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The search results on this publication page are automated on a monthly schedule based on acknowledgement of NIH Common Fund award numbers and intramural awards. Therefore, this list is not an exhaustive or error-free account of the program’s publications.

Title Author Journal Name PubMedID Journal Abbreviation Publication Date PubMedLink
Examination of CRISPR/Cas9 design tools and the effect of target site accessibility on Cas9 activity. Lee CM, Davis TH, Bao G Experimental physiology 28303677 Exp Physiol 2018 Apr 1 https://www.ncbi.nlm.nih.gov/pubmed/28303677
Developmental regulation of myeloerythroid progenitor function by the Lin28b-let-7-Hmga2 axis. Rowe RG, Wang LD, Coma S, Han A, Mathieu R, Pearson DS, Ross S, Sousa P, Nguyen PT, Rodriguez A, Wagers AJ, Daley GQ The Journal of experimental medicine 27401346 J Exp Med 2016 Jul 25 https://www.ncbi.nlm.nih.gov/pubmed/27401346
In vivo gene editing in dystrophic mouse muscle and muscle stem cells. Tabebordbar M, Zhu K, Cheng JKW, Chew WL, Widrick JJ, Yan WX, Maesner C, Wu EY, Xiao R, Ran FA, Cong L, Zhang F, Vandenberghe LH, Church GM, Wagers AJ Science (New York, N.Y.) 26721686 Science 2016 Jan 22 https://www.ncbi.nlm.nih.gov/pubmed/26721686
TALENs Facilitate Single-step Seamless SDF Correction of F508del CFTR in Airway Epithelial Submucosal Gland Cell-derived CF-iPSCs. Suzuki S, Sargent RG, Illek B, Fischer H, Esmaeili-Shandiz A, Yezzi MJ, Lee A, Yang Y, Kim S, Renz P, Qi Z, Yu J, Muench MO, Beyer AI, Guimarães AO, Ye L, Chang J, Fine EJ, Cradick TJ, Bao G, Rahdar M, Porteus MH, Shuto T, Kai H, Kan YW, Gruenert DC Molecular therapy. Nucleic acids 26730810 Mol Ther Nucleic Acids 2016 Jan 5 https://www.ncbi.nlm.nih.gov/pubmed/26730810
Intracellular delivery of molecules using microfabricated nanoneedle arrays. Park S, Choi SO, Paik SJ, Choi S, Allen M, Prausnitz M Biomedical microdevices 26797026 Biomed Microdevices 2016 Feb https://www.ncbi.nlm.nih.gov/pubmed/26797026
Streptococcus thermophilus CRISPR-Cas9 Systems Enable Specific Editing of the Human Genome. Müller M, Lee CM, Gasiunas G, Davis TH, Cradick TJ, Siksnys V, Bao G, Cathomen T, Mussolino C Molecular therapy : the journal of the American Society of Gene Therapy 26658966 Mol Ther 2016 Mar https://www.ncbi.nlm.nih.gov/pubmed/26658966
Nuclease-mediated gene editing by homologous recombination of the human globin locus. Voit RA, Hendel A, Pruett-Miller SM, Porteus MH Nucleic acids research 24157834 Nucleic Acids Res 2014 Jan https://www.ncbi.nlm.nih.gov/pubmed/24157834
Receptor-mediated delivery of engineered nucleases for genome modification. Chen Z, Jaafar L, Agyekum DG, Xiao H, Wade MF, Kumaran RI, Spector DL, Bao G, Porteus MH, Dynan WS, Meiler SE Nucleic acids research 23956220 Nucleic Acids Res 2013 Oct https://www.ncbi.nlm.nih.gov/pubmed/23956220
Self-assembly of phospholipid-PEG coating on nanoparticles through dual solvent exchange. Tong S, Hou S, Ren B, Zheng Z, Bao G Nano letters 21793503 Nano Lett 2011 Sep 14 https://www.ncbi.nlm.nih.gov/pubmed/21793503
Tuning the optical and electronic properties of colloidal nanocrystals by lattice strain. Smith AM, Mohs AM, Nie S Nature nanotechnology 19119284 Nat Nanotechnol 2009 Jan https://www.ncbi.nlm.nih.gov/pubmed/19119284
Semiconductor nanocrystals: structure, properties, and band gap engineering. Smith AM, Nie S Accounts of chemical research 19827808 Acc Chem Res 2010 Feb 16 https://www.ncbi.nlm.nih.gov/pubmed/19827808
Bioconjugated quantum dots for in vivo molecular and cellular imaging. Smith AM, Duan H, Mohs AM, Nie S Advanced drug delivery reviews 18495291 Adv Drug Deliv Rev 2008 Aug 17 https://www.ncbi.nlm.nih.gov/pubmed/18495291
In vitro modeling of the microvascular occlusion and thrombosis that occur in hematologic diseases using microfluidic technology. Tsai M, Kita A, Leach J, Rounsevell R, Huang JN, Moake J, Ware RE, Fletcher DA, Lam WA The Journal of clinical investigation 22156199 J Clin Invest 2012 Jan https://www.ncbi.nlm.nih.gov/pubmed/22156199
Engineering imaging probes and molecular machines for nanomedicine. Tong S, Cradick TJ, Ma Y, Dai Z, Bao G Science China. Life sciences 23108862 Sci China Life Sci 2012 Oct https://www.ncbi.nlm.nih.gov/pubmed/23108862
Attenuation of PKCδ enhances metabolic activity and promotes expansion of blood progenitors. Rao TN, Gupta MK, Softic S, Wang LD, Jang YC, Thomou T, Bezy O, Kulkarni RN, Kahn CR, Wagers AJ The EMBO journal 30446598 EMBO J 2018 Dec 14 https://www.ncbi.nlm.nih.gov/pubmed/30446598
COSMID: A Web-based Tool for Identifying and Validating CRISPR/Cas Off-target Sites. Cradick TJ, Qiu P, Lee CM, Fine EJ, Bao G Molecular therapy. Nucleic acids 25462530 Mol Ther Nucleic Acids 2014 Dec 2 https://www.ncbi.nlm.nih.gov/pubmed/25462530
Off-Target V(D)J Recombination Drives Lymphomagenesis and Is Escalated by Loss of the Rag2 C Terminus. Mijušković M, Chou YF, Gigi V, Lindsay CR, Shestova O, Lewis SM, Roth DB Cell reports 26365182 Cell Rep 2015 Sep 22 https://www.ncbi.nlm.nih.gov/pubmed/26365182
Genome Editing: A New Approach to Human Therapeutics. Porteus M Annual review of pharmacology and toxicology 26566154 Annu Rev Pharmacol Toxicol 2016 https://www.ncbi.nlm.nih.gov/pubmed/26566154
Simplified prototyping of perfusable polystyrene microfluidics. Tran R, Ahn B, Myers DR, Qiu Y, Sakurai Y, Moot R, Mihevc E, Trent Spencer H, Doering C, A Lam W Biomicrofluidics 25379106 Biomicrofluidics 2014 Jul https://www.ncbi.nlm.nih.gov/pubmed/25379106
Platelet mechanosensing of substrate stiffness during clot formation mediates adhesion, spreading, and activation. Qiu Y, Brown AC, Myers DR, Sakurai Y, Mannino RG, Tran R, Ahn B, Hardy ET, Kee MF, Kumar S, Bao G, Barker TH, Lam WA Proceedings of the National Academy of Sciences of the United States of America 25246564 Proc Natl Acad Sci U S A 2014 Oct 7 https://www.ncbi.nlm.nih.gov/pubmed/25246564
Chromatin dynamics. Hübner MR, Spector DL Annual review of biophysics 20462379 Annu Rev Biophys 2010 https://www.ncbi.nlm.nih.gov/pubmed/20462379
An unexpected ending: noncanonical 3' end processing mechanisms. Wilusz JE, Spector DL RNA (New York, N.Y.) 20007330 RNA 2010 Feb https://www.ncbi.nlm.nih.gov/pubmed/20007330
Bioimaging: second window for in vivo imaging. Smith AM, Mancini MC, Nie S Nature nanotechnology 19898521 Nat Nanotechnol 2009 Nov https://www.ncbi.nlm.nih.gov/pubmed/19898521
The RAG2 C terminus suppresses genomic instability and lymphomagenesis. Deriano L, Chaumeil J, Coussens M, Multani A, Chou Y, Alekseyenko AV, Chang S, Skok JA, Roth DB Nature 21368836 Nature 2011 Mar 3 https://www.ncbi.nlm.nih.gov/pubmed/21368836
Gene correction by homologous recombination with zinc finger nucleases in primary cells from a mouse model of a generic recessive genetic disease. Connelly JP, Barker JC, Pruett-Miller S, Porteus MH Molecular therapy : the journal of the American Society of Gene Therapy 20389291 Mol Ther 2010 Jun https://www.ncbi.nlm.nih.gov/pubmed/20389291
Pomalidomide augments fetal hemoglobin production without the myelosuppressive effects of hydroxyurea in transgenic sickle cell mice. Meiler SE, Wade M, Kutlar F, Yerigenahally SD, Xue Y, Moutouh-de Parseval LA, Corral LG, Swerdlow PS, Kutlar A Blood 21536862 Blood 2011 Jul 28 https://www.ncbi.nlm.nih.gov/pubmed/21536862
Nuclear neighborhoods and gene expression. Zhao R, Bodnar MS, Spector DL Current opinion in genetics & development 19339170 Curr Opin Genet Dev 2009 Apr https://www.ncbi.nlm.nih.gov/pubmed/19339170
Modifying the function of DNA repair nanomachines for therapeutic benefit. Dynan WS, Takeda Y, Li S Nanomedicine : nanotechnology, biology, and medicine 17292118 Nanomedicine 2006 Jun https://www.ncbi.nlm.nih.gov/pubmed/17292118
Porous-wall hollow glass microspheres as novel potential nanocarriers for biomedical applications. Li S, Nguyen L, Xiong H, Wang M, Hu TC, She JX, Serkiz SM, Wicks GG, Dynan WS Nanomedicine : nanotechnology, biology, and medicine 19616128 Nanomedicine 2010 Feb https://www.ncbi.nlm.nih.gov/pubmed/19616128
Intranuclear delivery of a novel antibody-derived radiosensitizer targeting the DNA-dependent protein kinase catalytic subunit. Xiong H, Lee RJ, Haura EB, Edwards JG, Dynan WS, Li S International journal of radiation oncology, biology, physics 22138455 Int J Radiat Oncol Biol Phys 2012 Jul 1 https://www.ncbi.nlm.nih.gov/pubmed/22138455
Translating the lessons from gene therapy to the development of regenerative medicine. Porteus M Molecular therapy : the journal of the American Society of Gene Therapy 21358706 Mol Ther 2011 Mar https://www.ncbi.nlm.nih.gov/pubmed/21358706
Role of H3K27 demethylases Jmjd3 and UTX in transcriptional regulation. Hübner MR, Spector DL Cold Spring Harbor symposia on quantitative biology 21209387 Cold Spring Harb Symp Quant Biol 2010 https://www.ncbi.nlm.nih.gov/pubmed/21209387
Quantum dot-fluorescent protein FRET probes for sensing intracellular pH. Dennis AM, Rhee WJ, Sotto D, Dublin SN, Bao G ACS nano 22443420 ACS Nano 2012 Apr 24 https://www.ncbi.nlm.nih.gov/pubmed/22443420
CRISPR/Cas9 systems targeting β-globin and CCR5 genes have substantial off-target activity. Cradick TJ, Fine EJ, Antico CJ, Bao G Nucleic acids research 23939622 Nucleic Acids Res 2013 Nov https://www.ncbi.nlm.nih.gov/pubmed/23939622
TALENs facilitate targeted genome editing in human cells with high specificity and low cytotoxicity. Mussolino C, Alzubi J, Fine EJ, Morbitzer R, Cradick TJ, Lahaye T, Bao G, Cathomen T Nucleic acids research 24792154 Nucleic Acids Res 2014 Jun https://www.ncbi.nlm.nih.gov/pubmed/24792154
CRISPR/Cas9 Genome Engineering in Engraftable Human Brain-Derived Neural Stem Cells. Dever DP, Scharenberg SG, Camarena J, Kildebeck EJ, Clark JT, Martin RM, Bak RO, Tang Y, Dohse M, Birgmeier JA, Jagadeesh KA, Bejerano G, Tsukamoto A, Gomez-Ospina N, Uchida N, Porteus MH iScience 31132746 iScience 2019 May 31 https://www.ncbi.nlm.nih.gov/pubmed/31132746
Understanding and re-engineering nucleoprotein machines to cure human disease. Dynan W, Takeda Y, Roth D, Bao G Nanomedicine (London, England) 18393669 Nanomedicine (Lond) 2008 Feb https://www.ncbi.nlm.nih.gov/pubmed/18393669
Homologous recombination-based gene therapy for the primary immunodeficiencies. Porteus M Annals of the New York Academy of Sciences 22236437 Ann N Y Acad Sci 2011 Dec https://www.ncbi.nlm.nih.gov/pubmed/22236437
Imaging dynamic cellular events with quantum dots The bright future. Smith AM, Wen MM, Nie S The biochemist 20824157 Biochem (Lond) 2010 Jun 1 https://www.ncbi.nlm.nih.gov/pubmed/20824157
NANOSTRUCTURED PROBES FOR IN VIVO GENE DETECTION. Bao G, Santangelo P, Nitin N, Rhee WJ Nanomedicine : design and applications of magnetic nanomaterials, nanosensors, and nanosystems 22138717 Nanomedicine (Chichester) 2010 https://www.ncbi.nlm.nih.gov/pubmed/22138717
Designing and testing the activities of TAL effector nucleases. Lin Y, Cradick TJ, Bao G Methods in molecular biology (Clifton, N.J.) 24557905 Methods Mol Biol 2014 https://www.ncbi.nlm.nih.gov/pubmed/24557905
Identification of off-target cleavage sites of zinc finger nucleases and TAL effector nucleases using predictive models. Fine EJ, Cradick TJ, Bao G Methods in molecular biology (Clifton, N.J.) 24557916 Methods Mol Biol 2014 https://www.ncbi.nlm.nih.gov/pubmed/24557916
An online bioinformatics tool predicts zinc finger and TALE nuclease off-target cleavage. Fine EJ, Cradick TJ, Zhao CL, Lin Y, Bao G Nucleic acids research 24381193 Nucleic Acids Res 2014 Apr https://www.ncbi.nlm.nih.gov/pubmed/24381193
Physical Principles of Nanoparticle Cellular Endocytosis. Zhang S, Gao H, Bao G ACS nano 26256227 ACS Nano 2015 Sep 22 https://www.ncbi.nlm.nih.gov/pubmed/26256227
Genome Editing of the Blood: Opportunities and Challenges. Porteus MH Current stem cell reports 26029496 Curr Stem Cell Rep 2015 Mar 1 https://www.ncbi.nlm.nih.gov/pubmed/26029496
Delivery of siRNA to ovarian cancer cells using laser-activated carbon nanoparticles. Sengupta A, Mezencev R, McDonald JF, Prausnitz MR Nanomedicine (London, England) 26080699 Nanomedicine (Lond) 2015 https://www.ncbi.nlm.nih.gov/pubmed/26080699
Somatic genome editing with CRISPR/Cas9 generates and corrects a metabolic disease. Jarrett KE, Lee CM, Yeh YH, Hsu RH, Gupta R, Zhang M, Rodriguez PJ, Lee CS, Gillard BK, Bissig KD, Pownall HJ, Martin JF, Bao G, Lagor WR Scientific reports 28300165 Sci Rep 2017 Mar 16 https://www.ncbi.nlm.nih.gov/pubmed/28300165
Design and Validation of CRISPR/Cas9 Systems for Targeted Gene Modification in Induced Pluripotent Stem Cells. Lee CM, Zhu H, Davis TH, Deshmukh H, Bao G Methods in molecular biology (Clifton, N.J.) 27709565 Methods Mol Biol 2017 https://www.ncbi.nlm.nih.gov/pubmed/27709565
Protein Mechanics: A New Frontier in Biomechanics. Bao G Experimental mechanics 19809588 Exp Mech 2009 Feb 1 https://www.ncbi.nlm.nih.gov/pubmed/19809588
Surface ligand effects on metal-affinity coordination to quantum dots: implications for nanoprobe self-assembly. Dennis AM, Sotto DC, Mei BC, Medintz IL, Mattoussi H, Bao G Bioconjugate chemistry 20568725 Bioconjug Chem 2010 Jul 21 https://www.ncbi.nlm.nih.gov/pubmed/20568725
Tat peptide is capable of importing large nanoparticles across nuclear membrane in digitonin permeabilized cells. Nitin N, LaConte L, Rhee WJ, Bao G Annals of biomedical engineering 19657743 Ann Biomed Eng 2009 Oct https://www.ncbi.nlm.nih.gov/pubmed/19657743
Long noncoding RNAs: functional surprises from the RNA world. Wilusz JE, Sunwoo H, Spector DL Genes & development 19571179 Genes Dev 2009 Jul 1 https://www.ncbi.nlm.nih.gov/pubmed/19571179
Bright and compact alloyed quantum dots with broadly tunable near-infrared absorption and fluorescence spectra through mercury cation exchange. Smith AM, Nie S Journal of the American Chemical Society 21142154 J Am Chem Soc 2011 Jan 12 https://www.ncbi.nlm.nih.gov/pubmed/21142154
Sequences in PSF/SFPQ mediate radioresistance and recruitment of PSF/SFPQ-containing complexes to DNA damage sites in human cells. Ha K, Takeda Y, Dynan WS DNA repair 21144806 DNA Repair (Amst) 2011 Mar 7 https://www.ncbi.nlm.nih.gov/pubmed/21144806
Nuclear speckles. Spector DL, Lamond AI Cold Spring Harbor perspectives in biology 20926517 Cold Spring Harb Perspect Biol 2011 Feb 1 https://www.ncbi.nlm.nih.gov/pubmed/20926517
Biogenesis and function of nuclear bodies. Mao YS, Zhang B, Spector DL Trends in genetics : TIG 21680045 Trends Genet 2011 Aug https://www.ncbi.nlm.nih.gov/pubmed/21680045
Chromatin meets its organizers. Bodnar MS, Spector DL Cell 23746835 Cell 2013 Jun 6 https://www.ncbi.nlm.nih.gov/pubmed/23746835
Endothelialized microfluidics for studying microvascular interactions in hematologic diseases. Myers DR, Sakurai Y, Tran R, Ahn B, Hardy ET, Mannino R, Kita A, Tsai M, Lam WA Journal of visualized experiments : JoVE 22760254 J Vis Exp 2012 Jun 22 https://www.ncbi.nlm.nih.gov/pubmed/22760254
The Role of DNA Mismatch Repair and Recombination in the Processing of DNA Alkylating Damage in Living Yeast Cells. Flores-Rozas H, Jaafar L, Xia L Advances in bioscience and biotechnology (Print) 26900494 Adv Biosci Biotechnol 2015 https://www.ncbi.nlm.nih.gov/pubmed/26900494
The Neisseria meningitidis CRISPR-Cas9 System Enables Specific Genome Editing in Mammalian Cells. Lee CM, Cradick TJ, Bao G Molecular therapy : the journal of the American Society of Gene Therapy 26782639 Mol Ther 2016 Mar https://www.ncbi.nlm.nih.gov/pubmed/26782639
Treating hemoglobinopathies using gene-correction approaches: promises and challenges. Cottle RN, Lee CM, Bao G Human genetics 27314256 Hum Genet 2016 Sep https://www.ncbi.nlm.nih.gov/pubmed/27314256
Towards a new era in medicine: therapeutic genome editing. Porteus MH Genome biology 26694713 Genome Biol 2015 Dec 22 https://www.ncbi.nlm.nih.gov/pubmed/26694713
Multiplexed genetic engineering of human hematopoietic stem and progenitor cells using CRISPR/Cas9 and AAV6. Bak RO, Dever DP, Reinisch A, Cruz Hernandez D, Majeti R, Porteus MH eLife 28956530 Elife 2017 Sep 28 https://www.ncbi.nlm.nih.gov/pubmed/28956530
Zinc-finger nuclease-mediated gene correction using single AAV vector transduction and enhancement by Food and Drug Administration-approved drugs. Ellis BL, Hirsch ML, Porter SN, Samulski RJ, Porteus MH Gene therapy 22257934 Gene Ther 2013 Jan https://www.ncbi.nlm.nih.gov/pubmed/22257934
DNA targeting specificity of RNA-guided Cas9 nucleases. Hsu PD, Scott DA, Weinstein JA, Ran FA, Konermann S, Agarwala V, Li Y, Fine EJ, Wu X, Shalem O, Cradick TJ, Marraffini LA, Bao G, Zhang F Nature biotechnology 23873081 Nat Biotechnol 2013 Sep https://www.ncbi.nlm.nih.gov/pubmed/23873081
Next-generation quantum dots. Smith AM, Nie S Nature biotechnology 19668181 Nat Biotechnol 2009 Aug https://www.ncbi.nlm.nih.gov/pubmed/19668181
Use of a microscope stage-mounted Nickel-63 microirradiator for real-time observation of the DNA double-strand break response. Cao Z, Kuhne WW, Steeb J, Merkley MA, Zhou Y, Janata J, Dynan WS Nucleic acids research 20484377 Nucleic Acids Res 2010 Aug https://www.ncbi.nlm.nih.gov/pubmed/20484377
Compact quantum dots for single-molecule imaging. Smith AM, Nie S Journal of visualized experiments : JoVE 23093375 J Vis Exp 2012 Oct 9 https://www.ncbi.nlm.nih.gov/pubmed/23093375
E. coli expression of a soluble, active single-chain antibody variable fragment containing a nuclear localization signal. Xiong H, Li S, Yang Z, Burgess RR, Dynan WS Protein expression and purification 19281848 Protein Expr Purif 2009 Aug https://www.ncbi.nlm.nih.gov/pubmed/19281848
Imaging and tracking of tat peptide-conjugated quantum dots in living cells: new insights into nanoparticle uptake, intracellular transport, and vesicle shedding. Ruan G, Agrawal A, Marcus AI, Nie S Journal of the American Chemical Society 17983227 J Am Chem Soc 2007 Nov 28 https://www.ncbi.nlm.nih.gov/pubmed/17983227
NLS peptide conjugated molecular beacons for visualizing nuclear RNA in living cells. Nitin N, Bao G Bioconjugate chemistry 18939859 Bioconjug Chem 2008 Nov 19 https://www.ncbi.nlm.nih.gov/pubmed/18939859
Yeast display evolution of a kinetically efficient 13-amino acid substrate for lipoic acid ligase. Puthenveetil S, Liu DS, White KA, Thompson S, Ting AY Journal of the American Chemical Society 19863063 J Am Chem Soc 2009 Nov 18 https://www.ncbi.nlm.nih.gov/pubmed/19863063
Chemically modified guide RNAs enhance CRISPR-Cas genome editing in human primary cells. Hendel A, Bak RO, Clark JT, Kennedy AB, Ryan DE, Roy S, Steinfeld I, Lunstad BD, Kaiser RJ, Wilkens AB, Bacchetta R, Tsalenko A, Dellinger D, Bruhn L, Porteus MH Nature biotechnology 26121415 Nat Biotechnol 2015 Sep https://www.ncbi.nlm.nih.gov/pubmed/26121415
Drug delivery: Puncturing cells en masse. Prausnitz MR Nature materials 25899907 Nat Mater 2015 May https://www.ncbi.nlm.nih.gov/pubmed/25899907
Controlled delivery of β-globin-targeting TALENs and CRISPR/Cas9 into mammalian cells for genome editing using microinjection. Cottle RN, Lee CM, Archer D, Bao G Scientific reports 26558999 Sci Rep 2015 Nov 12 https://www.ncbi.nlm.nih.gov/pubmed/26558999
Codon swapping of zinc finger nucleases confers expression in primary cells and in vivo from a single lentiviral vector. Abarrategui-Pontes C, Créneguy A, Thinard R, Fine EJ, Thepenier V, Fournier le RL, Cradick TJ, Bao G, Tesson L, Podevin G, Anegon I, Nguyen TH Current gene therapy 25687502 Curr Gene Ther 2014 https://www.ncbi.nlm.nih.gov/pubmed/25687502
A multifunctional AAV-CRISPR-Cas9 and its host response. Chew WL, Tabebordbar M, Cheng JK, Mali P, Wu EY, Ng AH, Zhu K, Wagers AJ, Church GM Nature methods 27595405 Nat Methods 2016 Oct https://www.ncbi.nlm.nih.gov/pubmed/27595405
Nanomedicine: tiny particles and machines give huge gains. Tong S, Fine EJ, Lin Y, Cradick TJ, Bao G Annals of biomedical engineering 24297494 Ann Biomed Eng 2014 Feb https://www.ncbi.nlm.nih.gov/pubmed/24297494
SAPTA: a new design tool for improving TALE nuclease activity. Lin Y, Fine EJ, Zheng Z, Antico CJ, Voit RA, Porteus MH, Cradick TJ, Bao G Nucleic acids research 24442582 Nucleic Acids Res 2014 Apr https://www.ncbi.nlm.nih.gov/pubmed/24442582
Poloxamer surfactant preserves cell viability during photoacoustic delivery of molecules into cells. Sengupta A, Dwivedi N, Kelly SC, Tucci L, Thadhani NN, Prausnitz MR Biotechnology and bioengineering 25182778 Biotechnol Bioeng 2015 Feb https://www.ncbi.nlm.nih.gov/pubmed/25182778
CRISPR/Cas9 systems have off-target activity with insertions or deletions between target DNA and guide RNA sequences. Lin Y, Cradick TJ, Brown MT, Deshmukh H, Ranjan P, Sarode N, Wile BM, Vertino PM, Stewart FJ, Bao G Nucleic acids research 24838573 Nucleic Acids Res 2014 Jun https://www.ncbi.nlm.nih.gov/pubmed/24838573
Frontiers in bioengineering research. Bao G, Nerem RM Annals of biomedical engineering 24510229 Ann Biomed Eng 2014 Feb https://www.ncbi.nlm.nih.gov/pubmed/24510229
Expanding the substrate tolerance of biotin ligase through exploration of enzymes from diverse species. Slavoff SA, Chen I, Choi YA, Ting AY Journal of the American Chemical Society 18171066 J Am Chem Soc 2008 Jan 30 https://www.ncbi.nlm.nih.gov/pubmed/18171066
An unbiased method for detection of genome-wide off-target effects in cell lines treated with zinc finger nucleases. Lindsay CR, Roth DB Methods in molecular biology (Clifton, N.J.) 24557915 Methods Mol Biol 2014 https://www.ncbi.nlm.nih.gov/pubmed/24557915
CRISPR/Cas9 β-globin gene targeting in human haematopoietic stem cells. Dever DP, Bak RO, Reinisch A, Camarena J, Washington G, Nicolas CE, Pavel-Dinu M, Saxena N, Wilkens AB, Mantri S, Uchida N, Hendel A, Narla A, Majeti R, Weinberg KI, Porteus MH Nature 27820943 Nature 2016 Nov 17 https://www.ncbi.nlm.nih.gov/pubmed/27820943
Spatial control of in vivo CRISPR-Cas9 genome editing via nanomagnets. Zhu H, Zhang L, Tong S, Lee CM, Deshmukh H, Bao G Nature biomedical engineering 30944431 Nat Biomed Eng 2019 Feb https://www.ncbi.nlm.nih.gov/pubmed/30944431
Single-cell detection of mRNA expression using nanofountain-probe electroporated molecular beacons. Giraldo-Vela JP, Kang W, McNaughton RL, Zhang X, Wile BM, Tsourkas A, Bao G, Espinosa HD Small (Weinheim an der Bergstrasse, Germany) 25641752 Small 2015 May https://www.ncbi.nlm.nih.gov/pubmed/25641752
Quantifying on- and off-target genome editing. Hendel A, Fine EJ, Bao G, Porteus MH Trends in biotechnology 25595557 Trends Biotechnol 2015 Feb https://www.ncbi.nlm.nih.gov/pubmed/25595557
Quantifying genome-editing outcomes at endogenous loci with SMRT sequencing. Hendel A, Kildebeck EJ, Fine EJ, Clark J, Punjya N, Sebastiano V, Bao G, Porteus MH Cell reports 24685129 Cell Rep 2014 Apr 10 https://www.ncbi.nlm.nih.gov/pubmed/24685129
Nonrigid registration of 2-D and 3-D dynamic cell nuclei images for improved classification of subcellular particle motion. Kim IH, Chen YC, Spector DL, Eils R, Rohr K IEEE transactions on image processing : a publication of the IEEE Signal Processing Society 20840894 IEEE Trans Image Process 2011 Apr https://www.ncbi.nlm.nih.gov/pubmed/20840894
Chromatin dynamics and gene positioning. Kumaran RI, Thakar R, Spector DL Cell 18358806 Cell 2008 Mar 21 https://www.ncbi.nlm.nih.gov/pubmed/18358806
Self-complementary AAV mediates gene targeting and enhances endonuclease delivery for double-strand break repair. Hirsch ML, Green L, Porteus MH, Samulski RJ Gene therapy 20463753 Gene Ther 2010 Sep https://www.ncbi.nlm.nih.gov/pubmed/20463753
Microenvironmental geometry guides platelet adhesion and spreading: a quantitative analysis at the single cell level. Kita A, Sakurai Y, Myers DR, Rounsevell R, Huang JN, Seok TJ, Yu K, Wu MC, Fletcher DA, Lam WA PloS one 22028878 PLoS One 2011 https://www.ncbi.nlm.nih.gov/pubmed/22028878
A streamlined method for detecting structural variants in cancer genomes by short read paired-end sequencing. Mijušković M, Brown SM, Tang Z, Lindsay CR, Efstathiadis E, Deriano L, Roth DB PloS one 23144753 PLoS One 2012 https://www.ncbi.nlm.nih.gov/pubmed/23144753
Modernizing the nonhomologous end-joining repertoire: alternative and classical NHEJ share the stage. Deriano L, Roth DB Annual review of genetics 24050180 Annu Rev Genet 2013 https://www.ncbi.nlm.nih.gov/pubmed/24050180
Multifunctional nanoparticles for drug delivery and molecular imaging. Bao G, Mitragotri S, Tong S Annual review of biomedical engineering 23642243 Annu Rev Biomed Eng 2013 https://www.ncbi.nlm.nih.gov/pubmed/23642243
53BP1 promotes non-homologous end joining of telomeres by increasing chromatin mobility. Dimitrova N, Chen YC, Spector DL, de Lange T Nature 18931659 Nature 2008 Nov 27 https://www.ncbi.nlm.nih.gov/pubmed/18931659
Regulating enzymatic activity with a photoswitchable affinity label. Harvey JH, Trauner D Chembiochem : a European journal of chemical biology 18085544 Chembiochem 2008 Jan 25 https://www.ncbi.nlm.nih.gov/pubmed/18085544
Lateral Inhibition in the Vertebrate Retina: The Case of the Missing Neurotransmitter. Kramer RH, Davenport CM PLoS biology 26656622 PLoS Biol 2015 Dec https://www.ncbi.nlm.nih.gov/pubmed/26656622
Optochemical control of genetically engineered neuronal nicotinic acetylcholine receptors. Tochitsky I, Banghart MR, Mourot A, Yao JZ, Gaub B, Kramer RH, Trauner D Nature chemistry 22270644 Nat Chem 2012 Jan 10 https://www.ncbi.nlm.nih.gov/pubmed/22270644
Rapid feedback regulation of synaptic efficacy during high-frequency activity at the Drosophila larval neuromuscular junction. Kauwe G, Isacoff EY Proceedings of the National Academy of Sciences of the United States of America 23674684 Proc Natl Acad Sci U S A 2013 May 28 https://www.ncbi.nlm.nih.gov/pubmed/23674684
Optogenetic techniques for the study of native potassium channels. Sandoz G, Levitz J Frontiers in molecular neuroscience 23596388 Front Mol Neurosci 2013 https://www.ncbi.nlm.nih.gov/pubmed/23596388
Pseudomonas aeruginosa homoserine lactone triggers apoptosis and Bak/Bax-independent release of mitochondrial cytochrome C in fibroblasts. Schwarzer C, Fu Z, Shuai S, Babbar S, Zhao G, Li C, Machen TE Cellular microbiology 24438098 Cell Microbiol 2014 Jul https://www.ncbi.nlm.nih.gov/pubmed/24438098
Adeno-associated virus vectors and neurological gene therapy. Ojala DS, Amara DP, Schaffer DV The Neuroscientist : a review journal bringing neurobiology, neurology and psychiatry 24557878 Neuroscientist 2015 Feb https://www.ncbi.nlm.nih.gov/pubmed/24557878
Restoring visual function to blind mice with a photoswitch that exploits electrophysiological remodeling of retinal ganglion cells. Tochitsky I, Polosukhina A, Degtyar VE, Gallerani N, Smith CM, Friedman A, Van Gelder RN, Trauner D, Kaufer D, Kramer RH Neuron 24559673 Neuron 2014 Feb 19 https://www.ncbi.nlm.nih.gov/pubmed/24559673
Stoichiometry and specific assembly of Best ion channels. Bharill S, Fu Z, Palty R, Isacoff EY Proceedings of the National Academy of Sciences of the United States of America 24748110 Proc Natl Acad Sci U S A 2014 Apr 29 https://www.ncbi.nlm.nih.gov/pubmed/24748110
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Restoration of high-sensitivity and adapting vision with a cone opsin. Berry MH, Holt A, Salari A, Veit J, Visel M, Levitz J, Aghi K, Gaub BM, Sivyer B, Flannery JG, Isacoff EY Nature communications 30874546 Nat Commun 2019 Mar 15 https://www.ncbi.nlm.nih.gov/pubmed/30874546
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Pseudomonas aeruginosa Homoserine lactone activates store-operated cAMP and cystic fibrosis transmembrane regulator-dependent Cl- secretion by human airway epithelia. Schwarzer C, Wong S, Shi J, Matthes E, Illek B, Ianowski JP, Arant RJ, Isacoff E, Vais H, Foskett JK, Maiellaro I, Hofer AM, Machen TE The Journal of biological chemistry 20739289 J Biol Chem 2010 Nov 5 https://www.ncbi.nlm.nih.gov/pubmed/20739289
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Omnidirectional 3D nanoplasmonic optical antenna array via soft-matter transformation. Ross BM, Wu LY, Lee LP Nano letters 21661733 Nano Lett 2011 Jul 13 https://www.ncbi.nlm.nih.gov/pubmed/21661733
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Biologically functional cationic phospholipid-gold nanoplasmonic carriers of RNA. Lee SE, Sasaki DY, Perroud TD, Yoo D, Patel KD, Lee LP Journal of the American Chemical Society 19746908 J Am Chem Soc 2009 Oct 7 https://www.ncbi.nlm.nih.gov/pubmed/19746908
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Conformational pathway provides unique sensitivity to a synaptic mGluR. Habrian CH, Levitz J, Vyklicky V, Fu Z, Hoagland A, McCort-Tranchepain I, Acher F, Isacoff EY Nature communications 31804469 Nat Commun 2019 Dec 5 https://www.ncbi.nlm.nih.gov/pubmed/31804469
The mitochondrial Na(+)/Ca(2+) exchanger. Palty R, Sekler I Cell calcium 22430014 Cell Calcium 2012 Jul https://www.ncbi.nlm.nih.gov/pubmed/22430014
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Thapsigargin blocks Pseudomonas aeruginosa homoserine lactone-induced apoptosis in airway epithelia. Schwarzer C, Ravishankar B, Patanwala M, Shuai S, Fu Z, Illek B, Fischer H, Machen TE American journal of physiology. Cell physiology 24598360 Am J Physiol Cell Physiol 2014 May 1 https://www.ncbi.nlm.nih.gov/pubmed/24598360
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Conformational dynamics of a class C G-protein-coupled receptor. Vafabakhsh R, Levitz J, Isacoff EY Nature 26258295 Nature 2015 Aug 27 https://www.ncbi.nlm.nih.gov/pubmed/26258295
Sequential Steps of CRAC Channel Activation. Palty R, Fu Z, Isacoff EY Cell reports 28564609 Cell Rep 2017 May 30 https://www.ncbi.nlm.nih.gov/pubmed/28564609
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The expression pattern of systemically injected AAV9 in the developing mouse retina is determined by age. Byrne LC, Lin YJ, Lee T, Schaffer DV, Flannery JG Molecular therapy : the journal of the American Society of Gene Therapy 25224467 Mol Ther 2015 Feb https://www.ncbi.nlm.nih.gov/pubmed/25224467
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Genetically Targeted Optical Control of an Endogenous G Protein-Coupled Receptor. Donthamsetti PC, Broichhagen J, Vyklicky V, Stanley C, Fu Z, Visel M, Levitz JL, Javitch JA, Trauner D, Isacoff EY Journal of the American Chemical Society 31291105 J Am Chem Soc 2019 Jul 24 https://www.ncbi.nlm.nih.gov/pubmed/31291105
Genetic and optical targeting of neural circuits and behavior--zebrafish in the spotlight. Baier H, Scott EK Current opinion in neurobiology 19781935 Curr Opin Neurobiol 2009 Oct https://www.ncbi.nlm.nih.gov/pubmed/19781935
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A novel adeno-associated viral variant for efficient and selective intravitreal transduction of rat Müller cells. Klimczak RR, Koerber JT, Dalkara D, Flannery JG, Schaffer DV PloS one 19826483 PLoS One 2009 Oct 14 https://www.ncbi.nlm.nih.gov/pubmed/19826483
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Photochemical Restoration of Light Sensitivity in the Degenerated Canine Retina. Nikonov S, Dolgova N, Sudharsan R, Tochitsky I, Iwabe S, Guzman JM, Van Gelder RN, Kramer RH, Aguirre GD, Beltran WA Pharmaceutics 36559205 Pharmaceutics 2022 Dec 3 https://www.ncbi.nlm.nih.gov/pubmed/36559205
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Different mechanisms regulate productive herpes simplex virus 1 (HSV-1) and HSV-2 infections in adult trigeminal neurons. Bertke AS, Ma A, Margolis MS, Margolis TP Journal of virology 23514893 J Virol 2013 Jun https://www.ncbi.nlm.nih.gov/pubmed/23514893
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A Comprehensive Optogenetic Pharmacology Toolkit for In Vivo Control of GABA(A) Receptors and Synaptic Inhibition. Lin WC, Tsai MC, Davenport CM, Smith CM, Veit J, Wilson NM, Adesnik H, Kramer RH Neuron 26606997 Neuron 2015 Dec 2 https://www.ncbi.nlm.nih.gov/pubmed/26606997
A spinal opsin controls early neural activity and drives a behavioral light response. Friedmann D, Hoagland A, Berlin S, Isacoff EY Current biology : CB 25484291 Curr Biol 2015 Jan 5 https://www.ncbi.nlm.nih.gov/pubmed/25484291
Copper regulates rest-activity cycles through the locus coeruleus-norepinephrine system. Xiao T, Ackerman CM, Carroll EC, Jia S, Hoagland A, Chan J, Thai B, Liu CS, Isacoff EY, Chang CJ Nature chemical biology 29867144 Nat Chem Biol 2018 Jul https://www.ncbi.nlm.nih.gov/pubmed/29867144
Plasmon resonance energy transfer (PRET)-based molecular imaging of cytochrome c in living cells. Choi Y, Kang T, Lee LP Nano letters 19093833 Nano Lett 2009 Jan https://www.ncbi.nlm.nih.gov/pubmed/19093833
Remote optical switch for localized and selective control of gene interference. Lee SE, Liu GL, Kim F, Lee LP Nano letters 19128006 Nano Lett 2009 Feb https://www.ncbi.nlm.nih.gov/pubmed/19128006
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Nanoplasmonic gene regulation. Lee SE, Lee LP Current opinion in chemical biology 20888286 Curr Opin Chem Biol 2010 Oct https://www.ncbi.nlm.nih.gov/pubmed/20888286
Optical quantal analysis of synaptic transmission in wild-type and rab3-mutant Drosophila motor axons. Peled ES, Isacoff EY Nature neuroscience 21378971 Nat Neurosci 2011 Apr https://www.ncbi.nlm.nih.gov/pubmed/21378971
A modern ionotropic glutamate receptor with a K(+) selectivity signature sequence. Janovjak H, Sandoz G, Isacoff EY Nature communications 21407198 Nat Commun 2011 https://www.ncbi.nlm.nih.gov/pubmed/21407198
Optical control of calcium affinity in a spiroamido-rhodamine based calcium chelator. Wu L, Dai Y, Marriott G Organic letters 21417245 Org Lett 2011 Apr 15 https://www.ncbi.nlm.nih.gov/pubmed/21417245
Rational design, synthesis, and characterization of highly fluorescent optical switches for high-contrast optical lock-in detection (OLID) imaging microscopy in living cells. Petchprayoon C, Yan Y, Mao S, Marriott G Bioorganic & medicinal chemistry 20674372 Bioorg Med Chem 2011 Feb 1 https://www.ncbi.nlm.nih.gov/pubmed/20674372
Disassembly of a core-satellite nanoassembled substrate for colorimetric biomolecular detection. Waldeisen JR, Wang T, Ross BM, Lee LP ACS nano 21667984 ACS Nano 2011 Jul 26 https://www.ncbi.nlm.nih.gov/pubmed/21667984
Enhanced gene delivery to the neonatal retina through systemic administration of tyrosine-mutated AAV9. Dalkara D, Byrne LC, Lee T, Hoffmann NV, Schaffer DV, Flannery JG Gene therapy 22011645 Gene Ther 2012 Feb https://www.ncbi.nlm.nih.gov/pubmed/22011645
The Brain Prize 2013: the optogenetics revolution. Reiner A, Isacoff EY Trends in neurosciences 24054067 Trends Neurosci 2013 Oct https://www.ncbi.nlm.nih.gov/pubmed/24054067
In vivo-directed evolution of a new adeno-associated virus for therapeutic outer retinal gene delivery from the vitreous. Dalkara D, Byrne LC, Klimczak RR, Visel M, Yin L, Merigan WH, Flannery JG, Schaffer DV Science translational medicine 23761039 Sci Transl Med 2013 Jun 12 https://www.ncbi.nlm.nih.gov/pubmed/23761039
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Bioinspired nanocorals with decoupled cellular targeting and sensing functionality. Wu LY, Ross BM, Hong S, Lee LP Small (Weinheim an der Bergstrasse, Germany) 20108232 Small 2010 Feb 22 https://www.ncbi.nlm.nih.gov/pubmed/20108232
Photochemical restoration of visual responses in blind mice. Polosukhina A, Litt J, Tochitsky I, Nemargut J, Sychev Y, De Kouchkovsky I, Huang T, Borges K, Trauner D, Van Gelder RN, Kramer RH Neuron 22841312 Neuron 2012 Jul 26 https://www.ncbi.nlm.nih.gov/pubmed/22841312
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Nanoengineering ion channels for optical control. Gorostiza P, Isacoff EY Physiology (Bethesda, Md.) 18927200 Physiology (Bethesda) 2008 Oct https://www.ncbi.nlm.nih.gov/pubmed/18927200
Optical switches for remote and noninvasive control of cell signaling. Gorostiza P, Isacoff EY Science (New York, N.Y.) 18927384 Science 2008 Oct 17 https://www.ncbi.nlm.nih.gov/pubmed/18927384
Optogenetic Vision Restoration Using Rhodopsin for Enhanced Sensitivity. Gaub BM, Berry MH, Holt AE, Isacoff EY, Flannery JG Molecular therapy : the journal of the American Society of Gene Therapy 26137852 Mol Ther 2015 Oct https://www.ncbi.nlm.nih.gov/pubmed/26137852
Retinoschisin gene therapy in photoreceptors, Müller glia or all retinal cells in the Rs1h-/- mouse. Byrne LC, Oztürk BE, Lee T, Fortuny C, Visel M, Dalkara D, Schaffer DV, Flannery JG Gene therapy 24694538 Gene Ther 2014 Jun https://www.ncbi.nlm.nih.gov/pubmed/24694538
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N-(3-oxo-acyl) homoserine lactone inhibits tumor growth independent of Bcl-2 proteins. Zhao G, Neely AM, Schwarzer C, Lu H, Whitt AG, Stivers NS, Burlison JA, White C, Machen TE, Li C Oncotarget 26758417 Oncotarget 2016 Feb 2 https://www.ncbi.nlm.nih.gov/pubmed/26758417
Mechanism of Assembly and Cooperativity of Homomeric and Heteromeric Metabotropic Glutamate Receptors. Levitz J, Habrian C, Bharill S, Fu Z, Vafabakhsh R, Isacoff EY Neuron 27641494 Neuron 2016 Oct 5 https://www.ncbi.nlm.nih.gov/pubmed/27641494
Viral-mediated RdCVF and RdCVFL expression protects cone and rod photoreceptors in retinal degeneration. Byrne LC, Dalkara D, Luna G, Fisher SK, Clérin E, Sahel JA, Léveillard T, Flannery JG The Journal of clinical investigation 25415434 J Clin Invest 2015 Jan https://www.ncbi.nlm.nih.gov/pubmed/25415434
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Assessment of visual function and retinal structure following acute light exposure in the light sensitive T4R rhodopsin mutant dog. Iwabe S, Ying GS, Aguirre GD, Beltran WA Experimental eye research 27085210 Exp Eye Res 2016 May https://www.ncbi.nlm.nih.gov/pubmed/27085210
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Assembly stoichiometry of the GluK2/GluK5 kainate receptor complex. Reiner A, Arant RJ, Isacoff EY Cell reports 22509486 Cell Rep 2012 Mar 29 https://www.ncbi.nlm.nih.gov/pubmed/22509486
LiGluR restores visual responses in rodent models of inherited blindness. Caporale N, Kolstad KD, Lee T, Tochitsky I, Dalkara D, Trauner D, Kramer R, Dan Y, Isacoff EY, Flannery JG Molecular therapy : the journal of the American Society of Gene Therapy 21610698 Mol Ther 2011 Jul https://www.ncbi.nlm.nih.gov/pubmed/21610698
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Light-Switchable Ion Channels and Receptors for Optogenetic Interrogation of Neuronal Signaling. Lin WC, Kramer RH Bioconjugate chemistry 29465988 Bioconjug Chem 2018 Apr 18 https://www.ncbi.nlm.nih.gov/pubmed/29465988
Optical Control of Dopamine Receptors Using a Photoswitchable Tethered Inverse Agonist. Donthamsetti PC, Winter N, Schönberger M, Levitz J, Stanley C, Javitch JA, Isacoff EY, Trauner D Journal of the American Chemical Society 29166564 J Am Chem Soc 2017 Dec 27 https://www.ncbi.nlm.nih.gov/pubmed/29166564
Optogenetic Retinal Gene Therapy with the Light Gated GPCR Vertebrate Rhodopsin. Gaub BM, Berry MH, Visel M, Holt A, Isacoff EY, Flannery JG Methods in molecular biology (Clifton, N.J.) 29188513 Methods Mol Biol 2018 https://www.ncbi.nlm.nih.gov/pubmed/29188513
Two-photon brightness of azobenzene photoswitches designed for glutamate receptor optogenetics. Carroll EC, Berlin S, Levitz J, Kienzler MA, Yuan Z, Madsen D, Larsen DS, Isacoff EY Proceedings of the National Academy of Sciences of the United States of America 25653339 Proc Natl Acad Sci U S A 2015 Feb 17 https://www.ncbi.nlm.nih.gov/pubmed/25653339
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