{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,4]],"date-time":"2026-04-04T01:23:59Z","timestamp":1775265839609,"version":"3.50.1"},"publisher-location":"Cham","reference-count":17,"publisher":"Springer Nature Switzerland","isbn-type":[{"value":"9781071639887","type":"print"},{"value":"9781071639894","type":"electronic"}],"license":[{"start":{"date-parts":[[2024,1,1]],"date-time":"2024-01-01T00:00:00Z","timestamp":1704067200000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.springernature.com\/gp\/researchers\/text-and-data-mining"},{"start":{"date-parts":[[2024,1,1]],"date-time":"2024-01-01T00:00:00Z","timestamp":1704067200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/www.springernature.com\/gp\/researchers\/text-and-data-mining"}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2024]]},"DOI":"10.1007\/978-1-0716-3989-4_31","type":"book-chapter","created":{"date-parts":[[2024,5,16]],"date-time":"2024-05-16T08:02:38Z","timestamp":1715846558000},"page":"360-363","update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":7,"title":["Maximum Likelihood Inference of\u00a0Time-Scaled Cell Lineage Trees with\u00a0Mixed-Type Missing Data"],"prefix":"10.1007","author":[{"given":"Uyen","family":"Mai","sequence":"first","affiliation":[]},{"given":"Gillian","family":"Chu","sequence":"additional","affiliation":[]},{"given":"Benjamin J.","family":"Raphael","sequence":"additional","affiliation":[]}],"member":"297","published-online":{"date-parts":[[2024,5,17]]},"reference":[{"issue":"7699","key":"31_CR1","doi-asserted-by":"publisher","first-page":"108","DOI":"10.1038\/nature25969","volume":"556","author":"A Alemany","year":"2018","unstructured":"Alemany, A., Florescu, M., Baron, C.S., Peterson-Maduro, J., Van Oudenaarden, A.: Whole-organism clone tracing using single-cell sequencing. Nature 556(7699), 108\u2013112 (2018)","journal-title":"Nature"},{"issue":"6","key":"31_CR2","doi-asserted-by":"publisher","first-page":"1410","DOI":"10.1016\/j.cell.2020.04.048","volume":"181","author":"S Bowling","year":"2020","unstructured":"Bowling, S., et al.: An engineered crispr-cas9 mouse line for simultaneous readout of lineage histories and gene expression profiles in single cells. Cell 181(6), 1410\u20131422 (2020)","journal-title":"Cell"},{"issue":"7759","key":"31_CR3","doi-asserted-by":"publisher","first-page":"77","DOI":"10.1038\/s41586-019-1184-5","volume":"570","author":"MM Chan","year":"2019","unstructured":"Chan, M.M., et al.: Molecular recording of mammalian embryogenesis. Nature 570(7759), 77\u201382 (2019)","journal-title":"Nature"},{"issue":"7921","key":"31_CR4","doi-asserted-by":"publisher","first-page":"98","DOI":"10.1038\/s41586-022-04922-8","volume":"608","author":"J Choi","year":"2022","unstructured":"Choi, J., et al.: A time-resolved, multi-symbol molecular recorder via sequential genome editing. Nature 608(7921), 98\u2013107 (2022)","journal-title":"Nature"},{"key":"31_CR5","doi-asserted-by":"crossref","unstructured":"Ke-Huan, K C., et\u00a0al. Imaging cell lineage with a synthetic digital recording system. Science 372(6538), eabb3099 (2021)","DOI":"10.1126\/science.abb3099"},{"issue":"1","key":"31_CR6","first-page":"343","volume":"15","author":"J Feng","year":"2021","unstructured":"Feng, J., DeWitt, W.S., III., McKenna, A., Simon, N., Willis, A.D., Matsen, F.A., IV.: Estimation of cell lineage trees by maximum-likelihood phylogenetics. Annals Appli Stat. 15(1), 343\u2013362 (2021)","journal-title":"Annals Appli Stat."},{"issue":"1","key":"31_CR7","doi-asserted-by":"publisher","first-page":"103","DOI":"10.1186\/s12859-022-04633-x","volume":"23","author":"W Gong","year":"2022","unstructured":"Gong, W., Kim, H.J., Garry, D.J., Kwak, I.-Y.: Single cell lineage reconstruction using distance-based algorithms and the r package, dclear. BMC Bioinform. 23(1), 103 (2022)","journal-title":"BMC Bioinform."},{"issue":"1","key":"31_CR8","doi-asserted-by":"publisher","first-page":"90","DOI":"10.1038\/s41592-021-01344-8","volume":"19","author":"Z He","year":"2022","unstructured":"He, Z., et al.: Lineage recording in human cerebral organoids. Nat. Methods 19(1), 90\u201399 (2022)","journal-title":"Nat. Methods"},{"issue":"1","key":"31_CR9","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1186\/s13059-020-02000-8","volume":"21","author":"MG Jones","year":"2020","unstructured":"Jones, M.G., et al.: Inference of single-cell phylogenies from lineage tracing data using cassiopeia. Genome Biol. 21(1), 1\u201327 (2020)","journal-title":"Genome Biol."},{"key":"31_CR10","doi-asserted-by":"crossref","unstructured":"McKenna, A., Findlay, G.M., Gagnon, J.A., Horwitz, M.S., Schier, A.F., Shendure, J.: Whole-organism lineage tracing by combinatorial and cumulative genome editing. Science 353(6298), aaf7907 (2016)","DOI":"10.1126\/science.aaf7907"},{"issue":"5","key":"31_CR11","doi-asserted-by":"publisher","first-page":"442","DOI":"10.1038\/nbt.4103","volume":"36","author":"B Raj","year":"2018","unstructured":"Raj, B., et al.: Simultaneous single-cell profiling of lineages and cell types in the vertebrate brain. Nat. Biotechnol. 36(5), 442\u2013450 (2018)","journal-title":"Nat. Biotechnol."},{"issue":"12","key":"31_CR12","doi-asserted-by":"publisher","first-page":"1113","DOI":"10.1016\/j.cels.2023.11.005","volume":"14","author":"P Sashittal","year":"2023","unstructured":"Sashittal, P., Schmidt, H., Chan, M., Raphael, B.J.: Startle: a star homoplasy approach for crispr-cas9 lineage tracing. Cell Syst. 14(12), 1113\u20131121 (2023)","journal-title":"Cell Syst."},{"issue":"1986","key":"31_CR13","doi-asserted-by":"publisher","first-page":"20221844","DOI":"10.1098\/rspb.2022.1844","volume":"289","author":"S Seidel","year":"2022","unstructured":"Seidel, S., Stadler, T.: TiDeTree: a bayesian phylogenetic framework to estimate single-cell trees and population dynamic parameters from genetic lineage tracing data. Proc. R. Soc. B 289(1986), 20221844 (2022)","journal-title":"Proc. R. Soc. B"},{"issue":"5","key":"31_CR14","doi-asserted-by":"publisher","first-page":"469","DOI":"10.1038\/nbt.4124","volume":"36","author":"B Spanjaard","year":"2018","unstructured":"Spanjaard, B., et al.: Simultaneous lineage tracing and cell-type identification using crispr-cas9-induced genetic scars. Nat. Biotechnol. 36(5), 469\u2013473 (2018)","journal-title":"Nat. Biotechnol."},{"key":"31_CR15","doi-asserted-by":"crossref","unstructured":"Wang, R., Zhang, R.Y., Khodaverdian, A., Yosef, N.: Theoretical guarantees for phylogeny inference from single-cell lineage tracing. bioRxiv (2021)","DOI":"10.1101\/2021.11.21.469464"},{"issue":"11","key":"31_CR16","doi-asserted-by":"publisher","first-page":"1905","DOI":"10.1016\/j.cell.2022.04.015","volume":"185","author":"D Yang","year":"2022","unstructured":"Yang, D., et al.: Lineage tracing reveals the phylodynamics, plasticity, and paths of tumor evolution. Cell 185(11), 1905\u20131923 (2022)","journal-title":"Cell"},{"issue":"1","key":"31_CR17","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1038\/s41467-020-16821-5","volume":"11","author":"H Zafar","year":"2020","unstructured":"Zafar, H., Lin, C., Bar-Joseph, Z.: Single-cell lineage tracing by integrating crispr-cas9 mutations with transcriptomic data. Nat. Commun. 11(1), 1\u201314 (2020)","journal-title":"Nat. Commun."}],"container-title":["Lecture Notes in Computer Science","Research in Computational Molecular Biology"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1007\/978-1-0716-3989-4_31","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2024,10,14]],"date-time":"2024-10-14T16:06:13Z","timestamp":1728921973000},"score":1,"resource":{"primary":{"URL":"https:\/\/link.springer.com\/10.1007\/978-1-0716-3989-4_31"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2024]]},"ISBN":["9781071639887","9781071639894"],"references-count":17,"URL":"https:\/\/doi.org\/10.1007\/978-1-0716-3989-4_31","relation":{},"ISSN":["0302-9743","1611-3349"],"issn-type":[{"value":"0302-9743","type":"print"},{"value":"1611-3349","type":"electronic"}],"subject":[],"published":{"date-parts":[[2024]]},"assertion":[{"value":"17 May 2024","order":1,"name":"first_online","label":"First Online","group":{"name":"ChapterHistory","label":"Chapter History"}},{"value":"RECOMB","order":1,"name":"conference_acronym","label":"Conference Acronym","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"International Conference on Research in Computational Molecular Biology","order":2,"name":"conference_name","label":"Conference Name","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"Cambridge, MA","order":3,"name":"conference_city","label":"Conference City","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"USA","order":4,"name":"conference_country","label":"Conference Country","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"2024","order":5,"name":"conference_year","label":"Conference Year","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"29 April 2024","order":7,"name":"conference_start_date","label":"Conference Start Date","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"2 May 2024","order":8,"name":"conference_end_date","label":"Conference End Date","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"28","order":9,"name":"conference_number","label":"Conference Number","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"recomb2024","order":10,"name":"conference_id","label":"Conference ID","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"https:\/\/recomb.org\/recomb2024\/","order":11,"name":"conference_url","label":"Conference URL","group":{"name":"ConferenceInfo","label":"Conference Information"}}]}}