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Hanqing Liu - Publications

Affiliations: 
UCSD Bioinformatics 
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23 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2024 Zhou J, Luo C, Liu H, Heffel MG, Straub RE, Kleinman JE, Hyde TM, Ecker JR, Weinberger DR, Han S. scMeFormer: a transformer-based deep learning model for imputing DNA methylation states in single cells enhances the detection of epigenetic alterations in schizophrenia. Biorxiv : the Preprint Server For Biology. PMID 38328094 DOI: 10.1101/2024.01.25.577200  0.762
2024 Zemke NR, Armand EJ, Wang W, Lee S, Zhou J, Li YE, Liu H, Tian W, Nery JR, Castanon RG, Bartlett A, Osteen JK, Li D, Zhuo X, Xu V, et al. Author Correction: Conserved and divergent gene regulatory programs of the mammalian neocortex. Nature. PMID 38200319 DOI: 10.1038/s41586-023-07013-4  0.766
2023 Mukamel EA, Liu H, Behrens MM, Ecker JR. Cell type-specific enrichment of somatic aneuploidy in the mammalian brain. Biorxiv : the Preprint Server For Biology. PMID 38187559 DOI: 10.1101/2023.12.18.572285  0.638
2023 Zhou J, Zhang Z, Wu M, Liu H, Pang Y, Bartlett A, Peng Z, Ding W, Rivkin A, Lagos WN, Williams E, Lee CT, Miyazaki PA, Aldridge A, Zeng Q, et al. Brain-wide correspondence of neuronal epigenomics and distant projections. Nature. 624: 355-365. PMID 38092919 DOI: 10.1038/s41586-023-06823-w  0.814
2023 Zemke NR, Armand EJ, Wang W, Lee S, Zhou J, Li YE, Liu H, Tian W, Nery JR, Castanon RG, Bartlett A, Osteen JK, Li D, Zhuo X, Xu V, et al. Conserved and divergent gene regulatory programs of the mammalian neocortex. Nature. 624: 390-402. PMID 38092918 DOI: 10.1038/s41586-023-06819-6  0.811
2023 Zu S, Li YE, Wang K, Armand EJ, Mamde S, Amaral ML, Wang Y, Chu A, Xie Y, Miller M, Xu J, Wang Z, Zhang K, Jia B, Hou X, ... ... Liu H, et al. Single-cell analysis of chromatin accessibility in the adult mouse brain. Nature. 624: 378-389. PMID 38092917 DOI: 10.1038/s41586-023-06824-9  0.84
2023 Liu H, Zeng Q, Zhou J, Bartlett A, Wang BA, Berube P, Tian W, Kenworthy M, Altshul J, Nery JR, Chen H, Castanon RG, Zu S, Li YE, Lucero J, et al. Single-cell DNA methylome and 3D multi-omic atlas of the adult mouse brain. Nature. 624: 366-377. PMID 38092913 DOI: 10.1038/s41586-023-06805-y  0.76
2023 Tian W, Zhou J, Bartlett A, Zeng Q, Liu H, Castanon RG, Kenworthy M, Altshul J, Valadon C, Aldridge A, Nery JR, Chen H, Xu J, Johnson ND, Lucero J, et al. Single-cell DNA methylation and 3D genome architecture in the human brain. Science (New York, N.Y.). 382: eadf5357. PMID 37824674 DOI: 10.1126/science.adf5357  0.859
2023 Xie F, Armand EJ, Yao Z, Liu H, Bartlett A, Behrens MM, Li YE, Lucero JD, Luo C, Nery JR, Pinto-Duarte A, Poirion OB, Preissl S, Rivkin AC, Tasic B, et al. Robust enhancer-gene regulation identified by single-cell transcriptomes and epigenomes. Cell Genomics. 3: 100342. PMID 37492103 DOI: 10.1016/j.xgen.2023.100342  0.785
2023 Wang W, Hariharan M, Bartlett A, Barragan C, Castanon R, Rothenberg V, Song H, Nery J, Aldridge A, Altshul J, Kenworthy M, Ding W, Liu H, Tian W, Zhou J, et al. Human Immune Cell Epigenomic Signatures in Response to Infectious Diseases and Chemical Exposures. Biorxiv : the Preprint Server For Biology. PMID 37425926 DOI: 10.1101/2023.06.29.546792  0.798
2023 Hawrylycz M, Martone ME, Ascoli GA, Bjaalie JG, Dong HW, Ghosh SS, Gillis J, Hertzano R, Haynor DR, Hof PR, Kim Y, Lein E, Liu Y, Miller JA, Mitra PP, ... ... Liu H, et al. A guide to the BRAIN Initiative Cell Census Network data ecosystem. Plos Biology. 21: e3002133. PMID 37390046 DOI: 10.1371/journal.pbio.3002133  0.607
2023 Liu H, Zeng Q, Zhou J, Bartlett A, Wang BA, Berube P, Tian W, Kenworthy M, Altshul J, Nery JR, Chen H, Castanon RG, Zu S, Li YE, Lucero J, et al. Single-cell DNA Methylome and 3D Multi-omic Atlas of the Adult Mouse Brain. Biorxiv : the Preprint Server For Biology. PMID 37131654 DOI: 10.1101/2023.04.16.536509  0.759
2023 Zemke NR, Armand EJ, Wang W, Lee S, Zhou J, Li YE, Liu H, Tian W, Nery JR, Castanon RG, Bartlett A, Osteen JK, Li D, Zhuo X, Xu V, et al. Comparative single cell epigenomic analysis of gene regulatory programs in the rodent and primate neocortex. Biorxiv : the Preprint Server For Biology. PMID 37066152 DOI: 10.1101/2023.04.08.536119  0.826
2022 Luo C, Liu H, Xie F, Armand EJ, Siletti K, Bakken TE, Fang R, Doyle WI, Stuart T, Hodge RD, Hu L, Wang BA, Zhang Z, Preissl S, Lee DS, et al. Single nucleus multi-omics identifies human cortical cell regulatory genome diversity. Cell Genomics. 2. PMID 35419551 DOI: 10.1016/j.xgen.2022.100107  0.766
2022 Bakken TE, Jorstad NL, Hu Q, Lake BB, Tian W, Kalmbach BE, Crow M, Hodge RD, Krienen FM, Sorensen SA, Eggermont J, Yao Z, Aevermann BD, Aldridge AI, Bartlett A, ... ... Liu H, et al. Author Correction: Comparative cellular analysis of motor cortex in human, marmoset and mouse. Nature. PMID 35319013 DOI: 10.1038/s41586-022-04562-y  0.712
2021 Li YE, Preissl S, Hou X, Zhang Z, Zhang K, Qiu Y, Poirion OB, Li B, Chiou J, Liu H, Pinto-Duarte A, Kubo N, Yang X, Fang R, Wang X, et al. An atlas of gene regulatory elements in adult mouse cerebrum. Nature. 598: 129-136. PMID 34616068 DOI: 10.1038/s41586-021-03604-1  0.709
2021 Yao Z, Liu H, Xie F, Fischer S, Adkins RS, Aldridge AI, Ament SA, Bartlett A, Behrens MM, Van den Berge K, Bertagnolli D, de Bézieux HR, Biancalani T, Booeshaghi AS, Bravo HC, et al. A transcriptomic and epigenomic cell atlas of the mouse primary motor cortex. Nature. 598: 103-110. PMID 34616066 DOI: 10.1038/s41586-021-03500-8  0.8
2021 Zhang Z, Zhou J, Tan P, Pang Y, Rivkin AC, Kirchgessner MA, Williams E, Lee CT, Liu H, Franklin AD, Miyazaki PA, Bartlett A, Aldridge AI, Vu M, Boggeman L, et al. Epigenomic diversity of cortical projection neurons in the mouse brain. Nature. 598: 167-173. PMID 34616065 DOI: 10.1038/s41586-021-03223-w  0.739
2021 Bakken TE, Jorstad NL, Hu Q, Lake BB, Tian W, Kalmbach BE, Crow M, Hodge RD, Krienen FM, Sorensen SA, Eggermont J, Yao Z, Aevermann BD, Aldridge AI, Bartlett A, ... ... Liu H, et al. Comparative cellular analysis of motor cortex in human, marmoset and mouse. Nature. 598: 111-119. PMID 34616062 DOI: 10.1038/s41586-021-03465-8  0.806
2021 Liu H, Zhou J, Tian W, Luo C, Bartlett A, Aldridge A, Lucero J, Osteen JK, Nery JR, Chen H, Rivkin A, Castanon RG, Clock B, Li YE, Hou X, et al. DNA methylation atlas of the mouse brain at single-cell resolution. Nature. 598: 120-128. PMID 34616061 DOI: 10.1038/s41586-020-03182-8  0.833
2021 Farhy-Tselnicker I, Boisvert MM, Liu H, Dowling C, Erikson GA, Blanco-Suarez E, Farhy C, Shokhirev MN, Ecker JR, Allen NJ. Activity-dependent modulation of synapse-regulating genes in astrocytes. Elife. 10. PMID 34494546 DOI: 10.7554/eLife.70514  0.5
2021 Ruf-Zamojski F, Zhang Z, Zamojski M, Smith GR, Mendelev N, Liu H, Nudelman G, Moriwaki M, Pincas H, Castanon RG, Nair VD, Seenarine N, Amper MAS, Zhou X, Ongaro L, et al. Single nucleus multi-omics regulatory landscape of the murine pituitary. Nature Communications. 12: 2677. PMID 33976139 DOI: 10.1038/s41467-021-22859-w  0.63
2020 Ruf-Zamojski FM, Zamojski MA, Nudelman G, Ge Y, Mendelev N, Smith GR, Zhou X, Toufaily C, Schang G, Gambino LO, Liu H, Gomez Castanon RG, Moriwaki M, Nair V, Pincas H, et al. SAT-298 Integrative Single-Cell Transcriptomic and Epigenomic Landscape of Mouse Anterior Pituitary Cell Types Journal of the Endocrine Society. 4. DOI: 10.1210/Jendso/Bvaa046.593  0.629
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