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Scot Wolfe PhD

TitleProfessor
InstitutionUMass Chan Medical School
DepartmentMolecular, Cell and Cancer Biology
AddressUMass Chan Medical School
364 Plantation Street LRB-619
Worcester MA 01605
Phone508-856-3953
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    Other Positions
    InstitutionT.H. Chan School of Medicine
    DepartmentBiochemistry and Molecular Biotechnology

    InstitutionT.H. Chan School of Medicine
    DepartmentMolecular, Cell and Cancer Biology

    InstitutionMorningside Graduate School of Biomedical Sciences
    DepartmentBiochemistry and Molecular Pharmacology

    InstitutionMorningside Graduate School of Biomedical Sciences
    DepartmentBioinformatics and Computational Biology

    InstitutionMorningside Graduate School of Biomedical Sciences
    DepartmentInterdisciplinary Graduate Program

    InstitutionMorningside Graduate School of Biomedical Sciences
    DepartmentMD/PhD Program

    InstitutionMorningside Graduate School of Biomedical Sciences
    DepartmentPostbaccalaureate Research Education Program

    InstitutionUMass Chan Programs, Centers and Institutes
    DepartmentBioinformatics and Integrative Biology

    InstitutionUMass Chan Programs, Centers and Institutes
    DepartmentChemical Biology


    Collapse Biography 
    Collapse education and training
    California Institute of Technology, Pasadena, CA, United StatesBSChemistry & Biology
    Harvard University, Cambridge, MA, United StatesAMChemistry
    Harvard University, Cambridge, MA, United StatesPHDOrganic Chemistry

    Collapse Overview 
    Collapse overview

    Academic Background

    Scot Wolfe received his B.S. in Chemistry and Biology from Caltech in 1990, and his Ph.D. from Harvard in Chemistry in 1996. From 1996-2001 he was a post-doctoral fellow at Massachusetts Institute of Technology where his work was supported in part by the Leukemia and Lymphoma Society. In 2001, Dr. Wolfe joined the faculty of UMMS.

    Engineering precise gene editing systems for application in gene therapy and the analysis of gene regulatory networks

    Scot Wolfe My research program is focused on four inter-related areas (see our lab website for more details https://www.umassmed.edu/wolfe-lab/):

    • Engineering programmable nucleases for the targeted cleavage of a single site within a vertebrate genome for gene therapy
    • Applying programmable nucleases for therapeutic genome editing for beta-hemoglobinopathies (Nat Med & Blood) and pathogneic microduplications (Nature)
    • Improving Cas9/Cpf1 delivery systems for somaitc genome editing 
    • Understanding fundamental aspects of protein-DNA recognition
     
    Creating more precise CRISPR/Cas9 nucleases for gene therapy - We are utilzing our expertise in protein engineering and protein-DNA recognition to create hybrid CRISPR/Cas9 nucleases to achieve single-site cleavage precision within the human genome.  Our new gene editing platforms (Cas9-ZFPs and Cas9-Cas9 fusions) provide dramatic improvements in specificity that make them promising tools to serve as the backbone for new cell-based therapeutics or gene therapy reagents. 
     
    Utilizing CRISPR/Cas9 nucleases for therapeutic applications - We are utilizing CRISPR-Cas systems to improve the efficiency of genome editing in a variety of different cell types.  We are particularly interested in editing in CD34+ hematopoietic stem cells with the goal of therapeutically modifying these cells ex vivo to correct a genetic disorder.  These cells would then be returned to the patient through autologous stem cell transplant.  We have projects focused on Sickle cell disease, beta-thalassemia and Chronic granulotomous disease.  We are also working in collaboration with Charles Emerson (UMMS Wellstone Center) on Limb Girdle Muscular Dystrophy and with Christian Mueller (UMMS-RTI) on Hermansky Pudlak Syndrome.    
     
    Improving delivery systems for CRISPR/Cas9 nucleases for therapeutic applications - We are collaborating the the Khvorova, Sontheimer and Watts laboratories (UMMS-RTI) to improve delivery systems for CRISPR-Cas nucleases in the context of the NIH Somatic Cell Genome Editing program.    
     
    Utilizing CRISPR/Cas9 to inactivate latent HIV provirus in reservoir cells - We are collaborating with Jeremy Luban (UMMS – PMM) to lead a team that is investigating the chromatin architecture of latent HIV provirus in reservoir cells.  This data will be used to develop precise Cas9 nucleases and corresponding delivery systems to selectively inactivate provirus in reservoir cells to provide a path toward a functional cure for HIV.  
     
    CRIPSR-Cas9 systems in Zebrafish - We are collaborating with Nathan Lawson (UMMS – MCCB) to develop new and improved CRISPR-Cas tools for genome engineering in zebrafish.  We have used ZFNs, TALENs and Cas9 to make targeted knockouts of a number of genes of interest.  We are currently working to improve the editing efficiency of CRISPR-based systems for targeted gene knock-outs and knock-ins.  
     
    ZFP transcription factors for NF1 - We are collaborating with labs at UMMS and MGH to develop gene therapy tools to restore Neurofibromin expression. This collaborative project is associated with the Gilbert Family Foundation Gene Therapy Initiative  (https://www.gilbertfamilyfoundation.org/gilbert-nf-research-alliance/gilbert-gene-therapy-initiative/).
     
    Protein-DNA recognition - Our research on protein-DNA recognition is focused primarily on two of the most abundant families of DNA-binding domains in metazoans:

    Cys2His2 Zinc fingers & Homeodomains

    We have performed comprehensive analysis of homeodomain and Cys2His2 zinc finger specificities in D. melanogaster – (fruit fly) in collaboration with Michael Brodsky (UMMS-MCCB) & Gary Stormo (Wash. U). We have coupled this data with specificity data from artificial zinc fingers and homeodomains that we have selected using our bacterial one-hybrid system.  Using this information we can build simple qualitative models of recognition that allow the design of homeodomains with novel DNA-binding specificity.  This dataset can also be used to broadly predict the specificity of homeodomains (http://stormo.wustl.edu/flyhd/) and zinc fingers (http://stormo.wustl.edu/ZFModels/).  We continue to explore aspects of DNA recognition by these DNA-binding domain families to both more broadly and accurately predicting the specificity of naturally-occurring family members in all species and for rationally engineering the specificity of these DNA-binding domains for therapeutic development.
     
    B1H selection systems - We have developed a bacterial one-hybrid system for rapidly characterizing the DNA-binding specificities of sequence-specific transcription factors, both naturally-occurring and engineered. Using this technology have characterized >50% all of the sequence-specific transcription factors in the D. melanogaster genome (FlyFactorSurvey) in collaboration with the laboratory of Michael Brodsky (UMMS – MCCB). This dataset is being used to unravel transcription factor regulatory networks within the fly.  This selection system can also be used to select Cys2His2 Zinc finger proteins and homeodomains with novel DNA-binding specificity for therapeutic applications.

    Collapse Rotation Projects

    Potential Rotation Projects

    Improving the Precision of CRISPR/Cas9 nucleases for gene therapy applications:

    We are working to improve the precision of the CRISPR/Cas9 system to generate nucleases that will cleave at only a single site in the genome.  These engineering efforts focus on increasing the DNA-editing precision of Cas9 and using protein engineering to introduce new properties into the nuclease.  Much of this work is now transitioning to the use of Cas9 (and Cas12a) protein-RNA complexes.  These modified nucleases will then be applied to patient derived cell-culture systems for the targeted repair or inactivation of disease-causing alleles.  With the eventual goal of creating therapeutics for Sickle Cell Disease, beta-Thalassemia, HIV, Limb Girdle Muscular Dystrophy, Hermansky Pudlak Syndrome and other monogenic disorders.

    ex vivo genome editing in CD34+ HSPCs:

    We are developing improved Cas9 proteins for delivery ex vivo into CD34+ HSPCs for therapeutic application to sickle cell disease and beta-thalassemia. The goal is to modify the hematopoietic stem cells of a patient to complement the loss of function of the beta-globin gene and then return these cells to the patient through an autologous transplant. 

    Development of Cys2His2 Zinc fingers proteins (ZFPs) as targeted therapeutics:

    We are developing artificial ZFPs for the regulation of target genes to change their gene expression profiles for therapeutic applications.

     


    Collapse Post Docs

    Postdoctoral Fellow Applications are being accepted for one position.

    A position is available to develop Cys2His2 zinc finger proteins (ZFPs) for the treatment of monogenic disorders. This project will focus on the creation of ZFPs with novel DNA-binding specificity to recognize sequence elements within genomic loci of therapeutic interest.  In collaboration with other laboratories, we will evaluate the activity of these ZFP-based gene therapy reagents in vitro and in vivo in relevant disease models. Applicants will also have the opportunity to learn to apply Cas9 and Cas12a editing systems in vivo.



    Collapse Bibliographic 
    Collapse selected publications
    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
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    PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. Zhang H, Bamidele N, Liu P, Ojelabi O, Gao XD, Rodriguez T, Cheng H, Kelly K, Watts JK, Xie J, Gao G, Wolfe SA, Xue W, Sontheimer EJ. Adenine Base Editing In Vivo with a Single Adeno-Associated Virus Vector. GEN Biotechnol. 2022 Jun 01; 1(3):285-299. PMID: 35811581.
      Citations:    
    2. Yang Q, Liu P, Anderson NS, Shpilka T, Du Y, Naresh NU, Li R, Zhu LJ, Luk K, Lavelle J, Zeinert RD, Chien P, Wolfe SA, Haynes CM. LONP-1 and ATFS-1 sustain deleterious heteroplasmy by promoting mtDNA replication in dysfunctional mitochondria. Nat Cell Biol. 2022 02; 24(2):181-193. PMID: 35165413.
      Citations: 1     Fields:    Translation:HumansAnimalsCells
    3. Liang SQ, Liu P, Smith JL, Mintzer E, Maitland S, Dong X, Yang Q, Lee J, Haynes CM, Zhu LJ, Watts JK, Sontheimer EJ, Wolfe SA, Xue W. Genome-wide detection of CRISPR editing in vivo using GUIDE-tag. Nat Commun. 2022 01 21; 13(1):437. PMID: 35064134.
      Citations:    Fields:    Translation:AnimalsCells
    4. Zheng C, Liang SQ, Liu B, Liu P, Kwan SY, Wolfe SA, Xue W. A flexible split prime editor using truncated reverse transcriptase improves dual-AAV delivery in mouse liver. Mol Ther. 2022 03 02; 30(3):1343-1351. PMID: 34998953.
      Citations: 1     Fields:    Translation:Animals
    5. Oikemus SR, Pfister EL, Sapp E, Chase KO, Kennington LA, Hudgens E, Miller R, Zhu LJ, Chaudhary A, Mick EO, Sena-Esteves M, Wolfe SA, DiFiglia M, Aronin N, Brodsky MH. Allele-Specific Knockdown of Mutant Huntingtin Protein via Editing at Coding Region Single Nucleotide Polymorphism Heterozygosities. Hum Gene Ther. 2022 01; 33(1-2):25-36. PMID: 34376056.
      Citations: 3     Fields:    Translation:Animals
    6. Michaelson NM, Malhotra A, Wang Z, Heier L, Tanji K, Wolfe S, Gupta A, MacGowan D. Peripheral neurological complications during COVID-19: A single center experience. J Neurol Sci. 2022 03 15; 434:120118. PMID: 34971857.
      Citations:    Fields:    Translation:HumansCells
    7. Tsagkaraki E, Nicoloro SM, DeSouza T, Solivan-Rivera J, Desai A, Lifshitz LM, Shen Y, Kelly M, Guilherme A, Henriques F, Amrani N, Ibraheim R, Rodriguez TC, Luk K, Maitland S, Friedline RH, Tauer L, Hu X, Kim JK, Wolfe SA, Sontheimer EJ, Corvera S, Czech MP. CRISPR-enhanced human adipocyte browning as cell therapy for metabolic disease. Nat Commun. 2021 11 26; 12(1):6931. PMID: 34836963.
      Citations: 2     Fields:    Translation:HumansAnimalsCells
    8. Ibraheim R, Tai PWL, Mir A, Javeed N, Wang J, Rodríguez TC, Namkung S, Nelson S, Khokhar ES, Mintzer E, Maitland S, Chen Z, Cao Y, Tsagkaraki E, Wolfe SA, Wang D, Pai AA, Xue W, Gao G, Sontheimer EJ. Self-inactivating, all-in-one AAV vectors for precision Cas9 genome editing via homology-directed repair in vivo. Nat Commun. 2021 11 01; 12(1):6267. PMID: 34725353.
      Citations: 7     Fields:    Translation:HumansAnimalsCells
    9. Vinjamur DS, Yao Q, Cole MA, McGuckin C, Ren C, Zeng J, Hossain M, Luk K, Wolfe SA, Pinello L, Bauer DE. ZNF410 represses fetal globin by singular control of CHD4. Nat Genet. 2021 05; 53(5):719-728. PMID: 33859416.
      Citations: 7     Fields:    Translation:HumansAnimalsCells
    10. Liu P, Liang SQ, Zheng C, Mintzer E, Zhao YG, Ponnienselvan K, Mir A, Sontheimer EJ, Gao G, Flotte TR, Wolfe SA, Xue W. Improved prime editors enable pathogenic allele correction and cancer modelling in adult mice. Nat Commun. 2021 04 09; 12(1):2121. PMID: 33837189.
      Citations: 39     Fields:    Translation:HumansAnimalsCells
    11. Saha K, Sontheimer EJ, Brooks PJ, Dwinell MR, Gersbach CA, Liu DR, Murray SA, Tsai SQ, Wilson RC, Anderson DG, Asokan A, Banfield JF, Bankiewicz KS, Bao G, Bulte JWM, Bursac N, Campbell JM, Carlson DF, Chaikof EL, Chen ZY, Cheng RH, Clark KJ, Curiel DT, Dahlman JE, Deverman BE, Dickinson ME, Doudna JA, Ekker SC, Emborg ME, Feng G, Freedman BS, Gamm DM, Gao G, Ghiran IC, Glazer PM, Gong S, Heaney JD, Hennebold JD, Hinson JT, Khvorova A, Kiani S, Lagor WR, Lam KS, Leong KW, Levine JE, Lewis JA, Lutz CM, Ly DH, Maragh S, McCray PB, McDevitt TC, Mirochnitchenko O, Morizane R, Murthy N, Prather RS, Ronald JA, Roy S, Roy S, Sabbisetti V, Saltzman WM, Santangelo PJ, Segal DJ, Shimoyama M, Skala MC, Tarantal AF, Tilton JC, Truskey GA, Vandsburger M, Watts JK, Wells KD, Wolfe SA, Xu Q, Xue W, Yi G, Zhou J. The NIH Somatic Cell Genome Editing program. Nature. 2021 04; 592(7853):195-204. PMID: 33828315.
      Citations: 18     Fields:    Translation:HumansAnimalsCells
    12. Rao S, Yao Y, Soares de Brito J, Yao Q, Shen AH, Watkinson RE, Kennedy AL, Coyne S, Ren C, Zeng J, Serbin AV, Studer S, Ballotti K, Harris CE, Luk K, Stevens CS, Armant M, Pinello L, Wolfe SA, Chiarle R, Shimamura A, Lee B, Newburger PE, Bauer DE. Dissecting ELANE neutropenia pathogenicity by human HSC gene editing. Cell Stem Cell. 2021 05 06; 28(5):833-845.e5. PMID: 33513358.
      Citations: 10     Fields:    Translation:HumansAnimals
    13. Dy CJ, Brogan DM, Rolf L, Ray WZ, Wolfe SW, James AS. A qualitative study of life satisfaction after surgery for adult traumatic brachial plexus injury. Bone Jt Open. 2021 Jan; 2(1):9-15. PMID: 33537671.
      Citations:    
    14. Demirci S, Zeng J, Wu Y, Uchida N, Shen AH, Pellin D, Gamer J, Yapundich M, Drysdale C, Bonanno J, Bonifacino AC, Krouse AE, Linde NS, Engels T, Donahue RE, Haro-Mora JJ, Leonard A, Nassehi T, Luk K, Porter SN, Lazzarotto CR, Tsai SQ, Weiss MJ, Pruett-Miller SM, Wolfe SA, Bauer DE, Tisdale JF. BCL11A enhancer-edited hematopoietic stem cells persist in rhesus monkeys without toxicity. J Clin Invest. 2020 12 01; 130(12):6677-6687. PMID: 32897878.
      Citations: 13     Fields:    Translation:HumansAnimalsCells
    15. Dy CJ, Brogan DM, Rolf L, Ray WZ, Wolfe SW, James AS. Variability in Surgeon Approaches to Emotional Recovery and Expectation Setting After Adult Traumatic Brachial Plexus Injury. J Hand Surg Glob Online. 2021 Jan; 3(1):30-35. PMID: 33537663.
      Citations:    
    16. Nagpal N, Wang J, Zeng J, Lo E, Moon DH, Luk K, Braun RO, Burroughs LM, Keel SB, Reilly C, Lindsley RC, Wolfe SA, Tai AK, Cahan P, Bauer DE, Fong YW, Agarwal S. Small-Molecule PAPD5 Inhibitors Restore Telomerase Activity in Patient Stem Cells. Cell Stem Cell. 2020 06 04; 26(6):896-909.e8. PMID: 32320679.
      Citations: 16     Fields:    Translation:HumansAnimalsCells
    17. Zeng J, Wu Y, Ren C, Bonanno J, Shen AH, Shea D, Gehrke JM, Clement K, Luk K, Yao Q, Kim R, Wolfe SA, Manis JP, Pinello L, Joung JK, Bauer DE. Therapeutic base editing of human hematopoietic stem cells. Nat Med. 2020 04; 26(4):535-541. PMID: 32284612.
      Citations: 65     Fields:    Translation:HumansAnimalsCells
    18. Métais JY, Doerfler PA, Mayuranathan T, Bauer DE, Fowler SC, Hsieh MM, Katta V, Keriwala S, Lazzarotto CR, Luk K, Neel MD, Perry SS, Peters ST, Porter SN, Ryu BY, Sharma A, Shea D, Tisdale JF, Uchida N, Wolfe SA, Woodard KJ, Wu Y, Yao Y, Zeng J, Pruett-Miller S, Tsai SQ, Weiss MJ. Genome editing of HBG1 and HBG2 to induce fetal hemoglobin. Blood Adv. 2019 11 12; 3(21):3379-3392. PMID: 31698466.
      Citations: 45     Fields:    Translation:HumansAnimalsCells
    19. Shin M, Nozaki T, Idrizi F, Isogai S, Ogasawara K, Ishida K, Yuge S, Roscoe B, Wolfe SA, Fukuhara S, Mochizuki N, Deguchi T, Lawson ND. Valves Are a Conserved Feature of the Zebrafish Lymphatic System. Dev Cell. 2019 11 04; 51(3):374-386.e5. PMID: 31564611.
      Citations: 11     Fields:    Translation:AnimalsCells
    20. Sher F, Hossain M, Seruggia D, Schoonenberg VAC, Yao Q, Cifani P, Dassama LMK, Cole MA, Ren C, Vinjamur DS, Macias-Trevino C, Luk K, McGuckin C, Schupp PG, Canver MC, Kurita R, Nakamura Y, Fujiwara Y, Wolfe SA, Pinello L, Maeda T, Kentsis A, Orkin SH, Bauer DE. Rational targeting of a NuRD subcomplex guided by comprehensive in situ mutagenesis. Nat Genet. 2019 07; 51(7):1149-1159. PMID: 31253978.
      Citations: 30     Fields:    Translation:HumansAnimalsCells
    21. Liu P, Luk K, Shin M, Idrizi F, Kwok S, Roscoe B, Mintzer E, Suresh S, Morrison K, Frazão JB, Bolukbasi MF, Ponnienselvan K, Luban J, Zhu LJ, Lawson ND, Wolfe SA. Enhanced Cas12a editing in mammalian cells and zebrafish. Nucleic Acids Res. 2019 05 07; 47(8):4169-4180. PMID: 30892626.
      Citations: 29     Fields:    Translation:HumansAnimalsCells
    22. Iyer S, Suresh S, Guo D, Daman K, Chen JCJ, Liu P, Zieger M, Luk K, Roscoe BP, Mueller C, King OD, Emerson CP, Wolfe SA. Precise therapeutic gene correction by a simple nuclease-induced double-stranded break. Nature. 2019 04; 568(7753):561-565. PMID: 30944467.
      Citations: 49     Fields:    Translation:HumansCells
    23. Wu Y, Zeng J, Roscoe BP, Liu P, Yao Q, Lazzarotto CR, Clement K, Cole MA, Luk K, Baricordi C, Shen AH, Ren C, Esrick EB, Manis JP, Dorfman DM, Williams DA, Biffi A, Brugnara C, Biasco L, Brendel C, Pinello L, Tsai SQ, Wolfe SA, Bauer DE. Highly efficient therapeutic gene editing of human hematopoietic stem cells. Nat Med. 2019 05; 25(5):776-783. PMID: 30911135.
      Citations: 130     Fields:    Translation:HumansCells
    24. Kim D, Luk K, Wolfe SA, Kim JS. Evaluating and Enhancing Target Specificity of Gene-Editing Nucleases and Deaminases. Annu Rev Biochem. 2019 06 20; 88:191-220. PMID: 30883196.
      Citations: 44     Fields:    Translation:HumansCells
    25. Xu S, Luk K, Yao Q, Shen AH, Zeng J, Wu Y, Luo HY, Brendel C, Pinello L, Chui DHK, Wolfe SA, Bauer DE. Editing aberrant splice sites efficiently restores ?-globin expression in ?-thalassemia. Blood. 2019 05 23; 133(21):2255-2262. PMID: 30704988.
      Citations: 26     Fields:    Translation:HumansCells
    26. Bolukbasi MF, Liu P, Luk K, Kwok SF, Gupta A, Amrani N, Sontheimer EJ, Zhu LJ, Wolfe SA. Publisher Correction: Orthogonal Cas9-Cas9 chimeras provide a versatile platform for genome editing. Nat Commun. 2018 12 10; 9(1):5294. PMID: 30531933.
      Citations:    Fields:    
    27. Amrani N, Gao XD, Liu P, Edraki A, Mir A, Ibraheim R, Gupta A, Sasaki KE, Wu T, Donohoue PD, Settle AH, Lied AM, McGovern K, Fuller CK, Cameron P, Fazzio TG, Zhu LJ, Wolfe SA, Sontheimer EJ. NmeCas9 is an intrinsically high-fidelity genome-editing platform. Genome Biol. 2018 12 05; 19(1):214. PMID: 30518407.
      Citations: 38     Fields:    Translation:HumansAnimalsCells
    28. Swygert SG, Senapati S, Bolukbasi MF, Wolfe SA, Lindsay S, Peterson CL. SIR proteins create compact heterochromatin fibers. Proc Natl Acad Sci U S A. 2018 12 04; 115(49):12447-12452. PMID: 30455303.
      Citations: 9     Fields:    Translation:AnimalsCells
    29. Bolukbasi MF, Liu P, Luk K, Kwok SF, Gupta A, Amrani N, Sontheimer EJ, Zhu LJ, Wolfe SA. Orthogonal Cas9-Cas9 chimeras provide a versatile platform for genome editing. Nat Commun. 2018 11 19; 9(1):4856. PMID: 30451839.
      Citations: 15     Fields:    Translation:HumansCells
    30. Pulikkan JA, Hegde M, Ahmad HM, Belaghzal H, Illendula A, Yu J, O'Hagan K, Ou J, Muller-Tidow C, Wolfe SA, Zhu LJ, Dekker J, Bushweller JH, Castilla LH. CBF?-SMMHC Inhibition Triggers Apoptosis by Disrupting MYC Chromatin Dynamics in Acute Myeloid Leukemia. Cell. 2018 06 28; 174(1):172-186.e21. PMID: 29958106.
      Citations: 27     Fields:    Translation:HumansAnimalsCells
    31. Gao XD, Tu LC, Mir A, Rodriguez T, Ding Y, Leszyk J, Dekker J, Shaffer SA, Zhu LJ, Wolfe SA, Sontheimer EJ. C-BERST: defining subnuclear proteomic landscapes at genomic elements with dCas9-APEX2. Nat Methods. 2018 06; 15(6):433-436. PMID: 29735996.
      Citations: 49     Fields:    Translation:HumansCells
    32. Yin H, Song CQ, Suresh S, Kwan SY, Wu Q, Walsh S, Ding J, Bogorad RL, Zhu LJ, Wolfe SA, Koteliansky V, Xue W, Langer R, Anderson DG. Partial DNA-guided Cas9 enables genome editing with reduced off-target activity. Nat Chem Biol. 2018 03; 14(3):311-316. PMID: 29377001.
      Citations: 57     Fields:    Translation:HumansCells
    33. Ou J, Wolfe SA, Brodsky MH, Zhu LJ. motifStack for the analysis of transcription factor binding site evolution. Nat Methods. 2018 01 03; 15(1):8-9. PMID: 29298290.
      Citations: 21     Fields:    Translation:HumansAnimalsCells
    34. Yin H, Song CQ, Suresh S, Wu Q, Walsh S, Rhym LH, Mintzer E, Bolukbasi MF, Zhu LJ, Kauffman K, Mou H, Oberholzer A, Ding J, Kwan SY, Bogorad RL, Zatsepin T, Koteliansky V, Wolfe SA, Xue W, Langer R, Anderson DG. Structure-guided chemical modification of guide RNA enables potent non-viral in vivo genome editing. Nat Biotechnol. 2017 Dec; 35(12):1179-1187. PMID: 29131148.
      Citations: 131     Fields:    Translation:AnimalsCells
    35. Ma L, Boucher JI, Paulsen J, Matuszewski S, Eide CA, Ou J, Eickelberg G, Press RD, Zhu LJ, Druker BJ, Branford S, Wolfe SA, Jensen JD, Schiffer CA, Green MR, Bolon DN. CRISPR-Cas9-mediated saturated mutagenesis screen predicts clinical drug resistance with improved accuracy. Proc Natl Acad Sci U S A. 2017 10 31; 114(44):11751-11756. PMID: 29078326.
      Citations: 21     Fields:    Translation:AnimalsCells
    36. Leonard JL, Leonard DM, Wolfe SA, Liu J, Rivera J, Yang M, Leonard RT, Johnson JPS, Kumar P, Liebmann KL, Tutto AA, Mou Z, Simin KJ. Correction: The Dkk3 gene encodes a vital intracellular regulator of cell proliferation. PLoS One. 2017; 12(9):e0184458. PMID: 28863194.
      Citations: 1     Fields:    
    37. Leonard JL, Leonard DM, Wolfe SA, Liu J, Rivera J, Yang M, Leonard RT, Johnson JPS, Kumar P, Liebmann KL, Tutto AA, Mou Z, Simin KJ. The Dkk3 gene encodes a vital intracellular regulator of cell proliferation. PLoS One. 2017; 12(7):e0181724. PMID: 28738084.
      Citations: 8     Fields:    Translation:AnimalsCells
    38. Zhu LJ, Lawrence M, Gupta A, Pagès H, Kucukural A, Garber M, Wolfe SA. GUIDEseq: a bioconductor package to analyze GUIDE-Seq datasets for CRISPR-Cas nucleases. BMC Genomics. 2017 05 15; 18(1):379. PMID: 28506212.
      Citations: 13     Fields:    
    39. Markert MJ, Zhang Y, Enuameh MS, Reppert SM, Wolfe SA, Merlin C. Genomic Access to Monarch Migration Using TALEN and CRISPR/Cas9-Mediated Targeted Mutagenesis. G3 (Bethesda). 2016 04 07; 6(4):905-15. PMID: 26837953.
      Citations: 32     Fields:    Translation:AnimalsCells
    40. Brunner D, Burke W, Kuang AQ, LaBombard B, Lipschultz B, Wolfe S. Feedback system for divertor impurity seeding based on real-time measurements of surface heat flux in the Alcator C-Mod tokamak. Rev Sci Instrum. 2016 Feb; 87(2):023504. PMID: 26931846.
      Citations: 1     Fields:    
    41. Yin H, Song CQ, Dorkin JR, Zhu LJ, Li Y, Wu Q, Park A, Yang J, Suresh S, Bizhanova A, Gupta A, Bolukbasi MF, Walsh S, Bogorad RL, Gao G, Weng Z, Dong Y, Koteliansky V, Wolfe SA, Langer R, Xue W, Anderson DG. Therapeutic genome editing by combined viral and non-viral delivery of CRISPR system components in vivo. Nat Biotechnol. 2016 Mar; 34(3):328-33. PMID: 26829318.
      Citations: 327     Fields:    Translation:HumansAnimalsCells
    42. Bolukbasi MF, Gupta A, Wolfe SA. Creating and evaluating accurate CRISPR-Cas9 scalpels for genomic surgery. Nat Methods. 2016 Jan; 13(1):41-50. PMID: 26716561.
      Citations: 50     Fields:    Translation:HumansAnimalsCells
    43. Wang JP, Rancy SK, Lee SK, Feinberg JH, Wolfe SW. Shoulder and Elbow Recovery at 2 and 11 Years Following Brachial Plexus Reconstruction. J Hand Surg Am. 2016 Feb; 41(2):173-9. PMID: 26718077.
      Citations: 4     Fields:    Translation:Humans
    44. Sontheimer EJ, Wolfe SA. Cas9 gets a classmate. Nat Biotechnol. 2015 Dec 09; 33(12):1240-1241. PMID: 26650011.
      Citations: 2     Fields:    
    45. Bolukbasi MF, Gupta A, Oikemus S, Derr AG, Garber M, Brodsky MH, Zhu LJ, Wolfe SA. DNA-binding-domain fusions enhance the targeting range and precision of Cas9. Nat Methods. 2015 Dec; 12(12):1150-6. PMID: 26480473.
      Citations: 51     Fields:    Translation:HumansCells
    46. Dy CJ, Lee SK, Mancuso CA, Wolfe SW. In Reply. J Hand Surg Am. 2015 Jul; 40(7):1504-5. PMID: 26095057.
      Citations:    Fields:    Translation:Humans
    47. Blatti C, Kazemian M, Wolfe S, Brodsky M, Sinha S. Integrating motif, DNA accessibility and gene expression data to build regulatory maps in an organism. Nucleic Acids Res. 2015 Apr 30; 43(8):3998-4012. PMID: 25791631.
      Citations: 24     Fields:    Translation:AnimalsCells
    48. Ma H, Naseri A, Reyes-Gutierrez P, Wolfe SA, Zhang S, Pederson T. Multicolor CRISPR labeling of chromosomal loci in human cells. Proc Natl Acad Sci U S A. 2015 Mar 10; 112(10):3002-7. PMID: 25713381.
      Citations: 161     Fields:    Translation:HumansCells
    49. Wang JP, Rancy SK, DiCarlo EF, Wolfe SW. Recurrent pigmented villonodular synovitis and multifocal giant cell tumor of the tendon sheath: case report. J Hand Surg Am. 2015 Mar; 40(3):537-41. PMID: 25577961.
      Citations: 4     Fields:    Translation:Humans
    50. Kok FO, Shin M, Ni CW, Gupta A, Grosse AS, van Impel A, Kirchmaier BC, Peterson-Maduro J, Kourkoulis G, Male I, DeSantis DF, Sheppard-Tindell S, Ebarasi L, Betsholtz C, Schulte-Merker S, Wolfe SA, Lawson ND. Reverse genetic screening reveals poor correlation between morpholino-induced and mutant phenotypes in zebrafish. Dev Cell. 2015 Jan 12; 32(1):97-108. PMID: 25533206.
      Citations: 349     Fields:    Translation:Animals
    51. Dy CJ, Garg R, Lee SK, Tow P, Mancuso CA, Wolfe SW. A systematic review of outcomes reporting for brachial plexus reconstruction. J Hand Surg Am. 2015 Feb; 40(2):308-13. PMID: 25510158.
      Citations: 14     Fields:    Translation:Humans
    52. Weicksel SE, Gupta A, Zannino DA, Wolfe SA, Sagerström CG. Targeted germ line disruptions reveal general and species-specific roles for paralog group 1 hox genes in zebrafish. BMC Dev Biol. 2014 Jun 05; 14:25. PMID: 24902847.
      Citations: 4     Fields:    Translation:AnimalsCells
    53. Gupta A, Christensen RG, Bell HA, Goodwin M, Patel RY, Pandey M, Enuameh MS, Rayla AL, Zhu C, Thibodeau-Beganny S, Brodsky MH, Joung JK, Wolfe SA, Stormo GD. An improved predictive recognition model for Cys(2)-His(2) zinc finger proteins. Nucleic Acids Res. 2014 Apr; 42(8):4800-12. PMID: 24523353.
      Citations: 40     Fields:    Translation:Cells
    54. Kearns NA, Genga RM, Enuameh MS, Garber M, Wolfe SA, Maehr R. Cas9 effector-mediated regulation of transcription and differentiation in human pluripotent stem cells. Development. 2014 Jan; 141(1):219-23. PMID: 24346702.
      Citations: 132     Fields:    Translation:HumansCells
    55. Kok FO, Gupta A, Lawson ND, Wolfe SA. Construction and application of site-specific artificial nucleases for targeted gene editing. Methods Mol Biol. 2014; 1101:267-303. PMID: 24233786.
      Citations: 7     Fields:    Translation:AnimalsCells
    56. Cheng Q, Kazemian M, Pham H, Blatti C, Celniker SE, Wolfe SA, Brodsky MH, Sinha S. Computational identification of diverse mechanisms underlying transcription factor-DNA occupancy. PLoS Genet. 2013; 9(8):e1003571. PMID: 23935523.
      Citations: 31     Fields:    Translation:AnimalsCells
    57. Kazemian M, Pham H, Wolfe SA, Brodsky MH, Sinha S. Widespread evidence of cooperative DNA binding by transcription factors in Drosophila development. Nucleic Acids Res. 2013 Sep; 41(17):8237-52. PMID: 23847101.
      Citations: 46     Fields:    Translation:AnimalsCells
    58. Gupta A, Hall VL, Kok FO, Shin M, McNulty JC, Lawson ND, Wolfe SA. Targeted chromosomal deletions and inversions in zebrafish. Genome Res. 2013 Jun; 23(6):1008-17. PMID: 23478401.
      Citations: 51     Fields:    Translation:AnimalsCells
    59. Enuameh MS, Asriyan Y, Richards A, Christensen RG, Hall VL, Kazemian M, Zhu C, Pham H, Cheng Q, Blatti C, Brasefield JA, Basciotta MD, Ou J, McNulty JC, Zhu LJ, Celniker SE, Sinha S, Stormo GD, Brodsky MH, Wolfe SA. Global analysis of Drosophila Cys?-His? zinc finger proteins reveals a multitude of novel recognition motifs and binding determinants. Genome Res. 2013 Jun; 23(6):928-40. PMID: 23471540.
      Citations: 40     Fields:    Translation:AnimalsCells
    60. Zhu C, Gupta A, Hall VL, Rayla AL, Christensen RG, Dake B, Lakshmanan A, Kuperwasser C, Stormo GD, Wolfe SA. Using defined finger-finger interfaces as units of assembly for constructing zinc-finger nucleases. Nucleic Acids Res. 2013 Feb 01; 41(4):2455-65. PMID: 23303772.
      Citations: 15     Fields:    Translation:HumansAnimalsCells
    61. Merlin C, Beaver LE, Taylor OR, Wolfe SA, Reppert SM. Efficient targeted mutagenesis in the monarch butterfly using zinc-finger nucleases. Genome Res. 2013 Jan; 23(1):159-68. PMID: 23009861.
      Citations: 32     Fields:    Translation:AnimalsCells
    62. Anderson DM, George R, Noyes MB, Rowton M, Liu W, Jiang R, Wolfe SA, Wilson-Rawls J, Rawls A. Characterization of the DNA-binding properties of the Mohawk homeobox transcription factor. J Biol Chem. 2012 Oct 12; 287(42):35351-35359. PMID: 22923612.
      Citations: 11     Fields:    Translation:AnimalsCells
    63. Shin J, Padmanabhan A, de Groh ED, Lee JS, Haidar S, Dahlberg S, Guo F, He S, Wolman MA, Granato M, Lawson ND, Wolfe SA, Kim SH, Solnica-Krezel L, Kanki JP, Ligon KL, Epstein JA, Look AT. Zebrafish neurofibromatosis type 1 genes have redundant functions in tumorigenesis and embryonic development. Dis Model Mech. 2012 Nov; 5(6):881-94. PMID: 22773753.
      Citations: 42     Fields:    Translation:AnimalsCells
    64. Christensen RG, Enuameh MS, Noyes MB, Brodsky MH, Wolfe SA, Stormo GD. Recognition models to predict DNA-binding specificities of homeodomain proteins. Bioinformatics. 2012 Jun 15; 28(12):i84-9. PMID: 22689783.
      Citations: 22     Fields:    Translation:HumansAnimalsCells
    65. Gupta A, Christensen RG, Rayla AL, Lakshmanan A, Stormo GD, Wolfe SA. An optimized two-finger archive for ZFN-mediated gene targeting. Nat Methods. 2012 Jun; 9(6):588-90. PMID: 22543349.
      Citations: 63     Fields:    Translation:AnimalsCells
    66. Chu SW, Noyes MB, Christensen RG, Pierce BG, Zhu LJ, Weng Z, Stormo GD, Wolfe SA. Exploring the DNA-recognition potential of homeodomains. Genome Res. 2012 Oct; 22(10):1889-98. PMID: 22539651.
      Citations: 13     Fields:    Translation:HumansAnimalsCells
    67. Zhu C, Smith T, McNulty J, Rayla AL, Lakshmanan A, Siekmann AF, Buffardi M, Meng X, Shin J, Padmanabhan A, Cifuentes D, Giraldez AJ, Look AT, Epstein JA, Lawson ND, Wolfe SA. Evaluation and application of modularly assembled zinc-finger nucleases in zebrafish. Development. 2011 Oct; 138(20):4555-64. PMID: 21937602.
      Citations: 52     Fields:    Translation:AnimalsCells
    68. Cheng H, Zhang YC, Wolfe S, Valencia V, Qian K, Shen L, Tang YL, Hsu WH, Atkinson MA, Phillips MI. Combinatorial treatment of bone marrow stem cells and stromal cell-derived factor 1 improves glycemia and insulin production in diabetic mice. Mol Cell Endocrinol. 2011 Oct 15; 345(1-2):88-96. PMID: 21801807.
      Citations: 2     Fields:    Translation:HumansAnimalsCells
    69. Lawson ND, Wolfe SA. Forward and reverse genetic approaches for the analysis of vertebrate development in the zebrafish. Dev Cell. 2011 Jul 19; 21(1):48-64. PMID: 21763608.
      Citations: 74     Fields:    Translation:Animals
    70. Christensen RG, Gupta A, Zuo Z, Schriefer LA, Wolfe SA, Stormo GD. A modified bacterial one-hybrid system yields improved quantitative models of transcription factor specificity. Nucleic Acids Res. 2011 Jul; 39(12):e83. PMID: 21507886.
      Citations: 17     Fields:    Translation:Cells
    71. Bussmann J, Wolfe SA, Siekmann AF. Arterial-venous network formation during brain vascularization involves hemodynamic regulation of chemokine signaling. Development. 2011 May; 138(9):1717-26. PMID: 21429983.
      Citations: 86     Fields:    Translation:AnimalsCells
    72. Zhu LJ, Christensen RG, Kazemian M, Hull CJ, Enuameh MS, Basciotta MD, Brasefield JA, Zhu C, Asriyan Y, Lapointe DS, Sinha S, Wolfe SA, Brodsky MH. FlyFactorSurvey: a database of Drosophila transcription factor binding specificities determined using the bacterial one-hybrid system. Nucleic Acids Res. 2011 Jan; 39(Database issue):D111-7. PMID: 21097781.
      Citations: 122     Fields:    Translation:AnimalsCells
    73. Gupta A, Meng X, Zhu LJ, Lawson ND, Wolfe SA. Zinc finger protein-dependent and -independent contributions to the in vivo off-target activity of zinc finger nucleases. Nucleic Acids Res. 2011 Jan; 39(1):381-92. PMID: 20843781.
      Citations: 64     Fields:    Translation:AnimalsCells
    74. Kazemian M, Blatti C, Richards A, McCutchan M, Wakabayashi-Ito N, Hammonds AS, Celniker SE, Kumar S, Wolfe SA, Brodsky MH, Sinha S. Quantitative analysis of the Drosophila segmentation regulatory network using pattern generating potentials. PLoS Biol. 2010 Aug 17; 8(8). PMID: 20808951.
      Citations: 47     Fields:    Translation:AnimalsCells
    75. Cifuentes D, Xue H, Taylor DW, Patnode H, Mishima Y, Cheloufi S, Ma E, Mane S, Hannon GJ, Lawson ND, Wolfe SA, Giraldez AJ. A novel miRNA processing pathway independent of Dicer requires Argonaute2 catalytic activity. Science. 2010 Jun 25; 328(5986):1694-8. PMID: 20448148.
      Citations: 439     Fields:    Translation:HumansAnimalsCells
    76. Siekmann AF, Standley C, Fogarty KE, Wolfe SA, Lawson ND. Chemokine signaling guides regional patterning of the first embryonic artery. Genes Dev. 2009 Oct 01; 23(19):2272-7. PMID: 19797767.
      Citations: 59     Fields:    Translation:AnimalsCells
    77. Ince-Cushman A, Rice JE, Reinke M, Greenwald M, Wallace G, Parker R, Fiore C, Hughes JW, Bonoli P, Shiraiwa S, Hubbard A, Wolfe S, Hutchinson IH, Marmar E, Bitter M, Wilson J, Hill K. Observation of self-generated flows in tokamak plasmas with lower-hybrid-driven current. Phys Rev Lett. 2009 Jan 23; 102(3):035002. PMID: 19257362.
      Citations:    Fields:    
    78. Marx RG, Fives G, Chu SK, Daluiski A, Wolfe SW. Allograft reconstruction for symptomatic chronic complete proximal hamstring tendon avulsion. Knee Surg Sports Traumatol Arthrosc. 2009 Jan; 17(1):19-23. PMID: 18682918.
      Citations: 7     Fields:    Translation:Humans
    79. Noyes MB, Christensen RG, Wakabayashi A, Stormo GD, Brodsky MH, Wolfe SA. Analysis of homeodomain specificities allows the family-wide prediction of preferred recognition sites. Cell. 2008 Jun 27; 133(7):1277-89. PMID: 18585360.
      Citations: 229     Fields:    Translation:HumansAnimalsCells
    80. Meng X, Noyes MB, Zhu LJ, Lawson ND, Wolfe SA. Targeted gene inactivation in zebrafish using engineered zinc-finger nucleases. Nat Biotechnol. 2008 Jun; 26(6):695-701. PMID: 18500337.
      Citations: 325     Fields:    Translation:AnimalsCells
    81. Noyes MB, Meng X, Wakabayashi A, Sinha S, Brodsky MH, Wolfe SA. A systematic characterization of factors that regulate Drosophila segmentation via a bacterial one-hybrid system. Nucleic Acids Res. 2008 May; 36(8):2547-60. PMID: 18332042.
      Citations: 94     Fields:    Translation:AnimalsCells
    82. Meng X, Thibodeau-Beganny S, Jiang T, Joung JK, Wolfe SA. Profiling the DNA-binding specificities of engineered Cys2His2 zinc finger domains using a rapid cell-based method. Nucleic Acids Res. 2007; 35(11):e81. PMID: 17537811.
      Citations: 13     Fields:    Translation:Cells
    83. Meng X, Smith RM, Giesecke AV, Joung JK, Wolfe SA. Counter-selectable marker for bacterial-based interaction trap systems. Biotechniques. 2006 Feb; 40(2):179-84. PMID: 16526407.
      Citations: 11     Fields:    Translation:Cells
    84. Meng X, Wolfe SA. Identifying DNA sequences recognized by a transcription factor using a bacterial one-hybrid system. Nat Protoc. 2006; 1(1):30-45. PMID: 17406209.
      Citations: 30     Fields:    Translation:Cells
    85. Meng X, Brodsky MH, Wolfe SA. A bacterial one-hybrid system for determining the DNA-binding specificity of transcription factors. Nat Biotechnol. 2005 Aug; 23(8):988-94. PMID: 16041365.
      Citations: 102     Fields:    Translation:AnimalsCells
    86. Wolfe SA. Mapping key elements of a protein motif. Chem Biol. 2004 Jul; 11(7):889-91. PMID: 15271344.
      Citations: 1     Fields:    Translation:Cells
    87. Wolfe SA, Grant RA, Pabo CO. Structure of a designed dimeric zinc finger protein bound to DNA. Biochemistry. 2003 Nov 25; 42(46):13401-9. PMID: 14621985.
      Citations: 18     Fields:    Translation:Cells
    88. Fernández MJ, Adrio JL, Piret JM, Wolfe S, Ro S, Demain AL. Stimulatory effect of growth in the presence of alcohols on biotransformation of penicillin G into cephalosporin-type antibiotics by resting cells of Streptomyces clavuligerus NP1. Appl Microbiol Biotechnol. 1999 Oct; 52(4):484-8. PMID: 10570794.
      Citations: 5     Fields:    Translation:Cells
    89. Cho H, Adrio JL, Luengo JM, Wolfe S, Ocran S, Hintermann G, Piret JM, Demain AL. Elucidation of conditions allowing conversion of penicillin G and other penicillins to deacetoxycephalosporins by resting cells and extracts of Streptomyces clavuligerus NP1. Proc Natl Acad Sci U S A. 1998 Sep 29; 95(20):11544-8. PMID: 9751702.
      Citations: 8     Fields:    Translation:Cells
    90. Wolfe SW, Gupta A, Crisco JJ. Kinematics of the scaphoid shift test. J Hand Surg Am. 1997 Sep; 22(5):801-6. PMID: 9330136.
      Citations: 3     Fields:    Translation:Humans
    91. Zhang J, Wolfe S, Demain AL. Biochemical studies on the activity of delta-(L-alpha-aminoadipyl)-L-cysteinyl-D-valine synthetase from Streptomyces clavuligerus. Biochem J. 1992 May 01; 283 ( Pt 3):691-8. PMID: 1590759.
      Citations: 8     Fields:    Translation:Cells
    92. Xiao XF, Wolfe S, Demain AL. Purification and characterization of cephalosporin 7 alpha-hydroxylase from Streptomyces clavuligerus. Biochem J. 1991 Dec 01; 280 ( Pt 2):471-4. PMID: 1747122.
      Citations: 5     Fields:    Translation:Cells
    93. Owen TA, Holthuis J, Markose E, van Wijnen AJ, Wolfe SA, Grimes SR, Lian JB, Stein GS. Modifications of protein-DNA interactions in the proximal promoter of a cell-growth-regulated histone gene during onset and progression of osteoblast differentiation. Proc Natl Acad Sci U S A. 1990 Jul; 87(13):5129-33. PMID: 2367528.
      Citations: 19     Fields:    Translation:HumansAnimalsCells
    94. Jhang J, Wolfe S, Demain AL. Phosphate regulation of ACV synthetase and cephalosporin biosynthesis in Streptomyces clavuligerus. FEMS Microbiol Lett. 1989 Jan 15; 48(2):145-50. PMID: 2721913.
      Citations: 6     Fields:    Translation:Cells
    95. Demain AL, Shen YQ, Jensen SE, Westlake DW, Wolfe S. Further studies on the cyclization of the unnatural tripeptide delta-(D-alpha-aminoadipyl)-L-cysteinyl-D-valine to penicillin N. J Antibiot (Tokyo). 1986 Jul; 39(7):1007-10. PMID: 3759642.
      Citations:    Fields:    Translation:Cells
    96. Shen YQ, Wolfe S, Demain AL. Enzymatic conversion of the unnatural tripeptide delta-(D-alpha-aminoadipyl)-L-cysteinyl-D-valine to beta-lactam antibiotics. J Antibiot (Tokyo). 1984 Sep; 37(9):1044-8. PMID: 6334066.
      Citations: 2     Fields:    Translation:Animals
    97. Hollander IJ, Shen YQ, Heim J, Demain AL, Wolfe S. A pure enzyme catalyzing penicillin biosynthesis. Science. 1984 May 11; 224(4649):610-2. PMID: 6546810.
      Citations: 14     Fields:    Translation:Animals
    98. Shen YQ, Heim J, Solomon NA, Wolfe S, Demain AL. Repression of beta-lactam production in Cephalosporium acremonium by nitrogen sources. J Antibiot (Tokyo). 1984 May; 37(5):503-11. PMID: 6539768.
      Citations: 13     Fields:    Translation:AnimalsCells
    99. Kupka J, Shen YQ, Wolfe S, Demain AL. Studies on the ring-cyclization and ring-expansion enzymes of beta-lactam biosynthesis in Cephalosporium acremonium. Can J Microbiol. 1983 May; 29(5):488-96. PMID: 6688373.
      Citations: 11     Fields:    Translation:Animals
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