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Harris H. Wang, Ph.D. - Publications

Affiliations: 
2010 Harvard University, Cambridge, MA, United States 
Area:
Computational Genetics
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55 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2024 Gelsinger DR, Vo PLH, Klompe SE, Ronda C, Wang HH, Sternberg SH. Bacterial genome engineering using CRISPR-associated transposases. Nature Protocols. PMID 38216671 DOI: 10.1038/s41596-023-00927-3  0.478
2023 Liu L, Huang Y, Wang HH. Fast and efficient template-mediated synthesis of genetic variants. Nature Methods. PMID 37127666 DOI: 10.1038/s41592-023-01868-1  0.375
2023 Gelsinger DR, Vo PLH, Klompe SE, Ronda C, Wang H, Sternberg SH. Bacterial genome engineering using CRISPR RNA-guided transposases. Biorxiv : the Preprint Server For Biology. PMID 36993567 DOI: 10.1101/2023.03.18.533263  0.486
2023 Huang Y, Sheth RU, Zhao S, Cohen LA, Dabaghi K, Moody T, Sun Y, Ricaurte D, Richardson M, Velez-Cortes F, Blazejewski T, Kaufman A, Ronda C, Wang HH. High-throughput microbial culturomics using automation and machine learning. Nature Biotechnology. PMID 36805559 DOI: 10.1038/s41587-023-01674-2  0.314
2022 Trolle J, McBee RM, Kaufman A, Pinglay S, Berger H, German S, Liu L, Shen MJ, Guo X, Martin JA, Pacold ME, Jones DR, Boeke JD, Wang HH. Resurrecting essential amino acid biosynthesis in mammalian cells. Elife. 11. PMID 36165439 DOI: 10.7554/eLife.72847  0.321
2021 Park J, Wang HH. Systematic dissection of σ sequence diversity and function in bacteria. Cell Reports. 36: 109590. PMID 34433066 DOI: 10.1016/j.celrep.2021.109590  0.35
2020 Vo PLH, Ronda C, Klompe SE, Chen EE, Acree C, Wang HH, Sternberg SH. CRISPR RNA-guided integrases for high-efficiency, multiplexed bacterial genome engineering. Nature Biotechnology. PMID 33230293 DOI: 10.1038/s41587-020-00745-y  0.422
2020 Yim SS, Johns NI, Noireaux V, Wang HH. Protecting linear DNA templates in cell-free expression systems from diverse bacteria. Acs Synthetic Biology. PMID 32926785 DOI: 10.1021/Acssynbio.0C00277  0.319
2020 Ho HI, Fang JR, Cheung J, Wang HH. Programmable CRISPR-Cas transcriptional activation in bacteria. Molecular Systems Biology. 16: e9427. PMID 32657546 DOI: 10.15252/Msb.20199427  0.37
2020 Gomes ALC, Johns NI, Yang A, Velez-Cortes F, Smillie CS, Smith MB, Alm EJ, Wang HH. Genome and sequence determinants governing the expression of horizontally acquired DNA in bacteria. The Isme Journal. PMID 32514119 DOI: 10.1038/S41396-020-0696-1  0.485
2020 Munck C, Sheth RU, Freedberg DE, Wang HH. Recording mobile DNA in the gut microbiota using an Escherichia coli CRISPR-Cas spacer acquisition platform. Nature Communications. 11: 95. PMID 31911609 DOI: 10.1038/S41467-019-14012-5  0.428
2019 Huang Y, Sheth RU, Kaufman A, Wang HH. Scalable and cost-effective ribonuclease-based rRNA depletion for transcriptomics. Nucleic Acids Research. PMID 31879761 DOI: 10.1093/Nar/Gkz1169  0.321
2019 Chen SP, Wang HH. An Engineered Cas-Transposon System for Programmable and Site-Directed DNA Transpositions. The Crispr Journal. PMID 31742433 DOI: 10.1089/crispr.2019.0030  0.327
2019 Konaté MM, Plata G, Park J, Usmanova DR, Wang H, Vitkup D. Molecular function limits divergent protein evolution on planetary timescales. Elife. 8. PMID 31532392 DOI: 10.7554/Elife.39705  0.341
2019 Yim SS, Johns NI, Park J, Gomes AL, McBee RM, Richardson M, Ronda C, Chen SP, Garenne D, Noireaux V, Wang HH. Multiplex transcriptional characterizations across diverse bacterial species using cell-free systems. Molecular Systems Biology. 15: e8875. PMID 31464371 DOI: 10.15252/Msb.20198875  0.359
2019 Blazejewski T, Ho HI, Wang HH. Synthetic sequence entanglement augments stability and containment of genetic information in cells. Science (New York, N.Y.). 365: 595-598. PMID 31395784 DOI: 10.1126/Science.Aav5477  0.421
2019 Sheth RU, Li M, Jiang W, Sims PA, Leong KW, Wang HH. Spatial metagenomic characterization of microbial biogeography in the gut. Nature Biotechnology. PMID 31332325 DOI: 10.1038/S41587-019-0183-2  0.308
2019 Ronda C, Chen SP, Cabral V, Yaung SJ, Wang HH. Metagenomic engineering of the mammalian gut microbiome in situ. Nature Methods. PMID 30643213 DOI: 10.1038/S41592-018-0301-Y  0.406
2018 Park J, Wang HH. Systematic and synthetic approaches to rewire regulatory networks. Current Opinion in Systems Biology. 8: 90-96. PMID 30637352 DOI: 10.1016/J.Coisb.2017.12.009  0.311
2018 Brunk E, Chang RL, Xia J, Hefzi H, Yurkovich JT, Kim D, Buckmiller E, Wang HH, Cho BK, Yang C, Palsson BO, Church GM, Lewis NE. Characterizing posttranslational modifications in prokaryotic metabolism using a multiscale workflow. Proceedings of the National Academy of Sciences of the United States of America. PMID 30301795 DOI: 10.1073/Pnas.1811971115  0.669
2018 Johns NI, Gomes ALC, Yim SS, Yang A, Blazejewski T, Smillie CS, Smith MB, Alm EJ, Kosuri S, Wang HH. Metagenomic mining of regulatory elements enables programmable species-selective gene expression. Nature Methods. 15: 323-329. PMID 30052624 DOI: 10.1038/Nmeth.4633  0.709
2017 Sheth RU, Yim SS, Wu FL, Wang HH. Multiplex recording of cellular events over time on CRISPR biological tape. Science (New York, N.Y.). PMID 29170279 DOI: 10.1126/Science.Aao0958  0.353
2016 Kelsic ED, Chung H, Cohen N, Park J, Wang HH, Kishony R. RNA Structural Determinants of Optimal Codons Revealed by MAGE-Seq. Cell Systems. 3: 563-571.e6. PMID 28009265 DOI: 10.1016/J.Cels.2016.11.004  0.38
2016 Stockman VB, Ghamsari L, Lasso G, Honig B, Shapira SD, Wang HH. A High-Throughput Strategy for Dissecting Mammalian Genetic Interactions. Plos One. 11: e0167617. PMID 27936040 DOI: 10.1371/journal.pone.0167617  0.34
2016 Boeke JD, Church G, Hessel A, Kelley NJ, Arkin A, Cai Y, Carlson R, Chakravarti A, Cornish VW, Holt L, Isaacs FJ, Kuiken T, Lajoie M, Lessor T, Lunshof J, ... ... Wang H, et al. The Genome Project-Write. Science (New York, N.Y.). PMID 27256881 DOI: 10.1126/Science.Aaf6850  0.801
2016 Utrilla J, O'Brien EJ, Chen K, McCloskey D, Cheung J, Wang H, Armenta-Medina D, Feist AM, Palsson BO. Global Rebalancing of Cellular Resources by Pleiotropic Point Mutations Illustrates a Multi-scale Mechanism of Adaptive Evolution. Cell Systems. 2: 260-271. PMID 27135538 DOI: 10.1016/J.Cels.2016.04.003  0.314
2016 Gomes AL, Wang HH. The Role of Genome Accessibility in Transcription Factor Binding in Bacteria. Plos Computational Biology. 12: e1004891. PMID 27104615 DOI: 10.1371/Journal.Pcbi.1004891  0.442
2016 Sheth RU, Cabral V, Chen SP, Wang HH. Manipulating Bacterial Communities by in situ Microbiome Engineering. Trends in Genetics : Tig. PMID 26916078 DOI: 10.1016/J.Tig.2016.01.005  0.395
2016 Yang L, Zhou Y, Wu Y, Meng X, Jiang Y, Zhang H, Wang H. Preparation and physicochemical properties of three types of modified glutinous rice starches Carbohydrate Polymers. 137: 305-313. DOI: 10.1016/j.carbpol.2015.10.065  0.344
2015 Qi L, Sun X, Li FE, Zhu BS, Braun FK, Liu ZQ, Tang JL, Wu C, Xu F, Wang HH, Velasquez LA, Zhao K, Lei FR, Zhang JG, Shen YT, et al. HMGB1 Promotes Mitochondrial Dysfunction-Triggered Striatal Neurodegeneration via Autophagy and Apoptosis Activation. Plos One. 10: e0142901. PMID 26565401 DOI: 10.1371/journal.pone.0142901  0.336
2015 Wang HH, Shi WJ, Hou L, Li GP, Zhu Z, Wang YY. A Cationic MOF with High Uptake and Selectivity for CO2 due to Multiple CO2 -Philic Sites. Chemistry (Weinheim An Der Bergstrasse, Germany). PMID 26417961 DOI: 10.1002/chem.201502532  0.349
2015 Tasoff J, Mee MT, Wang HH. An Economic Framework of Microbial Trade. Plos One. 10: e0132907. PMID 26222307 DOI: 10.1371/Journal.Pone.0132907  0.303
2015 Xie FY, Feng YL, Wang HH, Ma YF, Yang Y, Wang YC, Shen W, Pan QJ, Yin S, Sun YJ, Ma JY. De Novo Assembly of the Donkey White Blood Cell Transcriptome and a Comparative Analysis of Phenotype-Associated Genes between Donkeys and Horses. Plos One. 10: e0133258. PMID 26208029 DOI: 10.1371/journal.pone.0133258  0.367
2015 Yaung SJ, Deng L, Li N, Braff JL, Church GM, Bry L, Wang HH, Gerber GK. Improving microbial fitness in the mammalian gut by in vivo temporal functional metagenomics. Molecular Systems Biology. 11: 788. PMID 26148351 DOI: 10.15252/Msb.20145866  0.617
2015 Yaung SJ, Deng L, Li N, Braff JL, Church GM, Bry L, Wang HH, Gerber GK. Improving microbial fitness in the mammalian gut by in vivo temporal functional metagenomics. Molecular Systems Biology. 11: 788. PMID 25762151 DOI: 10.15252/msb.20145866  0.567
2015 Bonde MT, Kosuri S, Genee HJ, Sarup-Lytzen K, Church GM, Sommer MO, Wang HH. Direct mutagenesis of thousands of genomic targets using microarray-derived oligonucleotides. Acs Synthetic Biology. 4: 17-22. PMID 24856730 DOI: 10.1021/Sb5001565  0.825
2014 Munck C, Gumpert HK, Wallin AI, Wang HH, Sommer MO. Prediction of resistance development against drug combinations by collateral responses to component drugs. Science Translational Medicine. 6: 262ra156. PMID 25391482 DOI: 10.1126/Scitranslmed.3009940  0.639
2014 Oren Y, Smith MB, Johns NI, Kaplan Zeevi M, Biran D, Ron EZ, Corander J, Wang HH, Alm EJ, Pupko T. Transfer of noncoding DNA drives regulatory rewiring in bacteria. Proceedings of the National Academy of Sciences of the United States of America. 111: 16112-7. PMID 25313052 DOI: 10.1073/Pnas.1413272111  0.379
2014 Yaung SJ, Church GM, Wang HH. Recent progress in engineering human-associated microbiomes. Methods in Molecular Biology (Clifton, N.J.). 1151: 3-25. PMID 24838875 DOI: 10.1007/978-1-4939-0554-6_1  0.524
2014 Bonde MT, Klausen MS, Anderson MV, Wallin AI, Wang HH, Sommer MO. MODEST: a web-based design tool for oligonucleotide-mediated genome engineering and recombineering. Nucleic Acids Research. 42: W408-15. PMID 24838561 DOI: 10.1093/Nar/Gku428  0.744
2014 Mee MT, Collins JJ, Church GM, Wang HH. Syntrophic exchange in synthetic microbial communities. Proceedings of the National Academy of Sciences of the United States of America. 111: E2149-56. PMID 24778240 DOI: 10.1073/Pnas.1405641111  0.503
2013 DiCarlo JE, Conley AJ, Penttilä M, Jäntti J, Wang HH, Church GM. Yeast oligo-mediated genome engineering (YOGE). Acs Synthetic Biology. 2: 741-9. PMID 24160921 DOI: 10.1021/Sb400117C  0.822
2013 Lajoie MJ, Rovner AJ, Goodman DB, Aerni HR, Haimovich AD, Kuznetsov G, Mercer JA, Wang HH, Carr PA, Mosberg JA, Rohland N, Schultz PG, Jacobson JM, Rinehart J, Church GM, et al. Genomically recoded organisms expand biological functions. Science (New York, N.Y.). 342: 357-60. PMID 24136966 DOI: 10.1126/Science.1241459  0.732
2013 Esvelt KM, Wang HH. Genome-scale engineering for systems and synthetic biology. Molecular Systems Biology. 9: 641. PMID 23340847 DOI: 10.1038/Msb.2012.66  0.776
2013 Wang HH, Mee MT, Church GM. Applications of Engineered Synthetic Ecosystems Synthetic Biology. 317-325. DOI: 10.1016/B978-0-12-394430-6.00017-0  0.441
2012 Mosberg JA, Gregg CJ, Lajoie MJ, Wang HH, Church GM. Improving lambda red genome engineering in Escherichia coli via rational removal of endogenous nucleases. Plos One. 7: e44638. PMID 22957093 DOI: 10.1371/Journal.Pone.0044638  0.761
2012 Wang HH, Huang PY, Xu G, Haas W, Marblestone A, Li J, Gygi SP, Forster AC, Jewett MC, Church GM. Multiplexed in vivo His-tagging of enzyme pathways for in vitro single-pot multienzyme catalysis. Acs Synthetic Biology. 1: 43-52. PMID 22737598 DOI: 10.1021/Sb3000029  0.761
2012 Mee MT, Wang HH. Engineering ecosystems and synthetic ecologies. Molecular Biosystems. 8: 2470-83. PMID 22722235 DOI: 10.1039/C2Mb25133G  0.399
2012 Carr PA, Wang HH, Sterling B, Isaacs FJ, Lajoie MJ, Xu G, Church GM, Jacobson JM. Enhanced multiplex genome engineering through co-operative oligonucleotide co-selection. Nucleic Acids Research. 40: e132. PMID 22638574 DOI: 10.1093/Nar/Gks455  0.827
2012 Wang HH, Kim H, Cong L, Jeong J, Bang D, Church GM. Genome-scale promoter engineering by coselection MAGE. Nature Methods. 9: 591-3. PMID 22484848 DOI: 10.1038/Nmeth.1971  0.801
2011 Isaacs FJ, Carr PA, Wang HH, Lajoie MJ, Sterling B, Kraal L, Tolonen AC, Gianoulis TA, Goodman DB, Reppas NB, Emig CJ, Bang D, Hwang SJ, Jewett MC, Jacobson JM, et al. Precise manipulation of chromosomes in vivo enables genome-wide codon replacement. Science (New York, N.Y.). 333: 348-53. PMID 21764749 DOI: 10.1126/Science.1205822  0.745
2011 Wang HH, Xu G, Vonner AJ, Church G. Modified bases enable high-efficiency oligonucleotide-mediated allelic replacement via mismatch repair evasion. Nucleic Acids Research. 39: 7336-47. PMID 21609953 DOI: 10.1093/Nar/Gkr183  0.612
2011 Wang HH, Church GM. Multiplexed genome engineering and genotyping methods applications for synthetic biology and metabolic engineering. Methods in Enzymology. 498: 409-26. PMID 21601688 DOI: 10.1016/B978-0-12-385120-8.00018-8  0.689
2010 Wang HH. Synthetic genomes for synthetic biology. Journal of Molecular Cell Biology. 2: 178-9. PMID 20671114 DOI: 10.1093/Jmcb/Mjq015  0.516
2009 Wang HH, Isaacs FJ, Carr PA, Sun ZZ, Xu G, Forest CR, Church GM. Programming cells by multiplex genome engineering and accelerated evolution. Nature. 460: 894-8. PMID 19633652 DOI: 10.1038/Nature08187  0.803
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