Dynamic stem cell states: Naive to primed pluripotency in rodents and humans

Induction of pluripotent stem cells from mouse embryonic and adult fibroblast cultures by defined factors

Takahashi, K., & Yamanaka, S. (2006) · Cell · doi:10.1016/j.cell.2006.07.024 · Cited by 26,673 · see citing works

Induction of Pluripotent Stem Cells from Adult Human Fibroblasts by Defined Factors

Takahashi, K., Tanabe, K., Ohnuki, M., Narita, M., Ichisaka, T., Tomoda, K., & Yamanaka, S. (2007) · Cell · doi:10.1016/j.cell.2007.11.019 · Cited by 20,221 · see citing works

Embryonic Stem Cell Lines Derived from Human Blastocysts

Thomson, J. A., Itskovitz‐Eldor, J., Shapiro, S. S., Waknitz, M. A., Swiergiel, J. J., Marshall, V. S., & Jones, J. M. (1998) · Science · doi:10.1126/science.282.5391.1145 · Cited by 15,947 · see citing works

Induced Pluripotent Stem Cell Lines Derived from Human Somatic Cells

Yu, J., Vodyanik, M. A., Smuga-Otto, K., Antosiewicz-Bourget, J., Frane, J. L., Tian, S., Nie, J., Jonsdottir, G. A., Ruotti, V., Stewart, R., et al. (2007) · Science · doi:10.1126/science.1151526 · Cited by 10,310 · see citing works

Establishment in culture of pluripotential cells from mouse embryos

Evans, M. J., & Kaufman, M. H. (1981) · Nature · doi:10.1038/292154a0 · Cited by 8,623 · see citing works

Isolation of a pluripotent cell line from early mouse embryos cultured in medium conditioned by teratocarcinoma stem cells.

Martin, G. R. (1981) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.78.12.7634 · Cited by 5,756 · see citing works

The ground state of embryonic stem cell self-renewal

Ying, Q.-L., Wray, J., Nichols, J., Batlle-Morera, L., Doble, B., Woodgett, J., Cohen, P., & Smith, A. (2008) · Nature · doi:10.1038/nature06968 · Cited by 3,442 · see citing works

In vitro reprogramming of fibroblasts into a pluripotent ES-cell-like state

Wernig, M., Meissner, A., Foreman, R. K., Brambrink, T., Ku, M., Hochedlinger, K., Bernstein, B., & Jaenisch, R. (2007) · Nature · doi:10.1038/nature05944 · Cited by 2,669 · see citing works

Human induced pluripotent stem cells free of vector and transgene sequences

Yu, J., Hu, K., Smuga-Otto, K., Tian, S., Stewart, R., Slukvin, I. I., & Thomson, J. A. (2009) · Science · doi:10.1126/science.1172482 · Cited by 2,386 · see citing works

New cell lines from mouse epiblast share defining features with human embryonic stem cells

Tesar, P. J., Chenoweth, J. G., Brook, F. A., Davies, T. J., Evans, E. P., Mack, D. L., Gardner, R. L., & McKay, R. D. G. (2007) · Nature · doi:10.1038/nature05972 · Cited by 2,153 · see citing works

BMP Induction of Id Proteins Suppresses Differentiation and Sustains Embryonic Stem Cell Self-Renewal in Collaboration with STAT3

Ying, Q.-L., Nichols, J., Chambers, I., & Smith, A. G. (2003) · Cell · doi:10.1016/s0092-8674(03)00847-x · Cited by 2,114 · see citing works

Derivation of pluripotent epiblast stem cells from mammalian embryos

Brons, I. G. M., Smithers, L. E., Trotter, M. W. B., Rugg‐Gunn, P. J., Sun, B., Lopes, S. M. C. D. S., Howlett, S., Clarkson, A., Ährlund‐Richter, L., Pedersen, R. A., et al. (2007) · Nature · doi:10.1038/nature05950 · Cited by 2,007 · see citing works

Myeloid leukaemia inhibitory factor maintains the developmental potential of embryonic stem cells

Williams, R. L., Hilton, D. J., Pease, S., Willson, T. A., Stewart, C. L., Gearing, D. P., Wagner, E. F., Metcalf, D., Nicola, N. A., & Gough, N. M. (1988) · Nature · doi:10.1038/336684a0 · Cited by 1,997 · see citing works

Inhibition of pluripotential embryonic stem cell differentiation by purified polypeptides

Smith, A. G., Heath, J. K., Donaldson, D. D., Wong, G. G., Moreau, J., Stahl, M., & Rogers, D. D. (1988) · Nature · doi:10.1038/336688a0 · Cited by 1,855 · see citing works

Naive and Primed Pluripotent States

Nichols, J., & Smith, A. G. (2009) · Cell stem cell · doi:10.1016/j.stem.2009.05.015 · Cited by 1,835 · see citing works

m 6 A mRNA methylation facilitates resolution of naïve pluripotency toward differentiation

Geula, S., Moshitch-Moshkovitz, S., Dominissini, D., Mansour, A. A., Kol, N., Salmon‐Divon, M., Hershkovitz, V., Peer, E., Mor, N., Manor, Y. S., et al. (2015) · Science · doi:10.1126/science.1261417 · Cited by 1,560 · see citing works

Derivation of pluripotent stem cells from cultured human primordial germ cells

Shamblott, M. J., Axelman, J., Wang, S., Bugg, E. M., Littlefield, J. W., Donovan, P. J., Blumenthal, P. D., Huggins, G. R., & Gearhart, J. D. (1998) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.95.23.13726 · Cited by 1,424 · see citing works

Reconstitution of the mouse germ cell specification pathway in culture by pluripotent stem cells.

Hayashi, K., Ohta, H., Kurimoto, K., Aramaki, S., & Saitou, M. (2011) · Cell · doi:10.1016/j.cell.2011.06.052 · Cited by 1,324 · see citing works

Derivation of pluripotential embryonic stem cells from murine primordial germ cells in culture

Matsui, Y., Zsebo, K. M., & Hogan, B. L. M. (1992) · Cell · doi:10.1016/0092-8674(92)90317-6 · Cited by 1,217 · see citing works

YAP/TAZ incorporation in the β-catenin destruction complex orchestrates the Wnt response

Azzolin, L., Panciera, T., Soligo, S., Enzo, E., Bicciato, S., Dupont, S., Bresolin, S., Frasson, C., Basso, G., Guzzardo, V., et al. (2014) · Cell · doi:10.1016/j.cell.2014.06.013 · Cited by 1,094 · see citing works

The Hippo Signaling Pathway Components Lats and Yap Pattern Tead4 Activity to Distinguish Mouse Trophectoderm from Inner Cell Mass

Nishioka, N., Inoue, K., Adachi, K., Kiyonari, H., Ota, M., Ralston, A., Yabuta, N., Hirahara, S., Stephenson, R. O., Ogonuki, N., et al. (2009) · Developmental Cell · doi:10.1016/j.devcel.2009.02.003 · Cited by 1,083 · see citing works

Derivation of novel human ground state naive pluripotent stem cells

Gafni, O., Weinberger, L., Mansour, A. A., Manor, Y. S., Chomsky, E., Ben‐Yosef, D., Kalma, Y., Viukov, S. V., Maza, I., Zviran, A., et al. (2013) · Nature · doi:10.1038/nature12745 · Cited by 1,039 · see citing works

Nanog Is the Gateway to the Pluripotent Ground State

Silva, J., Nichols, J., Theunissen, T. W., Guo, G., van Oosten, A. L., Barrandon, O., Wray, J., Yamanaka, S., Chambers, I., & Smith, A. (2009) · Cell · doi:10.1016/j.cell.2009.07.039 · Cited by 1,031 · see citing works

Reference maps of human ES and iPS cell variation enable high-throughput characterization of pluripotent cell lines

Bock, C., Kiskinis, E., Verstappen, G., Gu, H., Boulting, G., Smith, Z. D., Ziller, M., Croft, G. F., Amoroso, M. W., Oakley, D. H., et al. (2011) · Cell · doi:10.1016/j.cell.2010.12.032 · Cited by 1,009 · see citing works

Resetting Transcription Factor Control Circuitry toward Ground-State Pluripotency in Human

Takashima, Y., Guo, G., Loos, R., Nichols, J., Ficz, G., Krueger, F., Oxley, D., Santos, F., Clarke, J., Mansfield, W., et al. (2014) · Cell · doi:10.1016/j.cell.2014.08.029 · Cited by 980 · see citing works

Systematic Identification of Culture Conditions for Induction and Maintenance of Naive Human Pluripotency

Theunissen, T. W., Powell, B. E., Wang, H., Mitalipova, M., Faddah, D. A., Reddy, J., Fan, Z. P., Maetzel, D., Ganz, K., Shi, L., et al. (2014) · Cell stem cell · doi:10.1016/j.stem.2014.07.002 · Cited by 888 · see citing works

The Transcriptional and Epigenomic Foundations of Ground State Pluripotency

Marks, H., Kalkan, T., Menafra, R., Denissov, S., Jones, K. A., Hofemeister, H., Nichols, J., Kranz, A., Stewart, A., Smith, A. G., et al. (2012) · Cell · doi:10.1016/j.cell.2012.03.026 · Cited by 881 · see citing works

Human embryonic stem cells with biological and epigenetic characteristics similar to those of mouse ESCs

Hanna, J. H., Cheng, A. W., Saha, K., Kim, J., Lengner, C. J., Soldner, F., Cassady, J. P., Muffat, J., Carey, B. W., & Jaenisch, R. (2010) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1004584107 · Cited by 840 · see citing works

SOX17 Is a Critical Specifier of Human Primordial Germ Cell Fate

Irie, N., Weinberger, L., Tang, W. W. C., Kobayashi, T., Viukov, S. V., Manor, Y. S., Dietmann, S., Hanna, J. H., & Surani, M. A. (2014) · Cell · doi:10.1016/j.cell.2014.12.013 · Cited by 839 · see citing works

Marked differences in differentiation propensity among human embryonic stem cell lines

Osafune, K., Caron, L., Borowiak, M., Martinez, R. J., Fitzgerald, C., Sato, Y., Cowan, C. A., Chien, K. R., & Melton, D. A. (2008) · Nature Biotechnology · doi:10.1038/nbt1383 · Cited by 815 · see citing works

Generation of Pluripotent Stem Cells from Neonatal Mouse Testis

Kanatsu-Shinohara, M., Inoue, K., Lee, J., Yoshimoto, M., Ogonuki, N., Miki, H., Baba, S., Kato, T., Kazuki, Y., Toyokuni, S., et al. (2004) · Cell · doi:10.1016/j.cell.2004.11.011 · Cited by 814 · see citing works

Capture of Authentic Embryonic Stem Cells from Rat Blastocysts

Buehr, M. L., Meek, S. E., Blair, K., Yang, J. P., Ure, J., Silva, J., McLay, R., Hall, J., Ying, Q.-L., & Smith, A. G. (2008) · Cell · doi:10.1016/j.cell.2008.12.007 · Cited by 795 · see citing works

Klf4 reverts developmentally programmed restriction of ground state pluripotency

Guo, G., Yang, J. P., Nichols, J., Hall, J., Eyres, I., Mansfield, W. M., & Smith, A. G. (2009) · Development · doi:10.1242/dev.030957 · Cited by 767 · see citing works

Human Embryonic Stem Cells Derived by Somatic Cell Nuclear Transfer

Tachibana, M., Amato, P., Sparman, M. L., Gutiérrez, N. M., Tippner-Hedges, R., Ma, H., Kang, E., Fulati, A., Lee, H.-S., Sritanaudomchai, H., et al. (2013) · Cell · doi:10.1016/j.cell.2013.05.006 · Cited by 767 · see citing works

The role of YAP transcription coactivator in regulating stem cell self-renewal and differentiationPreprint

Lian, I., Kim, J., Okazawa, H., Zhao, J. J., Zhao, B., Yu, J., Chinnaiyan, A. M., Israel, M. A., Goldstein, L. S. B., Abujarour, R., et al. (2010) · Genes & Development · doi:10.1101/gad.1903310 · Cited by 738 · see citing works

Differentiation of clonal lines of teratocarcinoma cells: formation of embryoid bodies in vitro.

Martin, G. R., & Evans, M. J. (1975) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.72.4.1441 · Cited by 728 · see citing works

Pluripotency and Cellular Reprogramming: Facts, Hypotheses, Unresolved Issues

Hanna, J. H., Saha, K., & Jaenisch, R. (2010) · Cell · doi:10.1016/j.cell.2010.10.008 · Cited by 695 · see citing works

Donor cell type can influence the epigenome and differentiation potential of human induced pluripotent stem cells

Kim, K., Zhao, R., Doi, A., Ng, K., Unternaehrer, J., Cahan, P., Huo, H., Loh, Y., Aryee, M. J., Lensch, M. W., et al. (2011) · Nature Biotechnology · doi:10.1038/nbt.2052 · Cited by 613 · see citing works

Suppression of SHP-2 and ERK Signalling Promotes Self-Renewal of Mouse Embryonic Stem Cells

Burdon, T., Stracey, C., Chambers, I., Nichols, J., & Smith, A. G. (1999) · Developmental Biology · doi:10.1006/dbio.1999.9265 · Cited by 585 · see citing works

DNA methylation dynamics of the human preimplantation embryo

Smith, Z. D., Chan, M. M., Humm, K. C., Karnik, R., Mekhoubad, S., Regev, A., Eggan, K. C., & Meissner, A. (2014) · Nature · doi:10.1038/nature13581 · Cited by 580 · see citing works

Generation of rat pancreas in mouse by interspecific blastocyst injection of pluripotent stem cells.

Kobayashi, T., Yamaguchi, T., Hamanaka, S., Kato-itoh, M., Yamazaki, Y., Ibata, M., Sato, H., Lee, Y.-S., Usui, J., Knisely, A., et al. (2010) · Cell · doi:10.1016/j.cell.2010.07.039 · Cited by 571 · see citing works

Single Cell RNA-Sequencing of Pluripotent States Unlocks Modular Transcriptional Variation

Kolodziejczyk, A. A., Kim, J. K., Tsang, J. C. H., Ilicic, T., Henriksson, J., Natarajan, K. N., Tuck, A. C., Gao, X., Bühler, M., Liu, P., et al. (2015) · Cell Stem Cell · doi:10.1016/j.stem.2015.09.011 · Cited by 570 · see citing works

Mitochondrial gene replacement in primate offspring and embryonic stem cells

Tachibana, M., Sparman, M. L., Sritanaudomchai, H., Ma, H., Clepper, L., Woodward, J., Li, Y., Ramsey, C. M., Kolotushkina, O., & Mitalipov, S. M. (2009) · Nature · doi:10.1038/nature08368 · Cited by 565 · see citing works

Differentiation of Embryonic Stem Cell Lines Generated from Adult Somatic Cells by Nuclear Transfer

Wakayama, T., Tabar, V. S., Rodríguez, I., Perry, A. C. F., Studer, L., & Mombaerts, P. (2001) · Science · doi:10.1126/science.1059399 · Cited by 558 · see citing works

Inhibition of glycogen synthase kinase-3 alleviates Tcf3 repression of the pluripotency network and increases embryonic stem cell resistance to differentiation

Wray, J. P., Kalkan, T., Gómez‐López, S., Eckardt, D., Cook, A. S., Kemler, R., & Smith, A. G. (2011) · Nature Cell Biology · doi:10.1038/ncb2267 · Cited by 525 · see citing works

Deterministic direct reprogramming of somatic cells to pluripotency

Rais, Y., Zviran, A., Geula, S., Gafni, O., Chomsky, E., Viukov, S., Mansour, A. A., Caspi, I., Krupalnik, V., Zerbib, M., et al. (2013) · Nature · doi:10.1038/nature12587 · Cited by 522 · see citing works

Naive pluripotency is associated with global DNA hypomethylation

Leitch, H. G., McEwen, K. R., Turp, A., Encheva, V., Carroll, T., Grabole, N., Mansfield, W., Nashun, B., Knezovich, J. G., Smith, A., et al. (2013) · Nature Structural & Molecular Biology · doi:10.1038/nsmb.2510 · Cited by 516 · see citing works

Reorganization of enhancer patterns in transition from naive to primed pluripotency

Buecker, C., Srinivasan, R., Wu, Z., Calo, E., Acampora, D., Faial, T., Simeone, A., Tan, M., Swigut, T., & Wysocka, J. (2014) · Cell Stem Cell · doi:10.1016/j.stem.2014.04.003 · Cited by 507 · see citing works

Targeted disruption of DNMT1, DNMT3A and DNMT3B in human embryonic stem cells

Liao, J., Karnik, R., Gu, H., Ziller, M. J., Clement, K., Tsankov, A. M., Akopian, V., Gifford, C. A., Donaghey, J., Galonska, C., et al. (2015) · Nature Genetics · doi:10.1038/ng.3258 · Cited by 470 · see citing works

Defining the three cell lineages of the human blastocyst by single-cell RNA-seq

Blakeley, P., Fogarty, N. M. E., del Valle, I., Wamaitha, S. E., Hu, T. X., Elder, K. T., Snell, P., Christie, L., Robson, P., & Niakan, K. K. (2015) · Development · doi:10.1242/dev.123547 · Cited by 466 · see citing works

A genome-wide RNAi screen reveals determinants of human embryonic stem cell identity

Chia, N., Chan, Y.-S., Feng, B., Lu, X., Orlov, Y. L., Moreau, D., Kumar, P., Yang, L., Jiang, J., Lau, M.-S., et al. (2010) · Nature · doi:10.1038/nature09531 · Cited by 461 · see citing works

The ability of inner-cell-mass cells to self-renew as embryonic stem cells is acquired following epiblast specification

Boroviak, T., Loos, R., Bertone, P., Smith, A. G., & Nichols, J. (2014) · Nature Cell Biology · doi:10.1038/ncb2965 · Cited by 440 · see citing works

Lineage-Specific Profiling Delineates the Emergence and Progression of Naive Pluripotency in Mammalian Embryogenesis

Boroviak, T., Loos, R., Lombard, P., Okahara, J., Behr, R., Sasaki, E., Nichols, J., Smith, A. G., & Bertone, P. (2015) · Developmental Cell · doi:10.1016/j.devcel.2015.10.011 · Cited by 421 · see citing works

Regulatory Principles of Pluripotency: From the Ground State Up

Hackett, J. A., & Surani, M. A. (2014) · Cell stem cell · doi:10.1016/j.stem.2014.09.015 · Cited by 404 · see citing works

iPS cells: a game changer for future medicine

Inoue, H., Nagata, N., Kurokawa, H., & Yamanaka, S. (2014) · The EMBO Journal · doi:10.1002/embj.201387098 · Cited by 403 · see citing works

Chromatin Connections to Pluripotency and Cellular Reprogramming

Orkin, S. H., & Hochedlinger, K. (2011) · Cell · doi:10.1016/j.cell.2011.05.019 · Cited by 394 · see citing works

Induction of a Human Pluripotent State with Distinct Regulatory Circuitry that Resembles Preimplantation Epiblast

Chan, Y.-S., Göke, J., Ng, J.-H., Lu, X., Gonzales, K. A. U., Tan, C.-P., Tng, W. J., Hong, Z.-Z., Lim, Y. S., & Ng, H. (2013) · Cell stem cell · doi:10.1016/j.stem.2013.11.015 · Cited by 392 · see citing works

FGF Signaling Inhibition in ESCs Drives Rapid Genome-wide Demethylation to the Epigenetic Ground State of Pluripotency

Ficz, G., Hore, T. A., Santos, F., Lee, H. J., Dean, W., Arand, J., Krueger, F., Oxley, D., Paul, Y., Walter, J., et al. (2013) · Cell stem cell · doi:10.1016/j.stem.2013.06.004 · Cited by 387 · see citing works

Epigenetic reversion of post-implantation epiblast to pluripotent embryonic stem cells

Bao, S., Tang, F., Li, X., Hayashi, K., Gillich, A., Lao, K., & Surani, M. A. (2009) · Nature · doi:10.1038/nature08534 · Cited by 384 · see citing works

Erosion of Dosage Compensation Impacts Human iPSC Disease Modeling

Mekhoubad, S., Bock, C., de Boer, A. S., Kiskinis, E., Meissner, A., & Eggan, K. C. (2012) · Cell stem cell · doi:10.1016/j.stem.2012.02.014 · Cited by 362 · see citing works

Deconstructing transcriptional heterogeneity in pluripotent stem cells

Kumar, R. M., Cahan, P., Shalek, A. K., Satija, R., Jay DaleyKeyser, A., Li, H., Zhang, J., Pardee, K., Gennert, D., Trombetta, J. J., et al. (2014) · Nature · doi:10.1038/nature13920 · Cited by 356 · see citing works

DNA Demethylation Dynamics in the Human Prenatal Germline

Gkountela, S., Zhang, K. X., Shafiq, T. A., Liao, W., Calvopina, J. H., Chen, P., & Clark, A. T. (2015) · Cell · doi:10.1016/j.cell.2015.05.012 · Cited by 351 · see citing works

Conserved and Divergent Roles of FGF Signaling in Mouse Epiblast Stem Cells and Human Embryonic Stem Cells

Greber, B., Wu, G., Bernemann, C., Joo, J. Y., Han, D., Ko, K., Tàpia, N., Sabour, D., Sterneckert, J. L., Tesar, P. J., et al. (2010) · Cell stem cell · doi:10.1016/j.stem.2010.01.003 · Cited by 349 · see citing works

Exit from Pluripotency Is Gated by Intracellular Redistribution of the bHLH Transcription Factor Tfe3

Betschinger, J., Nichols, J., Dietmann, S., Corrin, P. D., Paddison, P. J., & Smith, A. G. (2013) · Cell · doi:10.1016/j.cell.2013.03.012 · Cited by 335 · see citing works

Abnormalities in human pluripotent cells due to reprogramming mechanisms

Ma, H., Morey, R. E., O’Neil, R. C., He, Y., Daughtry, B. L., Schultz, M. D., Hariharan, M., Nery, J. R., Castanon, R., Sabatini, K., et al. (2014) · Nature · doi:10.1038/nature13551 · Cited by 332 · see citing works

Metastable Pluripotent States in NOD-Mouse-Derived ESCs

Hanna, J. H., Markoulaki, S., Mitalipova, M. M., Cheng, A. W., Cassady, J. P., Staerk, J., Carey, B. W., Lengner, C. J., Foreman, R. K., Love, J. A., et al. (2009) · Cell stem cell · doi:10.1016/j.stem.2009.04.015 · Cited by 326 · see citing works

Esrrb Is a Direct Nanog Target Gene that Can Substitute for Nanog Function in Pluripotent Cells

Festuccia, N., Osorno, R., Halbritter, F., Karwacki-Neisius, V., Navarro, P., Colby, D., Wong, F. C. K., Yates, A., Tomlinson, S. R., & Chambers, I. (2012) · Cell stem cell · doi:10.1016/j.stem.2012.08.002 · Cited by 322 · see citing works

The Transcriptional and Functional Properties of Mouse Epiblast Stem Cells Resemble the Anterior Primitive Streak

Kojima, Y., Kaufman‐Francis, K., Studdert, J. B., Steiner, K. A., Power, M., Loebel, D. A. F., Jones, V. J., Hor, A. C. C., de Alencastro, G., Logan, G. J., et al. (2013) · Cell stem cell · doi:10.1016/j.stem.2013.09.014 · Cited by 303 · see citing works

Pluripotency in the Embryo and in CulturePreprint

Nichols, J., & Smith, A. G. (2012) · Cold Spring Harbor Perspectives in Biology · doi:10.1101/cshperspect.a008128 · Cited by 300 · see citing works

Enhancers as information integration hubs in development: lessons from genomics

Buecker, C., & Wysocka, J. (2012) · Trends in Genetics · doi:10.1016/j.tig.2012.02.008 · Cited by 286 · see citing works

Naive Human Pluripotent Cells Feature a Methylation Landscape Devoid of Blastocyst or Germline Memory

Pastor, W. A., Chen, D., Liu, W., Kim, R., Sahakyan, A., Lukianchikov, A., Plath, K., Jacobsen, S. E., & Clark, A. T. (2016) · Cell stem cell · doi:10.1016/j.stem.2016.01.019 · Cited by 284 · see citing works

A comparison of genetically matched cell lines reveals the equivalence of human iPSCs and ESCs

Choi, J., Lee, S., Clement, K., Mallard, W., Tagliazucchi, G., Lim, H., Choi, I.-Y., Ferrari, F., Tsankov, A. M., Pop, R., et al. (2015) · Nature Biotechnology · doi:10.1038/nbt.3388 · Cited by 268 · see citing works

Induction of Pluripotency in Adult Unipotent Germline Stem Cells

Ko, K., Tàpia, N., Wu, G., Kim, J. B., Araúzo-Bravo, M. J., Sasse, P., Glaser, T., Ruau, D., Han, D., Greber, B., et al. (2009) · Cell stem cell · doi:10.1016/j.stem.2009.05.025 · Cited by 262 · see citing works

Nuclear genome transfer in human oocytes eliminates mitochondrial DNA variants

Paull, D. J., Emmanuele, V., Weiss, K. A., Treff, N. R., Stewart, L. A., Hua, H., Zimmer, M., Kahler, D. J., Goland, R., Noggle, S., et al. (2012) · Nature · doi:10.1038/nature11800 · Cited by 257 · see citing works

An alternative pluripotent state confers interspecies chimaeric competency

Wu, J., Okamura, D., Li, M., Suzuki, K., Luo, C., Ma, L., He, Y., Li, Z., Benner, C. W., Tamura, I., et al. (2015) · Nature · doi:10.1038/nature14413 · Cited by 243 · see citing works

A Precarious Balance: Pluripotency Factors as Lineage Specifiers

Loh, K. M., & Lim, B. (2011) · Cell Stem Cell · doi:10.1016/j.stem.2011.03.013 · Cited by 240 · see citing works

NuRD suppresses pluripotency gene expression to promote transcriptional heterogeneity and lineage commitment

Reynolds, N., Latos, P., Hynes-Allen, A., Loos, R., Leaford, D., O'Shaughnessy, A., Mosaku, O., Signolet, J., Brennecke, P., Kalkan, T., et al. (2012) · Cell Stem Cell · doi:10.1016/j.stem.2012.02.020 · Cited by 236 · see citing works

Epiblast Stem Cell Subpopulations Represent Mouse Embryos of Distinct Pregastrulation Stages

Han, D., Tàpia, N., Joo, J. Y., Greber, B., Araúzo-Bravo, M. J., Bernemann, C., Ko, K., Wu, G., Stehling, M., Tae, J., et al. (2010) · Cell · doi:10.1016/j.cell.2010.10.015 · Cited by 203 · see citing works

Validated germline-competent embryonic stem cell lines from nonobese diabetic mice

Nichols, J., Jones, K. D., Phillips, J. M., Newland, S. A., Roode, M., Mansfield, W., Smith, A. G., & Cooke, A. (2009) · Nature Medicine · doi:10.1038/nm.1996 · Cited by 201 · see citing works

Metabolic rescue in pluripotent cells from patients with mtDNA disease

Ma, H., Folmes, C. D. L., Wu, J., Morey, R. E., Mora-Castilla, S., Ocampo, A., Ma, L., Poulton, J., Wang, X., Ahmed, R., et al. (2015) · Nature · doi:10.1038/nature14546 · Cited by 192 · see citing works

Human oocytes reprogram adult somatic nuclei of a type 1 diabetic to diploid pluripotent stem cells

Yamada, M., Jóhannesson, B., Sagi, I., Burnett, L. C., Kort, D. H., Prosser, R. W., Paull, D. J., Nestor, M. W., Freeby, M., Greenberg, E. M., et al. (2014) · Nature · doi:10.1038/nature13287 · Cited by 188 · see citing works

In Vivo Differentiation Potential of Epiblast Stem Cells Revealed by Chimeric Embryo Formation

Huang, Y., Osorno, R., Tsakiridis, A., & Wilson, V. A. (2012) · Cell Reports · doi:10.1016/j.celrep.2012.10.022 · Cited by 184 · see citing works

Reduced Oct4 Expression Directs a Robust Pluripotent State with Distinct Signaling Activity and Increased Enhancer Occupancy by Oct4 and Nanog

Karwacki-Neisius, V., Göke, J., Osorno, R., Halbritter, F., Ng, J. H., Weiße, A. Y., Wong, F. C. K., Gagliardi, A., Mullin, N. P., Festuccia, N., et al. (2013) · Cell stem cell · doi:10.1016/j.stem.2013.04.023 · Cited by 177 · see citing works

Rho-Signaling-Directed YAP/TAZ Activity Underlies the Long-Term Survival and Expansion of Human Embryonic Stem Cells

Ohgushi, M., Minaguchi, M., & Sasai, Y. (2015) · Cell stem cell · doi:10.1016/j.stem.2015.07.009 · Cited by 173 · see citing works

Reinforcement of STAT3 activity reprogrammes human embryonic stem cells to naive-like pluripotency

Chen, H., Aksoy, I., Gonnot, F., Osteil, P., Aubry, M., Hamela, C., Rognard, C., Hochard, A., Voisin, S., Fontaine, E., et al. (2015) · Nature Communications · doi:10.1038/ncomms8095 · Cited by 169 · see citing works

Modulation of β-catenin function maintains mouse epiblast stem cell and human embryonic stem cell self-renewal

Kim, H., Wu, J., Ye, S., Tai, C.-I., Zhou, X., Yan, H., Li, P., Pera, M. F., & Ying, Q.-L. (2013) · Nature Communications · doi:10.1038/ncomms3403 · Cited by 165 · see citing works

Erk1/2 Activity Promotes Chromatin Features and RNAPII Phosphorylation at Developmental Promoters in Mouse ESCs

Tee, W.-W., Shen, S. S., Oksuz, O., Narendra, V., & Reinberg, D. (2014) · Cell · doi:10.1016/j.cell.2014.01.009 · Cited by 165 · see citing works

FGF signalling inhibition in ESCs drives rapid genome-wide demethylation to the epigenetic ground state of pluripotency

Ficz, G., Hore, T. A., Santos, F., Lee, H. J., Dean, W., Arand, J., Krueger, F., Oxley, D., Paul, Y., Walter, J., et al. (2013) · Clinical Epigenetics · doi:10.1186/1868-7083-5-s1-s2 · Cited by 164 · see citing works

Isolation of Epiblast Stem Cells from Preimplantation Mouse Embryos

Najm, F. J., Chenoweth, J. G., Anderson, P. D., Nadeau, J. H., Redline, R. W., McKay, R. D. G., & Tesar, P. J. (2011) · Cell stem cell · doi:10.1016/j.stem.2011.01.016 · Cited by 164 · see citing works

Dynamic and static maintenance of epigenetic memory in pluripotent and somatic cells

Shipony, Z., Mukamel, Z., Cohen, N. M., Landan, G., Chomsky, E., Zeliger, S. R., Fried, Y. C., Ainbinder, E., Friedman, N., & Tanay, A. (2014) · Nature · doi:10.1038/nature13458 · Cited by 159 · see citing works

Epigenomic Comparison Reveals Activation of “Seed” Enhancers during Transition from Naive to Primed Pluripotency

Factor, D. C., Corradin, O., Zentner, G. E., Saiakhova, A., Song, L., Chenoweth, J. G., McKay, R. D. G., Crawford, G. E., Scacheri, P. C., & Tesar, P. J. (2014) · Cell stem cell · doi:10.1016/j.stem.2014.05.005 · Cited by 159 · see citing works

Embryonic germ cells from mice and rats exhibit properties consistent with a generic pluripotent ground state

Leitch, H. G., Blair, K., Mansfield, W. M., Ayetey, H., Humphreys, P. D., Nichols, J., Surani, M. A., & Smith, A. G. (2010) · Development · doi:10.1242/dev.050427 · Cited by 147 · see citing works

Epiblast Stem Cell-Based System Reveals Reprogramming Synergy of Germline Factors

Gillich, A., Bao, S.-Q., Grabole, N., Hayashi, K., Trotter, M., Pasque, V., Magnúsdóttir, E., & Surani, M. (2012) · Cell Stem Cell · doi:10.1016/j.stem.2012.01.020 · Cited by 146 · see citing works

Alternative Routes to Induce Naïve Pluripotency in Human Embryonic Stem Cells

Duggal, G., Warrier, S., Ghimire, S., Broekaert, D., der Jeught, M. V., Lierman, S., Deroo, T., Peelman, L. J., Soom, A. V., Cornelissen, R., et al. (2015) · Stem Cells · doi:10.1002/stem.2071 · Cited by 136 · see citing works

Transient acquisition of pluripotency during somatic cell transdifferentiation with iPSC reprogramming factors

Maza, I., Caspi, I., Zviran, A., Chomsky, E., Rais, Y., Viukov, S. V., Geula, S., Buenrostro, J. D., Weinberger, L., Krupalnik, V., et al. (2015) · Nature Biotechnology · doi:10.1038/nbt.3270 · Cited by 133 · see citing works

Generation of Naive Induced Pluripotent Stem Cells from Rhesus Monkey Fibroblasts

Fang, R., Liu, K., Zhao, Y., Li, H., Zhu, D., Du, Y., Xiang, C., Li, X., Liu, H., Miao, Z., et al. (2014) · Cell stem cell · doi:10.1016/j.stem.2014.09.004 · Cited by 125 · see citing works

Activin/Nodal signaling and NANOG orchestrate human embryonic stem cell fate decisions by controlling the H3K4me3 chromatin markPreprint

Bertero, A., Madrigal, P., Galli, A., Hubner, N. C., Moreno, I., Burks, D. J., Brown, S. E., Pedersen, R. A., Gaffney, D. J., Mendjan, S., et al. (2015) · Genes & Development · doi:10.1101/gad.255984.114 · Cited by 125 · see citing works

Klf2 Is an Essential Factor that Sustains Ground State Pluripotency

Yeo, J.-C., Jiang, J., Tan, Z.-Y., Yim, D., Ng, J.-H., Göke, J., Kraus, P., Liang, H., Gonzales, K. A. U., Chong, H.-C., et al. (2014) · Cell stem cell · doi:10.1016/j.stem.2014.04.015 · Cited by 124 · see citing works

Synergistic Mechanisms of DNA Demethylation during Transition to Ground-State Pluripotency

Hackett, J. A., Dietmann, S., Murakami, K., Down, T. A., Leitch, H. G., & Surani, M. A. (2013) · Stem Cell Reports · doi:10.1016/j.stemcr.2013.11.010 · Cited by 124 · see citing works

A membrane-associated β-catenin/Oct4 complex correlates with ground-state pluripotency in mouse embryonic stem cells

Faunes, F., Hayward, P. C., Descalzo, S. M., Chatterjee, S. S., Balayo, T., Trott, J., Christoforou, A., Ferrer‐Vaquer, A., Hadjantonakis, A., DasGupta, R., et al. (2013) · Development · doi:10.1242/dev.085654 · Cited by 122 · see citing works

Ground State Conditions Induce Rapid Reorganization of Core Pluripotency Factor Binding before Global Epigenetic Reprogramming

Galonska, C., Ziller, M. J., Karnik, R., & Meissner, A. (2015) · Cell stem cell · doi:10.1016/j.stem.2015.07.005 · Cited by 118 · see citing works

Generation of Cynomolgus Monkey Chimeric Fetuses using Embryonic Stem Cells

Chen, Y., Niu, Y., Li, Y., et al. (2015) · Cell stem cell · doi:10.1016/j.stem.2015.06.004 · Cited by 115 · see citing works

Direct reprogramming of fibroblasts into epiblast stem cells

Han, D., Greber, B., Wu, G., Tàpia, N., Araúzo-Bravo, M. J., Ko, K., Bernemann, C., Stehling, M., & Schöler, H. R. (2010) · Nature Cell Biology · doi:10.1038/ncb2136 · Cited by 113 · see citing works

Calcineurin-NFAT Signaling Critically Regulates Early Lineage Specification in Mouse Embryonic Stem Cells and Embryos

Li, X., Zhu, L., Yang, A., Lin, J., Tang, F., Jin, S., Wei, Z., Li, J., & Jin, Y. (2011) · Cell stem cell · doi:10.1016/j.stem.2010.11.027 · Cited by 112 · see citing works

Erk signaling is indispensable for genomic stability and self-renewal of mouse embryonic stem cells

Chen, H., Guo, R., Zhang, Q., Guo, H., Yang, M., Wu, Z., Gao, S., Liu, L., & Chen, L. (2015) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1516319112 · Cited by 100 · see citing works

Systematic Identification of Barriers to Human iPSC Generation

Qin, H., Diaz, A. A., Blouin, L., Lebbink, R. J., Patena, W., Tanbun, P., LeProust, E. M., McManus, M. T., Song, J. S., & Ramalho‐Santos, M. (2014) · Cell · doi:10.1016/j.cell.2014.05.040 · Cited by 95 · see citing works

Human adult germline stem cells in question

Ko, K., Araúzo-Bravo, M. J., Tàpia, N., et al. (2010) · Nature · doi:10.1038/nature09089 · Cited by 90 · see citing works

Self-Renewal Versus Lineage Commitment of Embryonic Stem Cells: Protein Kinase C Signaling Shifts the Balance

Dutta, D., Ray, S. S., Home, P., Larson, M. A., Wolfe, M. W., & Paul, S. (2011) · Stem Cells · doi:10.1002/stem.605 · Cited by 90 · see citing works

CD24 tracks divergent pluripotent states in mouse and human cells

Shakiba, N., White, C. A., Lipsitz, Y. Y., Yachie‐Kinoshita, A., Tonge, P. D., Hussein, S. M. I., Puri, M. C., Elbaz, J., Morrissey-Scoot, J. B., Li, M., et al. (2015) · Nature Communications · doi:10.1038/ncomms8329 · Cited by 85 · see citing works

Nanog Is Dispensable for the Generation of Induced Pluripotent Stem Cells

Schwarz, B. A., Bar‐Nur, O., Silva, J., & Hochedlinger, K. (2014) · Current Biology · doi:10.1016/j.cub.2013.12.050 · Cited by 78 · see citing works

Robust Self-Renewal of Rat Embryonic Stem Cells Requires Fine-Tuning of Glycogen Synthase Kinase-3 Inhibition

Chen, Y., Blair, K. A., & Smith, A. G. (2013) · Stem Cell Reports · doi:10.1016/j.stemcr.2013.07.003 · Cited by 68 · see citing works

SCNT-derived ESCs with mismatched mitochondria trigger an immune response in allogeneic hosts.

Deuse, T., Wang, D., Stubbendorff, M., Itagaki, R., Grabosch, A., Greaves, L. C., Alawi, M., Grünewald, A., Hu, X.-M., Hua, X., et al. (2015) · Cell Stem Cell · doi:10.1016/j.stem.2014.11.003 · Cited by 64 · see citing works

LIF supports primitive endoderm expansion during pre-implantation development

Morgani, S. M., & Brickman, J. M. (2015) · Development · doi:10.1242/dev.125021 · Cited by 64 · see citing works

Dual Inhibition of Src and GSK3 Maintains Mouse Embryonic Stem Cells, Whose Differentiation Is Mechanically Regulated by Src Signaling

Shimizu, T., Ueda, J., Ho, J. C., Iwasaki, K., Poellinger, L., Harada, I., & Sawada, Y. (2012) · Stem Cells · doi:10.1002/stem.1119 · Cited by 63 · see citing works

Nanog-Independent Reprogramming to iPSCs with Canonical Factors

Carter, A. C., Davis-Dusenbery, B., Koszka, K., Ichida, J., & Eggan, K. (2014) · Stem Cell Reports · doi:10.1016/j.stemcr.2013.12.010 · Cited by 62 · see citing works

Stable X Chromosome Reactivation in Female Human Induced Pluripotent Stem Cells

Barakat, T. S., Ghazvini, M., de Hoon, B., Li, T. M. W. Y., Eussen, B., Douben, H., van der Linden, R., van der Stap, N., Boter, M., Laven, J. S. E., et al. (2015) · Stem Cell Reports · doi:10.1016/j.stemcr.2014.12.012 · Cited by 51 · see citing works

Inhibition of Protein Kinase C Signaling Maintains Rat Embryonic Stem Cell Pluripotency*

Rajendran, G., Dutta, D., Hong, J., Paul, A., Saha, B., Mahato, B., Ray, S. S., Home, P., Ganguly, A., Weiss, M. L., et al. (2013) · Journal of Biological Chemistry · doi:10.1074/jbc.m113.455725 · Cited by 44 · see citing works

Tuning of β-catenin activity is required to stabilize self-renewal of rat embryonic stem cells

Meek, S. E., Wei, J., Sutherland, L., Nilges, B. S., Buehr, M. L., Tomlinson, S. R., Thomson, A. J., & Burdon, T. (2013) · Stem Cells · doi:10.1002/stem.1466 · Cited by 42 · see citing works

Human ERas Gene Has an Upstream Premature Polyadenylation Signal That Results in a Truncated, Noncoding Transcript

Kameda, T., & Thomson, J. A. (2005) · Stem Cells · doi:10.1634/stemcells.2005-0054 · Cited by 32 · see citing works

Establishing the human naïve pluripotent state

Manor, Y. S., Massarwa, R., & Hanna, J. H. (2015) · Current Opinion in Genetics & Development · doi:10.1016/j.gde.2015.07.005 · Cited by 27 · see citing works

Pluripotent cell derivation from male germline cells by suppression of Dmrt1 and Trp53

Tanaka, T. S. T., Kanatsu‐Shinohara, M., Hirose, M., Ogura, A., & Shinohara, T. (2015) · Journal of Reproduction and Development · doi:10.1262/jrd.2015-059 · Cited by 11 · see citing works

Effect of Gsk3 inhibitor CHIR99021 on aneuploidy levels in rat embryonic stem cells

Bock, A. S., Leigh, N. D., & Bryda, E. C. (2014) · In Vitro Cellular & Developmental Biology - Animal · doi:10.1007/s11626-014-9734-5 · Cited by 11 · see citing works

Regulation and function of the mammalian tricarboxylic acid cycle

Arnold, P. K., & Finley, L. W. S. (2023) · Journal of Biological Chemistry · doi:10.1016/j.jbc.2022.102838 · Cited by 535 · see citing works

The m6A epitranscriptome: transcriptome plasticity in brain development and function

Livneh, I., Moshitch-Moshkovitz, S., Amariglio, N., Rechavi, G., & Dominissini, D. (2020) · Nature Reviews Neuroscience · doi:10.1038/s41583-019-0244-z · Cited by 330 · see citing works

Metabolic signatures of cancer cells and stem cells

Intlekofer, A. M., & Finley, L. W. S. (2019) · Nature Metabolism · doi:10.1038/s42255-019-0032-0 · Cited by 322 · see citing works

CRISPR/Cas9-based engineering of the epigenome

Pulecio, J., Verma, N., Mejía-Ramírez, E., Huangfu, D., & Raya, A. (2017) · Cell Stem Cell · doi:10.1016/j.stem.2017.09.006 · Cited by 300 · see citing works

Transcriptional Heterogeneity in Naive and Primed Human Pluripotent Stem Cells at Single-Cell Resolution

Messmer, T., von Meyenn, F., Savino, A., Santos, F., Mohammed, H., Lun, A. T. L., Marioni, J. C., & Reik, W. (2019) · Cell Reports · doi:10.1016/j.celrep.2018.12.099 · Cited by 156 · see citing works

Principles of signaling pathway modulation for enhancing human naive pluripotency induction

Bayerl, J., Ayyash, M., Shani, T., Manor, Y. S., Gafni, O., Massarwa, R., Kalma, Y., Aguilera-Castrejon, A., Zerbib, M., Amir, H., et al. (2021) · Cell stem cell · doi:10.1016/j.stem.2021.04.001 · Cited by 165 · see citing works

Multi-omic Profiling Reveals Dynamics of the Phased Progression of Pluripotency

Yang, P., Humphrey, S. J., Cinghu, S., Pathania, R., Oldfield, A. J., Kumar, D., Perera, D., Yang, J. Y. H., James, D. E., Mann, M., et al. (2019) · Cell Systems · doi:10.1016/j.cels.2019.03.012 · Cited by 146 · see citing works

scMAGeCK links genotypes with multiple phenotypes in single-cell CRISPR screens

Yang, L., Zhu, Y., Yu, H., Cheng, X., Chen, S., Chu, Y., Huang, H., Zhang, J., & Li, W. (2020) · Genome Biology · doi:10.1186/s13059-020-1928-4 · Cited by 94 · see citing works

Neutralizing Gatad2a-Chd4-Mbd3/NuRD Complex Facilitates Deterministic Induction of Naive Pluripotency

Mor, N., Rais, Y., Sheban, D., Peles, S., Aguilera-Castrejon, A., Zviran, A., Elinger, D., Viukov, S., Geula, S., Krupalnik, V., et al. (2018) · Cell Stem Cell · doi:10.1016/j.stem.2018.07.004 · Cited by 79 · see citing works

Homeobox C8 inhibited the osteo‐/dentinogenic differentiation and migration ability of stem cells of the apical papilla via activating KDM1A

Yang, H., Liang, Y., Cao, Y., Cao, Y., & Fan, Z. (2020) · Journal of Cellular Physiology · doi:10.1002/jcp.29687 · Cited by 30 · see citing works

An Overview on Promising Somatic Cell Sources Utilized for the Efficient Generation of Induced Pluripotent Stem Cells

Ray, A., Joshi, J. M., Sundaravadivelu, P. K., Raina, K., Lenka, N., Kaveeshwar, V., & Thummer, R. P. (2021) · Stem Cell Reviews and Reports · doi:10.1007/s12015-021-10200-3 · Cited by 52 · see citing works

AP-1 activity is a major barrier of human somatic cell reprogramming

Liu, Y., He, J., Chen, R., Liu, H., Chen, J., Liu, Y., Wang, B., Guo, L., Pei, D., Wang, J., et al. (2021) · Cellular and Molecular Life Sciences · doi:10.1007/s00018-021-03883-x · Cited by 10 · see citing works

Author response: Unique molecular events during reprogramming of human somatic cells to induced pluripotent stem cells (iPSCs) at naïve state

Wang, Y., Zhao, C., Hou, Z., et al. (2017) · doi:10.7554/elife.29518.036

Cellular reprogramming of somatic cells.

Sümer, H., Liu, J., & Verma, P. J. (2011) · PubMed · Cited by 2 · see citing works

Induced Pluripotent Stem Cell Production and Characterization: An Overview of Somatic Cell Reprogramming

Cox, J. L., & Rizzino, A. (2011) · Springer eBooks · doi:10.1007/978-94-007-2828-8_12