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Incorporation of a nucleoside analog maps genome repair sites in postmitotic human neurons
Open accessAbstract
Neurons are the longest-lived cells in our bodies and lack DNA replication, which makes them reliant on a limited repertoire of DNA repair mechanisms to maintain genome fidelity. These repair mechanisms decline with age, but we have limited knowledge of how genome instability emerges and what strategies neurons and other long-lived cells may have evolved to protect their genomes over the human life span. A targeted sequencing approach in human embryonic stem cell-induced neurons shows that, in neurons, DNA repair is enriched at well-defined hotspots that protect essential genes. These hotspots are enriched with histone H2A isoforms and RNA binding proteins and are associated with evolutionarily conserved elements of the human genome. These findings provide a basis for understanding genome integrity as it relates to aging and disease in the nervous system.
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“This process promotes extensive endogenous DNA damage in neuronal enhancers, safeguards cell identities but could also lead to base mutations12–15.”
From Single-cell parallel analysis of DNA damage and transcriptome reveals selective genome vulnerability (2025) · cites this paper as [13]
Experimental — accuracy not yet measuredThe source backs part of the claim, not all of it — or backs it for a different population, condition or comparison.
In the citing paper
“This process promotes extensive endogenous DNA damage in neuronal enhancers, safeguards cell identities but could also lead to base mutations12–15.”
From Single-cell parallel analysis of DNA damage and transcriptome reveals selective genome vulnerability (2025) · cites this paper as [13]
Experimental — accuracy not yet measuredThe source backs part of the claim, not all of it — or backs it for a different population, condition or comparison.
In the citing paper
“This process promotes extensive endogenous DNA damage in neuronal enhancers, safeguards cell identities but could also lead to base mutations12–15.”
From Single-cell parallel analysis of DNA damage and transcriptome reveals selective genome vulnerability (2025) · cites this paper as [13]
Experimental — accuracy not yet measuredThe source backs part of the claim, not all of it — or backs it for a different population, condition or comparison.
In the citing paper
“Recent studies revealed that DNA repair hotspots are enriched in a subset of regulatory regions including enhancers, to protect the identities and functions of postmitotic cells (such as neurons)12,13,15.”
From Single-cell parallel analysis of DNA damage and transcriptome reveals selective genome vulnerability (2025) · cites this paper as [13]
Experimental — accuracy not yet measuredThe source backs part of the claim, not all of it — or backs it for a different population, condition or comparison.
In the citing paper
“Moreover, the observed DNA damage hotspots are combined results from DNA damage formation and repair12,13.”
From Single-cell parallel analysis of DNA damage and transcriptome reveals selective genome vulnerability (2025) · cites this paper as [13]
Experimental — accuracy not yet measured
In the citing paper
“neurons also actively induce both DSBs and single-stranded breaks as part of their normal physiology”
From Neuronal DNA double-strand breaks lead to genome structural variations and 3D genome disruption in neurodegeneration (2023) · cites this paper as [10]
In the citing paper
“we are just beginning to appreciate the significance of a lesion’s genomic location in relation to its effect on neuronal activity and, ultimately, degeneration”
From Mechanisms of DNA damage-mediated neurotoxicity in neurodegenerative disease (2022) · cites this paper as Reid et al, 2021
In the citing paper
“DNA repair mapping reveals that postmitotic neurons do indeed accumulate breaks in regulatory elements associated with neuronal function”
From Mechanisms of DNA damage-mediated neurotoxicity in neurodegenerative disease (2022) · cites this paper as Reid et al, 2021
In the citing paper
“To this end, genome‐wide profiling of DNA breaks in post‐mitotic neurons have revealed that their locations are likely major mediators of their toxicity.”
From Mechanisms of DNA damage-mediated neurotoxicity in neurodegenerative disease (2022) · cites this paper as Reid et al, 2021
In the citing paper
“As described earlier, the use of nucleoside analog incorporation to map DNA repair has led to the observation that postmitotic neurons harbor SSBs and other forms of breaks in the regulatory regions of genes that modulate synaptic plasticity and neuronal function (Reid et al, 2021; Wu et al, 2021).”
From Mechanisms of DNA damage-mediated neurotoxicity in neurodegenerative disease (2022) · cites this paper as Reid et al, 2021
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Cites
Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2
Love, M. I., Huber, W., & Anders, S. (2014) · Genome Biology · doi:10.1186/s13059-014-0550-8 · Cited by 95,106
The Sequence Alignment/Map format and SAMtools
Li, H., Handsaker, B., Wysoker, A., Fennell, T., Ruan, J., Homer, N., Marth, G., Abecasis, G., Durbin, R., & 1000 Genome Project Data Processing Subgroup (2009) · Bioinformatics · doi:10.1093/bioinformatics/btp352 · Cited by 62,041
Fast gapped-read alignment with Bowtie 2
Langmead, B., & Salzberg, S. L. (2012) · Nature Methods · doi:10.1038/nmeth.1923 · Cited by 56,400
BEDTools: a flexible suite of utilities for comparing genomic features
Quinlan, A. R., & Hall, I. M. (2010) · Bioinformatics · doi:10.1093/bioinformatics/btq033 · Cited by 27,437
Model-based Analysis of ChIP-Seq (MACS)
Zhang, Y., Liu, T., Meyer, C. A., Eeckhoute, J., Johnson, D. S., Bernstein, B. E., Nusbaum, C., Myers, R. M., Brown, M., Li, W., et al. (2008) · Genome Biology · doi:10.1186/gb-2008-9-9-r137 · Cited by 18,386
Robinson, J. T., Thorvaldsdóttir, H., Winckler, W., Guttman, M., Lander, E. S., Getz, G., & Mesirov, J. P. (2011) · Nature Biotechnology · doi:10.1038/nbt.1754 · Cited by 15,390
López-Otín, C., Blasco, M. A., Partridge, L., Serrano, M., & Kroemer, G. (2013) · Cell · doi:10.1016/j.cell.2013.05.039 · Cited by 14,982
Heinz, S., Benner, C., Spann, N., Bertolino, E., Lin, Y. C., Laslo, P., Cheng, J. X., Murre, C., Singh, H., & Glass, C. K. (2010) · Molecular Cell · doi:10.1016/j.molcel.2010.05.004 · Cited by 13,382
Salmon provides fast and bias-aware quantification of transcript expression
Patro, R., Duggal, G., Love, M. I., Irizarry, R. A., & Kingsford, C. (2017) · Nature Methods · doi:10.1038/nmeth.4197 · Cited by 12,700
Bioconductor: open software development for computational biology and bioinformatics
Gentleman, R. C., Carey, V. J., Bates, D. M., Bolstad, B., Dettling, M., Dudoit, S., Ellis, B., Gautier, L., Ge, Y., Gentry, J., et al. (2004) · Genome biology · doi:10.1186/gb-2004-5-10-r80 · Cited by 12,082
A 3D Map of the Human Genome at Kilobase Resolution Reveals Principles of Chromatin Looping
Rao, S. S. P., Huntley, M. H., Durand, N. C., Stamenova, E. K., Bochkov, I. D., Robinson, J. T., Sanborn, A. L., Machol, I., Omer, A. D., Lander, E. S., et al. (2014) · Cell · doi:10.1016/j.cell.2014.11.021 · Cited by 9,212
Topological domains in mammalian genomes identified by analysis of chromatin interactions
Dixon, J. R., Selvaraj, S., Yue, F., Kim, A., Li, Y., Shen, Y., Hu, M., Liu, J. S., & Ren, B. (2012) · Nature · doi:10.1038/nature11082 · Cited by 6,829
Self-citationBuenrostro, J. D., Giresi, P. G., Zaba, L. C., Chang, H. Y., & Greenleaf, W. J. (2013) · Nature Methods · doi:10.1038/nmeth.2688 · Cited by 6,422
The DNA-damage response in human biology and disease
Jackson, S. P., & Bartek, J. (2009) · Nature · doi:10.1038/nature08467 · Cited by 6,092
Raudvere, U., Kolberg, L., Kuzmin, I., Arak, T., Adler, P., Peterson, H., & Vilo, J. (2019) · Nucleic Acids Research · doi:10.1093/nar/gkz369 · Cited by 5,045
Juicer Provides a One-Click System for Analyzing Loop-Resolution Hi-C Experiments
Durand, N. C., Shamim, M. S., Machol, I., Rao, S. S. P., Huntley, M. H., Lander, E. S., & Aiden, E. L. (2016) · Cell Systems · doi:10.1016/j.cels.2016.07.002 · Cited by 3,860
Orchestrating high-throughput genomic analysis with Bioconductor
Huber, W. K., Carey, V. J., Gentleman, R. C., Anders, S., Carlson, M. R. J., Carvalho, B. S., Bravo, H. C., Davis, S. R., Gatto, L., Girke, T., et al. (2015) · Nature Methods · doi:10.1038/nmeth.3252 · Cited by 3,614
DNA methylation-based biomarkers and the epigenetic clock theory of ageing
Horvath, S., & Raj, K. (2018) · Nature Reviews Genetics · doi:10.1038/s41576-018-0004-3 · Cited by 3,095
Sambamba: fast processing of NGS alignment formats
Tarasov, A., Vilella, A. J., Cuppen, E. P. J. G., Nijman, I. J., & Prins, P. (2015) · Bioinformatics · doi:10.1093/bioinformatics/btv098 · Cited by 2,426
Juicebox Provides a Visualization System for Hi-C Contact Maps with Unlimited Zoom
Durand, N. C., Robinson, J., Shamim, M. S., Machol, I., Mesirov, J. P., Lander, E. S., & Aiden, E. L. (2016) · Cell Systems · doi:10.1016/j.cels.2015.07.012 · Cited by 2,421
Differential oestrogen receptor binding is associated with clinical outcome in breast cancer
Ross-Innes, C. S., Stark, R., Teschendorff, A. E., Holmes, K. A., Ali, H. R., Dunning, M., Brown, G. D., Gojiš, O., Ellis, I. O., Green, A. R., et al. (2012) · Nature · doi:10.1038/nature10730 · Cited by 2,182
Gene regulation and DNA damage in the ageing human brain
Lu, T., Pan, Y., Kao, S.-Y., Li, C., Kohane, I., Chan, J., & Yankner, B. A. (2004) · Nature · doi:10.1038/nature02661 · Cited by 1,874
MEME-ChIP: motif analysis of large DNA datasets
Machanick, P., & Bailey, T. L. (2011) · Bioinformatics · doi:10.1093/bioinformatics/btr189 · Cited by 1,815
Identifying a High Fraction of the Human Genome to be under Selective Constraint Using GERP++
Davydov, E. V., Goode, D. L., Sirota, M., Cooper, G. M., Sidow, A., & Batzoglou, S. (2010) · PLoS Computational Biology · doi:10.1371/journal.pcbi.1001025 · Cited by 1,757
Super-resolution fluorescence microscopy
Huang, B., Bates, M., & Zhuang, X. (2009) · Annual Review of Biochemistry · doi:10.1146/annurev.biochem.77.061906.092014 · Cited by 1,657
Peng, J., Elias, J. E., Thoreen, C. C., Licklider, L., & Gygi, S. P. (2002) · Journal of Proteome Research · doi:10.1021/pr025556v · Cited by 1,652
Evaluation of fluorophores for optimal performance in localization-based super-resolution imaging
Dempsey, G. T., Vaughan, J. C., Chen, K. H., Bates, M., & Zhuang, X. (2011) · Nature Methods · doi:10.1038/nmeth.1768 · Cited by 1,405
Differential Oestrogen Receptor Binding is Associated with Clinical Outcome in Breast Cancer
Stark, R. (2012) · Lecture notes in computer science · doi:10.1007/978-3-642-29627-7_30 · Cited by 1,403
Tabb, D. L., McDonald, W. H., & Yates, J. R. (2002) · Journal of Proteome Research · doi:10.1021/pr015504q · Cited by 1,369
An environment-dependent transcriptional network specifies human microglia identity
Gosselin, D., Skola, D., Coufal, N. G., Holtman, I. R., Schlachetzki, J. C. M., Sajti, E., Jaeger, B. N., O’Connor, C., Fitzpatrick, C., Pasillas, M. P., et al. (2017) · Science · doi:10.1126/science.aal3222 · Cited by 1,220
Self-citationAdult Neurogenesis in the Hippocampus: From Stem Cells to Behavior
Gonçalves, J. T., Schafer, S. T., & Gage, F. H. (2016) · Cell · doi:10.1016/j.cell.2016.10.021 · Cited by 1,122
DREME: motif discovery in transcription factor ChIP-seq data
Bailey, T. L. (2011) · Bioinformatics · doi:10.1093/bioinformatics/btr261 · Cited by 1,007
Johnson, E. C. B., Dammer, E. B., Duong, D. M., Ping, L., Zhou, M., Yin, L., Higginbotham, L. A., Guajardo, A., White, B., Troncoso, J. C., et al. (2020) · Nature Medicine · doi:10.1038/s41591-020-0815-6 · Cited by 1,001
G-quadruplex structures mark human regulatory chromatin
Hänsel-Hertsch, R., Beraldi, D., Lensing, S. V., Marsico, G., Zyner, K., Parry, A., Di Antonio, M., Pike, J., Kimura, H., Narita, M., et al. (2016) · Nature Genetics · doi:10.1038/ng.3662 · Cited by 964
Ageing and neuronal vulnerability
Mattson, M. P., & Magnus, T. (2006) · Nature Reviews Neuroscience · doi:10.1038/nrn1886 · Cited by 957
Activity-Induced DNA Breaks Govern the Expression of Neuronal Early-Response Genes
Madabhushi, R., Gao, F., Pfenning, A. R., Pan, L., Yamakawa, S., Seo, J., Rueda, R., Phan, T. X., Yamakawa, H., Pao, P.-C., et al. (2015) · Cell · doi:10.1016/j.cell.2015.05.032 · Cited by 700
Brain cell type–specific enhancer–promoter interactome maps and disease - risk association
Nott, A., Holtman, I. R., Coufal, N. G., Schlachetzki, J. C. M., Yu, M., Hu, R., Han, C. Z., Pena, M., Xiao, J., Wu, Y., et al. (2019) · Science · doi:10.1126/science.aay0793 · Cited by 699
Self-citationAging and neurodegeneration are associated with increased mutations in single human neurons
Lodato, M. A., Rodin, R. E., Bohrson, C. L., Coulter, M. E., Barton, A. R., Kwon, M., Sherman, M. A., Vitzthum, C. M., Luquette, L. J., Yandava, C. N., et al. (2018) · Science · doi:10.1126/science.aao4426 · Cited by 635
Sequencing newly replicated DNA reveals widespread plasticity in human replication timing
Hansen, R. S., Thomas, S., Sandstrom, R. S., Canfield, T. K., Thurman, R. E., Weaver, M., Dorschner, M. O., Gartler, S. M., & Stamatoyannopoulos, J. A. (2009) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0912402107 · Cited by 556
ProLuCID: An improved SEQUEST-like algorithm with enhanced sensitivity and specificity
Xu, T., Park, S. K., Venable, J. D., Wohlschlegel, J. A., Diedrich, J. K., Cociorva, D., Lu, B., Liao, L., Hewel, J., Han, X., et al. (2015) · Journal of Proteomics · doi:10.1016/j.jprot.2015.07.001 · Cited by 511
Suberbielle, E., Sanchez, P. E., Kravitz, A. V., Wang, X., Ho, K., Eilertson, K., Devidze, N., Kreitzer, A. C., & Mucke, L. (2013) · Nature Neuroscience · doi:10.1038/nn.3356 · Cited by 487
Van Meter, M., Kashyap, M., Rezazadeh, S., Geneva, A. J., Morello, T. D., Seluanov, A., & Gorbunova, V. (2014) · Nature Communications · doi:10.1038/ncomms6011 · Cited by 456
DNA Damage, DNA Repair, Aging, and NeurodegenerationPreprint
Maynard, S., Fang, E. F., Scheibye‐Knudsen, M., Croteau, D. L., & Bohr, V. A. (2015) · Cold Spring Harbor Perspectives in Medicine · doi:10.1101/cshperspect.a025130 · Cited by 454
Integrative detection and analysis of structural variation in cancer genomes
Dixon, J. R., Xu, J., Dileep, V., Zhan, Y., Song, F., Le, V. T., Yardımcı, G. G., Chakraborty, A., Bann, D. V., Wang, Y., et al. (2018) · Nature Genetics · doi:10.1038/s41588-018-0195-8 · Cited by 452
Whole genome experimental maps of DNA G-quadruplexes in multiple species
Marsico, G., Chambers, V. S., Sahakyan, A. B., McCauley, P., Boutell, J. M., Antonio, M. D., & Balasubramanian, S. (2019) · Nucleic Acids Research · doi:10.1093/nar/gkz179 · Cited by 435
QuickPALM: 3D real-time photoactivation nanoscopy image processing in ImageJ
Henriques, R., Lelek, M., Fornasiero, E. F., Valtorta, F., Zimmer, C., & Mhlanga, M. M. (2010) · Nature Methods · doi:10.1038/nmeth0510-339 · Cited by 411
Changes in DNA repair during aging
Gorbunova, V., Seluanov, A., Mao, Z., & Hine, C. (2007) · Nucleic Acids Research · doi:10.1093/nar/gkm756 · Cited by 405
Mohammed, H., Taylor, C., Brown, G. D., Papachristou, E. K., Carroll, J. S., & D’Santos, C. S. (2016) · Nature Protocols · doi:10.1038/nprot.2016.020 · Cited by 358
Chromatin and nucleosome dynamics in DNA damage and repairPreprint
Hauer, M., & Gasser, S. M. (2017) · Genes & Development · doi:10.1101/gad.307702.117 · Cited by 320
Restricted diet delays accelerated ageing and genomic stress in DNA-repair-deficient mice
Vermeij, W. P., Dollé, M. E. T., Reiling, E., Jaarsma, D., Payan-Gomez, C., Bombardieri, C. R., Wu, H., Roks, A. J. M., Botter, S. M., van der Eerden, B. C., et al. (2016) · Nature · doi:10.1038/nature19329 · Cited by 315
Extracting Accurate Precursor Information for Tandem Mass Spectra by RawConverter
He, L., Diedrich, J. K., Chu, Y.-Y., & Yates, J. R. (2015) · Analytical Chemistry · doi:10.1021/acs.analchem.5b02721 · Cited by 295
Schafer, S. T., Paquola, A. C. M., Stern, S., Gosselin, D., Ku, M., Pena, M., Kuret, T. J. M., Liyanage, M., Mansour, A. A., Jaeger, B. N., et al. (2019) · Nature Neuroscience · doi:10.1038/s41593-018-0295-x · Cited by 288
DNA Breaks and End Resection Measured Genome-wide by End Sequencing
Canela, A., Sridharan, S., Sciascia, N., Tubbs, A., Meltzer, P., Sleckman, B. P., & Nussenzweig, A. (2016) · Molecular Cell · doi:10.1016/j.molcel.2016.06.034 · Cited by 284
Long Neural Genes Harbor Recurrent DNA Break Clusters in Neural Stem/Progenitor Cells
Wei, P.-C., Chang, A. N., Kao, J., Du, Z., Meyers, R. M., Alt, F. W., & Schwer, B. (2016) · Cell · doi:10.1016/j.cell.2015.12.039 · Cited by 280
Different mutational rates and mechanisms in human cells at pregastrulation and neurogenesis
Bae, T., Tomasini, L., Mariani, J., Zhou, B., Roychowdhury, T., Franjic, D., Pletikos, M., Pattni, R., Chen, B.-J., Venturini, E., et al. (2017) · Science · doi:10.1126/science.aan8690 · Cited by 267
Maintaining genome stability in the nervous system
McKinnon, P. J. (2013) · Nature Neuroscience · doi:10.1038/nn.3537 · Cited by 229
DNA repair in terminally differentiated cells
Nouspikel, T. (2002) · DNA repair · doi:10.1016/s1568-7864(01)00005-2 · Cited by 228
Neuronal enhancers are hotspots for DNA single-strand break repair
Wu, W., Kargbo-Hill, S. E., Nathan, W. J., Paiano, J., Callen, E., Wang, D., Shinoda, K., van Wietmarschen, N., Colón-Mercado, J. M., Zong, D., et al. (2021) · Nature · doi:10.1038/s41586-021-03468-5 · Cited by 223
Early neuronal accumulation of DNA double strand breaks in Alzheimer’s disease
Shanbhag, N. M., Evans, M. D., Mao, W., Nana, A. L., Seeley, W. W., Adame, A., Rissman, R. A., Masliah, E., & Mucke, L. (2019) · Acta Neuropathologica Communications · doi:10.1186/s40478-019-0723-5 · Cited by 214
Somatic APP gene recombination in Alzheimer’s disease and normal neurons
Lee, M.-H., Siddoway, B., Kaeser, G. E., Segota, I., Rivera, R., Romanow, W. J., Liu, C. S., Park, C., Kennedy, G., Long, T., et al. (2018) · Nature · doi:10.1038/s41586-018-0718-6 · Cited by 210
Nouspikel, T., & Hanawalt, P. C. (2000) · Molecular and Cellular Biology · doi:10.1128/mcb.20.5.1562-1570.2000 · Cited by 194
Exploring Massive, Genome Scale Datasets with the GenometriCorr Package
Favorov, A. V., Mularoni, L., Cope, L., Medvedeva, Y. A., Mironov, A. A., Makeev, V. J., & Wheelan, S. J. (2012) · PLoS Computational Biology · doi:10.1371/journal.pcbi.1002529 · Cited by 190
Reid, D. A., Keegan, S., Leo‐Macías, A., Watanabe, G., Strande, N. T., Chang, H. H., Oksuz, B. A., Fenyö, D., Lieber, M. R., Ramsden, D. A., et al. (2015) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1420115112 · Cited by 178
Genomic integrity and the ageing brain
Chow, H.-M., & Herrup, K. (2015) · Nature Reviews Neuroscience · doi:10.1038/nrn4020 · Cited by 174
Activating Transcription Factor 3 and the Nervous System
Hunt, D., Raivich, G., & Anderson, P. N. (2012) · Frontiers in Molecular Neuroscience · doi:10.3389/fnmol.2012.00007 · Cited by 162
Epigenome Maintenance in Response to DNA Damage
Dabin, J., Fortuny, A., & Polo, S. E. (2016) · Molecular Cell · doi:10.1016/j.molcel.2016.04.006 · Cited by 161
Huber, C. D., Kim, B. Y., & Lohmueller, K. E. (2020) · PLoS Genetics · doi:10.1371/journal.pgen.1008827 · Cited by 133
Genome instability in Alzheimer disease
Hou, Y., Song, H., Croteau, D. L., Akbari, M., & Bohr, V. A. (2017) · Mechanisms of Ageing and Development · doi:10.1016/j.mad.2016.04.005 · Cited by 120
HOOK, V. Y. H., Brennand, K., Kim, Y. S., Toneff, T., Funkelstein, L., Lee, K. C., Ziegler, M. G., & Gage, F. H. (2014) · Stem Cell Reports · doi:10.1016/j.stemcr.2014.08.001 · Cited by 109
White, R. R., Milholland, B., de Bruin, A., Curran, S., Laberge, R.-M., van Steeg, H., Campisi, J., Maslov, A. Y., & Vijg, J. (2015) · Nature Communications · doi:10.1038/ncomms7790 · Cited by 107
Loss of Sfpq Causes Long-Gene Transcriptopathy in the Brain
Takeuchi, A., Iida, K., Tsubota, T., Hosokawa, M., Denawa, M., Brown, J. B., Ninomiya, K., Ito, M., Kimurâ, H., Abe, T., et al. (2018) · Cell Reports · doi:10.1016/j.celrep.2018.03.141 · Cited by 107
Wang, M., Wei, P.-C., Lim, C. K., Gallina, I. S., Marshall, S., Marchetto, M. C., Alt, F. W., & Gage, F. H. (2020) · Cell Stem Cell · doi:10.1016/j.stem.2019.12.013 · Cited by 105
Kozlenkov, A., Jaffe, A. E., Timashpolsky, A., Apontes, P., Rudchenko, S., Barbu, M., Byne, W. M., Hurd, Y. L., Horvath, S., & Dracheva, S. M. (2017) · Genes · doi:10.3390/genes8060152 · Cited by 89
Pruunsild, P., Bengtson, C. P., & Bading, H. (2017) · Cell Reports · doi:10.1016/j.celrep.2016.12.018 · Cited by 78
Identification of Conserved Proteomic Networks in Neurodegenerative Dementia
Swarup, V., Chang, T. S., Duong, D. M., Dammer, E. B., Dai, J., Lah, J. J., Johnson, E. C. B., Seyfried, N. T., Levey, A. I., & Geschwind, D. H. (2020) · Cell Reports · doi:10.1016/j.celrep.2020.107807 · Cited by 78
Identification of conserved proteomic networks in neurodegenerative dementia
Swarup, V., Chang, T. S., Duong, D. M., Dammer, E. B., Lah, J. J., Johnson, E. E. C. B., Seyfried, N. T., Levey, A. I., & Geschwind, D. H. (2019) · doi:10.1101/825802 · Cited by 78
ONECUT transcription factors induce neuronal characteristics and remodel chromatin accessibility
van der Raadt, J., van Gestel, S. H. C., Kasri, N. N., & Albers, C. A. (2019) · Nucleic Acids Research · doi:10.1093/nar/gkz273 · Cited by 62
INDUCTION OF DNA SYNTHESIS IN CULTURED NEURONS BY ULTRAVIOLET LIGHT OR METHYL METHANE SULFONATE
Sanes, J. R., & Okun, L. M. (1972) · The Journal of Cell Biology · doi:10.1083/jcb.53.2.587 · Cited by 45
DNA replication timing alterations identify common markers between distinct progeroid diseases
Rivera‐Mulia, J. C., Desprat, R., Trevilla‐García, C., Cornacchia, D., Schwerer, H., Sasaki, T., Sima, J., Fells, T., Studer, L., Lemaı̂tre, J.-M., et al. (2017) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1711613114 · Cited by 43
Unscheduled DNA synthesis in various types of cells of the mouse brain in vivo
Korr, H., & Schultze, B. L. (1989) · Experimental Brain Research · doi:10.1007/bf00247359 · Cited by 37
Maallem, S., Mutin, M., Kwon, H. M., & Tappaz, M. (2005) · Neuroscience · doi:10.1016/j.neuroscience.2005.07.037 · Cited by 31
Forest restoration: Transformative trees
Sheil, D., Tobella, A. B., Ilstedt, U., Ibisch, P. L., Makarieva, A. M., McAlpine, C., Morris, C. E., Murdiyarso, D., Nobre, A. D., Poveda, G., et al. (2019) · Science · doi:10.1126/science.aay7309 · Cited by 29
Neuronal Enhancers are Hotspots For DNA Single-Strand Break RepairPreprint
Wu, W., Hill, S. E., Nathan, W. J., et al. (2020) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2020.12.16.423085 · Cited by 19
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Metadata
- Authors
- Reid, D. A., Reed, P. J., Schlachetzki, J. C. M., Nitulescu, I. I., Chou, G., Tsui, E. C., Jones, J. R., Chandran, S., Lu, A. T., McClain, C. A., Ooi, J. H., Wang, T.-W., Lana, A. J., Linker, S. B., Ricciardulli, A. S., Lau, S., Schafer, S. T., Horvath, S., Dixon, J. R., Hah, N., Glass, C. K., & Gage, F. H.
- Affiliations
- Salk Institute for Biological Studies (US)
- University of California San Diego (US)
- University of California, Los Angeles (US)
- Corresponding author
- Reid, Dylan A.
- Reed, Patrick J.
- Schlachetzki, Johannes C. M.
- Nitulescu, Ioana I.
- Chou, Grace
- Tsui, Enoch C.
- Jones, Jeffrey R.
- Gage, Fred H.
- ORCID
- Reid, Dylan A.
- Reed, Patrick J.
- Schlachetzki, Johannes C. M.
- Nitulescu, Ioana I.
- Chou, Grace
- Tsui, Enoch C.
- Jones, Jeffrey R.
- Chandran, Sahaana
- Lu, Ake T.
- McClain, Claire A.
- Ooi, Jean H.
- Wang, Tzu-Wen
- Lana, Addison J.
- Linker, Sara B.
- Ricciardulli, Anthony S.
- Lau, Shong
- Schafer, Simon T.
- Horvath, Steve
- Dixon, Jesse R.
- Hah, Nasun
- Glass, Christopher K.
- Gage, Fred H.
- Venue
- Science
- Published
- 2021-04-02
- Volume
- 372
- Issue
- 6537
- Pages
- 91-94
- ISSN
- 0036-8075 (ISSN-L)
- 1095-9203
- PMC
- PMC9179101
- OpenAlex
- W3151212872
- Cited by
- 121
- References
- 81
- Citations by year
- 2026: 18 · 2025: 19 · 2024: 24 · 2023: 26 · 2022: 27 · 2021: 7
- FWCI
- 6.59
- Type
- journal article
- Language
- en
- Open access
- green
- doi.org
- Licence
- cc-by-nc
- Locations
- Science (publishedVersion)
- bioRxiv (Cold Spring Harbor Laboratory) (acceptedVersion, cc-by-nc)
- PubMed (publishedVersion)
- PubMed Central (acceptedVersion)
- eScholarship (California Digital Library) (submittedVersion)
- Funders
- NIH Office of the Director (AG056306, DP5OD023071-03)
- Alzheimer’s Association (AARF-17-504089)
- Leona M. and Harry B. Helmsley Charitable Trust
- JPB Foundation
- NIH (R01AG056411-02)
- American Heart Association/Paul G. Allen Frontiers Group Brain Health & Cognitive Impairment Initiative (19PABHI34610000)
- Dolby Charitable Trust
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › DNA Repair Mechanisms
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › DNA and Nucleic Acid Chemistry
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Aging › Genetics, Aging, and Longevity in Model Organisms
- Keywords
- DNA repair, genomic instability, postmitotic neurons, RNA-binding proteins, embryonic stem cell-derived neurons, aging, genome stability, essential genes
- MeSH terms
- Aging, Deoxyuridine, DNA Damage, DNA Repair, Histones, Humans, Mitosis, Mutation, Nervous System Diseases, Neurons, Promoter Regions, Genetic, Transcription, Genetic, Genome, Human, RNA-Binding Proteins, Sequence Analysis, DNA, DNA, Intergenic, Genomic Instability, Embryonic Stem Cells
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