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Items: 1 to 50 of 57


Reversible Disruption of Specific Transcription Factor-DNA Interactions Using CRISPR/Cas9.

Shariati SA, Dominguez A, Xie S, Wernig M, Qi LS, Skotheim JM.

Mol Cell. 2019 May 2;74(3):622-633.e4. doi: 10.1016/j.molcel.2019.04.011.


YAP-independent mechanotransduction drives breast cancer progression.

Lee JY, Chang JK, Dominguez AA, Lee HP, Nam S, Chang J, Varma S, Qi LS, West RB, Chaudhuri O.

Nat Commun. 2019 Apr 23;10(1):1848. doi: 10.1038/s41467-019-09755-0.


When genome editing goes off-target.

Kempton HR, Qi LS.

Science. 2019 Apr 19;364(6437):234-236. doi: 10.1126/science.aax1827. Epub 2019 Apr 18. No abstract available.


Refractive Change and Incidence of Myopia Among A Group of Highly Selected Senior High School Students in China: A Prospective Study in An Aviation Cadet Prerecruitment Class.

Yao L, Qi LS, Wang XF, Tian Q, Yang QH, Wu TY, Chang YM, Zou ZK.

Invest Ophthalmol Vis Sci. 2019 Apr 1;60(5):1344-1352. doi: 10.1167/iovs.17-23506.


Identification of Novel Regulatory Genes in APAP Induced Hepatocyte Toxicity by a Genome-Wide CRISPR-Cas9 Screen.

Shortt K, Heruth DP, Zhang N, Wu W, Singh S, Li DY, Zhang LQ, Wyckoff GJ, Qi LS, Friesen CA, Ye SQ.

Sci Rep. 2019 Feb 4;9(1):1396. doi: 10.1038/s41598-018-37940-6.


Anti-CRISPR-mediated control of gene editing and synthetic circuits in eukaryotic cells.

Nakamura M, Srinivasan P, Chavez M, Carter MA, Dominguez AA, La Russa M, Lau MB, Abbott TR, Xu X, Zhao D, Gao Y, Kipniss NH, Smolke CD, Bondy-Denomy J, Qi LS.

Nat Commun. 2019 Jan 14;10(1):194. doi: 10.1038/s41467-018-08158-x.


Evolution at the Cutting Edge: CRISPR-Mediated Directed Evolution.

Abbott TR, Qi LS.

Mol Cell. 2018 Nov 1;72(3):402-403. doi: 10.1016/j.molcel.2018.10.027.


CRISPR Activation Screens Systematically Identify Factors that Drive Neuronal Fate and Reprogramming.

Liu Y, Yu C, Daley TP, Wang F, Cao WS, Bhate S, Lin X, Still C 2nd, Liu H, Zhao D, Wang H, Xie XS, Ding S, Wong WH, Wernig M, Qi LS.

Cell Stem Cell. 2018 Nov 1;23(5):758-771.e8. doi: 10.1016/j.stem.2018.09.003. Epub 2018 Oct 11.


CRISPR-Mediated Programmable 3D Genome Positioning and Nuclear Organization.

Wang H, Xu X, Nguyen CM, Liu Y, Gao Y, Lin X, Daley T, Kipniss NH, La Russa M, Qi LS.

Cell. 2018 Nov 15;175(5):1405-1417.e14. doi: 10.1016/j.cell.2018.09.013. Epub 2018 Oct 11.


CRISPhieRmix: a hierarchical mixture model for CRISPR pooled screens.

Daley TP, Lin Z, Lin X, Liu Y, Wong WH, Qi LS.

Genome Biol. 2018 Oct 8;19(1):159. doi: 10.1186/s13059-018-1538-6.


DNMT3A and TET1 cooperate to regulate promoter epigenetic landscapes in mouse embryonic stem cells.

Gu T, Lin X, Cullen SM, Luo M, Jeong M, Estecio M, Shen J, Hardikar S, Sun D, Su J, Rux D, Guzman A, Lee M, Qi LS, Chen JJ, Kyba M, Huang Y, Chen T, Li W, Goodell MA.

Genome Biol. 2018 Jul 12;19(1):88. doi: 10.1186/s13059-018-1464-7.


A CRISPR-dCas Toolbox for Genetic Engineering and Synthetic Biology.

Xu X, Qi LS.

J Mol Biol. 2019 Jan 4;431(1):34-47. doi: 10.1016/j.jmb.2018.06.037. Epub 2018 Jun 26. Review.


CRISPR-Based Chromatin Remodeling of the Endogenous Oct4 or Sox2 Locus Enables Reprogramming to Pluripotency.

Liu P, Chen M, Liu Y, Qi LS, Ding S.

Cell Stem Cell. 2018 Feb 1;22(2):252-261.e4. doi: 10.1016/j.stem.2017.12.001. Epub 2018 Jan 18.


Engineering cell sensing and responses using a GPCR-coupled CRISPR-Cas system.

Kipniss NH, Dingal PCDP, Abbott TR, Gao Y, Wang H, Dominguez AA, Labanieh L, Qi LS.

Nat Commun. 2017 Dec 20;8(1):2212. doi: 10.1038/s41467-017-02075-1.


The reason for the amelioration of N-methyl-N-nitrosourea-induced retinitis pigmentosa in rats by hydrogen-rich saline.

Yan WM, Chen T, Wang XC, Qi LS, Zhao GH, Yang GQ, Ma YF, Tao Y, Zhang L, Zhang ZM.

Int J Ophthalmol. 2017 Oct 18;10(10):1495-1503. doi: 10.18240/ijo.2017.10.03. eCollection 2017.


[Application of genome engineering in medical synthetic biology].

Wang F, Zhao D, Qi LS.

Sheng Wu Gong Cheng Xue Bao. 2017 Mar 25;33(3):422-435. doi: 10.13345/j.cjb.160420. Review. Chinese.


A Single-Chain Photoswitchable CRISPR-Cas9 Architecture for Light-Inducible Gene Editing and Transcription.

Zhou XX, Zou X, Chung HK, Gao Y, Liu Y, Qi LS, Lin MZ.

ACS Chem Biol. 2018 Feb 16;13(2):443-448. doi: 10.1021/acschembio.7b00603. Epub 2017 Sep 29.


Repurposing CRISPR System for Transcriptional Activation.

Chen M, Qi LS.

Adv Exp Med Biol. 2017;983:147-157. doi: 10.1007/978-981-10-4310-9_10. Review.


Genetic interaction mapping in mammalian cells using CRISPR interference.

Du D, Roguev A, Gordon DE, Chen M, Chen SH, Shales M, Shen JP, Ideker T, Mali P, Qi LS, Krogan NJ.

Nat Methods. 2017 Jun;14(6):577-580. doi: 10.1038/nmeth.4286. Epub 2017 May 8.


Multiplexed Dynamic Imaging of Genomic Loci by Combined CRISPR Imaging and DNA Sequential FISH.

Takei Y, Shah S, Harvey S, Qi LS, Cai L.

Biophys J. 2017 May 9;112(9):1773-1776. doi: 10.1016/j.bpj.2017.03.024. Epub 2017 Apr 17.


Complex transcriptional modulation with orthogonal and inducible dCas9 regulators.

Gao Y, Xiong X, Wong S, Charles EJ, Lim WA, Qi LS.

Nat Methods. 2016 Dec;13(12):1043-1049. doi: 10.1038/nmeth.4042. Epub 2016 Oct 24.


Applications of CRISPR Genome Engineering in Cell Biology.

Wang F, Qi LS.

Trends Cell Biol. 2016 Nov;26(11):875-888. doi: 10.1016/j.tcb.2016.08.004. Epub 2016 Sep 3. Review.


A Comprehensive, CRISPR-based Functional Analysis of Essential Genes in Bacteria.

Peters JM, Colavin A, Shi H, Czarny TL, Larson MH, Wong S, Hawkins JS, Lu CHS, Koo BM, Marta E, Shiver AL, Whitehead EH, Weissman JS, Brown ED, Qi LS, Huang KC, Gross CA.

Cell. 2016 Jun 2;165(6):1493-1506. doi: 10.1016/j.cell.2016.05.003. Epub 2016 May 26.


CRISPR/Cas9 for Human Genome Engineering and Disease Research.

Xiong X, Chen M, Lim WA, Zhao D, Qi LS.

Annu Rev Genomics Hum Genet. 2016 Aug 31;17:131-54. doi: 10.1146/annurev-genom-083115-022258. Epub 2016 May 23. Review.


The Time Course of Deafness and Retinal Degeneration in a Kunming Mouse Model for Usher Syndrome.

Yao L, Zhang L, Qi LS, Liu W, An J, Wang B, Xue JH, Zhang ZM.

PLoS One. 2016 May 17;11(5):e0155619. doi: 10.1371/journal.pone.0155619. eCollection 2016.


CRISPR/Cas9 in Genome Editing and Beyond.

Wang H, La Russa M, Qi LS.

Annu Rev Biochem. 2016 Jun 2;85:227-64. doi: 10.1146/annurev-biochem-060815-014607. Epub 2016 Apr 25. Review.


Impacts of the charged residues mutation S48E/N62H on the thermostability and unfolding behavior of cold shock protein: insights from molecular dynamics simulation with Gō model.

Su JG, Han XM, Zhao SX, Hou YX, Li XY, Qi LS, Wang JH.

J Mol Model. 2016 Apr;22(4):91. doi: 10.1007/s00894-016-2958-4. Epub 2016 Mar 28.


CRISPR Interference Efficiently Induces Specific and Reversible Gene Silencing in Human iPSCs.

Mandegar MA, Huebsch N, Frolov EB, Shin E, Truong A, Olvera MP, Chan AH, Miyaoka Y, Holmes K, Spencer CI, Judge LM, Gordon DE, Eskildsen TV, Villalta JE, Horlbeck MA, Gilbert LA, Krogan NJ, Sheikh SP, Weissman JS, Qi LS, So PL, Conklin BR.

Cell Stem Cell. 2016 Apr 7;18(4):541-53. doi: 10.1016/j.stem.2016.01.022. Epub 2016 Mar 10.


YAP Induces Human Naive Pluripotency.

Qin H, Hejna M, Liu Y, Percharde M, Wossidlo M, Blouin L, Durruthy-Durruthy J, Wong P, Qi Z, Yu J, Qi LS, Sebastiano V, Song JS, Ramalho-Santos M.

Cell Rep. 2016 Mar 15;14(10):2301-12. doi: 10.1016/j.celrep.2016.02.036. Epub 2016 Mar 3.


An Introduction to CRISPR Technology for Genome Activation and Repression in Mammalian Cells.

Du D, Qi LS.

Cold Spring Harb Protoc. 2016 Jan 4;2016(1):pdb.top086835. doi: 10.1101/pdb.top086835.


CRISPR Technology for Genome Activation and Repression in Mammalian Cells.

Du D, Qi LS.

Cold Spring Harb Protoc. 2016 Jan 4;2016(1):pdb.prot090175. doi: 10.1101/pdb.prot090175.


Sirtuin Type 1 Mediates the Retinal Protective Effect of Hydrogen-Rich Saline Against Light-Induced Damage in Rats.

Qi LS, Yao L, Liu W, Duan WX, Wang B, Zhang L, Zhang ZM.

Invest Ophthalmol Vis Sci. 2015 Dec;56(13):8268-79. doi: 10.1167/iovs.15-17034.


Beyond editing: repurposing CRISPR-Cas9 for precision genome regulation and interrogation.

Dominguez AA, Lim WA, Qi LS.

Nat Rev Mol Cell Biol. 2016 Jan;17(1):5-15. doi: 10.1038/nrm.2015.2. Epub 2015 Dec 16. Review.


Transcription factor competition allows embryonic stem cells to distinguish authentic signals from noise.

Sokolik C, Liu Y, Bauer D, McPherson J, Broeker M, Heimberg G, Qi LS, Sivak DA, Thomson M.

Cell Syst. 2015 Aug 26;1(2):117-129.


The New State of the Art: Cas9 for Gene Activation and Repression.

La Russa MF, Qi LS.

Mol Cell Biol. 2015 Nov;35(22):3800-9. doi: 10.1128/MCB.00512-15. Epub 2015 Sep 14. Review.


Bacterial CRISPR: accomplishments and prospects.

Peters JM, Silvis MR, Zhao D, Hawkins JS, Gross CA, Qi LS.

Curr Opin Microbiol. 2015 Oct;27:121-6. doi: 10.1016/j.mib.2015.08.007. Epub 2015 Sep 10. Review.


CRISPR-ERA: a comprehensive design tool for CRISPR-mediated gene editing, repression and activation.

Liu H, Wei Z, Dominguez A, Li Y, Wang X, Qi LS.

Bioinformatics. 2015 Nov 15;31(22):3676-8. doi: 10.1093/bioinformatics/btv423. Epub 2015 Jul 23.


Ginsenoside Rd attenuates Aβ25-35-induced oxidative stress and apoptosis in primary cultured hippocampal neurons.

Liu JF, Yan XD, Qi LS, Li L, Hu GY, Li P, Zhao G.

Chem Biol Interact. 2015 Sep 5;239:12-8. doi: 10.1016/j.cbi.2015.06.030. Epub 2015 Jun 22.


Targeted Transcriptional Repression in Bacteria Using CRISPR Interference (CRISPRi).

Hawkins JS, Wong S, Peters JM, Almeida R, Qi LS.

Methods Mol Biol. 2015;1311:349-62. doi: 10.1007/978-1-4939-2687-9_23.


Small molecules enhance CRISPR genome editing in pluripotent stem cells.

Yu C, Liu Y, Ma T, Liu K, Xu S, Zhang Y, Liu H, La Russa M, Xie M, Ding S, Qi LS.

Cell Stem Cell. 2015 Feb 5;16(2):142-7. doi: 10.1016/j.stem.2015.01.003.


Engineering complex synthetic transcriptional programs with CRISPR RNA scaffolds.

Zalatan JG, Lee ME, Almeida R, Gilbert LA, Whitehead EH, La Russa M, Tsai JC, Weissman JS, Dueber JE, Qi LS, Lim WA.

Cell. 2015 Jan 15;160(1-2):339-50. doi: 10.1016/j.cell.2014.11.052. Epub 2014 Dec 18.


Specific gene repression by CRISPRi system transferred through bacterial conjugation.

Ji W, Lee D, Wong E, Dadlani P, Dinh D, Huang V, Kearns K, Teng S, Chen S, Haliburton J, Heimberg G, Heineike B, Ramasubramanian A, Stevens T, Helmke KJ, Zepeda V, Qi LS, Lim WA.

ACS Synth Biol. 2014 Dec 19;3(12):929-31. doi: 10.1021/sb500036q. Epub 2014 Dec 6.


Potential mechanisms of benzyl isothiocyanate suppression of invasion and angiogenesis by the U87MG human glioma cell line.

Zhu Y, Zhang L, Zhang GD, Wang HO, Liu MY, Jiang Y, Qi LS, Li Q, Yang P.

Asian Pac J Cancer Prev. 2014;15(19):8225-8.


A protein-tagging system for signal amplification in gene expression and fluorescence imaging.

Tanenbaum ME, Gilbert LA, Qi LS, Weissman JS, Vale RD.

Cell. 2014 Oct 23;159(3):635-46. doi: 10.1016/j.cell.2014.09.039. Epub 2014 Oct 9.


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.

Cell. 2014 Oct 23;159(3):647-61. doi: 10.1016/j.cell.2014.09.029. Epub 2014 Oct 9.


Prediction of allosteric sites on protein surfaces with an elastic-network-model-based thermodynamic method.

Su JG, Qi LS, Li CH, Zhu YY, Du HJ, Hou YX, Hao R, Wang JH.

Phys Rev E Stat Nonlin Soft Matter Phys. 2014 Aug;90(2):022719. Epub 2014 Aug 27.


A versatile framework for microbial engineering using synthetic non-coding RNAs.

Qi LS, Arkin AP.

Nat Rev Microbiol. 2014 May;12(5):341-54. doi: 10.1038/nrmicro3244. Review.


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.

Cell. 2013 Dec 19;155(7):1479-91. doi: 10.1016/j.cell.2013.12.001. Erratum in: Cell. 2014 Jan 16;156(1-2):373.


CRISPR interference (CRISPRi) for sequence-specific control of gene expression.

Larson MH, Gilbert LA, Wang X, Lim WA, Weissman JS, Qi LS.

Nat Protoc. 2013 Nov;8(11):2180-96. doi: 10.1038/nprot.2013.132. Epub 2013 Oct 17.


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.

Cell. 2013 Jul 18;154(2):442-51. doi: 10.1016/j.cell.2013.06.044. Epub 2013 Jul 11.

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