Epigenomic annotation of enhancers predicts transcriptional regulators of human neural crest
Open accessAbstract
Neural crest cells (NCC) are a transient, embryonic cell population characterized by unusual migratory ability and developmental plasticity. To annotate and characterize cis-regulatory elements utilized by the human NCC, we coupled a hESC differentiation model with genome-wide profiling of histone modifications and of coactivator and transcription factor (TF) occupancy. Sequence analysis predicted major TFs binding at epigenomically annotated hNCC enhancers, including a master NC regulator, TFAP2A, and nuclear receptors NR2F1 and NR2F2. Although many TF binding events occur outside enhancers, sites coinciding with enhancer chromatin signatures show significantly higher sequence constraint, nucleosomal depletion, correlation with gene expression, and functional conservation in NCC isolated from chicken embryos. Simultaneous co-occupancy by TFAP2A and NR2F1/F2 is associated with permissive enhancer chromatin states, characterized by high levels of p300 and H3K27ac. Our results provide global insights into human NC chromatin landscapes and a rich resource for studies of craniofacial development and disease.
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Integrity signals
Registry
Cites
Statistics
Claims the paper makes
The claims and statistics of this paper haven’t been checked yet.
Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.
Claims other papers make about this one
Each is checked against this paper’s own text: does it say what the citing paper says it does?
NR2F1 plays a role in regulating neural crest specifier genes and has undergone selection in AMH.
“NR2F1, which plays a role in regulating neural crest specifier genes and has undergone selection in AMH [64, 65]”
From Self-domestication in Homo sapiens: Insights from comparative genomics (2017) · cites this paper as [64]
Self-check
Percentages, sums and reported differences re-computed from the paper’s own numbers.
The self-check needs the paper’s full text.
Cites
Stages of embryonic development of the zebrafish
Kimmel, C. B., Ballard, W. W., Kimmel, S. R., Ullmann, B., & Schilling, T. F. (1995) · Developmental Dynamics · doi:10.1002/aja.1002030302 · Cited by 12,037 · see citing works
GREAT improves functional interpretation of cis-regulatory regions
McLean, C. Y., Bristor, D., Hiller, M., Clarke, S. L., Schaar, B. T., Lowe, C. B., Wenger, A. M., & Bejerano, G. (2010) · Nature Biotechnology · doi:10.1038/nbt.1630 · Cited by 4,502 · see citing works
Histone H3K27ac separates active from poised enhancers and predicts developmental state
Creyghton, M. P., Cheng, A. W., Welstead, G. G., Kooistra, T., Carey, B. W., Steine, E. J., Hanna, J., Lodato, M. A., Frampton, G. M., Sharp, P. A., et al. (2010) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1016071107 · Cited by 4,302 · see citing works
Histone modifications at human enhancers reflect global cell-type-specific gene expression
Heintzman, N. D., Hon, G. C., Hawkins, R. D., Kheradpour, P., Stark, A., Harp, L. F., Ye, Z., Lee, L. K., Stuart, R. K., Ching, C. W., et al. (2009) · Nature · doi:10.1038/nature07829 · Cited by 2,533 · see citing works
A unique chromatin signature uncovers early developmental enhancers in humans
Rada-Iglesias, A., Bajpai, R., Swigut, T., Brugmann, S. A., Flynn, R. A., & Wysocka, J. (2011) · Nature · doi:10.1038/nature09692 · Cited by 2,233 · see citing works
Self-citationLammer, E. J., Chen, D. T., Hoar, R. M., Agnish, N. D., Benke, P. J., Braun, J. T., Curry, C. J., Fernhoff, P. M., Grix, A. W., Lott, I. T., et al. (1985) · New England Journal of Medicine · doi:10.1056/nejm198510033131401 · Cited by 1,942 · see citing works
ChIP-seq accurately predicts tissue-specific activity of enhancers
Visel, A., Blow, M. J., Li, Z., Zhang, T., Akiyama, J. A., Holt, A., Plajzer-Frick, I., Shoukry, M., Wright, C., Chen, F., et al. (2009) · Nature · doi:10.1038/nature07730 · Cited by 1,639 · see citing works
Pioneer transcription factors: establishing competence for gene expression
Zaret, K. S., & Carroll, J. S. (2011) · Genes & Development · doi:10.1101/gad.176826.111 · Cited by 1,589 · see citing works
Dorsal differentiation of neural plate cells induced by BMP-mediated signals from epidermal ectoderm
Liem, K. F., Tremml, G., Roelink, H., & Jessell, T. M. (1995) · Cell · doi:10.1016/0092-8674(95)90276-7 · Cited by 1,071 · see citing works
Functional and Mechanistic Diversity of Distal Transcription Enhancers
Bulger, M., & Groudine, M. (2011) · Cell · doi:10.1016/j.cell.2011.01.024 · Cited by 803 · see citing works
A gene regulatory network orchestrates neural crest formation
Sauka‐Spengler, T., & Bronner-Fraser, M. E. (2008) · Nature Reviews Molecular Cell Biology · doi:10.1038/nrm2428 · Cited by 730 · see citing works
Genome-wide analysis of transcription factor binding sites based on ChIP-Seq data
Valouev, A., Johnson, D. S., Sundquist, A., Medina, C., Anton, E., Batzoglou, S., Myers, R. M., & Sidow, A. (2008) · Nature Methods · doi:10.1038/nmeth.1246 · Cited by 695 · see citing works
Zhao, X. D., Han, X., Chew, J. L., Liu, J., Chiu, K. P., Choo, A. B. H., Orlov, Y. L., Sung, W.-K. K., Shahab, A., Kuznetsov, V. A., et al. (2007) · Cell stem cell · doi:10.1016/j.stem.2007.08.004 · Cited by 616 · see citing works
CHD7 cooperates with PBAF to control multipotent neural crest formation
Bajpai, R., Chen, D. A., Rada-Iglesias, Á., Zhang, J., Xiong, Y., Helms, J. A., Chang, C., Zhao, Y., Swigut, T., & Wysocka, J. (2010) · Nature · doi:10.1038/nature08733 · Cited by 611 · see citing works
Self-citationTranscription factor AP-2 essential for cranial closure and craniofacial development
Schorle, H., Meier, P., Büchert, M., Jaenisch, R., & Mitchell, P. J. (1996) · Nature · doi:10.1038/381235a0 · Cited by 611 · see citing works
Master Transcription Factors Determine Cell-Type-Specific Responses to TGF-β Signaling
Mullen, A. C., Orlando, D. A., Newman, J. J., Lovén, J., Kumar, R., Bilodeau, S., Reddy, J., Guenther, M. G., DeKoter, R. P., & Young, R. A. (2011) · Cell · doi:10.1016/j.cell.2011.08.050 · Cited by 563 · see citing works
Ectodermal Wnt Function as a Neural Crest Inducer
García‐Castro, M. I., Marcelle, C., & Bronner-Fraser, M. E. (2002) · Science · doi:10.1126/science.1070824 · Cited by 537 · see citing works
Peng, J. C., Valouev, A., Swigut, T., Zhang, J., Zhao, Y., Sidow, A., & Wysocka, J. (2009) · Cell · doi:10.1016/j.cell.2009.12.002 · Cited by 533 · see citing works
Self-citationMinoux, M., & Rijli, F. M. (2010) · Development · doi:10.1242/dev.040048 · Cited by 507 · see citing works
Bonn, S., Zinzen, R. P., Girardot, C., Gustafson, E. H., Perez-Gonzalez, A., Delhomme, N., Ghavi-Helm, Y., Wilczyński, B., Riddell, A., & Furlong, E. E. M. (2012) · Nature Genetics · doi:10.1038/ng.1064 · Cited by 502 · see citing works
Key susceptibility locus for nonsyndromic cleft lip with or without cleft palate on chromosome 8q24
Birnbaum, S., Ludwig, K. U., Reutter, H. M., Herms, S., Steffens, M., Rubini, M., Baluardo, C., Ferrian, M., de Assis, N. A., Alblas, M. A., et al. (2009) · Nature Genetics · doi:10.1038/ng.333 · Cited by 466 · see citing works
Cooney, A. J., Tsai, S. Y., O’Malley, B. W., & Tsai, M. (1992) · Molecular and Cellular Biology · doi:10.1128/mcb.12.9.4153 · Cited by 383 · see citing works
Chick Ovalbumin Upstream Promoter-Transcription Factors (COUP-TFs): Coming of Age
Tsai, S. Y., & Tsai, M. (1997) · Endocrine Reviews · doi:10.1210/edrv.18.2.0294 · Cited by 334 · see citing works
Animal Transcription Networks as Highly Connected, Quantitative Continua
Biggin, M. D. (2011) · Developmental Cell · doi:10.1016/j.devcel.2011.09.008 · Cited by 308 · see citing works
A direct role for Sox10 in specification of neural crest-derived sensory neurons
Carney, T. J., Dutton, K. A., Greenhill, E., Delfino-Machín, M., Dufourcq, P., Blader, P., & Kelsh, R. N. (2006) · Development · doi:10.1242/dev.02668 · Cited by 307 · see citing works
Assembling Neural Crest Regulatory Circuits into a Gene Regulatory Network
Betancur, P. A., Bronner-Fraser, M. E., & Sauka‐Spengler, T. (2010) · Annual Review of Cell and Developmental Biology · doi:10.1146/annurev.cellbio.042308.113245 · Cited by 305 · see citing works
Trompouki, E., Bowman, T. V., Lawton, L. N., Fan, Z. P., Wu, D.-C., DiBiase, A., Martin, C., Cech, J. N., Sessa, A. K., LeBlanc, J., et al. (2011) · Cell · doi:10.1016/j.cell.2011.09.044 · Cited by 303 · see citing works
Cis -acting regulatory sequences governing Wnt-1 expression in the developing mouse CNS
Echelard, Y., Vassileva, G., & McMahon, A. P. (1994) · Development · doi:10.1242/dev.120.8.2213 · Cited by 302 · 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
Self-citationNeural crest specification: migrating into genomics
Gammill, L. S., & Bronner-Fraser, M. E. (2003) · Nature reviews. Neuroscience · doi:10.1038/nrn1219 · Cited by 269 · see citing works
Fisher, S., Grice, E. A., Vinton, R. M., Bessling, S. L., Urasaki, A., Kawakami, K., & McCallion, A. S. (2006) · Nature Protocols · doi:10.1038/nprot.2006.230 · Cited by 256 · see citing works
Naka, H., Nakamura, S., Shimazaki, T., & Okano, H. (2008) · Nature Neuroscience · doi:10.1038/nn.2168 · Cited by 243 · see citing works
Sox10 is required for the early development of the prospective neural crest in Xenopus embryos
Honoré, S. M., Aybar, M. J., & Mayor, R. (2003) · Developmental Biology · doi:10.1016/s0012-1606(03)00247-1 · Cited by 241 · see citing works
Aybar, M. J., Nieto, M. A., & Mayor, R. (2003) · Development · doi:10.1242/dev.00238 · Cited by 240 · see citing works
Soo, K., O'Rourke, M. P., Khoo, P., Steiner, K. A., Wong, N., Behringer, R. R., & Tam, P. (2002) · Developmental Biology · doi:10.1006/dbio.2002.0699 · Cited by 228 · see citing works
The genetics of isolated orofacial clefts: from genotypes to subphenotypes
Jugessur, A., Farlie, P. G., & Kilpatrick, N. M. (2009) · Oral Diseases · doi:10.1111/j.1601-0825.2009.01577.x · Cited by 225 · see citing works
Qiu, Y., Pereira, F. A., DeMayo, F. J., Lydon, J. P., Tsai, S. Y., & Tsai, M. (1997) · Genes & Development · doi:10.1101/gad.11.15.1925 · Cited by 215 · see citing works
Taneyhill, L. A., Coles, E. G., & Bronner-Fraser, M. E. (2007) · Development · doi:10.1242/dev.02834 · Cited by 211 · see citing works
Identification of COUP-TFII Orphan Nuclear Receptor as a Retinoic Acid–Activated Receptor
Kruse, S. W., Suino-Powell, K. M., Zhou, X. E., Kretschman, J. E., Reynolds, R. A., Vonrhein, C., Xu, Y., Wang, L., Tsai, S. Y., Tsai, M., et al. (2008) · PLoS Biology · doi:10.1371/journal.pbio.0060227 · Cited by 208 · see citing works
Neural crest determination by co-activation ofPax3andZic1genes inXenopusectoderm
Sato, T., Sasai, N., & Sasai, Y. (2005) · Development · doi:10.1242/dev.01823 · Cited by 207 · see citing works
TFAP2A Mutations Result in Branchio-Oculo-Facial Syndrome
Milunsky, J. M., Maher, T. A., Zhao, G., Roberts, A. E., Stalker, H. J., Zori, R. T., Burch, M. N., Clemens, M. M., Mulliken, J. B., Smith, R., et al. (2008) · The American Journal of Human Genetics · doi:10.1016/j.ajhg.2008.03.005 · Cited by 205 · see citing works
The Protooncogene c-Myc Is an Essential Regulator of Neural Crest Formation in Xenopus
Bellmeyer, A., Krase, J., Lindgren, J., & LaBonne, C. (2003) · Developmental Cell · doi:10.1016/s1534-5807(03)00160-6 · Cited by 193 · see citing works
Enhancers: The abundance and function of regulatory sequences beyond promoters
Bulger, M., & Groudine, M. T. (2009) · Developmental Biology · doi:10.1016/j.ydbio.2009.11.035 · Cited by 187 · see citing works
Requirement for Foxd3 in the maintenance of neural crest progenitors
Lü, T., Mundell, N. A., Frist, A. Y., Wang, Q., & Labosky, P. A. (2008) · Development · doi:10.1242/dev.012179 · Cited by 186 · see citing works
Analysis of early human neural crest development
Betters, E., Liu, Y., Kjaeldgaard, A., Sundström, E., & García-Castro, M. I. (2010) · Developmental Biology · doi:10.1016/j.ydbio.2010.05.012 · Cited by 181 · see citing works
Reiterative AP2a activity controls sequential steps in the neural crest gene regulatory network
de Crozé, N., Maczkowiak, F., & Monsoro-Burq, A. H. (2011) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1010740107 · Cited by 166 · see citing works
Transcriptional enhancers in development and disease
Sakabe, N. J., Savic, D., & Nóbrega, M. A. (2012) · Genome biology · doi:10.1186/gb-2012-13-1-238 · Cited by 138 · see citing works
Ets-1 Confers Cranial Features on Neural Crest Delamination
Théveneau, E., Duband, J., & Altabef, M. (2007) · PLoS ONE · doi:10.1371/journal.pone.0001142 · Cited by 137 · see citing works
Coup d'Etat: An Orphan Takes Control
Lin, F., Qin, J., Tang, K., Tsai, S. Y., & Tsai, M. (2011) · Endocrine Reviews · doi:10.1210/er.2010-0021 · Cited by 137 · see citing works
Cotney, J. L., Leng, J., Oh, S., DeMare, L. E., Reilly, S. K., Gerstein, M., & Noonan, J. P. (2012) · Genome Research · doi:10.1101/gr.129817.111 · Cited by 124 · see citing works
Syndromes of the first and second pharyngeal arches: A review
Passos‐Bueno, M. R., Ornelas, C. C., & Fanganiello, R. D. (2009) · American Journal of Medical Genetics Part A · doi:10.1002/ajmg.a.32950 · Cited by 117 · see citing works
COUP-TFs regulate eye development by controlling factors essential for optic vesicle morphogenesis
Tang, K., Xie, X., Park, J., Jamrich, M., Tsai, S. Y., & Tsai, M. (2010) · Development · doi:10.1242/dev.040568 · Cited by 116 · see citing works
Pohl, B. S., & Knöchel, W. (2001) · Mechanisms of Development · doi:10.1016/s0925-4773(01)00334-3 · Cited by 112 · see citing works
Adult Craniofacial Stem Cells: Sources and Relation to the Neural Crest
Kaltschmidt, B., Kaltschmidt, C., & Widera, D. (2011) · Stem Cell Reviews and Reports · doi:10.1007/s12015-011-9340-9 · Cited by 112 · see citing works
Sequential Chromatin Immunoprecipitation Protocol: ChIP-reChIP
Furlan-Magaril, M., Rincón‐Arano, H., & Targa, F. R. (2009) · Methods in molecular biology · doi:10.1007/978-1-60327-015-1_17 · Cited by 102 · see citing works
Brugmann, S. A., Powder, K. E., Young, N. M., Goodnough, L. H., Hahn, S. M., James, A. W., Helms, J. A., & Lovett, M. (2009) · Human Molecular Genetics · doi:10.1093/hmg/ddp559 · Cited by 78 · see citing works
Self-citationConserved regulation of mesenchymal gene expression by Fgf-8 in face and limb development
Tucker, A. S., Khamis, A. A., Ferguson, C. A., Bach, I., Rosenfeld, M. G., & Sharpe, P. T. (1999) · Development · doi:10.1242/dev.126.2.221 · Cited by 68 · see citing works
d’Aquino, R., Tirino, V., Desiderio, V., Studer, M., Angelis, G. D., Laino, L., Rosa, A. D., Nucci, D. D., Martino, S., Paino, F., et al. (2011) · European Cells and Materials · doi:10.22203/ecm.v021a23 · Cited by 55 · see citing works
Transcriptional Regulation During Development of the Ductus Arteriosus
Ivey, K. N., Sutcliffe, D. L., Richardson, J. A., Clyman, R. I., Garcia, J. A., & Srivastava, D. (2008) · Circulation Research · doi:10.1161/circresaha.108.180661 · Cited by 54 · see citing works
Brown, K. K., Alkuraya, F. S., Matos, M., Robertson, R. L., Kimonis, V. E., & Morton, C. C. (2009) · American Journal of Medical Genetics Part A · doi:10.1002/ajmg.a.32764 · Cited by 46 · see citing works
Poot, M., Eleveld, M. J., Slot, R. V. ‘., van Genderen, M. M., Stuart, A. A. V., Hochstenbach, R., & Beemer, F. A. (2007) · European Journal of Medical Genetics · doi:10.1016/j.ejmg.2007.08.003 · Cited by 45 · see citing works
Disruption of long‐distance highly conserved noncoding elements in neurocristopathies
Amiel, J., Benko, S., Gordon, C. T., & Lyonnet, S. (2010) · Annals of the New York Academy of Sciences · doi:10.1111/j.1749-6632.2010.05878.x · Cited by 19 · see citing works
Flagged first, then by citations
Cited by
Sorted by citations
Nieto, M. A., Huang, R. Y.-J., Jackson, R. A., & Thiery, J. P. (2016) · Cell · doi:10.1016/j.cell.2016.06.028 · Cited by 4,492 · see citing works
Modification of Enhancer Chromatin: What, How, and Why?
Calo, E., & Wysocka, J. (2013) · Molecular Cell · doi:10.1016/j.molcel.2013.01.038 · Cited by 1,457 · see citing works
Self-citationEpithelial Plasticity: A Common Theme in Embryonic and Cancer Cells
Nieto, M. A. (2013) · Science · doi:10.1126/science.1234850 · Cited by 962 · see citing works
Establishing neural crest identity: a gene regulatory recipe
Simões-Costa, M., & Bronner, M. E. (2015) · Development · doi:10.1242/dev.105445 · Cited by 649 · see citing works
Chromatin modifiers and remodellers: regulators of cellular differentiation
Chen, T., & Dent, S. (2013) · Nature Reviews Genetics · doi:10.1038/nrg3607 · Cited by 613 · see citing works
Rivera, C. M., & Ren, B. (2013) · Cell · doi:10.1016/j.cell.2013.09.011 · Cited by 550 · see citing works
Neuroblastoma is composed of two super-enhancer-associated differentiation states
van Groningen, T., Köster, J., Valentijn, L. J., Zwijnenburg, D. A., Akogul, N., Hasselt, N. E., Broekmans, M. E. C., Haneveld, F., Nowakowska, N. E., Bras, J., et al. (2017) · Nature Genetics · doi:10.1038/ng.3899 · Cited by 540 · see citing works
Looping Back to Leap Forward: Transcription Enters a New Era
Levine, M., Cattoglio, C., & Tjian, R. (2014) · Cell · doi:10.1016/j.cell.2014.02.009 · Cited by 481 · see citing works
Enhancer transcripts mark active estrogen receptor binding sitesPreprint
Hah, N., Murakami, S., Nagari, A., Danko, C. G., & Kraus, W. L. (2013) · Genome Research · doi:10.1101/gr.152306.112 · Cited by 475 · see citing works
Pluripotent stem cells in regenerative medicine: challenges and recent progress
Tabar, V. S., & Studer, L. (2014) · Nature Reviews Genetics · doi:10.1038/nrg3563 · Cited by 458 · see citing works
A zebrafish melanoma model reveals emergence of neural crest identity during melanoma initiation
Kaufman, C. K., Mosimann, C., Fan, Z. P., Yang, S. P., Thomas, A. J., Ablain, J., Tan, J. L., Fogley, R. D., van Rooijen, E., Hagedorn, E. J., et al. (2016) · Science · doi:10.1126/science.aad2197 · Cited by 387 · see citing works
Enhancer Divergence and cis-Regulatory Evolution in the Human and Chimp Neural Crest
Prescott, S. L., Srinivasan, R., Marchetto, M. C., Grishina, I., Narvaiza, I., Selleri, L., Gage, F. H., Swigut, T., & Wysocka, J. (2015) · Cell · doi:10.1016/j.cell.2015.08.036 · Cited by 352 · see citing works
Self-citationNR2F1 controls tumour cell dormancy via SOX9- and RARβ-driven quiescence programmes
Sosa, M. S., Parikh, F., Gaspar‐Maia, A., Estrada, Y. D., Bosch, A., Bragado, P., Ekpin, E., George, A. D., Zheng, Y., Lam, H., et al. (2015) · Nature Communications · doi:10.1038/ncomms7170 · Cited by 357 · see citing works
Neuroblastoma: Molecular Pathogenesis and Therapy
Louis, C. U., & Shohet, J. M. (2014) · Annual Review of Medicine · doi:10.1146/annurev-med-011514-023121 · Cited by 355 · see citing works
COMPASS and SWI/SNF complexes in development and disease
Cenik, B. K., & Shilatifard, A. (2020) · Nature Reviews Genetics · doi:10.1038/s41576-020-0278-0 · Cited by 269 · see citing works
Broadly permissive intestinal chromatin underlies lateral inhibition and cell plasticity
Kim, T.-H., Li, F., Ferreiro-Neira, I., Ho, L.-L., Luyten, A., Nalapareddy, K., Long, H., Verzi, M., & Shivdasani, R. A. (2014) · Nature · doi:10.1038/nature12903 · Cited by 257 · see citing works
Fine Tuning of Craniofacial Morphology by Distant-Acting Enhancers
Attanasio, C., Nord, A. S., Zhu, Y., Blow, M. J., Li, Z., Liberton, D. K., Morrison, H., Plajzer-Frick, I., Holt, A., Hosseini, R., et al. (2013) · Science · doi:10.1126/science.1241006 · Cited by 237 · see citing works
Genome-wide mapping of global-to-local genetic effects on human facial shape
Claes, P., Roosenboom, J., White, J. D., Swigut, T., Sero, D., Li, J., Lee, M. K., Zaidi, A., Mattern, B. C., Liebowitz, C., et al. (2018) · Nature Genetics · doi:10.1038/s41588-018-0057-4 · Cited by 235 · see citing works
Self-citationEnhancer hijacking determines extrachromosomal circular MYCN amplicon architecture in neuroblastoma
Helmsauer, K., Valieva, M. E., Ali, S., González, R. C., Schöpflin, R., Röefzaad, C., Bei, Y., García, H. D., Rodríguez-Fos, E., Puiggròs, M., et al. (2020) · Nature Communications · doi:10.1038/s41467-020-19452-y · Cited by 227 · see citing works
The Evolution of Lineage-Specific Regulatory Activities in the Human Embryonic Limb
Cotney, J. L., Leng, J., Yin, J., Reilly, S. K., DeMare, L. E., Emera, D., Ayoub, A. E., RAKIC, P. T., & Noonan, J. P. (2013) · Cell · doi:10.1016/j.cell.2013.05.056 · Cited by 208 · see citing works
The Bivalent Genome: Characterization, Structure, and Regulation
Blanco, E., González-Ramírez, M., Alcaine-Colet, A., Aranda, S., & Croce, L. D. (2019) · Trends in Genetics · doi:10.1016/j.tig.2019.11.004 · Cited by 215 · see citing works
Enhancer Activation Requires trans-Recruitment of a Mega Transcription Factor Complex
Liu, Z., Merkurjev, D., Yang, F., Li, W., Oh, S., Friedman, M. J., Song, X., Zhang, F., Ma, Q., Ohgi, K. A., et al. (2014) · Cell · doi:10.1016/j.cell.2014.08.027 · Cited by 218 · see citing works
Epigenomic enhancer annotation reveals a key role for NFIX in neural stem cell quiescencePreprint
Martynoga, B., Mateo, J. L., Zhou, B., Andersen, J., Achimastou, A., Urbán, N., van den Berg, D. L. C., Georgopoulou, D., Hadjur, S., Wittbrodt, J., et al. (2013) · Genes & Development · doi:10.1101/gad.216804.113 · Cited by 204 · see citing works
Romero, I. G., Pavlovic, B. J., Hernando-Herraez, I., Zhou, X., Ward, M. C., Banovich, N. E., Kagan, C. L., Burnett, J. E., Huang, C. H., Mitrano, A., et al. (2015) · eLife · doi:10.7554/elife.07103 · Cited by 194 · see citing works
A robust method to derive functional neural crest cells from human pluripotent stem cells.
Kreitzer, F. R., Salomonis, N., Sheehan, A., Huang, M., Park, J. S., Spindler, M. J., Lizarraga, P. P., Weiss, W. A., So, P.-L., & Conklin, B. R. (2013) · Europe PMC (PubMed Central) · Cited by 192 · see citing works
Alternative Lengthening of Telomeres is characterized by reduced compaction of telomeric chromatin
Episkopou, H., Drašković, I., Beneden, A. V., Tilman, G., Mattiussi, M., Gobin, M., Arnoult, N., Londoño‐Vallejo, A., & Decottignies, A. (2014) · Nucleic Acids Research · doi:10.1093/nar/gku114 · Cited by 192 · see citing works
Circadian Entrainment Triggers Maturation of Human In Vitro Islets
Alvarez-Dominguez, J. R., Donaghey, J., Rasouli, N., Kenty, J. H. R., Helman, A., Charlton, J., Straubhaar, J. R., Meissner, A., & Melton, D. A. (2020) · Cell Stem Cell · doi:10.1016/j.stem.2019.11.011 · Cited by 189 · see citing works
Self-domestication in Homo sapiens: Insights from comparative genomics
Theofanopoulou, C., Gastaldon, S., O’Rourke, T., Samuels, B. D., Messner, A., Martins, P. T., Delogu, F., Alamri, S., & Boeckx, C. (2017) · PLOS ONE · doi:10.1371/journal.pone.0185306 · Cited by 174 · see citing works
Loss of Extreme Long-Range Enhancers in Human Neural Crest Drives a Craniofacial Disorder
Long, H. K., Osterwalder, M., Welsh, I. C., Hansen, K. L., Davies, J. O. J., Liu, Y. E., Koska, M., Adams, A. T., Aho, R., Arora, N., et al. (2020) · Cell stem cell · doi:10.1016/j.stem.2020.09.001 · Cited by 160 · see citing works
Self-citationTranscription factor p63 bookmarks and regulates dynamic enhancers during epidermal differentiation
Kouwenhoven, E. N., Oti, M., Niehues, H., van Heeringen, S. J., Schalkwijk, J., Stunnenberg, H. G., van Bokhoven, H., & Zhou, H. (2015) · EMBO Reports · doi:10.15252/embr.201439941 · Cited by 165 · see citing works
Leslie, E. J., Taub, M. A., Liu, H., Steinberg, K. M., Koboldt, D. C., Zhang, Q., Carlson, J. C., Hetmanski, J. B., Wang, H., Larson, D. E., et al. (2015) · The American Journal of Human Genetics · doi:10.1016/j.ajhg.2015.01.004 · Cited by 160 · see citing works
Establishment and maintenance of heritable chromatin structure during early Drosophila embryogenesis
Blythe, S. A., & Wieschaus, E. F. (2016) · eLife · doi:10.7554/elife.20148 · Cited by 168 · see citing works
Borriello, L., Coste, A., Traub, B. C., Sharma, V. P., Karagiannis, G. S., Lin, Y., Wang, Y., Ye, X., Duran, C. L., Chen, X., et al. (2022) · Nature Communications · doi:10.1038/s41467-022-28076-3 · Cited by 158 · see citing works
Inappropriate p53 activation during development induces features of CHARGE syndrome
Nostrand, J. L. V., Brady, C. A., Jung, H., Fuentes, D., Kozak, M. M., Johnson, T. M., Lin, C., Lin, C., Swiderski, D. L., Vogel, H. S., et al. (2014) · Nature · doi:10.1038/nature13585 · Cited by 145 · see citing works
Self-citationReconstruction of the Global Neural Crest Gene Regulatory Network In Vivo
Williams, R. M., Candido-Ferreira, I., Repapi, E., Gavriouchkina, D., Senanayake, U., Ling, I. T. C., Telenius, J. M., Taylor, S., Hughes, J. R., & Sauka‐Spengler, T. (2019) · Developmental Cell · doi:10.1016/j.devcel.2019.10.003 · Cited by 139 · see citing works
High-Resolution Epigenomic Atlas of Human Embryonic Craniofacial Development
Wilderman, A., VanOudenhove, J., Kron, J., Noonan, J. P., & Cotney, J. (2018) · Cell Reports · doi:10.1016/j.celrep.2018.03.129 · Cited by 139 · see citing works
Long-range enhancers regulating Myc expression are required for normal facial morphogenesis
Uslu, V. V., Petretich, M., Ruf, S., Langenfeld, K., Fonseca, N. A., Marioni, J. C., & Spitz, F. (2014) · Nature Genetics · doi:10.1038/ng.2971 · Cited by 133 · see citing works
Revisiting the embryogenesis of lip and palate development
Hammond, N. L., & Dixon, M. J. (2022) · Oral Diseases · doi:10.1111/odi.14174 · Cited by 128 · see citing works
The Neural Crest Migrating into the Twenty-First Century
Bronner-Fraser, M. E., & Simões-Costa, M. (2016) · Current topics in developmental biology/Current Topics in Developmental Biology · doi:10.1016/bs.ctdb.2015.12.003 · Cited by 127 · see citing works
Insights into neural crest development and evolution from genomic analysisPreprint
Simões-Costa, M., & Bronner-Fraser, M. E. (2013) · Genome Research · doi:10.1101/gr.157586.113 · Cited by 127 · see citing works
G-quadruplex DNA structures in human stem cells and differentiation
Zyner, K. G., Simeone, A., Flynn, S. M., Doyle, C., Marsico, G., Adhikari, S., Portella, G., Tannahill, D., & Balasubramanian, S. (2022) · Nature Communications · doi:10.1038/s41467-021-27719-1 · Cited by 122 · see citing works
The diverse neural crest: from embryology to human pathology
Etchevers, H., Dupin, É., & Douarin, N. M. L. (2019) · Development · doi:10.1242/dev.169821 · Cited by 124 · see citing works
Dynamic Regulation of Schwann Cell Enhancers after Peripheral Nerve Injury
Hung, H. A., Sun, G., Keleş, S., & Svaren, J. P. (2015) · Journal of Biological Chemistry · doi:10.1074/jbc.m114.622878 · Cited by 120 · see citing works
Bayless, N. L., Greenberg, R. S., Swigut, T., Wysocka, J., & Blish, C. A. (2016) · Cell Host & Microbe · doi:10.1016/j.chom.2016.09.006 · Cited by 117 · see citing works
Self-citationRothstein, M., & Simões-Costa, M. (2019) · Genome Research · doi:10.1101/gr.249680.119 · Cited by 117 · see citing works
Lukoseviciute, M., Gavriouchkina, D., Williams, R. M., Hochgreb-Hagele, T., Senanayake, U., Chong-Morrison, V., Thongjuea, S., Repapi, E., Mead, A., & Sauka-Spengler, T. (2018) · Developmental Cell · doi:10.1016/j.devcel.2018.11.009 · Cited by 109 · see citing works
Transcriptome analysis reveals novel players in the cranial neural crest gene regulatory networkPreprint
Simões-Costa, M., Tan-Cabugao, J., Antoshechkin, I. A., Sauka‐Spengler, T., & Bronner-Fraser, M. E. (2014) · Genome Research · doi:10.1101/gr.161182.113 · Cited by 116 · see citing works
Pla, P., & Monsoro-Burq, A. H. (2018) · Developmental Biology · doi:10.1016/j.ydbio.2018.05.018 · Cited by 115 · see citing works
The genomic landscape of cohesin-associated chromatin interactions
DeMare, L. E., Leng, J., Cotney, J., Reilly, S. K., Yin, J., Sarro, R., & Noonan, J. P. (2013) · Genome Research · doi:10.1101/gr.156570.113 · Cited by 114 · see citing works
Human axial progenitors generate trunk neural crest cells in vitro
Frith, T. J. R., Granata, I., Wind, M., Stout, E., Thompson, O., Neumann, K., Stavish, D., Heath, P. R., Ortmann, D., Hackland, J. O. S., et al. (2018) · eLife · doi:10.7554/elife.35786 · Cited by 113 · see citing works
Laugsch, M., Bartusel, M., Rehimi, R., Alirzayeva, H., Karaolidou, A., Crispatzu, G., Zentis, P., Nikolić, M., Bleckwehl, T., Kolovos, P., et al. (2019) · Cell stem cell · doi:10.1016/j.stem.2019.03.004 · Cited by 106 · see citing works
An NR2F1-specific agonist suppresses metastasis by inducing cancer cell dormancy
Khalil, B. D., Sánchez, R., Rahman, T., Rodríguez-Tirado, C., Moritsch, S., Martínez, A. R., Miles, B. A., Farias, E., Mezei, M., Nobre, A. R., et al. (2021) · The Journal of Experimental Medicine · doi:10.1084/jem.20210836 · Cited by 111 · see citing works
Ludwig, K. U., Böhmer, A. C., Bowes, J., Nikolić, M., Ishorst, N., Wyatt, N., Hammond, N. L., Gölz, L., Thieme, F., Barth, S., et al. (2017) · Human Molecular Genetics · doi:10.1093/hmg/ddx012 · Cited by 103 · see citing works
Crispatzu, G., Rehimi, R., Pachano, T., Bleckwehl, T., Cruz-Molina, S., Xiao, C., Mahabir, E., Bazzi, H., & Rada-Iglesias, A. (2021) · Nature Communications · doi:10.1038/s41467-021-24641-4 · Cited by 97 · see citing works
Single Amino Acid Change Underlies Distinct Roles of H2A.Z Subtypes in Human Syndrome
Greenberg, R. S., Long, H. K., Swigut, T., & Wysocka, J. (2019) · Cell · doi:10.1016/j.cell.2019.08.002 · Cited by 99 · see citing works
Self-citationHMGA Genes and Proteins in Development and Evolution
Vignali, R., & Marracci, S. (2020) · International Journal of Molecular Sciences · doi:10.3390/ijms21020654 · Cited by 102 · see citing works
The orphan nuclear receptors at their 25-year reunion
Mullican, S. E., DiSpirito, J. R., & Lazar, M. A. (2013) · Journal of Molecular Endocrinology · doi:10.1530/jme-13-0212 · Cited by 102 · see citing works
Zanella, M., Vitriolo, A., Andirko, A., Martins, P. T., Sturm, S., O’Rourke, T., Laugsch, M., Malerba, N., Skaros, A., Trattaro, S., et al. (2019) · Science Advances · doi:10.1126/sciadv.aaw7908 · Cited by 101 · see citing works
Differential Sox10 genomic occupancy in myelinating glia
Lopez‐Anido, C., Sun, G., Koenning, M., Srinivasan, R., Hung, H. A., Emery, B., Keleş, S., & Svaren, J. P. (2015) · Glia · doi:10.1002/glia.22855 · Cited by 100 · see citing works
Histone H3.3 G34 mutations promote aberrant PRC2 activity and drive tumor progression
Jain, S. U., Khazaei, S., Marchione, D. M., Lundgren, S. M., Wang, X., Weinberg, D. N., Deshmukh, S., Juretic, N., Lü, C., Allis, C. D., et al. (2020) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.2006076117 · Cited by 100 · see citing works
Wang, M., Li, Z., Zhang, Y., Zhang, Y.-Y., Xie, Y.-L., Ye, L., Zhuang, Y., Lin, K.-D., Zhao, F., Guo, J., et al. (2021) · The Plant Cell · doi:10.1093/plcell/koab028 · Cited by 82 · see citing works
Sengupta, S., Das, S., Crespo, Â. C., Cornel, A. M., Patel, A. G., Mahadevan, N. R., Campisi, M., Ali, A. K., Sharma, B., Rowe, J. H., et al. (2022) · Nature Cancer · doi:10.1038/s43018-022-00427-5 · Cited by 94 · see citing works
Demystifying the secret mission of enhancers: linking distal regulatory elements to target genes
Yao, L., Berman, B. P., & Farnham, P. (2015) · Critical Reviews in Biochemistry and Molecular Biology · doi:10.3109/10409238.2015.1087961 · Cited by 91 · see citing works
The molecular basis of neural crest axial identity
Rothstein, M., Bhattacharya, D., & Simões-Costa, M. (2018) · Developmental Biology · doi:10.1016/j.ydbio.2018.07.026 · Cited by 90 · see citing works
Specification and formation of the neural crest: Perspectives on lineage segregation
Prasad, M. S., Charney, R. M., & García‐Castro, M. I. (2018) · genesis · doi:10.1002/dvg.23276 · Cited by 88 · see citing works
DNA-guided transcription factor cooperativity shapes face and limb mesenchyme
Kim, S., Morgunova, E. Y., Naqvi, S., Goovaerts, S., Bader, M., Koska, M., Popov, A. N., Luong, C., Pogson, A. N., Swigut, T., et al. (2024) · Cell · doi:10.1016/j.cell.2023.12.032 · Cited by 81 · see citing works
Self-citationEpigenetic regulation in neural crest development
Hu, N., Strobl‐Mazzulla, P. H., & Bronner-Fraser, M. E. (2014) · Developmental Biology · doi:10.1016/j.ydbio.2014.09.034 · Cited by 88 · see citing works
Human–chimpanzee fused cells reveal cis-regulatory divergence underlying skeletal evolution
Gokhman, D., Agoglia, R. M., Kinnebrew, M., Gordon, W. E., Sun, D., Bajpai, V. K., Naqvi, S., Chen, C., Chan, A. W. S., Chen, C., et al. (2021) · Nature Genetics · doi:10.1038/s41588-021-00804-3 · Cited by 87 · see citing works
Self-citationBarnett, K. R., Decato, B. E., Scott, T. J., Hansen, T. J., Chen, B., Attalla, J., Smith, A. D., & Hodges, E. C. (2020) · Molecular Cell · doi:10.1016/j.molcel.2020.01.004 · Cited by 84 · see citing works
Ludwig, K. U., Ahmed, S. T., Böhmer, A. C., Sangani, N. B., Varghese, S., Klamt, J., Schünke, H., Gültepe, P., Hofmann, A., Rubini, M., et al. (2016) · PLoS Genetics · doi:10.1371/journal.pgen.1005914 · Cited by 81 · see citing works
Epigenomic Regulation of Schwann Cell Reprogramming in Peripheral Nerve Injury
Ma, K. H., Hung, H. A., & Svaren, J. P. (2016) · Journal of Neuroscience · doi:10.1523/jneurosci.1370-16.2016 · Cited by 83 · see citing works
MAPK and PI3K signaling: At the crossroads of neural crest development
Dinsmore, C. J., & Soriano, P. M. (2018) · Developmental Biology · doi:10.1016/j.ydbio.2018.02.003 · Cited by 76 · see citing works
Evolution of Epigenetic Regulation in Vertebrate Genomes
Lowdon, R. F., Jang, H. J., & Wang, T. (2016) · Trends in Genetics · doi:10.1016/j.tig.2016.03.001 · Cited by 77 · see citing works
Zhang, X., Wu, J., Wang, J., Shen, T., Lü, J., Lü, J., Gu, Y., Kang, Y., Wong, C.-H., Ngan, C. Y., et al. (2016) · Genome biology · doi:10.1186/s13059-016-1023-z · Cited by 73 · see citing works
Wang, J., Bai, Y., Li, H., Greene, S. B., Klysik, E. A., Yu, W., Schwartz, R. J., Williams, T., & Martin, J. F. (2013) · PLoS Genetics · doi:10.1371/journal.pgen.1003785 · Cited by 73 · see citing works
Analysis of chromatin-state plasticity identifies cell-type–specific regulators of H3K27me3 patterns
Pinello, L., Xu, J., Orkin, S. H., & Yuan, G. (2014) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1322570111 · Cited by 75 · see citing works
Otterloo, E. V., Williams, T., & Artinger, K. (2016) · Developmental Biology · doi:10.1016/j.ydbio.2016.01.017 · Cited by 70 · see citing works
Sun, Q., Lee, W., Mohri, Y., Takeo, M., Lim, C. H., Xu, X., Myung, P. S., Atit, R. P., Taketo, M. M., Moubarak, R. S., et al. (2019) · Nature Communications · doi:10.1038/s41467-019-12733-1 · Cited by 68 · see citing works
The FaceBase Consortium: A comprehensive resource for craniofacial researchers
Brinkley, J. F., Fisher, S., Harris, M. P., Holmes, G., Hooper, J. E., Jabs, E. W., Jones, K. L., Kesselman, C., Klein, O. D., Maas, R. L., et al. (2016) · Development · doi:10.1242/dev.135434 · Cited by 64 · see citing works
Self-citationShaping faces: genetic and epigenetic control of craniofacial morphogenesis
Selleri, L., & Rijli, F. M. (2023) · Nature Reviews Genetics · doi:10.1038/s41576-023-00594-w · Cited by 68 · see citing works
Models of global gene expression define major domains of cell type and tissue identity
Hutchins, A. P., Yang, Z., Li, Y., He, F., Fu, X., Wang, X., Li, D., Liu, K., He, J., Wang, Y., et al. (2017) · Nucleic Acids Research · doi:10.1093/nar/gkx054 · Cited by 62 · see citing works
Bertacchi, M., Parisot, J., & Studer, M. (2018) · Brain Research · doi:10.1016/j.brainres.2018.04.024 · Cited by 61 · see citing works
Transcriptional control of neural crest specification into peripheral glia
Jacob, C. (2015) · Glia · doi:10.1002/glia.22816 · Cited by 61 · see citing works
Schwenty‐Lara, J., Nehl, D., & Borchers, A. (2019) · Human Molecular Genetics · doi:10.1093/hmg/ddz284 · Cited by 61 · see citing works
A genome-wide assessment of the ancestral neural crest gene regulatory network
Hockman, D., Chong-Morrison, V., Green, S. A., Gavriouchkina, D., Candido-Ferreira, I., Ling, I. T. C., Williams, R. M., Amemiya, C. T., Smith, J. J., Bronner-Fraser, M. E., et al. (2019) · Nature Communications · doi:10.1038/s41467-019-12687-4 · Cited by 60 · see citing works
Shpargel, K. B., Mangini, C. L., Xie, G., Ge, K., & Magnuson, T. (2020) · Development · doi:10.1242/dev.187997 · Cited by 58 · see citing works
The Yin and Yang of Chromatin Dynamics In Stem Cell Fate Selection
Adam, R. C., & Fuchs, E. V. (2015) · Trends in Genetics · doi:10.1016/j.tig.2015.11.002 · Cited by 58 · see citing works
Okuno, H., Renault-Mihara, F., Ohta, S., Fukuda, K., Kurosawa, K., Akamatsu, W., Sanosaka, T., Kohyama, J., Hayashi, K., Nakajima, K., et al. (2017) · eLife · doi:10.7554/elife.21114 · Cited by 59 · see citing works
Self-citationMehrotra, P., Tseropoulos, G., Bronner-Fraser, M. E., & Andreadis, S. T. (2019) · Stem Cells Translational Medicine · doi:10.1002/sctm.19-0173 · Cited by 58 · see citing works
Human neural crest induction by temporal modulation of WNT activation
Gomez, G. A., Prasad, M. S., Sandhu, N., Shelar, P. B., Leung, A. W., & García‐Castro, M. I. (2019) · Developmental Biology · doi:10.1016/j.ydbio.2019.02.015 · Cited by 57 · see citing works
Ma, K. H., Hung, H. A., Srinivasan, R., Xie, H., Orkin, S. H., & Svaren, J. P. (2015) · Journal of Neuroscience · doi:10.1523/jneurosci.2257-14.2015 · Cited by 55 · see citing works
Pan-Cancer Analyses of the Nuclear Receptor Superfamily
Long, M. D., & Campbell, M. J. (2015) · Nuclear Receptor Research · doi:10.11131/2015/101182 · Cited by 56 · see citing works
Singh, D. K., Carcamo, S., Farias, E., Hasson, D., Zheng, W., Sun, D., Huang, X., Cheung, J. F., Nobre, A. R., Kale, N., et al. (2023) · Cell Reports · doi:10.1016/j.celrep.2023.112560 · Cited by 54 · see citing works
FaceBase 3: analytical tools and FAIR resources for craniofacial and dental research
Samuels, B. D., Aho, R., Brinkley, J. F., Bugacov, A., Feingold, E., Fisher, S., Gonzalez-Reiche, A. S., Hacia, J. G., Hallgrímsson, B., Hansen, K. L., et al. (2020) · Development · doi:10.1242/dev.191213 · Cited by 53 · see citing works
Self-citationEssential Role of Nr2f Nuclear Receptors in Patterning the Vertebrate Upper Jaw
Barske, L. A., Rataud, P., Behizad, K., Rio, L. D., Cox, S. G., & Crump, J. G. (2018) · Developmental Cell · doi:10.1016/j.devcel.2017.12.022 · Cited by 53 · see citing works
Notch signaling regulates neural crest differentiation from human pluripotent stem cells
Noisa, P., Lund, C., Kanduri, K., Lund, R., Lähdesmäki, H. J., Lahesmaa, R., Lundin, K., Chokechuwattanalert, H., Otonkoski, T., Tuuri, T., et al. (2014) · Journal of Cell Science · doi:10.1242/jcs.145755 · Cited by 52 · see citing works
Yankee, T. N., Oh, S., Winchester, E. W., Wilderman, A. S., Robinson, K. R., Gordon, T., Rosenfeld, J. A., VanOudenhove, J., Scott, D. A., Leslie, E. J., et al. (2023) · Nature Communications · doi:10.1038/s41467-023-40363-1 · Cited by 51 · see citing works
Identifying Genetic Sources of Phenotypic Heterogeneity in Orofacial Clefts by Targeted Sequencing
Carlson, J. C., Taub, M. A., Feingold, E., Beaty, T. H., Murray, J. C., Marazita, M. L., & Leslie, E. J. (2017) · Birth Defects Research · doi:10.1002/bdr2.23605 · Cited by 50 · see citing works
Burris, T. P., de Vera, I. M. S., Côté, I., Flaveny, C. A., Wanninayake, U. S., Chatterjee, A., Walker, J. K., Steinauer, N., Zhang, J., Coons, L. A., et al. (2023) · Pharmacological Reviews · doi:10.1124/pharmrev.121.000436 · Cited by 53 · see citing works
Fufa, T., Harris, M. L., Watkins‐Chow, D. E., Levy, D. J., Gorkin, D. U., Gildea, D. E., Song, L., Safi, A., Crawford, G. E., Sviderskaya, E. V., et al. (2015) · Human Molecular Genetics · doi:10.1093/hmg/ddv267 · Cited by 51 · see citing works
- Authors
- Rada-Iglesias, A., Bajpai, R., Prescott, S., Brugmann, S. A., Swigut, T., & Wysocka, J.
- Affiliations
- Stanford Medicine (US)
- Corresponding author
- Wysocka, Joanna
- Venue
- Cell stem cell
- Publisher
- Elsevier BV
- Published
- 2012-11
- Volume
- 11
- Issue
- 5
- Pages
- 633-648
- ISSN
- 1875-9777 (ISSN-L)
- 1934-5909
- PMC
- PMC3751405
- OpenAlex
- W2048350099
- Cited by
- 314
- References
- 62
- Citations by year
- 2026: 10 · 2025: 17 · 2024: 13 · 2023: 18 · 2022: 22 · 2021: 28 · 2020: 43 · 2019: 28 · 2018: 22 · 2017: 18 · 2016: 24 · 2015: 20 · 2014: 26 · 2013: 25
- FWCI
- 9.12
- Type
- journal article
- Language
- en
- Open access
- bronze
- doi.org
- Licence
- Locations
- Cell stem cell (publishedVersion)
- PubMed (publishedVersion)
- Europe PMC (PubMed Central) (acceptedVersion)
- PubMed Central (acceptedVersion)
- Funders
- Foundation for the National Institutes of Health
- W. M. Keck Foundation
- Siebel Scholars Foundation
- National Institutes of Health (5p30de020750-02)
- National Institute of General Medical Sciences (R01GM095555)
- National Institute of Dental and Craniofacial Research (P30 DE020750)
- Core Research for Evolutional Science and Technology
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Chromatin Dynamics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Developmental Biology and Gene Regulation
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Epigenetics and DNA Methylation
- Keywords
- neural crest cells, enhancers, cis-regulatory elements, transcription factor binding, TFAP2A, NR2F1, NR2F2, histone modifications, P300, H3K27ac, human embryonic stem cell differentiation, craniofacial development, sequence constraints, chick embryo
- MeSH terms
- Animals, Cell Differentiation, Chick Embryo, Chromatin, Enhancer Elements, Genetic, Gene Expression Regulation, Humans, Neural Crest, Transcription Factors, Epigenesis, Genetic, Chromatin Immunoprecipitation, Transcription Factor AP-2, COUP Transcription Factor II, COUP Transcription Factor I, Embryonic Stem Cells
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review