Clonal analysis of lineage fate in native haematopoiesis

Droplet barcoding for single-cell transcriptomics applied to embryonic stem cells

Klein, A. M., Mazutis, L., Akartuna, I., Tallapragada, N., Veres, A., Li, V., Peshkin, L., Weitz, D. A., & Kirschner, M. W. (2015) · Cell · doi:10.1016/j.cell.2015.04.044 · Cited by 3,356 · see citing works

A clonogenic common myeloid progenitor that gives rise to all myeloid lineages

Akashi, K., Traver, D., Miyamoto, T., & Weissman, I. L. (2000) · Nature · doi:10.1038/35004599 · Cited by 2,617 · see citing works

Hematopoietic Stem Cells Reversibly Switch from Dormancy to Self-Renewal during Homeostasis and Repair

Wilson, A., Laurenti, E., Oser, G., van der Wath, R. C., Blanco-Bose, W., Jaworski, M., Offner, S., Dunant, C. F., Eshkind, L., Bockamp, E., et al. (2008) · Cell · doi:10.1016/j.cell.2008.10.048 · Cited by 1,908 · see citing works

Identification of Flt3+ Lympho-Myeloid Stem Cells Lacking Erythro-Megakaryocytic Potential

Adolfsson, J., Månsson, R., Buza-Vidas, N., Hultquist, A., Liuba, K., Jensen, C. T., Bryder, D., Yang, L., Borge, O. J., Thorén, L., et al. (2005) · Cell · doi:10.1016/j.cell.2005.02.013 · Cited by 1,229 · see citing works

Comprehensive Classification of Retinal Bipolar Neurons by Single-Cell Transcriptomics

Shekhar, K., Lapan, S. W., Whitney, I. E., Tran, N. M., Macosko, E. Z., Kowalczyk, M., Adiconis, X., Levin, J. Z., Nemesh, J., Goldman, M., et al. (2016) · Cell · doi:10.1016/j.cell.2016.07.054 · Cited by 1,176 · see citing works

Computational analysis of cell-to-cell heterogeneity in single-cell RNA-sequencing data reveals hidden subpopulations of cells

Buettner, F., Natarajan, K. N., Casale, F. P., Proserpio, V., Scialdone, A., Theis, F. J., Teichmann, S. A., Marioni, J. C., & Stegle, O. (2015) · Nature Biotechnology · doi:10.1038/nbt.3102 · Cited by 1,136 · see citing works

The long-term repopulating subset of hematopoietic stem cells is deterministic and isolatable by phenotype

Morrison, S. J., & Weissman, I. L. (1994) · Immunity · doi:10.1016/1074-7613(94)90037-x · Cited by 1,116 · see citing works

Transcriptional Heterogeneity and Lineage Commitment in Myeloid Progenitors

Paul, F., Arkin, Y., Giladi, A., Jaitin, D. A., Kenigsberg, E., Keren-Shaul, H., Winter, D., Lara-Astiaso, D., Gury, M., Weiner, A., et al. (2015) · Cell · doi:10.1016/j.cell.2015.11.013 · Cited by 1,082 · see citing works

Human haematopoietic stem cell lineage commitment is a continuous process

Velten, L., Haas, S. F., Raffel, S., Blaszkiewicz, S., Islam, S., Hennig, B. P., Hirche, C., Lutz, C., Buss, E. C., Nowak, D., et al. (2017) · Nature Cell Biology · doi:10.1038/ncb3493 · Cited by 925 · see citing works

Clonal dynamics of native haematopoiesis

Sun, J., Ramos, A., Chapman, B., Johnnidis, J. B., Le, L., Ho, Y.-J., Klein, A. M., Hofmann, O., & Camargo, F. D. (2014) · Nature · doi:10.1038/nature13824 · Cited by 803 · see citing works

Distinct routes of lineage development reshape the human blood hierarchy across ontogeny

Notta, F., Zandi, S., Takayama, N., Dobson, S., Gan, O. I., Wilson, G., Kaufmann, K. B., McLeod, J., Laurenti, E., Dunant, C. F., et al. (2016) · Science · doi:10.1126/science.aab2116 · Cited by 780 · see citing works

Fundamental properties of unperturbed haematopoiesis from stem cells in vivo

Busch, K., Klapproth, K., Barile, M., Flossdorf, M., Holland-Letz, T., Schlenner, S. M., Reth, M., Höfer, T., & Rodewald, H.-R. (2015) · Nature · doi:10.1038/nature14242 · Cited by 769 · see citing works

Clonal Analysis Unveils Self-Renewing Lineage-Restricted Progenitors Generated Directly from Hematopoietic Stem Cells

Yamamoto, R., Morita, Y., Ooehara, J., Hamanaka, S., Onodera, M., Rudolph, K. L., Ema, H., & Nakauchi, H. (2013) · Cell · doi:10.1016/j.cell.2013.08.007 · Cited by 745 · see citing works

Functionally Distinct Subsets of Lineage-Biased Multipotent Progenitors Control Blood Production in Normal and Regenerative Conditions

Pietras, E. M., Reynaud, D., Kang, Y.-A., Carlin, D., Calero-Nieto, F. J., Leavitt, A. D., Stuart, J. M., Göttgens, B., & Passegué, E. (2015) · Cell stem cell · doi:10.1016/j.stem.2015.05.003 · Cited by 723 · see citing works

Single-cell barcoding and sequencing using droplet microfluidics

Žilionis, R., Nainys, J., Veres, A., Savova, V., Zemmour, D., Klein, A. M., & Mažutis, L. (2016) · Nature Protocols · doi:10.1038/nprot.2016.154 · Cited by 715 · see citing works

Classification of low quality cells from single-cell RNA-seq data

Ilicic, T., Kim, J. K., Kolodziejczyk, A. A., Bagger, F. O., McCarthy, D. J., Marioni, J. C., & Teichmann, S. A. (2016) · Genome Biology · doi:10.1186/s13059-016-0888-1 · Cited by 693 · see citing works

Elucidation of the phenotypic, functional, and molecular topography of a myeloerythroid progenitor cell hierarchy

Pronk, C. J. H., Rossi, D. J., Månsson, R., Attema, J. L., Norddahl, G. L., Chan, C. K. F., Sigvardsson, M., Weissman, I. L., & Bryder, D. (2007) · Cell Stem Cell · doi:10.1016/j.stem.2007.07.005 · Cited by 671 · see citing works

SLAM Family Markers Resolve Functionally Distinct Subpopulations of Hematopoietic Stem Cells and Multipotent Progenitors

Oguro, H., Ding, L., & Morrison, S. J. (2013) · Cell stem cell · doi:10.1016/j.stem.2013.05.014 · Cited by 657 · see citing works

Platelet-biased stem cells reside at the apex of the haematopoietic stem-cell hierarchy

Sanjuán-Pla, A., Macaulay, I. C., Jensen, C. T., Woll, P. S., Luis, T. C., Mead, A. J., Moore, S., Carella, C., Matsuoka, S., Jones, T., et al. (2013) · Nature · doi:10.1038/nature12495 · Cited by 653 · see citing works

Simultaneous single-cell profiling of lineages and cell types in the vertebrate brain

Raj, B., Wagner, D. E., McKenna, A., Pandey, S., Klein, A. M., Shendure, J., Gagnon, J. A., & Schier, A. F. (2018) · Nature Biotechnology · doi:10.1038/nbt.4103 · Cited by 622 · see citing works

Analysis of histone 2B-GFP retention reveals slowly cycling hematopoietic stem cells

Foudi, A., Hochedlinger, K., Van Buren, D., Schindler, J. W., Jaenisch, R., Carey, V., & Hock, H. (2009) · Nature Biotechnology · doi:10.1038/nbt.1517 · Cited by 586 · see citing works

Identification of a lineage of multipotent hematopoietic progenitors

Morrison, S. J., Wandycz, A. M., Hemmati, H. D., Wright, D. E., & Weissman, I. L. (1997) · Development · doi:10.1242/dev.124.10.1929 · Cited by 482 · see citing works

Inflammation-Induced Emergency Megakaryopoiesis Driven by Hematopoietic Stem Cell-like Megakaryocyte Progenitors

Haas, S., Hansson, J., Klimmeck, D., Loeffler, D., Velten, L., Uckelmann, H., Wurzer, S., Prendergast, Á. M., Schnell, A., Hexel, K., et al. (2015) · Cell Stem Cell · doi:10.1016/j.stem.2015.07.007 · Cited by 471 · see citing works

Hematopoietic Stem Cells Are the Major Source of Multilineage Hematopoiesis in Adult Animals

Sawai, C. M., Babovic, S., Upadhaya, S., Knapp, D. J. H. F., Lavin, Y., Lau, C. M., Goloborodko, A., Feng, J., Fujisaki, J., Ding, L., et al. (2016) · Immunity · doi:10.1016/j.immuni.2016.08.007 · Cited by 381 · see citing works

CD41 expression marks myeloid-biased adult hematopoietic stem cells and increases with age

Gekas, C., & Graf, T. (2013) · Blood · doi:10.1182/blood-2012-09-457929 · Cited by 339 · see citing works

SPRING: a kinetic interface for visualizing high dimensional single-cell expression dataPreprint

Weinreb, C., Wolock, S. L., & Klein, A. M. (2017) · bioRxiv · doi:10.1101/090332 · Cited by 310 · see citing works

SPRING: a kinetic interface for visualizing high dimensional single-cell expression data

Weinreb, C., Wolock, S., & Klein, A. M. (2018) · Bioinformatics · doi:10.1093/bioinformatics/btx792 · Cited by 298 · see citing works

Characterization of a bipotent erythro-megakaryocytic progenitor in human bone marrow

Debili, N., Coulombel, L., Croisille, L., Katz, A., Guichard, J., Breton-Gorius, J., & Vainchenker, W. (1996) · Blood · doi:10.1182/blood.v88.4.1284.bloodjournal8841284 · Cited by 242 · see citing works

New Evidence Supporting Megakaryocyte-Erythrocyte Potential of Flk2/Flt3+ Multipotent Hematopoietic Progenitors

Forsberg, E. C., Serwold, T. F., Kogan, S. C., Weissman, I. L., & Passegue, E. A. (2006) · Cell · doi:10.1016/j.cell.2006.06.037 · Cited by 215 · see citing works

The Branching Point in Erythro-Myeloid Differentiation

Perié, L., Duffy, K. R., Kok, L., de Boer, R. J., & Schumacher, T. N. (2015) · Cell · doi:10.1016/j.cell.2015.11.059 · Cited by 185 · see citing works

Models of haematopoiesis: seeing the wood for the trees

Ceredig, R. H., Rolink, A. G., & Brown, G. (2009) · Nature reviews. Immunology · doi:10.1038/nri2525 · Cited by 123 · see citing works

DNA bar coding and pyrosequencing to analyze adverse events in therapeutic gene transfer

Wang, G. P., Garrigue, A., Ciuffi, A., Ronen, K., Leipzig, J., Berry, C., Lagresle-Peyrou, C., Benjelloun, F., Hacein-Bey-Abina, S., Fischer, A., et al. (2008) · Nucleic Acids Research · doi:10.1093/nar/gkn125 · Cited by 110 · see citing works

Identification and characterization of a bipotent (erythroid and megakaryocytic) cell precursor from the spleen of phenylhydrazine-treated mice

Vannucchi, A. M., Paoletti, F., Linari, S., Cellai, C., Caporale, R., Ferrini, P. R., Sanchez, M., Migliaccio, G., & Migliaccio, A. R. (2000) · Blood · doi:10.1182/blood.v95.8.2559 · Cited by 86 · see citing works

Lineage Tracing of Pf4-Cre Marks Hematopoietic Stem Cells and Their Progeny

Calaminus, S. D. J., Guitart, A. V., Sinclair, A., Schachtner, H., Watson, S. P., Holyoake, T. L., Kranc, K. R., & Machesky, L. M. (2012) · PLoS ONE · doi:10.1371/journal.pone.0051361 · Cited by 75 · see citing works

Adult human megakaryocyte-erythroid progenitors are in the CD34+CD38mid fraction

Sanada, C. D., Xavier-Ferrucio, J. M., Lu, Y.-C., Min, E., Zhang, P., Zou, S., Kang, E. Y., Zhang, M., Zerafati, G., Gallagher, P. G., et al. (2016) · Blood · doi:10.1182/blood-2016-01-693705 · Cited by 74 · see citing works

Unipotent Megakaryopoietic Pathway Bridging Hematopoietic Stem Cells and Mature Megakaryocytes

Nishikii, H., Kanazawa, Y., Umemoto, T., Goltsev, Y., Matsuzaki, Y., Matsushita, K., Yamato, M., Nolan, G. P., Negrin, R. S., & Chiba, S. (2015) · Stem Cells · doi:10.1002/stem.1985 · Cited by 64 · see citing works

Brief Report: Single-Cell Analysis Reveals Cell Division-Independent Emergence of Megakaryocytes From Phenotypic Hematopoietic Stem Cells

Roch, A., Trachsel, V., & Lütolf, M. P. (2015) · Stem Cells · doi:10.1002/stem.2106 · Cited by 43 · see citing works

Multiarm High-Throughput Integration Site Detection: Limitations of LAM-PCR Technology and Optimization for Clonal Analysis

Harkey, M. A., Kaul, R., Jacobs, M. A., Kurre, P., Bovée, D. M., Levy, R., & Blau, C. A. (2007) · Stem Cells and Development · doi:10.1089/scd.2007.0015 · Cited by 42 · see citing works

Massively parallel clonal analysis using CRISPR/Cas9 induced genetic scarsPreprint

Junker, J. P., Spanjaard, B., Peterson-Maduro, J., Alemany, A., Hu, B., Florescu, M., & van Oudenaarden, A. (2016) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/056499 · Cited by 42 · see citing works

Simultaneous single-cell profiling of lineages and cell types in the vertebrate brain by scGESTALTPreprint

Raj, B., Wagner, D. E., McKenna, A., et al. (2017) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/205534 · Cited by 15 · see citing works

Cluster validation by measurement of clustering characteristics relevant to the userPreprint

Hennig, C. (2017) · arXiv (Cornell University) · doi:10.48550/arxiv.1703.09282 · Cited by 6 · see citing works

Haematopoietic stem cell activity and interactions with the niche

Pinho, S., & Frenette, P. S. (2019) · Nature Reviews Molecular Cell Biology · doi:10.1038/s41580-019-0103-9 · Cited by 990 · see citing works

From haematopoietic stem cells to complex differentiation landscapes

Laurenti, E., & Göttgens, B. (2018) · Nature · doi:10.1038/nature25022 · Cited by 830 · see citing works

Characterization of cell fate probabilities in single-cell data with Palantir

Setty, M., Kiseliovas, V., Levine, J., Gayoso, A., Mazutis, L., & Pe’er, D. (2019) · Nature Biotechnology · doi:10.1038/s41587-019-0068-4 · Cited by 833 · see citing works

Lineage tracing on transcriptional landscapes links state to fate during differentiation

Weinreb, C., Rodriguez-Fraticelli, A., Camargo, F. D., & Klein, A. M. (2020) · Science · doi:10.1126/science.aaw3381 · Cited by 730 · see citing works

MDSC: Markers, development, states, and unaddressed complexity

Hegde, S., Leader, A. M., & Mérad, M. (2021) · Immunity · doi:10.1016/j.immuni.2021.04.004 · Cited by 672 · see citing works

Single-cell mapping of lineage and identity in direct reprogramming

Biddy, B. A., Kong, W., Kamimoto, K., Guo, C., Waye, S. E., Sun, T., & Morris, S. A. (2018) · Nature · doi:10.1038/s41586-018-0744-4 · Cited by 381 · see citing works

Polygenic basis and biomedical consequences of telomere length variation

Codd, V., Wang, Q., Allara, E., Musicha, C., Kaptoge, S. K., Stoma, S., Jiang, T., Hamby, S. E., Braund, P. S., Bountziouka, V. P., et al. (2021) · Nature Genetics · doi:10.1038/s41588-021-00944-6 · Cited by 376 · see citing works

Niches for Hematopoietic Stem Cells and Their Progeny

Wei, Q., & Frenette, P. S. (2018) · Immunity · doi:10.1016/j.immuni.2018.03.024 · Cited by 379 · see citing works

Single-Cell Transcriptomics Meets Lineage Tracing

Kester, L., & van Oudenaarden, A. (2018) · Cell Stem Cell · doi:10.1016/j.stem.2018.04.014 · Cited by 375 · see citing works

Single-cell characterization of haematopoietic progenitors and their trajectories in homeostasis and perturbed haematopoiesis

Giladi, A., Paul, F., Herzog, Y., Lubling, Y., Weiner, A., Yofe, I., Jaitin, D., Cabezas-Wallscheid, N., Dress, R., Ginhoux, F., et al. (2018) · Nature Cell Biology · doi:10.1038/s41556-018-0121-4 · Cited by 366 · see citing works

A comprehensive single cell transcriptional landscape of human hematopoietic progenitors

Pellin, D., Loperfido, M., Baricordi, C., Wolock, S. L., Montepeloso, A., Weinberg, O. K., Biffi, A., Klein, A. M., & Biasco, L. (2019) · Nature Communications · doi:10.1038/s41467-019-10291-0 · Cited by 360 · see citing works

Causes and Consequences of Hematopoietic Stem Cell Heterogeneity

Haas, S. F., Trumpp, A., & Milsom, M. D. (2018) · Cell stem cell · doi:10.1016/j.stem.2018.04.003 · Cited by 330 · see citing works

An Engineered CRISPR-Cas9 Mouse Line for Simultaneous Readout of Lineage Histories and Gene Expression Profiles in Single Cells

Bowling, S., Sritharan, D., Osorio, F. G., Nguyen, M., Cheung, P., Rodriguez-Fraticelli, A., Patel, S. H., Yuan, W.-C., Fujiwara, Y., Li, B. E., et al. (2020) · Cell · doi:10.1016/j.cell.2020.04.048 · Cited by 337 · see citing works

Arg1 expression defines immunosuppressive subsets of tumor-associated macrophages

Arlauckas, S., Garren, S. B., Garris, C. S., Kohler, R., Oh, J., Pittet, M., & Weissleder, R. (2018) · Theranostics · doi:10.7150/thno.26888 · Cited by 273 · see citing works

Hematopoietic progenitor cells as integrative hubs for adaptation to and fine-tuning of inflammation

Chavakis, T., Mitroulis, I., & Hajishengallis, G. (2019) · Nature Immunology · doi:10.1038/s41590-019-0402-5 · Cited by 319 · see citing works

Genetic models of human and mouse dendritic cell development and function

Anderson, D. A., Dutertre, C., Ginhoux, F., & MURPHY, K. M. M. (2020) · Nature reviews. Immunology · doi:10.1038/s41577-020-00413-x · Cited by 314 · see citing works

Massively parallel single-cell mitochondrial DNA genotyping and chromatin profiling

Lareau, C. A., Ludwig, L. S., Muus, C., Gohil, S. H., Zhao, T., Chiang, Z., Pelka, K., Verboon, J. M., Luo, W., Christian, E., et al. (2020) · Nature Biotechnology · doi:10.1038/s41587-020-0645-6 · Cited by 290 · see citing works

High-throughput and single-cell T cell receptor sequencing technologies

Pai, J. A., & Satpathy, A. T. (2021) · Nature Methods · doi:10.1038/s41592-021-01201-8 · Cited by 296 · see citing works

Niches that regulate stem cells and hematopoiesis in adult bone marrow

Comazzetto, S., Shen, B., & Morrison, S. J. (2021) · Developmental Cell · doi:10.1016/j.devcel.2021.05.018 · Cited by 290 · see citing works

New paradigms on hematopoietic stem cell differentiation

Cheng, H., Zheng, Z., & Cheng, T. (2019) · Protein & Cell · doi:10.1007/s13238-019-0633-0 · Cited by 275 · see citing works

Single-cell lineage tracing unveils a role for TCF15 in haematopoiesis

Rodriguez-Fraticelli, A., Weinreb, C., Wang, S., Migueles, R. P., Jankovic, M., Usart, M., Klein, A. M., Lowell, S., & Camargo, F. D. (2020) · Nature · doi:10.1038/s41586-020-2503-6 · Cited by 255 · see citing works

New Insights Into the Differentiation of Megakaryocytes From Hematopoietic Progenitors

Noetzli, L. J., French, S. L., & Machlus, K. R. (2019) · Arteriosclerosis Thrombosis and Vascular Biology · doi:10.1161/atvbaha.119.312129 · Cited by 259 · see citing works

Live-animal imaging of native haematopoietic stem and progenitor cells

Christodoulou, C., Spencer, J. A., Yeh, S.-C. A., Turcotte, R., Kokkaliaris, K. D., Panero, R., Ramos, A., Guo, G., Seyedhassantehrani, N., Esipova, T. V., et al. (2020) · Nature · doi:10.1038/s41586-020-1971-z · Cited by 253 · see citing works

Somatic Mutations Reveal Lineage Relationships and Age-Related Mutagenesis in Human Hematopoiesis

Osorio, F. G., Huber, A. R., Oka, R., Verheul, M., Patel, S. H., Hasaart, K., de la Fonteijne, L., Varela, I., Camargo, F. D., & van Boxtel, R. (2018) · Cell Reports · doi:10.1016/j.celrep.2018.11.014 · Cited by 237 · see citing works

Stage-specific requirement for Mettl3-dependent m6A mRNA methylation during haematopoietic stem cell differentiation

Lee, H. J., Bao, S., Qian, Y., Geula, S., Leslie, J. S., Zhang, C., Hanna, J. H., & Ding, L. (2019) · Nature Cell Biology · doi:10.1038/s41556-019-0318-1 · Cited by 237 · see citing works

Hematopoietic Stem Cell Metabolism during Development and Aging

Nakamura‐Ishizu, A., Ito, K., & Suda, T. (2020) · Developmental Cell · doi:10.1016/j.devcel.2020.06.029 · Cited by 232 · see citing works

The Era of Thromboinflammation: Platelets Are Dynamic Sensors and Effector Cells During Infectious Diseases

Guo, L., & Rondina, M. T. (2019) · Frontiers in Immunology · doi:10.3389/fimmu.2019.02204 · Cited by 227 · see citing works

Stromal niche inflammation mediated by IL-1 signalling is a targetable driver of haematopoietic ageing

Mitchell, C. A., Verovskaya, E. V., Calero‐Nieto, F. J., Olson, O. C., Swann, J. W., Wang, X., Hérault, A., Dellorusso, P. V., Zhang, S. Y., Svendsen, A. F., et al. (2023) · Nature Cell Biology · doi:10.1038/s41556-022-01053-0 · Cited by 219 · see citing works

Cerebrospinal fluid can exit into the skull bone marrow and instruct cranial hematopoiesis in mice with bacterial meningitis

Pulous, F. E., Hernández, J. C. C., Yang, C., Kaya, Ζ., Paccalet, A., Wojtkiewicz, G. R., Capen, D. E., Brown, D., Wu, J. W., Schloss, M. J., et al. (2022) · Nature Neuroscience · doi:10.1038/s41593-022-01060-2 · Cited by 204 · see citing works

Large-Scale Clonal Analysis Resolves Aging of the Mouse Hematopoietic Stem Cell Compartment

Yamamoto, R., Wilkinson, A. C., Ooehara, J., Lan, X., Lai, C.-Y., Nakauchi, Y., Pritchard, J. K., & Nakauchi, H. (2018) · Cell Stem Cell · doi:10.1016/j.stem.2018.03.013 · Cited by 202 · see citing works

Platelet and Megakaryocyte Roles in Innate and Adaptive Immunity

Koupenova, M., Livada, A. C., & Morrell, C. N. (2022) · Circulation Research · doi:10.1161/circresaha.121.319821 · Cited by 202 · see citing works

The Ontogeny of Monocyte Subsets

Wolf, A. A., Yáñez, A., Barman, P. K., & Goodridge, H. S. (2019) · Frontiers in Immunology · doi:10.3389/fimmu.2019.01642 · Cited by 201 · see citing works

The Myeloid Cell Compartment—Cell by Cell

Bassler, K. E., Schulte-Schrepping, J., Warnat‐Herresthal, S., Aschenbrenner, A. C., & Schultze, J. L. (2019) · Annual Review of Immunology · doi:10.1146/annurev-immunol-042718-041728 · Cited by 191 · see citing works

Single-cell proteo-genomic reference maps of the hematopoietic system enable the purification and massive profiling of precisely defined cell states

Triana, S., Vonficht, D., Jopp-Saile, L., Raffel, S., Lutz, R., Leonce, D., Antes, M., Hernández-Malmierca, P., Ordoñez-Rueda, D., Ramasz, B., et al. (2021) · Nature Immunology · doi:10.1038/s41590-021-01059-0 · Cited by 195 · see citing works

Cellular barcoding: lineage tracing, screening and beyond

Kebschull, J. M., & Zador, A. M. (2018) · Nature Methods · doi:10.1038/s41592-018-0185-x · Cited by 181 · see citing works

Single-Cell Analyses Reveal Megakaryocyte-Biased Hematopoiesis in Myelofibrosis and Identify Mutant Clone-Specific Targets

Psaila, B., Wang, G., Rodriguez-Meira, A., Li, R., Heuston, E. F., Murphy, L., Yee, D., Hitchcock, I. S., Sousos, N., O’Sullivan, J., et al. (2020) · Molecular Cell · doi:10.1016/j.molcel.2020.04.008 · Cited by 185 · see citing works

Hematopoiesis and Cardiovascular Disease

Poller, W. C., Nahrendorf, M., & Świrski, F. K. (2020) · Circulation Research · doi:10.1161/circresaha.120.315895 · Cited by 183 · see citing works

Unravelling cellular relationships during development and regeneration using genetic lineage tracing

Baron, C. S., & van Oudenaarden, A. (2019) · Nature Reviews Molecular Cell Biology · doi:10.1038/s41580-019-0186-3 · Cited by 183 · see citing works

Mitochondrial Potentiation Ameliorates Age-Related Heterogeneity in Hematopoietic Stem Cell Function

Mansell, E., Sigurðsson, V., Deltcheva, E. M., Brown, J., James, C. T., Miharada, K., Soneji, S., Larsson, J. T., & Enver, T. (2020) · Cell stem cell · doi:10.1016/j.stem.2020.09.018 · Cited by 176 · see citing works

Resolving Fates and Single-Cell Transcriptomes of Hematopoietic Stem Cell Clones by PolyloxExpress Barcoding

Pei, W., Shang, F., Wang, X., Fanti, A.-K., Greco, A., Busch, K., Klapproth, K., Zhang, Q., Quedenau, C., Sauer, S., et al. (2020) · Cell stem cell · doi:10.1016/j.stem.2020.07.018 · Cited by 174 · see citing works

Defining Adult Stem Cell Function at Its Simplest: The Ability to Replace Lost Cells through Mitosis

Post, Y., & Clevers, H. C. (2019) · Cell stem cell · doi:10.1016/j.stem.2019.07.002 · Cited by 176 · see citing works

m6A RNA Methylation Maintains Hematopoietic Stem Cell Identity and Symmetric Commitment

Cheng, Y., Luo, H., Izzo, F., Pickering, B. F., Nguyen, D. T. T., Myers, R. M., Schurer, A., Gourkanti, S., Brüning, J. C., Vu, L., et al. (2019) · Cell Reports · doi:10.1016/j.celrep.2019.07.032 · Cited by 171 · see citing works

Recording development with single cell dynamic lineage tracing

McKenna, A., & Gagnon, J. A. (2019) · Development · doi:10.1242/dev.169730 · Cited by 164 · see citing works

Lifelong multilineage contribution by embryonic-born blood progenitors

Patel, S. H., Christodoulou, C., Weinreb, C., Yu, Q., da Rocha, E. L., Pepe-Mooney, B. J., Bowling, S., Li, L., Osorio, F. G., Daley, G. Q., et al. (2022) · Nature · doi:10.1038/s41586-022-04804-z · Cited by 170 · see citing works

Hematopoietic Hierarchy – An Updated Roadmap

Zhang, Y., Gao, S., Xia, J., & Liu, F. (2018) · Trends in Cell Biology · doi:10.1016/j.tcb.2018.06.001 · Cited by 167 · see citing works

A mouse model with high clonal barcode diversity for joint lineage, transcriptomic, and epigenomic profiling in single cells

Li, L., Bowling, S., McGeary, S. E., Yu, Q., Lemke, B., Alcedo, K., Jia, Y., Liu, X., Ferreira, M., Klein, A. M., et al. (2023) · Cell · doi:10.1016/j.cell.2023.09.019 · Cited by 167 · see citing works

Tet2-mediated clonal hematopoiesis in nonconditioned mice accelerates age-associated cardiac dysfunction

Wang, Y., Sano, S., Yura, Y., Ke, Z., Sano, M., Oshima, K., Ogawa, H., Horitani, K., Min, K.-D., Miura-Yura, E., et al. (2020) · JCI Insight · doi:10.1172/jci.insight.135204 · Cited by 167 · see citing works

Unraveling Hematopoiesis through the Lens of Genomics

Liggett, L. A., & Sankaran, V. G. (2020) · Cell · doi:10.1016/j.cell.2020.08.030 · Cited by 163 · see citing works

Early lineage specification defines alveolar epithelial ontogeny in the murine lung

Frank, D. B., Penkala, I. J., Zepp, J. A., Sivakumar, A., Linares-Saldana, R., Zacharias, W. J., Stolz, K., Pankin, J., Lu, M., Wang, Q., et al. (2019) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1813952116 · Cited by 151 · see citing works

Breast Cancer Stem Cells: Biomarkers, Identification and Isolation Methods, Regulating Mechanisms, Cellular Origin, and Beyond

Zhang, X., Powell, K. A., & Li, L. (2020) · Cancers · doi:10.3390/cancers12123765 · Cited by 154 · see citing works

Hematologic Cancer after Gene Therapy for Cerebral Adrenoleukodystrophy

Duncan, C., Bledsoe, J. R., Grzywacz, B. J., Beckman, A., Bonner, M. A., Eichler, F., Kühl, J., Harris, M. H., Slauson, S. R., Colvin, R. A., et al. (2024) · New England Journal of Medicine · doi:10.1056/nejmoa2405541 · Cited by 156 · see citing works

What Makes a pDC: Recent Advances in Understanding Plasmacytoid DC Development and Heterogeneity

Musumeci, A. G., Lutz, K., Winheim, E., & Krug, A. (2019) · Frontiers in Immunology · doi:10.3389/fimmu.2019.01222 · Cited by 144 · see citing works

Harnessing matrix stiffness to engineer a bone marrow niche for hematopoietic stem cell rejuvenation

Zhang, X., Cao, D., Xu, L., Xu, Y., Gao, Z., Pan, Y., Jiang, M. Z., Wei, Y., Wang, L., Liao, Y., et al. (2023) · Cell stem cell · doi:10.1016/j.stem.2023.03.005 · Cited by 140 · see citing works

Next-Generation Lineage Tracing and Fate Mapping to Interrogate Development

VanHorn, S., & Morris, S. A. (2020) · Developmental Cell · doi:10.1016/j.devcel.2020.10.021 · Cited by 133 · see citing works

Haematopoiesis in the era of advanced single-cell technologies

Jacobsen, S. E. W., & Nerlov, C. (2018) · Nature Cell Biology · doi:10.1038/s41556-018-0227-8 · Cited by 127 · see citing works

CoSpar identifies early cell fate biases from single-cell transcriptomic and lineage information

Wang, S., Herriges, M. J., Hurley, K., Kotton, D. N., & Klein, A. M. (2022) · Nature Biotechnology · doi:10.1038/s41587-022-01209-1 · Cited by 112 · see citing works

Skull bone marrow channels as immune gateways to the central nervous system

Mazzitelli, J. A., Pulous, F. E., Smyth, L. C. D., Kaya, Z., Rustenhoven, J., Moskowitz, M. A., Kipnis, J., & Nahrendorf, M. (2023) · Nature Neuroscience · doi:10.1038/s41593-023-01487-1 · Cited by 116 · see citing works

An age-progressive platelet differentiation path from hematopoietic stem cells causes exacerbated thrombosis

Poscablo, D. M., Worthington, A. K., Smith‐Berdan, S., Rommel, M. G. E., Manso, B. A., Adili, R., Mok, L., Reggiardo, R. E., Cool, T., Mogharrab, R., et al. (2024) · Cell · doi:10.1016/j.cell.2024.04.018 · Cited by 116 · see citing works

Myelo-lymphoid lineage restriction occurs in the human haematopoietic stem cell compartment before lymphoid-primed multipotent progenitors

Belluschi, S., Calderbank, E. F., Ciaurro, V., Pijuan-Sala, B., Santoro, A., Mende, N., Diamanti, E., Sham, K., Wang, X., Lau, W. W. Y., et al. (2018) · Nature Communications · doi:10.1038/s41467-018-06442-4 · Cited by 102 · see citing works

Inflammation in atherosclerosis: Lessons and therapeutic implications

Libby, P., & Soehnlein, O. (2025) · Immunity · doi:10.1016/j.immuni.2025.09.012 · Cited by 115 · see citing works

Stress erythropoiesis: definitions and models for its study

Paulson, R. F., Hariharan, S., & Little, J. A. (2020) · Experimental Hematology · doi:10.1016/j.exphem.2020.07.011 · Cited by 109 · see citing works

Stress Erythropoiesis is a Key Inflammatory Response

Paulson, R. F., Ruan, B., Hao, S., & Chen, Y. (2020) · Cells · doi:10.3390/cells9030634 · Cited by 108 · see citing works

Identification of two distinct pathways of human myelopoiesis

Drissen, R., Thongjuea, S., Theilgaard‐Mönch, K., & Nerlov, C. (2019) · Science Immunology · doi:10.1126/sciimmunol.aau7148 · Cited by 98 · see citing works

Bone Marrow Niches of Hematopoietic Stem and Progenitor Cells

Kandarakov, O. F., Belyavsky, A. V., & Semenova, E. (2022) · International Journal of Molecular Sciences · doi:10.3390/ijms23084462 · Cited by 97 · see citing works

Made to order: emergency myelopoiesis and demand-adapted innate immune cell production

Swann, J. W., Olson, O. C., & Passegue, E. A. (2024) · Nature reviews. Immunology · doi:10.1038/s41577-024-00998-7 · Cited by 99 · see citing works

Skeletal stem and progenitor cells in bone development and repair

Trompet, D., Melis, S., Chagin, A. S., & Maes, C. (2024) · Journal of Bone and Mineral Research · doi:10.1093/jbmr/zjae069 · Cited by 99 · see citing works

Clonally resolved single-cell multi-omics identifies routes of cellular differentiation in acute myeloid leukemia

Beneyto-Calabuig, S., Merbach, A. K., Kniffka, J.-A., Antes, M., Szu-Tu, C., Rohde, C., Waclawiczek, A., Stelmach, P., Gräßle, S., Pervan, P., et al. (2023) · Cell Stem Cell · doi:10.1016/j.stem.2023.04.001 · Cited by 96 · see citing works

Connecting past and present: single-cell lineage tracing

Chen, C., Liao, Y., & Peng, G. (2022) · Protein & Cell · doi:10.1007/s13238-022-00913-7 · Cited by 93 · see citing works

Aging-induced IL27Ra signaling impairs hematopoietic stem cells

He, H., Xu, P., Zhang, X., Liao, M., Dong, Q., Cong, T., Tang, B., Yang, X., Ye, M., Chang, Y., et al. (2020) · Blood · doi:10.1182/blood.2019003910 · Cited by 94 · see citing works

Differentiation-based model of hematopoietic stem cell functions and lineage pathways

Höfer, T., & Rodewald, H.-R. (2018) · Blood · doi:10.1182/blood-2018-03-791517 · Cited by 94 · see citing works

Lineage Tracing Reveals a Subset of Reserve Muscle Stem Cells Capable of Clonal Expansion under Stress

Scaramozza, A., Park, D., Kollu, S., Beerman, I., Sun, X., Rossi, D. J., Lin, C. P., Scadden, D. T., Crist, C., & Brack, A. S. (2019) · Cell Stem Cell · doi:10.1016/j.stem.2019.03.020 · Cited by 93 · see citing works

Hematopoietic stem cell fate through metabolic control

Ito, K., & Ito, K. (2018) · Experimental Hematology · doi:10.1016/j.exphem.2018.05.005 · Cited by 93 · see citing works

Hallmarks of stemness in mammalian tissues

Beumer, J., & Clevers, H. C. (2024) · Cell stem cell · doi:10.1016/j.stem.2023.12.006 · Cited by 91 · see citing works

Lineage tracing of murine adult hematopoietic stem cells reveals active contribution to steady-state hematopoiesis

Chapple, R. H., Tseng, Y.-J., Hu, T., Kitano, A., Takeichi, M., Hoegenauer, K. A., & Nakada, D. (2018) · Blood Advances · doi:10.1182/bloodadvances.2018016295 · Cited by 90 · see citing works

Kinetics of adult hematopoietic stem cell differentiation in vivo

Upadhaya, S., Sawai, C. M., Papalexi, E., Rashidfarrokhi, A., Jang, G., Chattopadhyay, P. K., Satija, R., & Reizis, B. (2018) · The Journal of Experimental Medicine · doi:10.1084/jem.20180136 · Cited by 83 · see citing works

Self-Reporting Transposons Enable Simultaneous Readout of Gene Expression and Transcription Factor Binding in Single Cells

Moudgil, A., Wilkinson, M., Chen, X., He, J., Cammack, A. J., Vasek, M. J., Lagunas, T., Qi, Z., Lalli, M. A., Guo, C., et al. (2020) · Cell · doi:10.1016/j.cell.2020.06.037 · Cited by 80 · see citing works

Niche derived netrin-1 regulates hematopoietic stem cell dormancy via its receptor neogenin-1

Renders, S., Svendsen, A. F., Panten, J., Rama, N., Maryanovich, M., Sommerkamp, P., Ladel, L., Redavid, A. R., Gibert, B., Lazare, S., et al. (2021) · Nature Communications · doi:10.1038/s41467-020-20801-0 · Cited by 83 · see citing works

Murine foetal liver supports limited detectable expansion of life-long haematopoietic progenitors

Ganuza, M., Hall, T., Myers, J., Nevitt, C. D., Sánchez‐Lanzas, R., Chabot, A., Ding, J., Kooienga, E., Caprio, C., Finkelstein, D., et al. (2022) · Nature Cell Biology · doi:10.1038/s41556-022-00999-5 · Cited by 87 · see citing works

Large-scale reconstruction of cell lineages using single-cell readout of transcriptomes and CRISPR–Cas9 barcodes by scGESTALT

Raj, B., Gagnon, J. A., & Schier, A. F. (2018) · Nature Protocols · doi:10.1038/s41596-018-0058-x · Cited by 85 · see citing works

Clonal-level lineage commitment pathways of hematopoietic stem cells in vivo

Lu, R., Czechowicz, A. D., Seita, J., Du, J., & Weissman, I. L. (2019) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1801480116 · Cited by 85 · see citing works

Epigenetic Regulators as the Gatekeepers of Hematopoiesis

Rodrigues, C. P., Shvedunova, M., & Akhtar, A. (2020) · Trends in Genetics · doi:10.1016/j.tig.2020.09.015 · Cited by 85 · see citing works

Genetic mosaicism in the human brain: from lineage tracing to neuropsychiatric disorders

Bizzotto, S., & Walsh, C. A. (2022) · Nature reviews. Neuroscience · doi:10.1038/s41583-022-00572-x · Cited by 84 · see citing works

Cellular barcoding to decipher clonal dynamics in disease

Sankaran, V. G., Weissman, J. S., & Zon, L. I. (2022) · Science · doi:10.1126/science.abm5874 · Cited by 81 · see citing works

Metabolism as master of hematopoietic stem cell fate

Ito, K., Bonora, M., & Ito, K. (2018) · International Journal of Hematology · doi:10.1007/s12185-018-2534-z · Cited by 80 · see citing works

New insights into hematopoietic differentiation landscapes from single-cell RNA sequencing

Watcham, S., Kuciński, I., & Göttgens, B. (2019) · Blood · doi:10.1182/blood-2018-08-835355 · Cited by 77 · see citing works

Molecular and cellular mechanisms of aging in hematopoietic stem cells and their niches

Zhang, L., Mack, R. M., Breslin, P., & Zhang, J. (2020) · Journal of Hematology & Oncology · doi:10.1186/s13045-020-00994-z · Cited by 78 · see citing works

A time- and single-cell-resolved model of murine bone marrow hematopoiesis

Kuciński, I., Campos, J., Barile, M., Severi, F., Bohin, N., Moreira, P. N., Allen, L., Lawson, H., Haltalli, M. L. R., Kinston, S., et al. (2024) · Cell stem cell · doi:10.1016/j.stem.2023.12.001 · Cited by 80 · see citing works

Differentiation route determines the functional outputs of adult megakaryopoiesis

Li, J., Liu, J., Li, Y., Chen, L. V., Cheng, H., Li, Y., Cheng, T., Wang, Q., & Zhou, B. O. (2024) · Immunity · doi:10.1016/j.immuni.2024.02.006 · Cited by 80 · see citing works

Myelopoiesis in the Context of Innate Immunity

Mitroulis, I., Kalafati, L., Hajishengallis, G., & Chavakis, T. (2018) · Journal of Innate Immunity · doi:10.1159/000489406 · Cited by 75 · see citing works

Normal Hematopoiesis Is a Balancing Act of Self-Renewal and RegenerationPreprint

Olson, O. C., Kang, Y.-A., & Passegue, E. A. (2020) · Cold Spring Harbor Perspectives in Medicine · doi:10.1101/cshperspect.a035519 · Cited by 78 · see citing works

Single-cell approaches reveal novel cellular pathways for megakaryocyte and erythroid differentiation

Psaila, B., & Mead, A. J. (2019) · Blood · doi:10.1182/blood-2018-11-835371 · Cited by 75 · see citing works

Causes and Mechanisms of Hematopoietic Stem Cell Aging

Lee, J., Yoon, S. R., Choi, I., & Jung, H. (2019) · International Journal of Molecular Sciences · doi:10.3390/ijms20061272 · Cited by 76 · see citing works

Single-cell sortChIC identifies hierarchical chromatin dynamics during hematopoiesis

Zeller, P. J., Yeung, J., Gaza, H. V., de Barbanson, B., Bhardwaj, V., Florescu, M., van der Linden, R., & van Oudenaarden, A. (2022) · Nature Genetics · doi:10.1038/s41588-022-01260-3 · Cited by 66 · see citing works

Clonal Hematopoiesis in Clinical and Experimental Heart Failure With Preserved Ejection Fraction

Cochran, J. D., Yura, Y., Thel, M. C., Doviak, H., Polizio, A. H., Arai, Y., Arai, Y., Horitani, K., Park, E., Chavkin, N. W., et al. (2023) · Circulation · doi:10.1161/circulationaha.123.064170 · Cited by 74 · see citing works

Erythropoiesis, EPO, macrophages, and bone

Eggold, J. T., & Rankin, E. B. (2018) · Bone · doi:10.1016/j.bone.2018.03.014 · Cited by 72 · see citing works

<i>JAK2</i>-V617F and interferon-α induce megakaryocyte-biased stem cells characterized by decreased long-term functionality

Rao, T. N., Hansen, N., Stetka, J., Luque Paz, D., Kalmer, M., Hilfiker, J., Endele, M., Ahmed, N., Kubovcakova, L., Rybarikova, M., et al. (2021) · Blood · doi:10.1182/blood.2020005563 · Cited by 72 · see citing works

Hematopoietic stem cell-independent hematopoiesis and the origins of innate-like B lymphocytes

Ghosn, E., Yoshimoto, M., Nakauchi, H., Weissman, I. L., & Herzenberg, L. A. (2019) · Development · doi:10.1242/dev.170571 · Cited by 68 · see citing works

Inflammatory Modulation of Hematopoiesis: Linking Trained Immunity and Clonal Hematopoiesis with Chronic Disorders

Chavakis, T., Wielockx, B., & Hajishengallis, G. (2021) · Annual Review of Physiology · doi:10.1146/annurev-physiol-052521-013627 · Cited by 70 · see citing works

Deep learning-based enhancement of epigenomics data with AtacWorks

Lal, A., Chiang, Z., Yakovenko, N., Duarte, F. M., Israeli, J., & Buenrostro, J. D. (2021) · Nature Communications · doi:10.1038/s41467-021-21765-5 · Cited by 67 · see citing works

IL-13/IL-4 signaling contributes to fibrotic progression of the myeloproliferative neoplasms

Melo‐Cardenas, J., Bezavada, L., Crawford, J. C., Gurbuxani, S. K., Cotton, A., Kang, G., Gossett, J. M., Marinaccio, C., Weinberg, R. S., Hoffman, R., et al. (2022) · Blood · doi:10.1182/blood.2022017326 · Cited by 68 · see citing works

Clonal analysis of lineage fate in unperturbed hematopoiesis

Rodriguez-Fraticelli, A., Wolock, S. L., Weinreb, C., Sun, J., Klein, A. M., & Camargo, F. D. (2017) · Experimental Hematology · doi:10.1016/j.exphem.2017.06.075 · Cited by 3 · see citing works

In vivo Stem Cell Clonal Dynamics

Camargo, F. D. (2015) · Blood · doi:10.1182/blood.v126.23.sci-40.sci-40

Transcriptional and Functional Description of Stem Cell Heterogeneity in Native and Transplantation Hematopoiesis

Rodriguez-Fraticelli, A., Weinreb, C., Klein, A. M., & Camargo, F. D. (2018) · Blood · doi:10.1182/blood-2018-99-113646

Clonal dynamics of native haematopoiesis

Sun, J., Ramos, A., Chapman, B., Johnnidis, J. B., Le, L., Ho, Y.-J., Klein, A. M., Hofmann, O., & Camargo, F. D. (2014) · Nature · doi:10.1038/nature13824 · Cited by 803 · see citing works

A multi-track landscape of haematopoiesis informed by cellular barcoding and agent-based modellingPreprint

Lin, D. S. Y., Zhang, S., Schreuder, J., Tran, J., Sargeant, T., Metcalf, D., Ng, A. P., Weber, T. S., & Naik, S. H. (2024) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2024.03.28.587126 · Cited by 8 · see citing works