{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"institution":[{"name":"bioRxiv"}],"indexed":{"date-parts":[[2026,9,8]],"date-time":"2026-09-08T23:40:03Z","timestamp":1788910803958,"version":"build-2803163510"},"posted":{"date-parts":[[2024,5,12]]},"group-title":"Genomics","reference-count":113,"publisher":"openRxiv","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"accepted":{"date-parts":[[2024,5,12]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                <jats:p>\n                  Midbrain dopamine neurons (DNs) respond to a first exposure to addictive drugs and play key roles in chronic drug usage\n                  <jats:sup>1\u20133<\/jats:sup>\n                  . As the synaptic and transcriptional changes that follow an acute cocaine exposure are mostly resolved within a few days\n                  <jats:sup>4,5<\/jats:sup>\n                  , the molecular changes that encode the long-term cellular memory of the exposure within DNs remain unknown. To investigate whether a single cocaine exposure induces long-term changes in the 3D genome structure of DNs, we applied Genome Architecture Mapping and single nucleus transcriptomic analyses in the mouse midbrain. We found extensive rewiring of 3D genome architecture at 24 hours past exposure which remains or worsens by 14 days, outlasting transcriptional responses. The cocaine-induced chromatin rewiring occurs at all genomic scales and affects genes with major roles in cocaine-induced synaptic changes. A single cocaine exposure triggers extensive long-lasting changes in chromatin condensation in post-synaptic and post-transcriptional regulatory genes, for example the unfolding of\n                  <jats:italic>Rbfox1<\/jats:italic>\n                  which becomes most prominent 14 days post exposure. Finally, structurally remodeled genes are most expressed in a specific DN sub-type characterized by low expression of the dopamine auto-receptor\n                  <jats:italic>Drd2<\/jats:italic>\n                  , a key feature of highly cocaine-sensitive cells. These results reveal an important role for long-lasting 3D genome remodelling in the cellular memory of a single cocaine exposure, providing new hypotheses for understanding the inception of drug addiction and 3D genome plasticity.\n                <\/jats:p>","DOI":"10.1101\/2024.05.10.593308","type":"posted-content","created":{"date-parts":[[2024,5,13]],"date-time":"2024-05-13T03:40:16Z","timestamp":1715571616000},"source":"Crossref","is-referenced-by-count":2,"title":["A single dose of cocaine rewires the 3D genome structure of midbrain dopamine neurons"],"prefix":"10.64898","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-8109-5088","authenticated-orcid":false,"given":"Dominik","family":"Szab\u00f3","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-3606-6792","authenticated-orcid":false,"given":"Vedran","family":"Franke","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5819-060X","authenticated-orcid":false,"given":"Simona","family":"Bianco","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6681-4048","authenticated-orcid":false,"given":"Mykhailo Y.","family":"Batiuk","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1183-9285","authenticated-orcid":false,"given":"Eleanor J.","family":"Paul","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5847-3773","authenticated-orcid":false,"given":"Alexander","family":"Kukalev","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-4613-6427","authenticated-orcid":false,"given":"Ulrich G.","family":"Pfisterer","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5245-2322","authenticated-orcid":false,"given":"Ibai","family":"Irastorza-Azcarate","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Andrea M.","family":"Chiariello","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7352-3994","authenticated-orcid":false,"given":"Samuel","family":"Demharter","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-9064-9126","authenticated-orcid":false,"given":"Luna","family":"Zea-Redondo","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6064-7584","authenticated-orcid":false,"given":"Jose P.","family":"Lopez-Atalaya","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-8416-6416","authenticated-orcid":false,"given":"Mario","family":"Nicodemi","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-0468-0117","authenticated-orcid":false,"given":"Altuna","family":"Akalin","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7232-5558","authenticated-orcid":false,"given":"Konstantin","family":"Khodosevich","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1730-3353","authenticated-orcid":false,"given":"Mark A.","family":"Ungless","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-8716-5558","authenticated-orcid":false,"given":"Warren","family":"Winick-Ng","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-7493-6288","authenticated-orcid":false,"given":"Ana","family":"Pombo","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"54368","reference":[{"key":"2024051508101515000_2024.05.10.593308v1.1","doi-asserted-by":"publisher","DOI":"10.1038\/35079077"},{"key":"2024051508101515000_2024.05.10.593308v1.2","doi-asserted-by":"crossref","first-page":"151","DOI":"10.1016\/j.neubiorev.2010.04.006","article-title":"Effects of stress and aversion on dopamine neurons: Implications for addiction","volume":"35","year":"2010","journal-title":"Neuroscience & Biobehavioral Reviews"},{"key":"2024051508101515000_2024.05.10.593308v1.3","doi-asserted-by":"publisher","DOI":"10.1146\/annurev-psych-010418-103337"},{"key":"2024051508101515000_2024.05.10.593308v1.4","doi-asserted-by":"publisher","DOI":"10.1038\/s41467-018-05418-8"},{"key":"2024051508101515000_2024.05.10.593308v1.5","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0040538"},{"key":"2024051508101515000_2024.05.10.593308v1.6","doi-asserted-by":"crossref","first-page":"e10473","DOI":"10.15252\/msb.202110473","article-title":"Comparative chromatin accessibility upon BDNF stimulation delineates neuronal regulatory elements","volume":"18","year":"2022","journal-title":"Molecular Systems Biology"},{"key":"2024051508101515000_2024.05.10.593308v1.7","doi-asserted-by":"publisher","DOI":"10.1038\/nature09033"},{"key":"2024051508101515000_2024.05.10.593308v1.8","doi-asserted-by":"publisher","DOI":"10.1038\/sj.npp.1300075"},{"key":"2024051508101515000_2024.05.10.593308v1.9","doi-asserted-by":"publisher","DOI":"10.1038\/s41386-021-01031-4"},{"key":"2024051508101515000_2024.05.10.593308v1.10","doi-asserted-by":"publisher","DOI":"10.1038\/s41586-021-04081-2"},{"key":"2024051508101515000_2024.05.10.593308v1.11","doi-asserted-by":"publisher","DOI":"10.1016\/j.biopsych.2017.04.013"},{"key":"2024051508101515000_2024.05.10.593308v1.12","doi-asserted-by":"crossref","unstructured":"Carpenter, M. D. et al. Nr4a1 suppresses cocaine-induced behavior via epigenetic regulation of homeostatic target genes. Nat Commun 11, 504 (2020).","DOI":"10.1038\/s41467-020-14331-y"},{"key":"2024051508101515000_2024.05.10.593308v1.13","doi-asserted-by":"publisher","DOI":"10.1038\/s41593-020-0634-6"},{"key":"2024051508101515000_2024.05.10.593308v1.14","doi-asserted-by":"crossref","unstructured":"Stewart, A. F. , Fulton, S. L. & Maze, I . Epigenetics of Drug Addiction. Cold Spring Harb Perspect Med 11, a040253 (2021).","DOI":"10.1101\/cshperspect.a040253"},{"key":"2024051508101515000_2024.05.10.593308v1.15","doi-asserted-by":"publisher","DOI":"10.1016\/S0896-6273(03)00021-7"},{"key":"2024051508101515000_2024.05.10.593308v1.16","doi-asserted-by":"publisher","DOI":"10.1523\/JNEUROSCI.1312-04.2004"},{"key":"2024051508101515000_2024.05.10.593308v1.17","doi-asserted-by":"crossref","unstructured":"Batiuk, M. Y. et al. Upper cortical layer\u2013driven network impairment in schizophrenia. Science Advances 8, eabn8367 (2022).","DOI":"10.1126\/sciadv.abn8367"},{"key":"2024051508101515000_2024.05.10.593308v1.18","doi-asserted-by":"publisher","DOI":"10.1038\/s41592-023-01943-7"},{"key":"2024051508101515000_2024.05.10.593308v1.19","first-page":"bay121","article-title":"ANCO-GeneDB: annotations and comprehensive analysis of candidate genes for alcohol, nicotine, cocaine and opioid dependence","volume":"2018","year":"2018","journal-title":"Database"},{"key":"2024051508101515000_2024.05.10.593308v1.20","doi-asserted-by":"publisher","DOI":"10.1093\/NAR\/GKZ1021"},{"key":"2024051508101515000_2024.05.10.593308v1.21","doi-asserted-by":"publisher","DOI":"10.1038\/nature14450"},{"key":"2024051508101515000_2024.05.10.593308v1.22","doi-asserted-by":"crossref","unstructured":"Winick-Ng, W. , Leri, F. & Kalisch, B. E . Nitric oxide and histone deacetylases modulate cocaine-induced mu-opioid receptor levels in PC12 cells. BMC Pharmacology and Toxicology 13, 11 (2012).","DOI":"10.1186\/2050-6511-13-11"},{"key":"2024051508101515000_2024.05.10.593308v1.23","doi-asserted-by":"publisher","DOI":"10.1523\/JNEUROSCI.17-04-01302.1997"},{"key":"2024051508101515000_2024.05.10.593308v1.24","doi-asserted-by":"crossref","first-page":"D1216","DOI":"10.1093\/nar\/gkab960","article-title":"The European Variation Archive: a FAIR resource of genomic variation for all species","volume":"50","year":"2022","journal-title":"Nucleic Acids Research"},{"key":"2024051508101515000_2024.05.10.593308v1.25","doi-asserted-by":"publisher","DOI":"10.1016\/j.semcdb.2006.04.001"},{"key":"2024051508101515000_2024.05.10.593308v1.26","doi-asserted-by":"publisher","DOI":"10.1016\/j.cell.2016.09.027"},{"key":"2024051508101515000_2024.05.10.593308v1.27","doi-asserted-by":"publisher","DOI":"10.1038\/s41586-023-06812-z"},{"key":"2024051508101515000_2024.05.10.593308v1.28","doi-asserted-by":"crossref","first-page":"e1004217","DOI":"10.1371\/journal.pcbi.1004217","article-title":"Transcriptional Dynamics Reveal Critical Roles for Non-coding RNAs in the Immediate-Early Response","volume":"11","year":"2015","journal-title":"PLOS Computational Biology"},{"key":"2024051508101515000_2024.05.10.593308v1.29","doi-asserted-by":"crossref","first-page":"1037","DOI":"10.1038\/s41592-023-01903-1","article-title":"Multiplex-GAM: genome-wide identification of chromatin contacts yields insights overlooked by Hi-C","volume":"20","year":"2023","journal-title":"Nat Methods"},{"key":"2024051508101515000_2024.05.10.593308v1.30","doi-asserted-by":"publisher","DOI":"10.1523\/JNEUROSCI.4132-05.2006"},{"key":"2024051508101515000_2024.05.10.593308v1.31","doi-asserted-by":"crossref","first-page":"394","DOI":"10.1038\/npp.2014.182","article-title":"GluN2B-Containing NMDA Receptors Blockade Rescues Bidirectional Synaptic Plasticity in the Bed Nucleus of the Stria Terminalis of Cocaine Self-Administering Rats","volume":"40","year":"2015","journal-title":"Neuropsychopharmacol"},{"key":"2024051508101515000_2024.05.10.593308v1.32","doi-asserted-by":"publisher","DOI":"10.1002\/syn.20577"},{"key":"2024051508101515000_2024.05.10.593308v1.33","doi-asserted-by":"crossref","first-page":"217","DOI":"10.1016\/j.neuron.2019.05.002","article-title":"SynGO: An Evidence-Based, Expert-Curated Knowledge Base for the Synapse","volume":"103","year":"2019","journal-title":"Neuron"},{"key":"2024051508101515000_2024.05.10.593308v1.34","doi-asserted-by":"publisher","DOI":"10.1523\/JNEUROSCI.1001-08.2008"},{"key":"2024051508101515000_2024.05.10.593308v1.35","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.2014827117"},{"key":"2024051508101515000_2024.05.10.593308v1.36","doi-asserted-by":"publisher","DOI":"10.1523\/JNEUROSCI.6056-11.2012"},{"key":"2024051508101515000_2024.05.10.593308v1.37","doi-asserted-by":"publisher","DOI":"10.1038\/nature19800"},{"key":"2024051508101515000_2024.05.10.593308v1.38","doi-asserted-by":"publisher","DOI":"10.1038\/s41588-019-0466-z"},{"key":"2024051508101515000_2024.05.10.593308v1.39","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.1319703111"},{"key":"2024051508101515000_2024.05.10.593308v1.40","doi-asserted-by":"publisher","DOI":"10.1111\/adb.12358"},{"key":"2024051508101515000_2024.05.10.593308v1.41","doi-asserted-by":"publisher","DOI":"10.1038\/nature21411"},{"key":"2024051508101515000_2024.05.10.593308v1.42","doi-asserted-by":"publisher","DOI":"10.1101\/2023.12.04.570024"},{"key":"2024051508101515000_2024.05.10.593308v1.43","doi-asserted-by":"crossref","first-page":"327","DOI":"10.1038\/s41556-022-00847-6","article-title":"Spatial organization of transcribed eukaryotic genes","volume":"24","year":"2022","journal-title":"Nat Cell Biol"},{"key":"2024051508101515000_2024.05.10.593308v1.44","doi-asserted-by":"publisher","DOI":"10.1126\/science.adg3797"},{"key":"2024051508101515000_2024.05.10.593308v1.45","doi-asserted-by":"crossref","unstructured":"Feng, J. et al. Chronic cocaine-regulated epigenomic changes in mouse nucleus accumbens. Genome Biology 15, R65 (2014).","DOI":"10.1186\/gb-2014-15-4-r65"},{"key":"2024051508101515000_2024.05.10.593308v1.46","doi-asserted-by":"publisher","DOI":"10.1038\/s41588-018-0098-8"},{"key":"2024051508101515000_2024.05.10.593308v1.47","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.1205074109"},{"key":"2024051508101515000_2024.05.10.593308v1.48","doi-asserted-by":"publisher","DOI":"10.1016\/j.neuron.2021.08.008"},{"key":"2024051508101515000_2024.05.10.593308v1.49","doi-asserted-by":"publisher","DOI":"10.1016\/j.tins.2011.08.007"},{"key":"2024051508101515000_2024.05.10.593308v1.50","doi-asserted-by":"crossref","unstructured":"Zuo, D. , Subjeck, J. & Wang, X.-Y . Unfolding the Role of Large Heat Shock Proteins: New Insights and Therapeutic Implications. Frontiers in Immunology 7, (2016).","DOI":"10.3389\/fimmu.2016.00075"},{"key":"2024051508101515000_2024.05.10.593308v1.51","doi-asserted-by":"publisher","DOI":"10.1126\/sciadv.abb0205"},{"key":"2024051508101515000_2024.05.10.593308v1.52","doi-asserted-by":"crossref","first-page":"15047","DOI":"10.1096\/fj.201902967R","article-title":"Tristetraprolin destabilizes NOX2 mRNA and protects dopaminergic neurons from oxidative damage in Parkinson\u2019s disease","volume":"34","year":"2020","journal-title":"The FASEB Journal"},{"key":"2024051508101515000_2024.05.10.593308v1.53","doi-asserted-by":"publisher","DOI":"10.1038\/nn.2708"},{"key":"2024051508101515000_2024.05.10.593308v1.54","doi-asserted-by":"publisher","DOI":"10.1084\/jem.20100451"},{"key":"2024051508101515000_2024.05.10.593308v1.55","doi-asserted-by":"publisher","DOI":"10.1007\/s00439-013-1318-z"},{"key":"2024051508101515000_2024.05.10.593308v1.56","doi-asserted-by":"publisher","DOI":"10.1016\/j.neuron.2008.01.022"},{"key":"2024051508101515000_2024.05.10.593308v1.57","doi-asserted-by":"publisher","DOI":"10.1093\/hmg\/ddi244"},{"key":"2024051508101515000_2024.05.10.593308v1.58","first-page":"e12454","article-title":"Neuronal RNA-binding protein HuD regulates addiction-related gene expression and behavior. Genes","volume":"17","year":"2018","journal-title":"Brain and Behavior"},{"key":"2024051508101515000_2024.05.10.593308v1.59","doi-asserted-by":"crossref","first-page":"121","DOI":"10.1016\/S1016-8478(23)13973-2","article-title":"Gene Expression Profiling of the Rewarding Effect Caused by Methamphetamine in the Mesolimbic Dopamine System","volume":"26","year":"2008","journal-title":"Molecules and Cells"},{"key":"2024051508101515000_2024.05.10.593308v1.60","doi-asserted-by":"publisher","DOI":"10.1016\/j.cell.2015.07.015"},{"key":"2024051508101515000_2024.05.10.593308v1.61","doi-asserted-by":"publisher","DOI":"10.1016\/j.neuron.2011.03.025"},{"key":"2024051508101515000_2024.05.10.593308v1.62","first-page":"21","article-title":"Effects of cocaine and withdrawal on the mouse nucleus accumbens transcriptome. Genes","volume":"12","year":"2013","journal-title":"Brain and Behavior"},{"key":"2024051508101515000_2024.05.10.593308v1.63","doi-asserted-by":"publisher","DOI":"10.1016\/j.pbb.2009.07.019"},{"key":"2024051508101515000_2024.05.10.593308v1.64","doi-asserted-by":"publisher","DOI":"10.1038\/nature11713"},{"key":"2024051508101515000_2024.05.10.593308v1.65","doi-asserted-by":"publisher","DOI":"10.1523\/JNEUROSCI.20-15-j0006.2000"},{"key":"2024051508101515000_2024.05.10.593308v1.66","doi-asserted-by":"publisher","DOI":"10.1111\/bph.13899"},{"key":"2024051508101515000_2024.05.10.593308v1.67","doi-asserted-by":"publisher","DOI":"10.1016\/j.tins.2020.01.004"},{"key":"2024051508101515000_2024.05.10.593308v1.68","doi-asserted-by":"publisher","DOI":"10.1038\/nn.4494"},{"key":"2024051508101515000_2024.05.10.593308v1.69","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.1518894112"},{"key":"2024051508101515000_2024.05.10.593308v1.70","doi-asserted-by":"publisher","DOI":"10.1016\/j.stem.2018.09.005"},{"key":"2024051508101515000_2024.05.10.593308v1.71","doi-asserted-by":"publisher","DOI":"10.3390\/cells11193145"},{"key":"2024051508101515000_2024.05.10.593308v1.72","doi-asserted-by":"crossref","unstructured":"Eder, A. & Bading, H . Calcium signals can freely cross the nuclear envelope in hippocampal neurons: somatic calcium increases generate nuclear calcium transients. BMC Neuroscience 8, 57 (2007).","DOI":"10.1186\/1471-2202-8-57"},{"key":"2024051508101515000_2024.05.10.593308v1.73","doi-asserted-by":"publisher","DOI":"10.1146\/annurev-neuro-092920-123905"},{"key":"2024051508101515000_2024.05.10.593308v1.74","doi-asserted-by":"publisher","DOI":"10.1038\/s41467-022-29697-4"},{"key":"2024051508101515000_2024.05.10.593308v1.75","doi-asserted-by":"publisher","DOI":"10.1038\/nmeth.1923"},{"key":"2024051508101515000_2024.05.10.593308v1.76","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btq033"},{"key":"2024051508101515000_2024.05.10.593308v1.77","doi-asserted-by":"publisher","DOI":"10.5281\/zenodo.10528545"},{"key":"2024051508101515000_2024.05.10.593308v1.78","doi-asserted-by":"publisher","DOI":"10.1126\/science.1181369"},{"key":"2024051508101515000_2024.05.10.593308v1.79","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btq049"},{"key":"2024051508101515000_2024.05.10.593308v1.80","doi-asserted-by":"publisher","DOI":"10.1101\/2021.08.23.457422"},{"key":"2024051508101515000_2024.05.10.593308v1.81","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.1204799109"},{"key":"2024051508101515000_2024.05.10.593308v1.82","doi-asserted-by":"crossref","unstructured":"Chiariello, A. M. , Annunziatella, C. , Bianco, S. , Esposito, A. & Nicodemi, M . Polymer physics of chromosome large-scale 3D organisation. Sci Rep 6, 29775 (2016).","DOI":"10.1038\/srep29775"},{"key":"2024051508101515000_2024.05.10.593308v1.83","doi-asserted-by":"crossref","first-page":"482","DOI":"10.1038\/s41592-021-01135-1","article-title":"Comparison of the Hi-C, GAM and SPRITE methods using polymer models of chromatin","volume":"18","year":"2021","journal-title":"Nat Methods"},{"key":"2024051508101515000_2024.05.10.593308v1.84","doi-asserted-by":"publisher","DOI":"10.1063\/1.458541"},{"key":"2024051508101515000_2024.05.10.593308v1.85","doi-asserted-by":"crossref","first-page":"3289","DOI":"10.1038\/s41467-020-17141-4","article-title":"Polymer physics indicates chromatin folding variability across single-cells results from state degeneracy in phase separation","volume":"11","year":"2020","journal-title":"Nat Commun"},{"key":"2024051508101515000_2024.05.10.593308v1.86","doi-asserted-by":"publisher","DOI":"10.1006\/jcph.1995.1039"},{"key":"2024051508101515000_2024.05.10.593308v1.87","doi-asserted-by":"publisher","DOI":"10.1016\/S0968-0004(01)01978-8"},{"key":"2024051508101515000_2024.05.10.593308v1.88","doi-asserted-by":"publisher","DOI":"10.1126\/science.1067799"},{"key":"2024051508101515000_2024.05.10.593308v1.89","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.0402766101"},{"key":"2024051508101515000_2024.05.10.593308v1.90","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkz401"},{"key":"2024051508101515000_2024.05.10.593308v1.91","doi-asserted-by":"publisher","DOI":"10.12688\/f1000research.11997.1"},{"key":"2024051508101515000_2024.05.10.593308v1.92","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btr539"},{"key":"2024051508101515000_2024.05.10.593308v1.93","doi-asserted-by":"publisher","DOI":"10.1038\/nprot.2009.97"},{"key":"2024051508101515000_2024.05.10.593308v1.94","doi-asserted-by":"crossref","unstructured":"Zhang, H. , Wang, F. , Kranzler, H. R. , Anton, R. F. & Gelernter, J . Variation in regulator of G-protein signaling 17 gene (RGS17) is associated with multiple substance dependence diagnoses. Behavioral and Brain Functions 8, 23 (2012).","DOI":"10.1186\/1744-9081-8-23"},{"key":"2024051508101515000_2024.05.10.593308v1.95","doi-asserted-by":"crossref","first-page":"e1006940","DOI":"10.1371\/journal.pcbi.1006940","article-title":"CNEr: A toolkit for exploring extreme noncoding conservation","volume":"15","year":"2019","journal-title":"PLOS Computational Biology"},{"key":"2024051508101515000_2024.05.10.593308v1.96","doi-asserted-by":"publisher","DOI":"10.1016\/j.biopsych.2018.04.009"},{"key":"2024051508101515000_2024.05.10.593308v1.97","doi-asserted-by":"publisher","DOI":"10.1126\/sciadv.aba4221"},{"key":"2024051508101515000_2024.05.10.593308v1.98","doi-asserted-by":"crossref","first-page":"1718","DOI":"10.1038\/s41593-019-0476-2","article-title":"Immediate and deferred epigenomic signatures of in vivo neuronal activation in mouse hippocampus","volume":"22","year":"2019","journal-title":"Nat Neurosci"},{"key":"2024051508101515000_2024.05.10.593308v1.99","doi-asserted-by":"publisher","DOI":"10.1111\/adb.12330"},{"key":"2024051508101515000_2024.05.10.593308v1.100","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.1720446115"},{"key":"2024051508101515000_2024.05.10.593308v1.101","doi-asserted-by":"crossref","first-page":"giy123","DOI":"10.1093\/gigascience\/giy123","article-title":"PiGx: reproducible genomics analysis pipelines with GNU Guix","volume":"7","year":"2018","journal-title":"GigaScience"},{"key":"2024051508101515000_2024.05.10.593308v1.102","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/bts635"},{"key":"2024051508101515000_2024.05.10.593308v1.103","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkx1098"},{"key":"2024051508101515000_2024.05.10.593308v1.104","doi-asserted-by":"publisher","DOI":"10.12688\/f1000research.73600.2"},{"key":"2024051508101515000_2024.05.10.593308v1.105","doi-asserted-by":"crossref","first-page":"695","DOI":"10.1038\/s41592-019-0466-z","article-title":"Joint analysis of heterogeneous single-cell RNA-seq dataset collections","volume":"16","year":"2019","journal-title":"Nat Methods"},{"key":"2024051508101515000_2024.05.10.593308v1.106","doi-asserted-by":"publisher","DOI":"10.1038\/nbt.4096"},{"key":"2024051508101515000_2024.05.10.593308v1.107","doi-asserted-by":"publisher","DOI":"10.48550\/arXiv.1802.03426"},{"key":"2024051508101515000_2024.05.10.593308v1.108","doi-asserted-by":"publisher","DOI":"10.1038\/nmeth.4463"},{"key":"2024051508101515000_2024.05.10.593308v1.109","doi-asserted-by":"publisher","DOI":"10.18129\/B9.bioc.muscat"},{"key":"2024051508101515000_2024.05.10.593308v1.110","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btw313"},{"key":"2024051508101515000_2024.05.10.593308v1.111","doi-asserted-by":"crossref","unstructured":"Alves dos Santos, M. T. & Smidt, M. P. En1 and Wnt signaling in midbrain dopaminergic neuronal development. Neural Development 6, 23 (2011).","DOI":"10.1186\/1749-8104-6-23"},{"key":"2024051508101515000_2024.05.10.593308v1.112","doi-asserted-by":"publisher","DOI":"10.1016\/j.nbd.2003.09.001"},{"key":"2024051508101515000_2024.05.10.593308v1.113","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0015222"}],"container-title":[],"original-title":[],"link":[{"URL":"https:\/\/syndication.highwire.org\/content\/doi\/10.1101\/2024.05.10.593308","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,1,15]],"date-time":"2026-01-15T06:25:47Z","timestamp":1768458347000},"score":1,"resource":{"primary":{"URL":"http:\/\/biorxiv.org\/lookup\/doi\/10.1101\/2024.05.10.593308"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2024,5,12]]},"references-count":113,"URL":"https:\/\/doi.org\/10.1101\/2024.05.10.593308","relation":{},"subject":[],"published":{"date-parts":[[2024,5,12]]},"subtype":"preprint"}}