View Item 

Show simple item record

Single- Cell Sequencing to Unveil the Mystery of Embryonic Development
dc.contributor.authorLi, Zida
dc.contributor.authorLin, Feng
dc.contributor.authorZhong, Chu-Han
dc.contributor.authorWang, Shue
dc.contributor.authorXue, Xufeng
dc.contributor.authorShao, Yue
dc.date.accessioned2022-03-07T03:12:10Z
dc.date.available2023-03-06 22:12:09en
dc.date.available2022-03-07T03:12:10Z
dc.date.issued2022-02
dc.identifier.citationLi, Zida; Lin, Feng; Zhong, Chu-Han ; Wang, Shue; Xue, Xufeng; Shao, Yue (2022). "Single- Cell Sequencing to Unveil the Mystery of Embryonic Development." Advanced Biology 6(2): n/a-n/a.
dc.identifier.issn2701-0198
dc.identifier.issn2701-0198
dc.identifier.urihttps://hdl.handle.net/2027.42/171848
dc.description.abstractEmbryonic development is a fundamental physiological process that can provide tremendous insights into stem cell biology and regenerative medicine. In this process, cell fate decision is highly heterogeneous and dynamic, and investigations at the single- cell level can greatly facilitate the understanding of the molecular roadmap of embryonic development. Rapid advances in the technology of single- cell sequencing offer a perfectly useful tool to fulfill this purpose. Despite its great promise, single- cell sequencing is highly interdisciplinary, and successful applications in specific biological contexts require a general understanding of its diversity as well as the advantage versus limitations for each of its variants. Here, the technological principles of single- cell sequencing are consolidated and its applications in the study of embryonic development are summarized. First, the technology basics are presented and the available tools for each step including cell isolation, library construction, sequencing, and data analysis are discussed. Then, the works that employed single- cell sequencing are reviewed to investigate the specific processes of embryonic development, including preimplantation, peri- implantation, gastrulation, and organogenesis. Further, insights are provided on existing challenges and future research directions.Embryonic development provides tremendous insights into stem cell biology and regenerative medicine, and single- cell sequencing can greatly facilitate these studies. In this review, the technological principles of single- cell sequencing are consolidated, its applications in the study of embryonic development are summarized, and the future of this exciting research field is looked into.
dc.publisherElsevier
dc.publisherWiley Periodicals, Inc.
dc.subject.othermicrofluidics
dc.subject.othersingle cell
dc.subject.otherembryo development
dc.subject.otherdevelopmental biology
dc.titleSingle- Cell Sequencing to Unveil the Mystery of Embryonic Development
dc.typeArticle
dc.rights.robotsIndexNoFollow
dc.subject.hlbsecondlevelBiology
dc.subject.hlbtoplevelScience
dc.description.peerreviewedPeer Reviewed
dc.description.bitstreamurlhttp://deepblue.lib.umich.edu/bitstream/2027.42/171848/1/adbi202101151.pdf
dc.description.bitstreamurlhttp://deepblue.lib.umich.edu/bitstream/2027.42/171848/2/adbi202101151_am.pdf
dc.identifier.doi10.1002/adbi.202101151
dc.identifier.sourceAdvanced Biology
dc.identifier.citedreferenceW. Stephenson, L. T. Donlin, A. Butler, C. Rozo, B. Bracken, A. Rashidfarrokhi, S. M. Goodman, L. B. Ivashkiv, V. P. Bykerk, D. E. Orange, R. B. Darnell, H. P. Swerdlow, R. Satija, Nat. Commun. 2018, 9, 791.
dc.identifier.citedreferenceB. Li, V. Ruotti, R. M. Stewart, J. A. Thomson, C. N. Dewey, Bioinformatics 2009, 26, 493.
dc.identifier.citedreferenceM. D. Robinson, A. Oshlack, Genome Biol. 2010, 11, R25.
dc.identifier.citedreferenceS. Anders, W. Huber, Genome Biol. 2010, 11, R106.
dc.identifier.citedreferenceF. Abbas- Aghababazadeh, Q. Li, B. L. Fridley, PLoS One 2018, 13, e0206312.
dc.identifier.citedreferenceJ. H. Bullard, E. Purdom, K. D. Hansen, S. Dudoit, BMC Bioinf. 2010, 11, 94.
dc.identifier.citedreferenceD. Risso, K. Schwartz, G. Sherlock, S. Dudoit, BMC Bioinf. 2011, 12, 480.
dc.identifier.citedreferenceL. van der Maaten, G. Hinton, J. Mach. Learn. Res. 2008, 9, 2579.
dc.identifier.citedreferenceD. Kobak, P. Berens, Nat. Commun. 2019, 10, 5416.
dc.identifier.citedreferenceK. R. Moon, D. van Dijk, Z. Wang, W. Chen, M. J. Hirn, R. R. Coifman, N. B. Ivanova, G. Wolf, S. Krishnaswamy, Nat. Biotechnol. 2019, 37, 1482.
dc.identifier.citedreferenceJ. Ding, A. Condon, S. P. Shah, Nat. Commun. 2018, 9, 2002.
dc.identifier.citedreferenceE. Becht, L. Mcinnes, J. Healy, C.- A. Dutertre, I. W. H. Kwok, L. G. Ng, F. Ginhoux, E. W. Newell, Nat. Biotechnol. 2019, 37, 38.
dc.identifier.citedreferenceB. Wang, J. Zhu, E. Pierson, D. Ramazzotti, S. Batzoglou, Nat. Methods 2017, 14, 414.
dc.identifier.citedreferenceS. Petropoulos, D. Edsgärd, B. Reinius, Q. Deng, S. P. Panula, S. Codeluppi, A. P. Reyes, S. Linnarsson, R. Sandberg, F. Lanner, Cell 2016, 167, 285.
dc.identifier.citedreferenceH. Guo, P. Zhu, F. Guo, X. Li, X. Wu, X. Fan, L. Wen, F. Tang, Nat. Protoc. 2015, 10, 645.
dc.identifier.citedreferenceF. Guo, L. Li, J. Li, X. Wu, B. Hu, P. Zhu, L. Wen, F. Tang, Cell Res. 2017, 27, 967.
dc.identifier.citedreferenceF. H. Biase, X. Cao, S. Zhong, Genome Res. 2014, 24, 1787.
dc.identifier.citedreferenceA. Burton, J. Muller, S. Tu, P. Padilla- Longoria, E. Guccione, M.- E. Torres- Padilla, Cell Rep. 2013, 5, 687.
dc.identifier.citedreferenceF. Zhou, R. Wang, P. Yuan, Y. Ren, Y. Mao, R. Li, Y. Lian, J. Li, L. Wen, L. Yan, J. Qiao, F. Tang, Nature 2019, 572, 660.
dc.identifier.citedreferenceS. J. Clark, R. Argelaguet, C.- A. Kapourani, T. M. Stubbs, H. J. Lee, C. Alda- Catalinas, F. Krueger, G. Sanguinetti, G. Kelsey, J. C. Marioni, O. Stegle, W. Reik, Nat. Commun. 2018, 9, 781.
dc.identifier.citedreferenceM. V. C. Greenberg, D. Bourc’his, Nat. Rev. Mol. Cell Biol. 2019, 20, 590.
dc.identifier.citedreferenceC. Luo, C. L. Keown, L. Kurihara, J. Zhou, Y. He, J. Li, R. Castanon, J. Lucero, J. R. Nery, J. P. Sandoval, B. Bui, T. J. Sejnowski, T. T. Harkins, E. A. Mukamel, M. M. Behrens, J. R. Ecker, Science 2017, 357, 600.
dc.identifier.citedreferenceR. C. West, H. Ming, D. M. Logsdon, J. Sun, S. K. Rajput, R. A. Kile, W. B. Schoolcraft, R. M. Roberts, R. L. Krisher, Z. Jiang, Y. Yuan, Proc. Natl. Acad. Sci. USA 2019, 116, 22635.
dc.identifier.citedreferenceB. Lv, Q. An, Q. Zeng, X. Zhang, P. Lu, Y. Wang, X. Zhu, Y. Ji, G. Fan, Z. Xue, PLoS Biol. 2019, 17, e3000187.
dc.identifier.citedreferenceL. Tan, L. A. Lacko, T. Zhou, D. Tomoiaga, R. Hurtado, T. Zhang, A. Sevilla, A. Zhong, C. E. Mason, S. Noggle, T. Evans, H. Stuhlmann, R. E. Schwartz, S. Chen, Nat. Commun. 2019, 10, 4155.
dc.identifier.citedreferenceA. Guzzetta, M. Koska, M. Rowton, K. R. Sullivan, J. Jacobs- Li, J. Kweon, H. Hidalgo, H. Eckart, A. D. Hoffmann, R. Back, S. Lozano, A. M. Moon, A. Basu, M. Bressan, S. Pott, I. P. Moskowitz, Proc. Natl. Acad. Sci. USA 2020, 117, 15712.
dc.identifier.citedreferenceM. M. Chan, Z. D. Smith, S. Grosswendt, H. Kretzmer, T. M. Norman, B. Adamson, M. Jost, J. J. Quinn, D. Yang, M. G. Jones, A. Khodaverdian, N. Yosef, A. Meissner, J. S. Weissman, Nature 2019, 570, 77.
dc.identifier.citedreferenceB. Pijuan- Sala, J. A. Griffiths, C. Guibentif, T. W. Hiscock, W. Jawaid, F. J. Calero- Nieto, C. Mulas, X. Ibarra- Soria, R. C. V. Tyser, D. L. L. Ho, W. Reik, S. Srinivas, B. D. Simons, J. Nichols, J. C. Marioni, B. Göttgens, Nature 2019, 566, 490.
dc.identifier.citedreferenceS. Probst, Sagar, J. Tosic, C. Schwan, D. Grün, S. J. Arnold, Development 2021, 148, dev193789.
dc.identifier.citedreferenceH.- Q. Dai, B.- A. Wang, L. Yang, J.- J. Chen, G.- C. Zhu, M.- L. Sun, H. Ge, R. Wang, D. L. Chapman, F. Tang, X. Sun, G.- L. Xu, Nature 2016, 538, 528
dc.identifier.citedreferenceS. Grosswendt, H. Kretzmer, Z. D. Smith, A. S. Kumar, S. Hetzel, L. Wittler, S. Klages, B. Timmermann, S. Mukherji, A. Meissner, Nature 2020, 584, 102.
dc.identifier.citedreferenceH. Mohammed, I. Hernando- Herraez, A. Savino, A. Scialdone, I. Macaulay, C. Mulas, T. Chandra, T. Voet, W. Dean, J. Nichols, J. C. Marioni, W. Reik, Cell Rep. 2017, 20, 1215.
dc.identifier.citedreferenceL. Xiang, Y. Yin, Y. Zheng, Y. Ma, Y. Li, Z. Zhao, J. Guo, Z. Ai, Y. Niu, K. Duan, J. He, S. Ren, D. Wu, Y. Bai, Z. Shang, X. Dai, W. Ji, T. Li, Nature 2020, 577, 537.
dc.identifier.citedreferenceH. L. Sladitschek, U.- M. Fiuza, D. Pavlinic, V. Benes, L. Hufnagel, P. A. Neveu, Cell 2020, 181, 922.
dc.identifier.citedreferenceH. Ma, J. Zhai, H. Wan, X. Jiang, X. Wang, L. Wang, Y. Xiang, X. He, Z.- A. Zhao, B. Zhao, P. Zheng, L. Li, H. Wang, Science 2019, 366, 836.
dc.identifier.citedreferenceX. F. Xue, R. P. Wang, J. P. Fu, Curr. Opin. Biomed. Eng. 2020, 13, 127.
dc.identifier.citedreferenceT. Haremaki, J. J. Metzger, T. Rito, M. Z. Ozair, F. Etoc, A. H. Brivanlou, Nat. Biotechnol. 2019, 37, 1198.
dc.identifier.citedreferenceZ. C. Shang, D. Chen, Q. Wang, S. Wang, Q. Deng, L. Wu, C. Liu, X. Ding, S. Wang, J. Zhong, D. Zhang, X. Cai, S. Zhu, H. Yang, L. Liu, J. L. Fink, F. Chen, X. Liu, Z. Gao, X. Xu, Gigascience 2018, 7, giy117.
dc.identifier.citedreferenceJ. Cao, M. Spielmann, X. Qiu, X. Huang, D. M. Ibrahim, A. J. Hill, F. Zhang, S. Mundlos, L. Christiansen, F. J. Steemers, C. Trapnell, J. Shendure, Nature 2019, 566, 496.
dc.identifier.citedreferenceJ. Dong, Y. Hu, X. Fan, X. Wu, Y. Mao, B. Hu, H. Guo, L. Wen, F. Tang, Genome Biol. 2018, 19, 31.
dc.identifier.citedreferenceX. Ibarra- Soria, W. Jawaid, B. Pijuan- Sala, V. Ladopoulos, A. Scialdone, D. J. Jörg, R. C. V. Tyser, F. J. Calero- Nieto, C. Mulas, J. Nichols, L. Vallier, S. Srinivas, B. D. Simons, B. Göttgens, J. C. Marioni, Nat. Cell Biol. 2018, 20, 127.
dc.identifier.citedreferenceE. M. Kernfeld, R. M. J. Genga, K. Neherin, M. E. Magaletta, P. Xu, R. Maehr, Immunity 2018, 48, 1258.
dc.identifier.citedreferenceY. Zeng, C. Liu, Y. Gong, Z. Bai, S. Hou, J. He, Z. Bian, Z. Li, Y. Ni, J. Yan, T. Huang, H. Shi, C. Ma, X. Chen, J. Wang, L. Bian, Y. Lan, B. Liu, H. Hu, Immunity 2019, 51, 930.
dc.identifier.citedreferenceW. Chen, O. Guillaume- Gentil, R. Dainese, P. Y. de Rainer, M. Zachara, C. G. Gäbelein, J. A. Vorholt, B. Deplancke, bioRxiv:2021.03.24.436752, https://doi.org/10.1101/2021.03.24.436752.
dc.identifier.citedreferenceS. Smallwood, H. J. Lee, C. Angermueller, F. Krueger, H. Saadeh, J. Peat, S. R. Andrews, O. Stegle, W. Reik, G. Kelsey, Nat. Methods 2014, 11, 817.
dc.identifier.citedreferenceY. Shevchenko, S. Bale, Cold Spring Harbor Perspect. Med. 2016, 6, a025809.
dc.identifier.citedreferenceO. Morozova, M. A. Marra, Genomics 2008, 92, 255.
dc.identifier.citedreferenceB. Vieth, S. Parekh, C. Ziegenhain, W. Enard, I. Hellmann, Nat. Commun. 2019, 10, 4667.
dc.identifier.citedreferenceP. Jiang, J. A. Thomson, R. Stewart, Bioinformatics 2016, 32, 2514.
dc.identifier.citedreferenceQ. Liu, Q. Sheng, J. Ping, M. A. Ramirez, K. S. Lau, R. J. Coffey, Y. Shyr, Bioinformatics 2019, 35, 5306.
dc.identifier.citedreferenceA. Dobin, C. A. Davis, F. Schlesinger, J. Drenkow, C. Zaleski, S. Jha, P. Batut, M. Chaisson, T. R. Gingeras, Bioinformatics 2013, 29, 15.
dc.identifier.citedreferenceB. Langmead, S. L. Salzberg, Nat. Methods 2012, 9, 357.
dc.identifier.citedreferenceC. Trapnell, L. Pachter, S. L. Salzberg, Bioinformatics 2009, 25, 1105.
dc.identifier.citedreferenceD. Kim, G. Pertea, C. Trapnell, H. Pimentel, R. Kelley, S. L. Salzberg, Genome Biol. 2013, 14, R36.
dc.identifier.citedreferenceN. L. Bray, H. Pimentel, P. Melsted, L. Pachter, Nat. Biotechnol. 2016, 34, 525.
dc.identifier.citedreferenceA. Roberts, L. Pachter, Nat. Methods 2013, 10, 71.
dc.identifier.citedreferenceR. Patro, S. M. Mount, C. Kingsford, Nat. Biotechnol. 2014, 32, 462.
dc.identifier.citedreferenceR. Patro, G. Duggal, M. I. Love, R. A. Irizarry, C. Kingsford, Nat. Methods 2017, 14, 417.
dc.identifier.citedreferenceZ. Zhang, W. Wang, Bioinformatics 2014, 30, i283.
dc.identifier.citedreferenceC. A. Vallejos, C. A. Vallejos, D. Risso, A. Scialdone, S. Dudoit, J. C. Marioni, Nat. Methods 2017, 14, 565.
dc.identifier.citedreferenceA. Mortazavi, B. A. Williams, K. Mccue, L. Schaeffer, B. Wold, Nat. Methods 2008, 5, 621.
dc.identifier.citedreferenceG. C. Schoenwolf, S. B. Bleyl, P. R. Brauer, P. H. Francis- West, Larsen’s Human Embryology, Elsevier, Amsterdam 2020.
dc.identifier.citedreferenceY. Shao, J. Fu, Curr. Opin. Genet. Dev. 2020, 63, 30.
dc.identifier.citedreferenceA. A. Kolodziejczyk, J. K. Kim, V. Svensson, J. C. Marioni, S. A. Teichmann, Mol. Cell 2015, 58, 610.
dc.identifier.citedreferenceS. S. Potter, Nat. Rev. Nephrol. 2018, 14, 479.
dc.identifier.citedreferenceH. Huang, M. Goto, H. Tsunoda, L. Sun, K. Taniguchi, H. Matsunaga, H. Kambara, Nucleic Acids Res. 2013, 42, e12.
dc.identifier.citedreferenceB. Hwang, J. H. Lee, D. Bang, Exp. Mol. Med. 2018, 50, 1.
dc.identifier.citedreferenceO. Stegle, S. A. Teichmann, J. C. Marioni, Nat. Rev. Genet. 2015, 16, 133.
dc.identifier.citedreferenceY. Chen, J. Song, Q. Ruan, X. Zeng, L. Wu, L. Cai, X. Wang, C. Yang, Small Methods 2021, 5, 2100111.
dc.identifier.citedreferenceA. R. Wu, J. Wang, A. M. Streets, Y. Huang, Annu. Rev. Anal. Chem. 2017, 10, 439.
dc.identifier.citedreferenceJ. C. Love, J. L. Ronan, G. M. Grotenbreg, A. G. Van Der Veen, H. L. Ploegh, Nat. Biotechnol. 2006, 24, 703.
dc.identifier.citedreferenceR. Fan, O. Vermesh, A. Srivastava, B. K. H. Yen, L. Qin, H. Ahmad, G. A. Kwong, C.- C. Liu, J. Gould, L. Hood, J. R. Heath, Nat. Biotechnol. 2008, 26, 1373.
dc.identifier.citedreferenceJ. He, A. T. Brimmo, M. A. Qasaimeh, P. Chen, W. Chen, Small Methods 2017, 1, 1700192.
dc.identifier.citedreferenceS. Goodwin, J. D. Mcpherson, W. R. Mccombie, Nat. Rev. Genet. 2016, 17, 333.
dc.identifier.citedreferenceK. Wetterstrand, DNA Sequencing Costs: Data from the NHGRI Genome Sequencing Program (GSP), www.genome.gov/sequencingcostsdata (accessed: July 2021 ).
dc.identifier.citedreferenceM. D. Luecken, F. J. Theis, Mol. Syst. Biol. 2019, 15, e8746.
dc.identifier.citedreferenceL. Wen, F. Tang, Mol. Cell 2019, 76, 3208.
dc.identifier.citedreferenceY. Wei, H.- L. Zhang, Q. Wang, C. Zhang, in Single Cell Biomedicine (Eds: J. Gu, X. Wang ), Springer, Singapore 2018, p. 103.
dc.identifier.citedreferenceG. Peng, G. Cui, J. Ke, N. Jing, Annu. Rev. Genomics Hum. Genet. 2020, 21, 163.
dc.identifier.citedreferenceN. Liu, L. Liu, X. Pan, Cell. Mol. Life Sci. 2014, 71, 2707.
dc.identifier.citedreferenceS. Petropoulos, S. P. Panula, J. P. Schell, F. Lanner, J. Intern. Med. 2016, 280, 252.
dc.identifier.citedreferenceP. Kumar, Y. Tan, Cahan, Development 2017, 144, 17.
dc.identifier.citedreferenceA. Gupta, M. P. Lutolf, A. J. Hughes, K. F. Sonnen, Stem Cell Rep. 2021, 16, 1104.
dc.identifier.citedreferenceF. A. V. Braga, R. J. Miragaia, Single Cell Methods, Springer, New York 2019, pp. 9 - 21.
dc.identifier.citedreferenceT. Hashimshony, F. Wagner, N. Sher, I. Yanai, Cell Rep. 2012, 2, 666.
dc.identifier.citedreferenceJ. W. Bagnoli, C. Ziegenhain, A. Janjic, L. E. Wange, B. Vieth, S. Parekh, J. Geuder, I. Hellmann, W. Enard, Nat. Commun. 2018, 9, 2937.
dc.identifier.citedreferenceA. B. Rosenberg, C. M. Roco, R. A. Muscat, A. Kuchina, P. Sample, Z. Yao, L. T. Graybuck, D. J. Peeler, S. Mukherjee, W. Chen, S. H. Pun, D. L. Sellers, B. Tasic, G. Seelig, Science 2018, 360, 176.
dc.identifier.citedreferenceS. C. Van Den Brink, F. Sage, à . Vértesy, B. Spanjaard, J. Peterson- Maduro, C. S. Baron, C. Robin, A. Van Oudenaarden, Nat. Methods 2017, 14, 935.
dc.identifier.citedreferenceC. T. J. Van Velthoven, A. De Morree, I. M. Egner, J. O. Brett, T. A. Rando, Cell Rep. 2017, 21, 1994.
dc.identifier.citedreferenceM. Adam, A. S. Potter, S. S. Potter, Development 2017, 144, 3625.
dc.identifier.citedreferenceF. Tang, C. Barbacioru, Y. Wang, E. Nordman, C. Lee, N. Xu, X. Wang, J. Bodeau, B. B. Tuch, A. Siddiqui, K. Lao, M. A. Surani, Nat. Methods 2009, 6, 377.
dc.identifier.citedreferenceF. Tang, C. Barbacioru, E. Nordman, B. Li, N. Xu, V. I. Bashkirov, K. Lao, M. A. Surani, Nat. Protoc. 2010, 5, 516.
dc.identifier.citedreferenceS. Islam, U. Kjällquist, A. Moliner, P. Zajac, J.- B. Fan, P. Lönnerberg, S. Linnarsson, Genome Res. 2011, 21, 1160.
dc.identifier.citedreferenceD. Ramsköld, S. Luo, Y.- C. Wang, R. Li, Q. Deng, O. R. Faridani, G. A. Daniels, I. Khrebtukova, J. F. Loring, L. C. Laurent, G. P. Schroth, R. Sandberg, Nat. Biotechnol. 2012, 30, 777.
dc.identifier.citedreferenceH. Guo, P. Zhu, X. Wu, X. Li, L. Wen, F. Tang, Genome Res. 2013, 23, 2126.
dc.identifier.citedreferenceL. Yan, M. Yang, H. Guo, L. Yang, J. Wu, R. Li, P. Liu, Y. Lian, X. Zheng, J. Yan, J. Huang, M. Li, X. Wu, L. Wen, K. Lao, R. Li, J. Qiao, F. Tang, Nat. Struct. Mol. Biol. 2013, 20, 1131.
dc.identifier.citedreferenceZ. Xue, K. Huang, C. Cai, L. Cai, C.- Y. Jiang, Y. Feng, Z. Liu, Q. Zeng, L. Cheng, Y. E. Sun, J.- Y. Liu, S. Horvath, G. Fan, Nature 2013, 500, 593.
dc.identifier.citedreferenceK. M. Keays, G. P. Owens, A. M. Ritchie, D. H. Gilden, M. P. Burgoon, J. Immunol. Methods 2005, 302, 90.
dc.identifier.citedreferenceS. Nichterwitz, G. Chen, J. Aguila Benitez, M. Yilmaz, H. Storvall, M. Cao, R. Sandberg, Q. Deng, E. Hedlund, Nat. Commun. 2016, 7, 12139.
dc.identifier.citedreferenceS. Nichterwitz, J. A. Benitez, R. Hoogstraaten, Q. Deng, E. Hedlund, Methods Mol. Biol. 2018, 1649, 950.
dc.identifier.citedreferenceM. Ackers- Johnson, W. L. W. Tan, R. S.- Y. Foo, Nat. Commun. 2018, 9, 4434.
dc.identifier.citedreferenceE. Z. Macosko, A. Basu, R. Satija, J. Nemesh, K. Shekhar, M. Goldman, I. Tirosh, A. R. Bialas, N. Kamitaki, E. M. Martersteck, J. J. Trombetta, D. A. Weitz, J. R. Sanes, A. K. Shalek, A. Regev, S. A. Mccarroll, Cell 2015, 161, 1202.
dc.identifier.citedreferenceC. S. Mcginnis, D. M. Patterson, J. Winkler, D. N. Conrad, M. Y. Hein, V. Srivastava, J. L. Hu, L. M. Murrow, J. S. Weissman, Z. Werb, E. D. Chow, Z. J. Gartner, Nat. Methods 2019, 16, 619.
dc.identifier.citedreferenceY. Sasagawa, I. Nikaido, T. Hayashi, H. Danno, K. D. Uno, T. Imai, H. R. Ueda, Genome Biol. 2013, 14, 3097.
dc.identifier.citedreferenceD. A. Jaitin, E. Kenigsberg, H. Keren- Shaul, N. Elefant, F. Paul, I. Zaretsky, A. Mildner, N. Cohen, S. Jung, A. Tanay, I. Amit, Science 2014, 343, 776.
dc.identifier.citedreferenceY. Sasagawa, H. Danno, H. Takada, M. Ebisawa, K. Tanaka, T. Hayashi, A. Kurisaki, I. Nikaido, Genome Biol. 2018, 19, 29.
dc.identifier.citedreferenceJ. Cao, J. S. Packer, V. Ramani, D. A. Cusanovich, C. Huynh, R. Daza, X. Qiu, C. Lee, S. N. Furlan, F. J. Steemers, A. Adey, R. H. Waterston, C. Trapnell, J. Shendure, Science 2017, 357, 661.
dc.identifier.citedreferenceH. Yin, D. Marshall, Curr. Opin. Biotechnol. 2012, 23, 110.
dc.identifier.citedreferenceZ. T. F. Yu, K. M. Aw Yong, J. Fu, Small 2014, 10, 1687.
dc.identifier.citedreferenceN. M. Karabacak, P. S. Spuhler, F. Fachin, E. J. Lim, V. Pai, E. Ozkumur, J. M. Martel, N. Kojic, K. Smith, P.- I. Chen, J. Yang, H. Hwang, B. Morgan, J. Trautwein, T. A. Barber, S. L. Stott, S. Maheswaran, R. Kapur, D. A. Haber, M. Toner, Nat. Protoc. 2014, 9, 694.
dc.identifier.citedreferenceY. Deng, A. Finck, R. Fan, Annu. Rev. Biomed. Eng. 2019, 21, 365.
dc.identifier.citedreferenceS. M. Prakadan, A. K. Shalek, D. A. Weitz, Nat. Rev. Genet. 2017, 18, 345.
dc.identifier.citedreferenceJ. Melin, S. R. Quake, Annu. Rev. Biophys. Biomol. Struct. 2007, 36, 213.
dc.identifier.citedreferenceH. C. Fan, J. Wang, A. Potanina, S. R. Quake, Nat. Biotechnol. 2011, 29, 51.
dc.identifier.citedreferenceJ. Wang, H. C. Fan, B. Behr, S. R. Quake, Cell 2012, 150, 402.
dc.identifier.citedreferenceA. M. Streets, X. Zhang, C. Cao, Y. Pang, X. Wu, L. Xiong, L. Yang, Y. Fu, L. Zhao, F. Tang, Y. Huang, Proc. Natl. Acad. Sci. USA 2014, 111, 7048.
dc.identifier.citedreferenceA. R. Wu, N. F. Neff, T. Kalisky, P. Dalerba, B. Treutlein, M. E. Rothenberg, F. M. Mburu, G. L. Mantalas, S. Sim, M. F. Clarke, S. R. Quake, Nat. Methods 2013, 11, 41.
dc.identifier.citedreferenceJ. D. Buenrostro, B. Wu, U. M. Litzenburger, D. Ruff, M. L. Gonzales, M. P. Snyder, H. Y. Chang, W. J. Greenleaf, Nature 2015, 523, 486.
dc.identifier.citedreferenceM. Zhang, Y. Zou, X. Xu, X. Zhang, M. Gao, J. Song, P. Huang, Q. Chen, Z. Zhu, W. Lin, R. N. Zare, C. Yang, Nat. Commun. 2020, 11, 2118.
dc.identifier.citedreferenceY.- H. Cheng, Y.- C. Chen, E. Lin, R. Brien, S. Jung, Y.- T. Chen, W. Lee, Z. Hao, S. Sahoo, H. Min Kang, J. Cong, M. Burness, S. Nagrath, M. S. Wicha, E. Yoon, Nat. Commun. 2019, 10, 2163.
dc.identifier.citedreferenceH. C. Fan, G. K. Fu, S. P. A. Fodor, Science 2015, 347, 1258367.
dc.identifier.citedreferenceX. Han, R. Wang, Y. Zhou, L. Fei, H. Sun, S. Lai, A. Saadatpour, Z. Zhou, H. Chen, F. Ye, D. Huang, Y. Xu, W. Huang, M. Jiang, X. Jiang, J. Mao, Y. Chen, C. Lu, J. Xie, Q. Fang, Y. Wang, R. Yue, T. Li, H. Huang, S. H. Orkin, G.- C. Yuan, M. Chen, G. Guo, Cell 2018, 172, 1091.
dc.identifier.citedreferenceL. D. Goldstein, Y.- J. J. Chen, J. Dunne, A. Mir, H. Hubschle, J. Guillory, W. Yuan, J. Zhang, J. Stinson, B. Jaiswal, K. B. Pahuja, I. Mann, T. Schaal, L. Chan, S. Anandakrishnan, C.- W. Lin, P. Espinoza, S. Husain, H. Shapiro, K. Swaminathan, S. Wei, M. Srinivasan, S. Seshagiri, Z. Modrusan, BMC Genomics 2017, 18, 519.
dc.identifier.citedreferenceX. Zhang, T. Li, F. Liu, Y. Chen, J. Yao, Z. Li, Y. Huang, J. Wang, Mol. Cell 2019, 73, 130.
dc.identifier.citedreferenceZ. Zhu, C. J. Yang, Acc. Chem. Res. 2017, 50, 22.
dc.identifier.citedreferenceR. Zilionis, J. Nainys, A. Veres, V. Savova, D. Zemmour, A. M. Klein, L. Mazutis, Nat. Protoc. 2016, 12, 44.
dc.identifier.citedreferenceH.- S. Moon, K. Je, J.- W. Min, D. Park, K.- Y. Han, S.- H. Shin, W.- Y. Park, C. E. Yoo, S.- H. Kim, Lab Chip 2018, 18, 775.
dc.identifier.citedreferenceL. Li, P. Wu, Z. Luo, L. Wang, W. Ding, T. Wu, J. Chen, J. He, Y. He, H. Wang, Y. Chen, G. Li, Z. Li, L. He, ACS Sens. 2019, 4, 1299.
dc.identifier.citedreferenceP. Datlinger, A. F. Rendeiro, T. Boenke, M. Senekowitsch, T. Krausgruber, D. Barreca, C. Bock, Nat. Methods 2021, 18, 635.
dc.identifier.citedreferenceA. Rotem, O. Ram, N. Shoresh, R. A. Sperling, M. Schnall- Levin, H. Zhang, A. Basu, B. E. Bernstein, D. A. Weitz, PLoS One 2015, 10, e0116328.
dc.identifier.citedreferenceM. T. Chung, K. Kurabayashi, D. Cai, Lab Chip 2019, 19, 2425.
dc.identifier.citedreferenceM. T. Chung, D. Núñez, D. Cai, K. Kurabayashi, Lab Chip 2017, 17, 3664.
dc.identifier.citedreferenceM. T. Chung, Ph.D. Thesis, University of Michigan 2019.
dc.identifier.citedreferenceC. Soneson, M. Delorenzi, BMC Bioinf. 2013, 14, 91.
dc.identifier.citedreferenceA. M. Klein, L. Mazutis, I. Akartuna, N. Tallapragada, A. Veres, V. Li, L. Peshkin, D. A. Weitz, M. W. Kirschner, Cell 2015, 161, 1187.
dc.identifier.citedreferenceG. X. Y. Zheng, J. M. Terry, P. Belgrader, P. Ryvkin, Z. W. Bent, R. Wilson, S. B. Ziraldo, T. D. Wheeler, G. P. Mcdermott, J. Zhu, M. T. Gregory, J. Shuga, L. Montesclaros, J. G. Underwood, D. A. Masquelier, S. Y. Nishimura, M. Schnall- Levin, P. W. Wyatt, C. M. Hindson, R. Bharadwaj, A. Wong, K. D. Ness, L. W. Beppu, H. J. Deeg, C. Mcfarland, K. R. Loeb, W. J. Valente, N. G. Ericson, E. A. Stevens, J. P. Radich, et al., Nat. Commun. 2017, 8, 14049.
dc.identifier.citedreferenceF. Lan, B. Demaree, N. Ahmed, A. R. Abate, Nat. Biotechnol. 2017, 35, 640.
dc.identifier.citedreferenceA. Rotem, O. Ram, N. Shoresh, R. A. Sperling, A. Goren, D. A. Weitz, B. E. Bernstein, Nat. Biotechnol. 2015, 33, 1165.
dc.identifier.citedreferenceT. Stuart, R. Satija, Nat. Rev. Genet. 2019, 20, 257.
dc.identifier.citedreferenceC. Ziegenhain, B. Vieth, S. Parekh, B. Reinius, A. Guillaumet- Adkins, M. Smets, H. Leonhardt, H. Heyn, I. Hellmann, W. Enard, Mol. Cell 2017, 65, 631.
dc.identifier.citedreferenceS. Islam, A. Zeisel, S. Joost, G. La Manno, P. Zajac, M. Kasper, P. Lönnerberg, S. Linnarsson, Nat. Methods 2014, 11, 163.
dc.identifier.citedreferenceS. Picelli, O. R. Faridani, à . K. Björklund, G. Winberg, S. Sagasser, R. Sandberg, Nat. Protoc. 2014, 9, 171.
dc.identifier.citedreferenceH. Kimura, J. Hum. Genet. 2013, 58, 439.
dc.identifier.citedreferenceS. Ai, H. Xiong, C. C. Li, Y. Luo, Q. Shi, Y. Liu, X. Yu, C. Li, A. He, Nat. Cell Biol. 2019, 21, 1164.
dc.identifier.citedreferenceH. S. Kaya- Okur, H. S. Kaya- Okur, S. J. Wu, C. A. Codomo, E. S. Pledger, T. D. Bryson, J. G. Henikoff, K. Ahmad, S. Henikoff, Nat. Commun. 2019, 10, 1930.
dc.identifier.citedreferenceQ. Wang, H. Xiong, S. Ai, X. Yu, Y. Liu, J. Zhang, A. He, Mol. Cell 2019, 76, 206.
dc.identifier.citedreferenceR. Mulqueen, D. Pokholok, S. J. Norberg, K. A. Torkenczy, A. J. Fields, D. Sun, J. R. Sinnamon, J. Shendure, C. Trapnell, B. J. O’Roak, Z. Xia, F. J. Steemers, A. C. Adey, Nat. Biotechnol. 2018, 36, 428.
dc.identifier.citedreferenceS. L. Klemm, Z. Shipony, W. J. Greenleaf, Nat. Rev. Genet. 2019, 20, 207.
dc.identifier.citedreferenceD. Cusanovich, R. Daza, A. Adey, H. A. Pliner, L. Christiansen, K. L. Gunderson, F. J.   Steemers, C. Trapnell, J. Shendure, Science 2015, 348, 910.
dc.identifier.citedreferenceB. B. Lake, S. Chen, B. C. Sos, J. Fan, G. E. Kaeser, Y. C. Yung, T. E. Duong, D. Gao, J. Chun, P. V. Kharchenko, K. Zhang, Nat. Biotechnol. 2018, 36, 70.
dc.working.doiNOen
dc.owningcollnameInterdisciplinary and Peer-Reviewed


Files in this item

Name:
adbi202101151.pdf
Size:
2.735MB
Format:
PDF
View/Open
Name:
adbi202101151_am.pdf
Size:
1.944MB
Format:
PDF
View/Open

Show simple item record

Remediation of Harmful Language

The University of Michigan Library aims to describe library materials in a way that respects the people and communities who create, use, and are represented in our collections. Report harmful or offensive language in catalog records, finding aids, or elsewhere in our collections anonymously through our metadata feedback form. More information at Remediation of Harmful Language.

Accessibility

If you are unable to use this file in its current format, please select the Contact Us link and we can modify it to make it more accessible to you.