-
1
-
-
0036829783
-
Strand pairing by rad54 and rad51 is enhanced by chromatin
-
Alexiadis V, Kadonaga JT. 2002. Strand pairing by rad54 and rad51 is enhanced by chromatin. Genes & Development 16:2767–2771. doi: 10.1101/gad.1032102
-
(2002)
Genes & Development
, vol.16
, pp. 2767-2771
-
-
Alexiadis, V.1
Kadonaga, J.T.2
-
2
-
-
84908508061
-
Structural basis of PAM-dependent target DNA recognition by the Cas9 endonuclease
-
Anders C, Niewoehner O, Duerst A, Jinek M. 2014. Structural basis of PAM-dependent target DNA recognition by the Cas9 endonuclease. Nature 513:569–573. doi: 10.1038/nature13579
-
(2014)
Nature
, vol.513
, pp. 569-573
-
-
Anders, C.1
Niewoehner, O.2
Duerst, A.3
Jinek, M.4
-
3
-
-
84874113985
-
A systematic mammalian genetic interaction map reveals pathways underlying ricin susceptibility
-
Bassik MC, Kampmann M, Lebbink RJ, Wang S, Hein MY, Poser I, Weibezahn J, Horlbeck MA, Chen S, Mann M, Hyman AA, Leproust EM, McManus MT, Weissman JS. 2013. A systematic mammalian genetic interaction map reveals pathways underlying ricin susceptibility. Cell 152:909–922. doi: 10.1016/j.cell.2013.01.030
-
(2013)
Cell
, vol.152
, pp. 909-922
-
-
Bassik, M.C.1
Kampmann, M.2
Lebbink, R.J.3
Wang, S.4
Hein, M.Y.5
Poser, I.6
Weibezahn, J.7
Horlbeck, M.A.8
Chen, S.9
Mann, M.10
Hyman, A.A.11
Leproust, E.M.12
McManus, M.T.13
Weissman, J.S.14
-
4
-
-
84946925193
-
BCL11A enhancer dissection by Cas9-mediated in situ saturating mutagenesis
-
Canver MC, Smith EC, Sher F, Pinello L, Sanjana NE, Shalem O, Chen DD, Schupp PG, Vinjamur DS, Garcia SP, Luc S, Kurita R, Nakamura Y, Fujiwara Y, Maeda T, Yuan GC, Zhang F, Orkin SH, Bauer DE. 2015. BCL11A enhancer dissection by Cas9-mediated in situ saturating mutagenesis. Nature 527. doi: 10.1038/nature15521
-
(2015)
Nature
, pp. 527
-
-
Canver, M.C.1
Smith, E.C.2
Sher, F.3
Pinello, L.4
Sanjana, N.E.5
Shalem, O.6
Chen, D.D.7
Schupp, P.G.8
Vinjamur, D.S.9
Garcia, S.P.10
Luc, S.11
Kurita, R.12
Nakamura, Y.13
Fujiwara, Y.14
Maeda, T.15
Yuan, G.C.16
Zhang, F.17
Orkin, S.H.18
Bauer, D.E.19
-
5
-
-
84940501210
-
Unraveling CRISPR-Cas9 genome engineering parameters via a library-on-library approach
-
Chari R, Mali P, Moosburner M, Church GM. 2015. Unraveling CRISPR-Cas9 genome engineering parameters via a library-on-library approach. Nature Methods 12:823–826. doi: 10.1038/nmeth.3473
-
(2015)
Nature Methods
, vol.12
, pp. 823-826
-
-
Chari, R.1
Mali, P.2
Moosburner, M.3
Church, G.M.4
-
6
-
-
84894063115
-
Dynamic imaging of genomic loci in living human cells by an optimized crispr/cas system
-
Chen B, Gilbert LA, Cimini BA, Schnitzbauer J, Zhang W, Li GW, Park J, Blackburn EH, Weissman JS, Qi LS, Huang B. 2013. Dynamic imaging of genomic loci in living human cells by an optimized crispr/cas system. Cell 155:1479–1491. doi: 10.1016/j.cell.2013.12.001
-
(2013)
Cell
, vol.155
, pp. 1479-1491
-
-
Chen, B.1
Gilbert, L.A.2
Cimini, B.A.3
Schnitzbauer, J.4
Zhang, W.5
Li, G.W.6
Park, J.7
Blackburn, E.H.8
Weissman, J.S.9
Qi, L.S.10
Huang, B.11
-
7
-
-
84866633660
-
Structural dynamics of nucleosomes at single-molecule resolution
-
Choy JS, Lee TH. 2012. Structural dynamics of nucleosomes at single-molecule resolution. Trends in Biochemical Sciences 37:425–435. doi: 10.1016/j.tibs.2012.06.006
-
(2012)
Trends in Biochemical Sciences
, vol.37
, pp. 425-435
-
-
Choy, J.S.1
Lee, T.H.2
-
8
-
-
0031593247
-
Protective nucleosome centering at splice sites as suggested by sequence-directed mapping of the nucleosomes
-
Denisov DA, Shpigelman ES, Trifonov EN. 1997. Protective nucleosome centering at splice sites as suggested by sequence-directed mapping of the nucleosomes. Gene 205:145–149. doi: 10.1016/s0378-1119(97)00406-x
-
(1997)
Gene
, vol.205
, pp. 145-149
-
-
Denisov, D.A.1
Shpigelman, E.S.2
Trifonov, E.N.3
-
9
-
-
84865757142
-
Landscape of transcription in human cells
-
Djebali S, Davis CA, Merkel A, Dobin A, Lassmann T, Mortazavi A, Tanzer A, Lagarde J, Lin W, Schlesinger F, Xue C, Marinov GK, Khatun J, Williams BA, Zaleski C, Rozowsky J, Röder M, Kokocinski F, Abdelhamid RF, Alioto T, et al. 2012. Landscape of transcription in human cells. Nature 489:101–108. doi: 10.1038/nature11233
-
(2012)
Nature
, vol.489
, pp. 101-108
-
-
Djebali, S.1
Davis, C.A.2
Merkel, A.3
Dobin, A.4
Lassmann, T.5
Mortazavi, A.6
Tanzer, A.7
Lagarde, J.8
Lin, W.9
Schlesinger, F.10
Xue, C.11
Marinov, G.K.12
Khatun, J.13
Williams, B.A.14
Zaleski, C.15
Rozowsky, J.16
Röder, M.17
Kokocinski, F.18
Abdelhamid, R.F.19
Alioto, T.20
more..
-
10
-
-
84921540377
-
Rational design of highly active sgRNAs for CRISPR-Cas9-mediated gene inactivation
-
Doench JG, Hartenian E, Graham DB, Tothova Z, Hegde M, Smith I, Sullender M, Ebert BL, Xavier RJ, Root DE. 2014. Rational design of highly active sgRNAs for CRISPR-Cas9-mediated gene inactivation. Nature Biotechnology 32:1262–1230. doi: 10.1038/nbt.3026
-
(2014)
Nature Biotechnology
, vol.32
, pp. 1260-1262
-
-
Doench, J.G.1
Hartenian, E.2
Graham, D.B.3
Tothova, Z.4
Hegde, M.5
Smith, I.6
Sullender, M.7
Ebert, B.L.8
Xavier, R.J.9
Root, D.E.10
-
11
-
-
84913594397
-
Genome editing. The new frontier of genome engineering with CRISPR Cas9
-
Doudna JA, Charpentier E. 2014. Genome editing. the new frontier of genome engineering with CRISPR Cas9. Science 346:1258096. doi: 10.1126/science.1258096
-
(2014)
Science
, vol.346
, pp. 1258096
-
-
Doudna, J.A.1
Charpentier, E.2
-
12
-
-
1542334851
-
Reconstitution of nucleosome core particles from recombinant histones and DNA
-
Dyer PN, Edayathumangalam RS, White CL, Bao Y, Chakravarthy S, Muthurajan UM, Luger K. 2004. Reconstitution of nucleosome core particles from recombinant histones and DNA. Methods in Enzymology 375:23–44. doi: 10.1016/s0076-6879(03)75002-2
-
(2004)
Methods in Enzymology
, vol.375
, pp. 23-44
-
-
Dyer, P.N.1
Edayathumangalam, R.S.2
White, C.L.3
Bao, Y.4
Chakravarthy, S.5
Muthurajan, U.M.6
Luger, K.7
-
13
-
-
84865790047
-
An integrated encyclopedia of DNA elements in the human genome
-
ENCODE Project Consortium
-
ENCODE Project Consortium. 2012. An integrated encyclopedia of DNA elements in the human genome. Nature 489:57–74. doi: 10.1038/nature11247
-
(2012)
Nature
, vol.489
, pp. 57-74
-
-
-
14
-
-
80052970429
-
Mechanisms for ATP-dependent chromatin remodelling: The means to the end
-
Flaus A, Owen-Hughes T. 2011. Mechanisms for ATP-dependent chromatin remodelling: the means to the end. The FEBS Journal 278:3579–3595. doi: 10.1111/j.1742-4658.2011.08281.x
-
(2011)
The FEBS Journal
, vol.278
, pp. 3579-3595
-
-
Flaus, A.1
Owen-Hughes, T.2
-
15
-
-
84897406127
-
A promoter-level mammalian expression atlas
-
Forrest AR, Kawaji H, Rehli M, Baillie JK, de Hoon MJ, Haberle V, Lassmann T, Kulakovskiy IV, Lizio M, Itoh M, Andersson R, Mungall CJ, Meehan TF, Schmeier S, Bertin N, Jørgensen M, Dimont E, Arner E, Schmidl C, Schaefer U, et al. 2014. A promoter-level mammalian expression atlas. Nature 507:462–470. doi: 10.1038/nature13182
-
(2014)
Nature
, vol.507
, pp. 462-470
-
-
Forrest, A.R.1
Kawaji, H.2
Rehli, M.3
Baillie, J.K.4
De Hoon, M.J.5
Haberle, V.6
Lassmann, T.7
Kulakovskiy, I.V.8
Lizio, M.9
Itoh, M.10
Andersson, R.11
Mungall, C.J.12
Meehan, T.F.13
Schmeier, S.14
Bertin, N.15
Jørgensen, M.16
Dimont, E.17
Arner, E.18
Schmidl, C.19
Schaefer, U.20
more..
-
16
-
-
84908352138
-
Genome-scale CRISPR-mediated control of gene repression and activation
-
Gilbert LA, Horlbeck MA, Adamson B, Villalta JE, Chen Y, Whitehead EH, Guimaraes C, Panning B, Ploegh HL, Bassik MC, Qi LS, Kampmann M, Weissman JS. 2014. Genome-scale CRISPR-mediated control of gene repression and activation. Cell 159:647–661. doi: 10.1016/j.cell.2014.09.029
-
(2014)
Cell
, vol.159
, pp. 647-661
-
-
Gilbert, L.A.1
Horlbeck, M.A.2
Adamson, B.3
Villalta, J.E.4
Chen, Y.5
Whitehead, E.H.6
Guimaraes, C.7
Panning, B.8
Ploegh, H.L.9
Bassik, M.C.10
Qi, L.S.11
Kampmann, M.12
Weissman, J.S.13
-
17
-
-
84880571335
-
CRISPR-mediated modular RNA-guided regulation of transcription in eukaryotes
-
Gilbert LA, Larson MH, Morsut L, Liu Z, Brar GA, Torres SE, Stern-Ginossar N, Brandman O, Whitehead EH, Doudna JA, Lim WA, Weissman JS, Qi LS. 2013. CRISPR-mediated modular RNA-guided regulation of transcription in eukaryotes. Cell 154:442–451. doi: 10.1016/j.cell.2013.06.044
-
(2013)
Cell
, vol.154
, pp. 442-451
-
-
Gilbert, L.A.1
Larson, M.H.2
Morsut, L.3
Liu, Z.4
Brar, G.A.5
Torres, S.E.6
Stern-Ginossar, N.7
Brandman, O.8
Whitehead, E.H.9
Doudna, J.A.10
Lim, W.A.11
Weissman, J.S.12
Qi, L.S.13
-
18
-
-
79952539053
-
ATP-dependent chromatin remodeling: Genetics, genomics and mechanisms
-
Hargreaves DC, Crabtree GR. 2011. ATP-dependent chromatin remodeling: genetics, genomics and mechanisms. Cell Research 21:396–420. doi: 10.1038/cr.2011.32
-
(2011)
Cell Research
, vol.21
, pp. 396-420
-
-
Hargreaves, D.C.1
Crabtree, G.R.2
-
19
-
-
84929135130
-
Epigenome editing by a CRISPR-Cas9-based acetyltransferase activates genes from promoters and enhancers
-
Hilton IB, D’Ippolito AM, Vockley CM, Thakore PI, Crawford GE, Reddy TE, Gersbach CA. 2015. Epigenome editing by a CRISPR-Cas9-based acetyltransferase activates genes from promoters and enhancers. Nature Biotechnology 33:510–517. doi: 10.1038/nbt.3199
-
(2015)
Nature Biotechnology
, vol.33
, pp. 510-517
-
-
Hilton, I.B.1
D’Ippolito, A.M.2
Vockley, C.M.3
Thakore, P.I.4
Crawford, G.E.5
Reddy, T.E.6
Gersbach, C.A.7
-
20
-
-
84949032804
-
Nucleosomes inhibit Cas9 endonuclease activity in vitro
-
Hinz JM, Laughery MF, Wyrick JJ. 2015. Nucleosomes inhibit Cas9 endonuclease activity in vitro. Biochemistry 54:7063–7066. doi: 10.1021/acs.biochem.5b01108
-
(2015)
Biochemistry
, vol.54
, pp. 7063-7066
-
-
Hinz, J.M.1
Laughery, M.F.2
Wyrick, J.J.3
-
21
-
-
84934435162
-
Mapping nucleosome resolution chromosome folding in yeast by micro-C
-
Hsieh TH, Weiner A, Lajoie B, Dekker J, Friedman N, Rando OJ. 2015. Mapping nucleosome resolution chromosome folding in yeast by micro-C. Cell 162:108–119. doi: 10.1016/j.cell.2015.05.048
-
(2015)
Cell
, vol.162
, pp. 108-119
-
-
Hsieh, T.H.1
Weiner, A.2
Lajoie, B.3
Dekker, J.4
Friedman, N.5
Rando, O.J.6
-
22
-
-
60349089645
-
Nucleosome positioning and gene regulation: Advances through genomics. Nature Reviews
-
Jiang C, Pugh BF. 2009. Nucleosome positioning and gene regulation: advances through genomics. Nature Reviews. Genetics 10:161–172. doi: 10.1038/nrg2522
-
(2009)
Genetics
, vol.10
, pp. 161-172
-
-
Jiang, C.1
Pugh, B.F.2
-
23
-
-
33845298285
-
Flexibility and constraint in the nucleosome core landscape of Caenorhabditis elegans chromatin
-
Johnson SM, Tan FJ, McCullough HL, Riordan DP, Fire AZ. 2006. Flexibility and constraint in the nucleosome core landscape of Caenorhabditis elegans chromatin. Genome Research 16:1505–1516. doi: 10.1101/gr.5560806
-
(2006)
Genome Research
, vol.16
, pp. 1505-1516
-
-
Johnson, S.M.1
Tan, F.J.2
McCullough, H.L.3
Riordan, D.P.4
Fire, A.Z.5
-
24
-
-
84923780299
-
Getting up to speed with transcription elongation by RNA polymerase II. Nature Reviews
-
Jonkers I, Lis JT. 2015. Getting up to speed with transcription elongation by RNA polymerase II. Nature Reviews. Molecular Cell Biology 16:167–177. doi: 10.1038/nrm3953
-
(2015)
Molecular Cell Biology
, vol.16
, pp. 167-177
-
-
Jonkers, I.1
Lis, J.T.2
-
26
-
-
84928924333
-
Functional annotation of native enhancers with a Cas9-histone demethylase fusion
-
Kearns NA, Pham H, Tabak B, Genga RM, Silverstein NJ, Garber M, Maehr R. 2015. Functional annotation of native enhancers with a Cas9-histone demethylase fusion. Nature Methods 12:401–403. doi: 10.1038/nmeth.3325
-
(2015)
Nature Methods
, vol.12
, pp. 401-403
-
-
Kearns, N.A.1
Pham, H.2
Tabak, B.3
Genga, R.M.4
Silverstein, N.J.5
Garber, M.6
Maehr, R.7
-
27
-
-
84946919064
-
Dynamics of CRISPR-Cas9 genome interrogation in living cells
-
Knight SC, Xie L, Deng W, Guglielmi B, Witkowsky LB, Bosanac L, Zhang ET, El Beheiry M, Masson JB, Dahan M, Liu Z, Doudna JA, Tjian R. 2015. Dynamics of CRISPR-Cas9 genome interrogation in living cells. Science 350: 823–826. doi: 10.1126/science.aac6572
-
(2015)
Science
, vol.350
, pp. 823-826
-
-
Knight, S.C.1
Xie, L.2
Deng, W.3
Guglielmi, B.4
Witkowsky, L.B.5
Bosanac, L.6
Zhang, E.T.7
El Beheiry, M.8
Masson, J.B.9
Dahan, M.10
Liu, Z.11
Doudna, J.A.12
Tjian, R.13
-
29
-
-
3542998667
-
Nucleosomes facilitate their own invasion
-
Li G, Widom J. 2004. Nucleosomes facilitate their own invasion. Nature Structural & Molecular Biology 11:763–769. doi: 10.1038/nsmb801
-
(2004)
Nature Structural & Molecular Biology
, vol.11
, pp. 763-769
-
-
Li, G.1
Widom, J.2
-
30
-
-
0032512794
-
New DNA sequence rules for high affinity binding to histone octamer and sequence-directed nucleosome positioning
-
Lowary PT, Widom J. 1998. New DNA sequence rules for high affinity binding to histone octamer and sequence-directed nucleosome positioning. Journal of Molecular Biology 276:19–42. doi: 10.1006/jmbi.1997.1494
-
(1998)
Journal of Molecular Biology
, vol.276
, pp. 19-42
-
-
Lowary, P.T.1
Widom, J.2
-
32
-
-
0033039285
-
Preparation of nucleosome core particle from recombinant histones
-
Luger K, Rechsteiner TJ, Richmond TJ. 1999. Preparation of nucleosome core particle from recombinant histones. Methods in Enzymology 304:3–19. doi: 10.1016/s0076-6879(99)04003-3
-
(1999)
Methods in Enzymology
, vol.304
, pp. 3-19
-
-
Luger, K.1
Rechsteiner, T.J.2
Richmond, T.J.3
-
33
-
-
84924347318
-
Multicolor CRISPR labeling of chromosomal loci in human cells
-
Ma H, Naseri A, Reyes-Gutierrez P, Wolfe SA, Zhang S, Pederson T. 2015. Multicolor CRISPR labeling of chromosomal loci in human cells. Proceedings of the National Academy of Sciences of the United States of America 112:3002–3007. doi: 10.1073/pnas.1420024112
-
(2015)
Proceedings of the National Academy of Sciences of the United States of America
, vol.112
, pp. 3002-3007
-
-
Ma, H.1
Naseri, A.2
Reyes-Gutierrez, P.3
Wolfe, S.A.4
Zhang, S.5
Pederson, T.6
-
34
-
-
84884907424
-
CRISPR RNA-guided activation of endogenous human genes
-
Maeder ML, Linder SJ, Cascio VM, Fu Y, Ho QH, Joung JK. 2013. CRISPR RNA-guided activation of endogenous human genes. Nature Methods 10:977–979. doi: 10.1038/nmeth.2598
-
(2013)
Nature Methods
, vol.10
, pp. 977-979
-
-
Maeder, M.L.1
Linder, S.J.2
Cascio, V.M.3
Fu, Y.4
Ho, Q.H.5
Joung, J.K.6
-
35
-
-
84944449180
-
An updated evolutionary classification of CRISPR-Cas systems. Nature Reviews
-
Makarova KS, Wolf YI, Alkhnbashi OS, Costa F, Shah SA, Saunders SJ, Barrangou R, Brouns SJ, Charpentier E, Haft DH, Horvath P, Moineau S, Mojica FJ, Terns RM, Terns MP, White MF, Yakunin AF, Garrett RA, van der Oost J, Backofen R, et al. 2015. An updated evolutionary classification of CRISPR-Cas systems. Nature Reviews. Microbiology 13. doi: 10.1038/nrmicro3569
-
(2015)
Microbiology
, pp. 13
-
-
Makarova, K.S.1
Wolf, Y.I.2
Alkhnbashi, O.S.3
Costa, F.4
Shah, S.A.5
Saunders, S.J.6
Barrangou, R.7
Brouns, S.J.8
Charpentier, E.9
Haft, D.H.10
Horvath, P.11
Moineau, S.12
Mojica, F.J.13
Terns, R.M.14
Terns, M.P.15
White, M.F.16
Yakunin, A.F.17
Garrett, R.A.18
Van Der Oost, J.19
Backofen, R.20
more..
-
36
-
-
84930716439
-
Regulation of alternative splicing through coupling with transcription and chromatin structure
-
Naftelberg S, Schor IE, Ast G, Kornblihtt AR. 2015. Regulation of alternative splicing through coupling with transcription and chromatin structure. Annual Review of Biochemistry 84:165–198. doi: 10.1146/annurev-biochem-060614-034242
-
(2015)
Annual Review of Biochemistry
, vol.84
, pp. 165-198
-
-
Naftelberg, S.1
Schor, I.E.2
Ast, G.3
Kornblihtt, A.R.4
-
37
-
-
0035123701
-
Complete karyotype characterization of the K562 cell line by combined application of G-banding, multiplex-fluorescence in situ hybridization, fluorescence in situ hybridization, and comparative genomic hybridization
-
Naumann S, Reutzel D, Speicher M, Decker HJ. 2001. Complete karyotype characterization of the K562 cell line by combined application of G-banding, multiplex-fluorescence in situ hybridization, fluorescence in situ hybridization, and comparative genomic hybridization. Leukemia Research 25:313–322. doi: 10.1016/s0145-2126(00)00125-9
-
(2001)
Leukemia Research
, vol.25
, pp. 313-322
-
-
Naumann, S.1
Reutzel, D.2
Speicher, M.3
Decker, H.J.4
-
38
-
-
84938836171
-
A genome-wide analysis of Cas9 binding specificity using ChIP-seq and targeted sequence capture
-
O’Geen H, Henry IM, Bhakta MS, Meckler JF, Segal DJ. 2015. A genome-wide analysis of Cas9 binding specificity using ChIP-seq and targeted sequence capture. Nucleic Acids Research 43:3389–3404. doi: 10.1093/nar/gkv137
-
(2015)
Nucleic Acids Research
, vol.43
, pp. 3389-3404
-
-
O’Geen, H.1
Henry, I.M.2
Bhakta, M.S.3
Meckler, J.F.4
Segal, D.J.5
-
39
-
-
84873643234
-
Decoupling nucleosome recognition from DNA binding dramatically alters the properties of the Chd1 chromatin remodeler
-
Patel A, Chakravarthy S, Morrone S, Nodelman IM, McKnight JN, Bowman GD. 2013. Decoupling nucleosome recognition from DNA binding dramatically alters the properties of the Chd1 chromatin remodeler. Nucleic Acids Research 41:1637–1648. doi: 10.1093/nar/gks1440
-
(2013)
Nucleic Acids Research
, vol.41
, pp. 1637-1648
-
-
Patel, A.1
Chakravarthy, S.2
Morrone, S.3
Nodelman, I.M.4
McKnight, J.N.5
Bowman, G.D.6
-
40
-
-
83755181609
-
Identification of residues in chromodomain helicase DNA-binding protein 1 (Chd1) required for coupling ATP hydrolysis to nucleosome sliding
-
Patel A, McKnight JN, Genzor P, Bowman GD. 2011. Identification of residues in chromodomain helicase DNA-binding protein 1 (Chd1) required for coupling ATP hydrolysis to nucleosome sliding. The Journal of Biological Chemistry 286:43984–43993. doi: 10.1074/jbc.M111.282970
-
(2011)
The Journal of Biological Chemistry
, vol.286
, pp. 43984-43993
-
-
Patel, A.1
McKnight, J.N.2
Genzor, P.3
Bowman, G.D.4
-
41
-
-
4444221565
-
UCSF Chimera–a visualization system for exploratory research and analysis
-
Pettersen EF, Goddard TD, Huang CC, Couch GS, Greenblatt DM, Meng EC, Ferrin TE. 2004. UCSF Chimera–a visualization system for exploratory research and analysis. Journal of Computational Chemistry 25:1605–1612. doi: 10.1002/jcc.20084
-
(2004)
Journal of Computational Chemistry
, vol.25
, pp. 1605-1612
-
-
Pettersen, E.F.1
Goddard, T.D.2
Huang, C.C.3
Couch, G.S.4
Greenblatt, D.M.5
Meng, E.C.6
Ferrin, T.E.7
-
42
-
-
0028791330
-
Mechanism of protein access to specific DNA sequences in chromatin: A dynamic equilibrium model for gene regulation
-
Polach KJ, Widom J. 1995. Mechanism of protein access to specific DNA sequences in chromatin: a dynamic equilibrium model for gene regulation. Journal of Molecular Biology 254:130–149. doi: 10.1006/jmbi.1995.0606
-
(1995)
Journal of Molecular Biology
, vol.254
, pp. 130-149
-
-
Polach, K.J.1
Widom, J.2
-
43
-
-
84874687019
-
Repurposing CRISPR as an RNA-guided platform for sequence-specific control of gene expression
-
Qi LS, Larson MH, Gilbert LA, Doudna JA, Weissman JS, Arkin AP, Lim WA. 2013. Repurposing CRISPR as an RNA-guided platform for sequence-specific control of gene expression. Cell 152:1173–1183. doi: 10.1016/j.cell.2013.02.022
-
(2013)
Cell
, vol.152
, pp. 1173-1183
-
-
Qi, L.S.1
Larson, M.H.2
Gilbert, L.A.3
Doudna, J.A.4
Weissman, J.S.5
Arkin, A.P.6
Lim, W.A.7
-
44
-
-
68349125112
-
What controls nucleosome positions?
-
Segal E, Widom J. 2009. What controls nucleosome positions? Trends in Genetics 25:335–343. doi: 10.1016/j.tig.2009.06.002
-
(2009)
Trends in Genetics
, vol.25
, pp. 335-343
-
-
Segal, E.1
Widom, J.2
-
45
-
-
84983752643
-
Cas9-chromatin binding information enables more accurate CRISPR off-target prediction
-
Singh R, Kuscu C, Quinlan A, Qi Y, Adli M. 2015. Cas9-chromatin binding information enables more accurate CRISPR off-target prediction. Nucleic Acids Research 43:e118. doi: 10.1093/nar/gkv575
-
(2015)
Nucleic Acids Research
, vol.43
-
-
Singh, R.1
Kuscu, C.2
Quinlan, A.3
Qi, Y.4
Adli, M.5
-
46
-
-
84895871173
-
DNA interrogation by the CRISPR RNA-guided endonuclease Cas9
-
Sternberg SH, Redding S, Jinek M, Greene EC, Doudna JA. 2014. DNA interrogation by the CRISPR RNA-guided endonuclease Cas9. Nature 507:62–67. doi: 10.1038/nature13011
-
(2014)
Nature
, vol.507
, pp. 62-67
-
-
Sternberg, S.H.1
Redding, S.2
Jinek, M.3
Greene, E.C.4
Doudna, J.A.5
-
47
-
-
84865755978
-
The accessible chromatin landscape of the human genome
-
Thurman RE, Rynes E, Humbert R, Vierstra J, Maurano MT, Haugen E, Sheffield NC, Stergachis AB, Wang H, Vernot B, Garg K, John S, Sandstrom R, Bates D, Boatman L, Canfield TK, Diegel M, Dunn D, Ebersol AK, Frum T, et al. 2012. The accessible chromatin landscape of the human genome. Nature 489:75–82. doi: 10.1038/nature11232
-
(2012)
Nature
, vol.489
, pp. 75-82
-
-
Thurman, R.E.1
Rynes, E.2
Humbert, R.3
Vierstra, J.4
Maurano, M.T.5
Haugen, E.6
Sheffield, N.C.7
Stergachis, A.B.8
Wang, H.9
Vernot, B.10
Garg, K.11
John, S.12
Sandstrom, R.13
Bates, D.14
Boatman, L.15
Canfield, T.K.16
Diegel, M.17
Dunn, D.18
Ebersol, A.K.19
Frum, T.20
more..
-
48
-
-
77954684922
-
From chromatin to splicing: RNA-processing as a total artwork
-
Tilgner H, Guigó R. 2010. From chromatin to splicing: RNA-processing as a total artwork. Epigenetics 5:180–184. doi: 10.4161/epi.5.3.11319
-
(2010)
Epigenetics
, vol.5
, pp. 180-184
-
-
Tilgner, H.1
Guigó, R.2
-
49
-
-
59849116500
-
Nucleosome dynamics as studied by single-pair fluorescence resonance energy transfer: A reevaluation
-
Tomschik M, van Holde K, Zlatanova J. 2009. Nucleosome dynamics as studied by single-pair fluorescence resonance energy transfer: a reevaluation. Journal of Fluorescence 19:53–62. doi: 10.1007/s10895-008-0379-1
-
(2009)
Journal of Fluorescence
, vol.19
, pp. 53-62
-
-
Tomschik, M.1
Van Holde, K.2
Zlatanova, J.3
-
50
-
-
84882655459
-
ATP-dependent chromatin assembly is functionally distinct from chromatin remodeling
-
Torigoe SE, Patel A, Khuong MT, Bowman GD, Kadonaga JT. 2013. ATP-dependent chromatin assembly is functionally distinct from chromatin remodeling. eLife 2. doi: 10.7554/eLife.00863
-
(2013)
Elife
, vol.2
-
-
Torigoe, S.E.1
Patel, A.2
Khuong, M.T.3
Bowman, G.D.4
Kadonaga, J.T.5
-
51
-
-
79959557189
-
Determinants of nucleosome organization in primary human cells
-
Valouev A, Johnson SM, Boyd SD, Smith CL, Fire AZ, Sidow A. 2011. Determinants of nucleosome organization in primary human cells. Nature 474:516–520. doi: 10.1038/nature10002
-
(2011)
Nature
, vol.474
, pp. 516-520
-
-
Valouev, A.1
Johnson, S.M.2
Boyd, S.D.3
Smith, C.L.4
Fire, A.Z.5
Sidow, A.6
-
52
-
-
77957252758
-
Crystal structures of nucleosome core particles containing the’601’ strong positioning sequence
-
Vasudevan D, Chua EY, Davey CA. 2010. Crystal structures of nucleosome core particles containing the’601’ strong positioning sequence. Journal of Molecular Biology 403:1–10. doi: 10.1016/j.jmb.2010.08.039
-
(2010)
Journal of Molecular Biology
, vol.403
, pp. 1-10
-
-
Vasudevan, D.1
Chua, E.Y.2
Davey, C.A.3
-
53
-
-
84892749369
-
Genetic screens in human cells using the CRISPR-Cas9 system
-
Wang T, Wei JJ, Sabatini DM, Lander ES. 2014. Genetic screens in human cells using the CRISPR-Cas9 system. Science 343:80–84. doi: 10.1126/science.1246981
-
(2014)
Science
, vol.343
, pp. 80-84
-
-
Wang, T.1
Wei, J.J.2
Sabatini, D.M.3
Lander, E.S.4
-
54
-
-
0842347710
-
DNA translocation and nucleosome remodeling assays by the RSC chromatin remodeling complex
-
Wittmeyer J, Saha A, Cairns B. 2004. DNA translocation and nucleosome remodeling assays by the RSC chromatin remodeling complex. Methods in Enzymology 377:322–343. doi: 10.1016/S0076-6879(03)77020-7
-
(2004)
Methods in Enzymology
, vol.377
, pp. 322-343
-
-
Wittmeyer, J.1
Saha, A.2
Cairns, B.3
-
55
-
-
84902095352
-
Genome-wide binding of the CRISPR endonuclease Cas9 in mammalian cells
-
Wu X, Scott DA, Kriz AJ, Chiu AC, Hsu PD, Dadon DB, Cheng AW, Trevino AE, Konermann S, Chen S, Jaenisch R, Zhang F, Sharp PA. 2014. Genome-wide binding of the CRISPR endonuclease Cas9 in mammalian cells. Nature Biotechnology 32:670–676. doi: 10.1038/nbt.2889
-
(2014)
Nature Biotechnology
, vol.32
, pp. 670-676
-
-
Wu, X.1
Scott, D.A.2
Kriz, A.J.3
Chiu, A.C.4
Hsu, P.D.5
Dadon, D.B.6
Cheng, A.W.7
Trevino, A.E.8
Konermann, S.9
Chen, S.10
Jaenisch, R.11
Zhang, F.12
Sharp, P.A.13
-
56
-
-
84938829555
-
Sequence determinants of improved CRISPR sgRNA design
-
Xu H, Xiao T, Chen CH, Li W, Meyer CA, Wu Q, Wu D, Cong L, Zhang F, Liu JS, Brown M, Liu XS. 2015. Sequence determinants of improved CRISPR sgRNA design. Genome Research 25:1147–1157. doi: 10.1101/gr.191452.115
-
(2015)
Genome Research
, vol.25
, pp. 1147-1157
-
-
Xu, H.1
Xiao, T.2
Chen, C.H.3
Li, W.4
Meyer, C.A.5
Wu, Q.6
Wu, D.7
Cong, L.8
Zhang, F.9
Liu, J.S.10
Brown, M.11
Liu, X.S.12
|