pelletier, L.2
Heninger, A.-K.3
-
60
-
-
77954056447
-
A direct phenotypic comparison of siRNA pools and multiple individual duplexes in a functional assay
-
Parsons BD, Schindler A, Evans DH, et al. A direct phenotypic comparison of siRNA pools and multiple individual duplexes in a functional assay. PLoS One 2009;4:e8471.
-
(2009)
PLoS One
, vol.4
-
-
Parsons, B.D.1
Schindler, A.2
Evans, D.H.3
-
61
-
-
34250367067
-
Multiplexing siRNAs to compress RNAi-based screen size in human cells
-
Martin SE, Jones TL, Thomas CL, et al. Multiplexing siRNAs to compress RNAi-based screen size in human cells. Nucleic Acids Res 2007;35:e57.
-
(2007)
Nucleic Acids Res
, vol.35
-
-
Martin, S.E.1
Jones, T.L.2
Thomas, C.L.3
-
62
-
-
33745608078
-
Off-target effects by siRNA can induce toxic phenotype
-
Fedorov Y, Anderson EM, Birmingham A, et al. Off-target effects by siRNA can induce toxic phenotype. RNA 2006; 12:1188-96.
-
(2006)
RNA
, vol.12
, pp. 1188-1196
-
-
Fedorov, Y.1
Anderson, E.M.2
Birmingham, A.3
-
63
-
-
33745612464
-
Widespread siRNA "off-target" transcript silencing mediated by seed region sequence complementarity
-
Jackson AL, Burchard J, Schelter J, et al. Widespread siRNA "off-target" transcript silencing mediated by seed region sequence complementarity. RNA 2006;12:1179-87.
-
(2006)
RNA
, vol.12
, pp. 1179-1187
-
-
Jackson, A.L.1
Burchard, J.2
Schelter, J.3
-
64
-
-
77951194366
-
Reduced seed region-based off-target activity with lentivirus-mediated RNAi
-
Klinghoffer RA, Magnus J, Schelter J, et al. Reduced seed region-based off-target activity with lentivirus-mediated RNAi. RNA 2010;16:879-84.
-
(2010)
RNA
, vol.16
, pp. 879-884
-
-
Klinghoffer, R.A.1
Magnus, J.2
Schelter, J.3
-
65
-
-
33748994797
-
Evidence of off-target effects associated with long dsRNAs in Drosophila melanogaster cell-based assays
-
Kulkarni MM, Booker M, Silver SJ, et al. Evidence of off-target effects associated with long dsRNAs in Drosophila melanogaster cell-based assays. Nat Meth 2006; 3:833-8.
-
(2006)
Nat Meth
, vol.3
, pp. 833-838
-
-
Kulkarni, M.M.1
Booker, M.2
Silver, S.J.3
-
66
-
-
77949473897
-
Systematic analysis of off-target effects in an RNAi screen reveals microRNAs affecting sensitivity to TRAIL-induced apoptosis
-
Sudbery I, Enright A, Fraser A, et al. Systematic analysis of off-target effects in an RNAi screen reveals microRNAs affecting sensitivity to TRAIL-induced apoptosis. BMC Genomics 2010;11:175.
-
(2010)
BMC Genomics
, vol.11
, pp. 175
-
-
Sudbery, I.1
Enright, A.2
Fraser, A.3
-
67
-
-
33847245910
-
Comparison of siRNA-induced off-target RNA and protein effects
-
Aleman LM, Doench J, Sharp PA. Comparison of siRNA-induced off-target RNA and protein effects. RNA 2007;13:385-95.
-
(2007)
RNA
, vol.13
, pp. 385-395
-
-
Aleman, L.M.1
Doench, J.2
Sharp, P.A.3
-
68
-
-
33646893689
-
Identifying off-target effects and hidden phenotypes of drugs in human cells
-
MacDonald ML, Lamerdin J, Owens S, et al. Identifying off-target effects and hidden phenotypes of drugs in human cells. Nat Chem Biol 2006;2:329-37.
-
(2006)
Nat Chem Biol
, vol.2
, pp. 329-337
-
-
MacDonald, M.L.1
Lamerdin, J.2
Owens, S.3
-
69
-
-
77955988806
-
Combined functional genomic and proteomic approaches identify a PP2A complex as a negative regulator of hippo signaling
-
Ribeiro PS, JosuE' F, Wepf A, et al. Combined functional genomic and proteomic approaches identify a PP2A complex as a negative regulator of hippo signaling. Mol Cell 2010;39:521-34.
-
(2010)
Mol Cell
, vol.39
, pp. 521-534
-
-
Ribeiro, P.S.1
JosuE', F.2
Wepf, A.3
-
70
-
-
44049098353
-
A case study of the reproducibility of transcriptional reporter cell-based RNAi screens in Drosophila
-
DasGupta R, Nybakken K, Booker M, et al. A case study of the reproducibility of transcriptional reporter cell-based RNAi screens in Drosophila. Genome Biol 2007;8:R203.
-
(2007)
Genome Biol
, vol.8
-
-
DasGupta, R.1
Nybakken, K.2
Booker, M.3
-
71
-
-
68049139405
-
What have RNAi screens taught us about viral-host interactions?
-
Cherry S. What have RNAi screens taught us about viral-host interactions? Curr OpinMicrobiol 2009;12:446-52.
-
(2009)
Curr OpinMicrobiol
, vol.12
, pp. 446-452
-
-
Cherry, S.1
-
72
-
-
77951138358
-
The use of RNAi-based screens to identify host proteins involved in viral replication
-
Hirsch AJ. The use of RNAi-based screens to identify host proteins involved in viral replication. FutureMicrobiol 2010; 5:303-11.
-
(2010)
FutureMicrobiol
, vol.5
, pp. 303-311
-
-
Hirsch, A.J.1
-
73
-
-
52949087943
-
Identification of JAK/STAT pathway regulators-insights from RNAi screens
-
Muller P, Boutros M, Zeidler MP. Identification of JAK/STAT pathway regulators-insights from RNAi screens. Semin CellDev Biol 2008;19:360-9.
-
(2008)
Semin CellDev Biol
, vol.19
, pp. 360-369
-
-
Muller, P.1
Boutros, M.2
Zeidler, M.P.3
-
74
-
-
62849086387
-
Parallel RNAi screens across different cell lines identify generic and cell type-specific regulators of actin organization and cell morphology
-
Liu T, Sims D, Baum B. Parallel RNAi screens across different cell lines identify generic and cell type-specific regulators of actin organization and cell morphology. Genome Biol 2009;10:R26.
-
(2009)
Genome Biol
, vol.10
-
-
Liu, T.1
Sims, D.2
Baum, B.3
-
75
-
-
77953423842
-
Genome-wide RNA interference in Drosophila cells identifies G protein-coupled receptor kinase 2 as a conserved regulator of NF-kappaB signaling
-
Valanne S, Myllymaki H, Kallio J, et al. Genome-wide RNA interference in Drosophila cells identifies G protein-coupled receptor kinase 2 as a conserved regulator of NF-kappaB signaling. J Immunol 2010;184:6188-98.
-
(2010)
J Immunol
, vol.184
, pp. 6188-6198
-
-
Valanne, S.1
Myllymaki, H.2
Kallio, J.3
-
76
-
-
77952944114
-
A combined ex vivo and in vivo RNAi screen for notch regulators in Drosophila reveals an extensive notch interaction network
-
Saj A, Arziman Z, Stempfle D, et al. A combined ex vivo and in vivo RNAi screen for notch regulators in Drosophila reveals an extensive notch interaction network. Dev Cell 2010;18:862-76.
-
(2010)
Dev Cell
, vol.18
, pp. 862-876
-
-
Saj, A.1
Arziman, Z.2
Stempfle, D.3
-
77
-
-
77957904590
-
Modifiers of notch transcriptional activity identified by genome-wide RNAi
-
Mourikis P, Lake RJ, Firnhaber CB, et al. Modifiers of notch transcriptional activity identified by genome-wide RNAi. BMCDev Biol 2010;10:107.
-
(2010)
BMCDev Biol
, vol.10
, pp. 107
-
-
Mourikis, P.1
Lake, R.J.2
Firnhaber, C.B.3
-
78
-
-
77954156681
-
Dynamic switch of negative feedback regulation in Drosophila Akt-TOR signaling
-
Kockel L, Kerr KS, Melnick M, et al. Dynamic switch of negative feedback regulation in Drosophila Akt-TOR signaling. PLoS Genet 2010;6:e1000990.
-
(2010)
PLoS Genet
, vol.6
-
-
Kockel, L.1
Kerr, K.S.2
Melnick, M.3
-
79
-
-
78649820603
-
Eye transformer is a negative regulator of Drosophila JAK/STAT signaling
-
Kallio J, Myllymaki H, Gronholm J, et al. Eye transformer is a negative regulator of Drosophila JAK/STAT signaling. FASEB J 2010;24:4467-79.
-
(2010)
FASEB J
, vol.24
, pp. 4467-4479
-
-
Kallio, J.1
Myllymaki, H.2
Gronholm, J.3
-
80
-
-
77954162661
-
Drosophila genome-wide RNAi screen identifies multiple regulators of HIF-dependent transcription in hypoxia
-
Dekanty A, Romero NM, Bertolin AP, et al. Drosophila genome-wide RNAi screen identifies multiple regulators of HIF-dependent transcription in hypoxia. PLoS Genet 2010;6:e1000994.
-
(2010)
PLoS Genet
, vol.6
-
-
Dekanty, A.1
Romero, N.M.2
Bertolin, A.P.3
-
81
-
-
77955615631
-
Proteins required for centrosome clustering in cancer cells
-
Leber B, Maier B, Fuchs F, et al. Proteins required for centrosome clustering in cancer cells. Sci Transl Med 2010; 2:33ra38.
-
(2010)
Sci Transl Med
, vol.2
, pp. 33-38
-
-
Leber, B.1
Maier, B.2
Fuchs, F.3
-
82
-
-
77956399552
-
Live-cell imaging RNAi screen identifies PP2A-B55alpha and importin-beta1 as key mitotic exit regulators in human cells
-
Schmitz MH, Held M, Janssens V, et al. Live-cell imaging RNAi screen identifies PP2A-B55alpha and importin-beta1 as key mitotic exit regulators in human cells. Nat Cell Biol 2010;12:886-93.
-
(2010)
Nat Cell Biol
, vol.12
, pp. 886-893
-
-
Schmitz, M.H.1
Held, M.2
Janssens, V.3
-
83
-
-
77955662560
-
An alternative splicing network links cell-cycle control to apoptosis
-
Moore MJ, Wang Q, Kennedy CJ, et al. An alternative splicing network links cell-cycle control to apoptosis. Cell 2010;142:625-36.
-
(2010)
Cell
, vol.142
, pp. 625-636
-
-
Moore, M.J.1
Wang, Q.2
Kennedy, C.J.3
-
84
-
-
77957766928
-
The exon junction complex controls the splicing of MAPK and other long intron-containing transcripts in Drosophila
-
Ashton-Beaucage D, Udell CM, Lavoie H, et al. The exon junction complex controls the splicing of MAPK and other long intron-containing transcripts in Drosophila. Cell 2010; 143:251-62.
-
(2010)
Cell
, vol.143
, pp. 251-262
-
-
Ashton-Beaucage, D.1
Udell, C.M.2
Lavoie, H.3
-
85
-
-
78049487235
-
A whole genome RNAi screen of Drosophila S2 cell spreading performed using automated computational image analysis
-
D'Ambrosio MV, Vale RD. A whole genome RNAi screen of Drosophila S2 cell spreading performed using automated computational image analysis. J Cell Biol 2010; 191:471-8.
-
(2010)
J Cell Biol
, vol.191
, pp. 471-478
-
-
D'Ambrosio, M.V.1
Vale, R.D.2
-
86
-
-
78649824867
-
Genome-wide RNAi screen discovers functional coupling of alternative splicing and cell cycle control to apoptosis regulation
-
Wang Q, Silver PA. Genome-wide RNAi screen discovers functional coupling of alternative splicing and cell cycle control to apoptosis regulation. Cell Cycle 2010;9:4419-21.
-
(2010)
Cell Cycle
, vol.9
, pp. 4419-4421
-
-
Wang, Q.1
Silver, P.A.2
-
87
-
-
77954898129
-
A genome-wide siRNA screen reveals multiple mTORC1 independent signaling pathways regulating autophagy under normal nutritional conditions
-
Lipinski MM, Hoffman G, Ng A, et al. A genome-wide siRNA screen reveals multiple mTORC1 independent signaling pathways regulating autophagy under normal nutritional conditions. Dev Cell 2010;18:1041-52.
-
(2010)
Dev Cell
, vol.18
, pp. 1041-1052
-
-
Lipinski, M.M.1
Hoffman, G.2
Ng, A.3
-
88
-
-
75049083932
-
A genome-wide RNA interference screen identifies two novel components of the metazoan secretory pathway
-
Wendler F, Gillingham AK, Sinka R, et al. A genome-wide RNA interference screen identifies two novel components of the metazoan secretory pathway. EMBO J 2010;29: 304-14.
-
(2010)
EMBO J
, vol.29
, pp. 304-314
-
-
Wendler, F.1
Gillingham, A.K.2
Sinka, R.3
-
89
-
-
77953449985
-
A large-scale RNAi screen identifies Deaf1 as a regulator of innate immune responses in Drosophila
-
Kuttenkeuler D, Pelte N, Ragab A, et al. A large-scale RNAi screen identifies Deaf1 as a regulator of innate immune responses in Drosophila. J Innate Immun 2010;2: 181-94.
-
(2010)
J Innate Immun
, vol.2
, pp. 181-194
-
-
Kuttenkeuler, D.1
Pelte, N.2
Ragab, A.3
-
90
-
-
78149465975
-
A genome-wide RNAi screen reveals determinants of human embryonic stem cell identity
-
Chia NY, Chan YS, Feng B, et al. A genome-wide RNAi screen reveals determinants of human embryonic stem cell identity. Nature 2010;468:316-20.
-
(2010)
Nature
, vol.468
, pp. 316-320
-
-
Chia, N.Y.1
Chan, Y.S.2
Feng, B.3
-
91
-
-
77956196659
-
Host factors required for modulation of phagosome biogenesis and proliferation of Francisella tularensis within the cytosol
-
Akimana C, Al-Khodor S, Abu Kwaik Y. Host factors required for modulation of phagosome biogenesis and proliferation of Francisella tularensis within the cytosol. PLoS One 2010;5:e11025.
-
(2010)
PLoS One
, vol.5
-
-
Akimana, C.1
Al-Khodor, S.2
Abu Kwaik, Y.3
-
92
-
-
80055106311
-
RNAi screening for host factors involved in Vaccinia virus infection using Drosophila cells
-
Moser TS, Sabin LR, Cherry S. RNAi screening for host factors involved in Vaccinia virus infection using Drosophila cells. JVis Exp 2010;42:2137.
-
(2010)
JVis Exp
, vol.42
, pp. 2137
-
-
Moser, T.S.1
Sabin, L.R.2
Cherry, S.3
-
93
-
-
77649248469
-
Genome-wide siRNA screen identifies SMCX, EP400, and Brd4 as E2-dependent regulators of human papillomavirus oncogene expression
-
Smith JA, White EA, Sowa ME, et al. Genome-wide siRNA screen identifies SMCX, EP400, and Brd4 as E2-dependent regulators of human papillomavirus oncogene expression. Proc Natl Acad Sci USA 2010;107:3752-7.
-
(2010)
Proc Natl Acad Sci USA
, vol.107
, pp. 3752-3757
-
-
Smith, J.A.1
White, E.A.2
Sowa, M.E.3
-
94
-
-
76749090540
-
Genome-wide RNAi screen identifies human host factors crucial for influenza virus replication
-
Karlas A, Machuy N, Shin Y, et al. Genome-wide RNAi screen identifies human host factors crucial for influenza virus replication. Nature 2010;463:818-22.
-
(2010)
Nature
, vol.463
, pp. 818-822
-
-
Karlas, A.1
Machuy, N.2
Shin, Y.3
-
95
-
-
77649112187
-
Genome-wide analysis of the host intracellular network that regulates survival of Mycobacterium tuberculosis
-
Kumar D, Nath L, Kamal MA, et al. Genome-wide analysis of the host intracellular network that regulates survival of Mycobacterium tuberculosis. Cell 2010;140:731-43.
-
(2010)
Cell
, vol.140
, pp. 731-743
-
-
Kumar, D.1
Nath, L.2
Kamal, M.A.3
-
96
-
-
77950339287
-
Knockdown of COPA, identified by loss-of-function screen, induces apoptosis and suppresses tumor growth in mesothelioma mouse model
-
Sudo H, Tsuji AB, Sugyo A, et al. Knockdown of COPA, identified by loss-of-function screen, induces apoptosis and suppresses tumor growth in mesothelioma mouse model. Genomics 2010;95:210-16.
-
(2010)
Genomics
, vol.95
, pp. 210-216
-
-
Sudo, H.1
Tsuji, A.B.2
Sugyo, A.3
-
97
-
-
77953163141
-
Genome-wide siRNA screen for modulators of cell death induced by proteasome inhibitor bortezomib
-
Chen S, Blank JL, Peters T, et al. Genome-wide siRNA screen for modulators of cell death induced by proteasome inhibitor bortezomib. Cancer Res 2010;70:4318-26.
-
(2010)
Cancer Res
, vol.70
, pp. 4318-4326
-
-
Chen, S.1
Blank, J.L.2
Peters, T.3
-
98
-
-
67649671961
-
Long noncoding RNAs: functional surprises from the RNA world
-
Wilusz JE, Sunwoo H, Spector DL. Long noncoding RNAs: functional surprises from the RNA world. Genes Dev 2009;23:1494-504.
-
(2009)
Genes Dev
, vol.23
, pp. 1494-1504
-
-
Wilusz, J.E.1
Sunwoo, H.2
Spector, D.L.3
-
99
-
-
78049308492
-
RNAi screen indicates widespread biological function for human natural antisense transcripts
-
Faghihi MA, Kocerha J, Modarresi F, et al. RNAi screen indicates widespread biological function for human natural antisense transcripts. PLoS One 2010;5:e13177.
-
(2010)
PLoS One
, vol.5
-
-
Faghihi, M.A.1
Kocerha, J.2
Modarresi, F.3
-
100
-
-
34548740266
-
Increasing the robustness and validity of RNAi screens
-
Haney SA. Increasing the robustness and validity of RNAi screens. Pharmacogenomics 2007;8:1037-49.
-
(2007)
Pharmacogenomics
, vol.8
, pp. 1037-1049
-
-
Haney, S.A.1
|