Publications

Wu, H.; Zhang, J.; Jian, F.; Chen, J.P.; Zheng, Y.; Tan, L.; Xie, X.S. Simultaneous single-cell three-dimensional genome and gene expression profiling uncovers dynamic enhancer connectivity underlying olfactory receptor choice. Nat. Methods 2024, DOI: 10.1038/s41592-024-02239-0
Marcotte, H.; Cao, Y.; Zuo, F.; Simonelli, L.; Sammartino, J.C.; Pedotti, M.; Sun, R.; Cassaniti, I.; Hagbom, M.; Piralla, A.; Yang, J.; Du, L.; Percivalle, E.; Bertoglio, F.; Schubert, M.; Abolhassani, H.; Sherina, N.; Guerra, C.; Borte, S.; Rezaei, N.; Kumagai-Braesch, M.; Xue, Y.; Su, C.; Yan, Q.; He, P.; Grönwall, C.; Klareskog, L.; Calzolai, L.; Cavalli, A.; Wang, Q.; Robbiani, D.F.; Hust, M.; Shi, Z.; Feng, L.; Svensson, L.; Chen, L.; Bao, L.; Baldanti, F.; Xiao, J.; Qin, C.; Hammarström, L.; Yang, X.; Varani, L.; Xie, X.S.; Pan-Hammarström, Q. Conversion of monoclonal IgG to dimeric and secretory IgA restores neutralizing ability and prevents infection of Omicron lineages. Proc. Natl. Acad. Sci. U.S.A. 2024, 121(3), e2315354120 DOI: 10.1073/pnas.2315354120
Cao, Y.; Bai, Y.; Yuan, T.; Song, L.; Fan, Y.; Ren, L.; Song, W.; Peng, J.; An, R.; Gu, Q.; Zheng, Y.; Xie, X.S. Single-cell bisulfite-free 5mC and 5hmC sequencing with high sensitivity and scalability. Proc. Natl. Acad. Sci. U.S.A. 2023, 120(49), e2310367120 DOI: 10.1073/pnas.2310367120
Hu, M.; Zhang, Y.; Yuan, Y.; Ma, W.; Zheng, Y.; Gu, Q.; Xie, X.S. Correlated Protein Modules Revealing Functional Coordination of Interacting Proteins Are Detected by Single-Cell Proteomics. J. Phys. Chem. B 2023, 127(27), 6006-6014 DOI: 10.1021/acs.jpcb.3c00014
Cao, Y.; Jian, F.; Wang, J.; Yu, Y.; Song, W.; Yisimayi, A.; Wang, J.; An, R.; Chen, X.; Zhang, N.; Wang, Y.; Wang, P.; Zhao, L.; Sun, H.; Yu, L.; Yang, S.; Xiao, T.; Gu, Q.; Shao, F.; Hao, X.; Xu, Y.; Jin, R.; Shen, Z.; Wang, Y.; Xie, X.S. Imprinted SARS-CoV-2 humoral immunity induces convergent Omicron RBD evolution. Nature 2023, 614, 521-529 DOI: 10.1038/s41586-022-05644-7
Cao, Y.; Jian, F.; Zhang, Z.; Yisimayi, A.; Hao, X.; Bao, L.; Yuan, F.; Yu, Y.; Du, S.; Wang, J.; Xiao, T.; Song, W.; Zhang, Y.; Liu, P.; An, R.; Wang, P.; Wang, Y.; Yang, S.; Niu, X.; Zhang, Y.; Gu, Q.; Shao, F.; Hu, Y.; Yin, W.; Zheng, A.; Wang, Y.; Qin, C.; Jin, R.; Xiao, J.; Xie, X.S. Rational identification of potent and broad sarbecovirus-neutralizing antibody cocktails from SARS convalescents. Cell Rep. 2022, 41(12), 111845 DOI: 10.1016/j.celrep.2022.111845
Chapman, A.R.; Lee, D.F.; Cai, W.; Ma, W.; Li, X.; Sun, W.; Xie, X.S. Correlated gene modules uncovered by high-precision single-cell transcriptomics. Proc. Natl. Acad. Sci. U.S.A. 2022, 119(51), e2206938119 DOI: 10.1073/pnas.2206938119
Cao, Y.; Song, W.; Wang, L.; Liu, P.; Yue, C.; Jian, F.; Yu, Y.; Wang, Y.; Yisimayi, A.; Wang, P.; Wang, Y.; Zhu, Q.; Deng, J.; Fu, W.; Yu, L.; Zhang, N.; Wang, J.; Xiao, T.; An, R.; Wang, J.; Liu, L.; Yang, S.; Niu, X.; Gu, Q.; Shao, F.; Hao, X.; Meng, B.; Gupta, R.K.; Jin, R.; Wang, Y.; Xie, X.S.; Wang, X. Characterization of the enhanced infectivity and antibody evasion of Omicron BA.2.75. Cell Host Microbe 2022, 30(11), 1527-1539 DOI: 10.1016/j.chom.2022.09.018
Jian, F.; Yu, Y.; Song, W.; Yisimayi, A.; Yu, L.; Gao, Y.; Zhang, N.; Wang, Y.; Shao, F.; Hao, X.; Xu, Y.; Jin, R.; Wang, Y.; Xie, X.S.; Cao, Y. Further humoral immunity evasion of emerging SARS-CoV-2 BA.4 and BA.5 subvariants. Lancet Infect Dis 2022, DOI: 10.1016/S1473-3099(22)00642-9
Wu, H.; Li, X.; Jian, F.; Yisimayi, A.; Zheng, Y.; Tan, L.; Xing, D.; Xie, X.S. Highly sensitive single-cell chromatin accessibility assay andtranscriptome coassay with METATAC. Proc. Natl. Acad. Sci. U.S.A. 2022, 119(40), e2206450119 DOI: 10.1073/pnas.2206450119
Cao, Y.; Yisimayi, A.; Jian, F.; Song, W.; Xiao, T.; Wang, L.; Du, S.; Wang, J.; Wang, J.; Li, Q.; Chen, X.; Yu, Y.; Wang, P.; Zhang, Z.; Liu, P.; An, R.; Hao, X.; Wang, Y.; Wang, J.; Feng, R.; Sun, H.; Zhao, L.; Zhang, W.; Zhao, D.; Zheng, J.; Yu, L.; Li, C.; Zhang, N.; Wang, R.; Niu, X.; Yang, S.; Song, X.; Chai, Y.; He, Y.; Shi, Y.; Zheng, L.; Li, Z.; Gu, Q.; Shao, F.; Huang, W.; Jin, R.; Shen, Z.; Wang, Y.; Wang, X.; Xiao, J.; Xie, X.S. BA.2.12.1, BA.4 and BA.5 escape antibodies elicited by Omicron infection. Nature 2022, 608, 593-602 DOI: 10.1038/s41586-022-04980-y
Cao, Y.; Hao, X.; Wang, X.; Wu, Q.; Song, R.; Zhao, D.; Song, W.; Wang, Y.; Yisimayi, A.; Wang, W.; Zhang, W.; Du, J.; Yu, H.; Xie, X.S.; Jin, R. Humoral immunogenicity and reactogenicity of CoronaVac or ZF2001 booster after two doses of inactivated vaccine. Cell Res. 2022, 32, 107-109 DOI: 10.1038/s41422-021-00596-5
Cao, Y.; Wang, J.; Jian, F.; Xiao, T.; Song, W.; Yasimayi, A.; Huang, W.; Li, Q.; Wang, P.; An, R.; Wang, J.; Wang, Y.; Niu, X.; Yang, S.; Liang, H.; Sun, H.; Li, T.; Yu, Y.; Cui, Q.; Liu, S.; Yang, X.; Du, S.; Zhang, Z.; Hao, X.; Shao, F.; Jin, R.; Wang, X.; Xiao, J.; Wang, Y.; Xie, X.S. Omicron escapes the majority of existing SARS-CoV-2 neutralizing antibodies. Nature 2021, 602, 657-663 DOI: 10.1038/s41586-021-04385-3
Du, S.; Liu, P.; Zhang, Z.; Xiao, T.; Yasimayi, A.; Huang, W.; Wang, Y.; Cao, Y.; Xie, X.S.; Xiao, J. Structures of SARS-CoV-2 B.1.351 neutralizing antibodies provide insights into cocktail design against concerning variants. Cell Res. 2021, 31, 1130–1133 DOI: 10.1038/s41422-021-00555-0
Cao, Y.; Yisimayi, A.; Bai, Y.; Huang, W.; Li, X.; Zhang, Z.; Yuan, T.; An, R.; Wang, J.; Xiao, T.; Du, S.; Ma, W.; Song, L.; Li, Y.; Li, X.; Song, W.; Wu, J.; Liu, S.; Li, X.; Zhang, Y.; Su, B.; Guo, X.; Wei, Y.; Gao, C.; Zhang, N.; Zhang, Y.; Dou, Y.; Xu, X.; Shi, R.; Lu, B.; Jin, R.; Ma, Y.; Qin, C.; Wang, Y.; Feng, Y.; Xiao, J.; Xie, X.S. Humoral immune response to circulating SARS-CoV-2 variants elicited by inactivated and RBD-subunit vaccines. Cell Res. 2021, 31(7), 732-741 DOI: 10.1038/s41422-021-00514-9
Xing, D.; Tan, L.; Chang, C.; Li, H.; Xie, X.S. Accurate SNV detection in single cells by transposon-based whole-genome amplification of complementary strands. Proc. Natl. Acad. Sci. U.S.A. 2021, 118(8), e2013106118 DOI: 10.1073/pnas.2013106118
Tan, L.; Ma, W.; Wu, H.; Sun, W.; Zheng, Y.; Xing, D.; Chen, R.; Li, X.; Daley, N.; Deisseroth, K.; Xie, X.S. Changes in genome architecture and transcriptional dynamics progress independently of sensory experience during post-natal brain development. Cell 2021, 184(3), 741-758 DOI: 10.1016/j.cell.2020.12.032
Du, S.; Cao, Y.; Zhu, Q.; YU, P.; Qi, F.; Wang, G.; Du, X.; Bao, L.; Deng, W.; Zhu, H.; Liu, J.; Nie, J.; Zheng, Y.; Liang, H.; Liu, R.; Gong, S.; Liu, J.; Xu, H.; Yisimayi, A.; Lv, Q.; Wang, B.; He, R.; Han, Y.; Zhao, W.; Bai, Y.; Qu, Y.; Gao, X.; Ji, C.; Wang, Q.; Gao, N.; Huang, W.; Wang, Y.; Xie, X.S.; Su, X.; Xiao, J.; Qin, C. Structurally resolved SARS-CoV-2 antibody shows high efficacy in severely infected hamsters and provides a potent cocktail pairing strategy. Cell 2020, 183(4), 1013-1023.e13 DOI: 10.1016/j.cell.2020.09.035
Su, Q.P.; Zhao, Z.W.; Meng, L.; Ding, M.; Zhang, W.; Li, Y.; Liu, M.; Li, R.; Gao, Y.; Xie, X.S.; Sun, Y. Superresolution imaging reveals spatiotemporal propagation of human replication foci mediated by CTCF-organized chromatin structures. Proc. Natl. Acad. Sci. U.S.A. 2020, 117(26), 15036-15046 DOI: 10.1073/pnas.2001521117
Cao, Y.; Su, B.; Guo, X.; Sun, W.; Deng, Y.; Bao, L.; Zhu, Q.; Zhang, X.; Zheng, Y.; Geng, C.; Chai, X.; He, R.; Li, X.; Lv, Q.; Zhu, H.; Deng, W.; Xu, Y.; Wang, Y.; Qiao, L.; Tan, Y.; Song, L.; Wang, G.; Du, X.; Gao, N.; Liu, J.; Xiao, J.; Su, X.; Du, Z.; Feng, Y.; Qin, C.; Qin, C.; Jin, R.; Xie, X.S. Potent Neutralizing Antibodies against SARS-CoV-2 Identified by High-Throughput Single-Cell Sequencing of Convalescent Patients' B Cells. Cell 2020, 182(1), 73-84.e16 DOI: 10.1016/j.cell.2020.05.025
Di, L.; Fu, Y.; Sun, Y.; Li, J.; Lu, L.; Yao, J.; Wang, G.; Wu, Y.; Lao, k.; Ding, M.; Lee, R.W.; Zheng, G.; Xu, J.; Oh, J.; Wang, D.; Xie, X.S.; Huang, Y.; Wang, J. RNA sequencing by direct tagmentation of RNA/DNA hybrids. Proc. Natl. Acad. Sci. U.S.A. 2020, 117(6), 2886-2893 DOI: 10.1073/pnas.1919800117
Xie, X.S. Diseases Have No Borders, Neither Should Research!. Cell 2019, 178(6) DOI: 10.1016/j.cell.2019.07.053
Huang, L.; Bogale, B.; Tang, Y.; Lu, S.; Xie, X.; Racowsky, C. Noninvasive preimplantation genetic testing for aneuploidy in spent medium may be more reliable than trophectoderm biopsy. Proc. Natl. Acad. Sci. U.S.A. 2019, 16(208), 14105-14112 DOI: 10.1073/pnas.1907472116
Tan, L.; Xing, D.; Daley, N.; Xie, X. Three-dimensional genome structures of single sensory neurons in mouse visual and olfactory systems. Nat Struct Mol Biol 2019, 26, 297-307 DOI: 10.1038/s41594-019-0205-2
Xiong, L.; Huang, L.; Tian, F.; Lu, S.; Xie, X. Bayesian model for accurate MARSALA (mutated allele revealed by sequencing with aneuploidy and linkage analyses). J Assist Reprod Genet 2019, 36(6), 1263-1271 DOI: 10.1007/s10815-019-01451-8
Ji, M.; Arbel, M.; Zhang, L.; Freudiger, C.W.; Hou, S.S.; Lin, D.; Yang, X.; Bacskai, B.J.; Xie, X. Label-free imaging of amyloid plaques in Alzheimer’s disease with stimulated Raman scattering microscopy. Sci Adv 2018, 4(11), eaat7715 DOI: 10.1126/sciadv.aat7715
Tan, L.; Xing, D.; Chang, C.; Li, H.; Xie, X. Three-dimensional genome structures of single diploid human cells. Science 2018, 361, 924-928 DOI: 10.1126/science.aat5641
Wu, H.; Shen, X.; Huang, L.; Zeng, Y.; Gao, Y.; Shao, L.; Lu, B.; Zhong, Y.; Miao, B.; Xu, Y.; Wang, Y.; Li, Y.; Li, Y.; Xiong, L.; Lu, S.; Xie, X.; Zhou, C. Genotyping single-sperm cells by universal MARSALA enables the acquisition of linkage information for combined pre-implantation genetic diagnosis and genome screening. J Assist Reprod Genet 2018, 35(6), 1071-1078 DOI: 10.1007/s10815-018-1158-9
Blanshard, R.C.; Chen, C.; Xie, X.; Hoffmann, E.R. Single cell genomics to study DNA and chromosome changes in human gametes and embryos. Methods in Cell Biology 2018, 144, 441-457 DOI: 10.1016/bs.mcb.2018.03.037
Tan, L.; Xie, X. A Near-complete Spatial Map of Olfactory Receptors in the Mouse Main Olfactory Epithelium. Chem Senses 2018, 43(6), 427-432 DOI: 10.1093/chemse/bjy030
Chen, Z.; Zhou, W.; Qiao, S.; Kang, L.; Duan, H.; Xie, X.S.; Huang, Y. Highly accurate fluorogenic DNA sequencing with information theory–based error correction. Nat Biotechnol 2017, 35(12), 1170-1178 DOI: 10.1038/nbt.3982
Gao, Y.; Ni, X.; Guo, H.; Su, Z.; Ba, Y.; Tong, Z.; Guo, Z.; Yao, X.; Chen, X.; Yin, J.; Yan, Z.; Liu, Y.; Bai, F.; Xie, X.S.; Zhang, N. Single-cell sequencing deciphers a convergent evolution of copy number alterations from primary to circulating tumor cells. Genome Res. 2017, 27, 1312-1322 DOI: 10.1101/gr.216788.116
Chen, C.; Xing, D.; Tan, L.; Li, H.; Zhou, G.; Huang, L.; Xie, X.S. Single-cell whole-genome analyses by Linear Amplification via Transposon Insertion (LIANTI). Science 2017, 356, 189-194 DOI: 10.1126/science.aak9787
Zhou, Y.; Wang, P.; Tian, F.; Gao, G.; Huang, L.; Wei, W.; Xie, X.S. Painting a specific chromosome with CRISPR/Cas9 for live-cell imaging. Cell Res 2017, 356 DOI: 10.1038/cr.2017.9
Fu, D.; Yang, W.; Xie, X.S. Label-free Imaging of Neurotransmitter Acetylcholine at Neuromuscular Junctions with Stimulated Raman Scattering. J Am Chem Soc 2017, 139(2), 583−586 DOI: 10.1021/jacs.6b10727
Yang, W.; Li, A.; Suo, Y.; Lu, F.; Xie, X.S. Simultaneous two-color stimulated Raman scattering microscopy by adding a fiber amplifier to a 2 ps OPO-based SRS microscope. Opt Lett 2017, 42(3), 523-526 DOI: 10.1364/OL.42.000523
Xu, J.; Zhang, Z.; Niu, W.; Yang, Q.; Yao, G.; Shi, S.; Jin, H.; Song, Q.; Yang, W.; Yang, Q.; Chen, L.; Zhang, X.; Guo, Y.; Su, Y.; Chen, L.; Hu, L.; Zhai, J.; Chen, L.; Zhang, Y.; Dong, F.; Gao, Y.; Chen, L.; Li, W.; Bo, S.; Hu, M.; Ren, J.; Huang, L.; Lu, S.; Xie, X.S.; Sun, Y. Mapping allele with resolved carrier status of Robertsonian and reciprocal translocation in human preimplantation embryos. Proc Natl Acad Sci USA 2017, 114(41), E8695-E8702 DOI: 10.1073/pnas.1715053114
Lee, D.F.; Lu, J.; Chang, S.; Loparo, J.J.; Xie, X.S. Mapping DNA polymerase errors by single-molecule sequencing. Nucleic Acids Res. 2016, , gkw436 DOI: 10.1093/nar/gkw436
Zhao, Z.W.; Xie, X.; Ge, H. Nonequilibrium Relaxation of Conformational Dynamics Facilitates Catalytic Reaction in an Elastic Network Model of T7 DNA Polymerase. J Phys Chem 2016, B120(11), 2869-2877 DOI: 10.1021/acs.jpcb.5b11002
Pu, Y.; Zhao, Z.; Li, Y.; Zou, J.; Ma, Q.; Zhao, Y.; Ke, Y.; Chen, H.; Baker, M.A.; Sun, Y.; Xie, X.; Bai, F. Enhanced Efflux Activity Facilitates Drug Tolerance in Dormant Bacterial Cells. Molecular compelling 2016, 62, 284-294 DOI: 10.1016/j.molcel.2016.03.035
Lu, F.; Calligaris, D.; Olubiyi, O.I.; Norton, I.; Yang, W.L.; Santagata, S.; Xie, X.; Golby, A.J.; Agar, N.Y.R. Label-Free Neurosurgical Pathology with Stimulated Raman Imaging. Cancer Res 2016, 76, 3451-3462 DOI: 10.1158/0008-5472.CAN-16-027
Xu, J.; Fang, R.; Chen, L.; Chen, D.; Xiao, J.; Yang, W.; Wang, H.; Song, X.; Ma, T.; Bo, S.; Shi, C.; Ren, J.; Huang, L.; Cai, L.; Yao, B.; Xie, X.; Lu, S. Noninvasive chromosome screening of human embryos by genome sequencing of embryo culture medium for in vitro fertilization. Proc Natl Acad Sci USA 2016, 113(42), 11907-11912 DOI: 10.1073/pnas.1613294113
Tian, F.; Yang, W.; Mordes, D.A.; Wang, J.; Salameh, J.S.; Mok, J.; Chew, J.; Sharma, A.; Leno-Duran, E.; Suzuki-Uematsu, S.; Suzuki, N.; Han, S.S.; Lu, F.; Ji, M.; Zhang, R.; Liu, Y.; Strominger, J.; Shneider, N.A.; Petrucelli, L.; Xie, X.S.; Eggan, K. Monitoring peripheral nerve degeneration in ALS by label-free stimulated Raman scattering imaging. Nat Commun 2016, 7, 13283 DOI: 10.1038/ncomms13283
Chen, H.; Shiroguchi, K.; Ge, H.; Xie, X.S. Genome-wide study of mRNA degradation and transcript elongation in Escherichia coli. Mol. Syst. Biol. 2015, 11(1), 781-781 DOI: 10.15252/msb.20145794
Ge, H.; Qian, H.; Xie, X.S. Stochastic Phenotype Transition of a Single Cell in an Intermediate Region of Gene State Switching. Phys. Rev. Lett. 2015, 114(7) DOI: 10.1103/PhysRevLett.114.078101
Chapman, A.R.; He, Z.; Lu, S.; Yong, J.; Tan, L.; Tang, F.; Xie, X.S. Single Cell Transcriptome Amplification with MALBAC. PLoS ONE 2015, 10(3), e0120889 DOI: 10.1371/journal.pone.0120889
Xie, X.S. Single Molecules Meet Genomics: Pinpointing Precision Medicine. JAMA 2015, 313(20), 2021 DOI: 10.1001/jama.2015.5533
Huang, L.; Ma, F.; Chapman, A.; Lu, S.; Xie, X.S. Single-Cell Whole-Genome Amplification and Sequencing: Methodology and Applications. Annu. Rev. Genom. Human Genet. 2015, 16(1), 79-102 DOI: 10.1146/annurev-genom-090413-025352
Lu, F.; Basu, S.; Igras, V.; Hoang, M.P.; Ji, M.; Fu, D.; Holtom, G.R.; Neel, V.A.; Freudiger, C.W.; Fisher, D.E.; Xie, X.S. Label-free DNA imaging in vivo with stimulated Raman scattering microscopy. Proc Natl Acad Sci USA 2015, 112(37), 11624-11629 DOI: 10.1073/pnas.1515121112
Fu, Y.; Li, C.; Lu, S.; Zhou, W.; Tang, F.; Xie, X.S.; Huang, Y. Uniform and accurate single-cell sequencing based on emulsion whole-genome amplification. Proc Natl Acad Sci USA 2015, 112(38), 11923-11928 DOI: 10.1073/pnas.1513988112
Ji, M.; Lewis, S.; Camelo-Piragua, S.; Ramkissoon, S.H.; Snuderl, M.; Venneti, S.; Fisher-Hubbard, A.; Garrard, M.; Fu, D.; Wang, A.C.; Heth, J.A.; Maher, C.O.; Sanai, N.; Johnson, T.D.; Freudiger, C.W.; Sagher, O.; Xie, X.S.; Orringer, D.A. Detection of human brain tumor infiltration with quantitative stimulated Raman scattering microscopy. Sci Transl Med 2015, 7(309), 309ra163-309ra163 DOI: 10.1126/scitranslmed.aab0195
Cheng, J.; Xie, X.S. Vibrational spectroscopic imaging of living systems: An emerging platform for biology and medicine. Science 2015, 350(6264), aaa8870-aaa8870 DOI: 10.1126/science.aaa8870
Tan, L.; Li, Q.; Xie, X.S. Olfactory sensory neurons transiently express multiple olfactory receptors during development. Mol. Syst. Biol. 2015, 11(12), 844-844 DOI: 10.15252/msb.20156639
Yan, L.; Huang, L.; Xu, L.; Huang, J.; Ma, F.; Zhu, X.; Tang, Y.; Liu, M.; Lian, Y.; Liu, P.; Li, R.; Lu, S.; Tang, F.; Qiao, J.; Xie, X.S. Live births after simultaneous avoidance of monogenic diseases and chromosome abnormality by next-generation sequencing with linkage analyses. Proc Natl Acad Sci USA 2015, 112(52), 15964-15969 DOI: 10.1073/pnas.1523297113
Gu, C.; Zhang, J.; Yang, Y.I.; Chen, X.; Ge, H.; Sun, Y.; Su, X.; Yang, L.; Xie, S.; Gao, Y.Q. DNA Structural Correlation in Short and Long Ranges. J. Phys. Chem. B 2015, 119(44), 13980-13990 DOI: 10.1021/acs.jpcb.5b06217
Chong, S.; Chen, C.; Ge, H.; Xie, X.S. Mechanism of Transcriptional Bursting in Bacteria. Cell 2014, 158(2), 314-326 DOI: 10.1016/j.cell.2014.05.038
Fu, D.; Xie, X.S. Reliable Cell Segmentation Based on Spectral Phasor Analysis of Hyperspectral Stimulated Raman Scattering Imaging Data. Anal. Chem. 2014, 86(9), 4115-4119 DOI: 10.1021/ac500014b
Fu, D.; Yu, Y.; Folick, A.; Currie, E.; Farese, R.V.; Tsai, T.; Xie, X.S.; Wang, M.C. In Vivo Metabolic Fingerprinting of Neutral Lipids with Hyperspectral Stimulated Raman Scattering Microscopy . J. Am. Chem. Soc. 2014, 136(24), 8820-8828 DOI: 10.1021/ja504199s
Fu, D.; Zhou, J.; Zhu, W.S.; Manley, P.W.; Wang, Y.K.; Hood, T.; Wylie, A.; Xie, X.S. Imaging the intracellular distribution of tyrosine kinase inhibitors in living cells with quantitative hyperspectral stimulated Raman scattering. Nature Chem 2014, 6(7), 614-622 DOI: 10.1038/nchem.1961
Freudiger, C.W.; Yang, W.; Holtom, G.R.; Peyghambarian, N.; Xie, X.S.; Kieu, K.Q. Stimulated Raman scattering microscopy with a robust fibre laser source. Nat. Photonics 2014, 8(2), 153-159 DOI: 10.1038/nphoton.2013.360
Zhao, Z.W.; Roy, R.; Gebhardt, J.C.M.; Suter, D.M.; Chapman, A.R.; Xie, X.S. Spatial organization of RNA polymerase II inside a mammalian cell nucleus revealed by reflected light-sheet superresolution microscopy. Proc. Natl. Acad. Sci. U.S.A. 2014, 111(2), 681-686 DOI: 10.1073/pnas.1318496111
Xie, X.S. Enzyme Kinetics, Past and Present. Science 2013, 342(6165), 1457-1459 DOI: 10.1126/science.1248859
Hou, Y.; Fan, W.; Yan, L.; Li, R.; Lian, Y.; Huang, J.; Li, J.; Xu, L.; Tang, F.; Xie, X.S.; Qiao, J. Genome Analyses of Single Human Oocytes. Cell 2013, 155(7), 1492-1506 DOI: 10.1016/j.cell.2013.11.040
Tan, L.; Zong, C.; Xie, X.S. Rare event of histone demethylation can initiate singular gene expression of olfactory receptors. Proc. Natl. Acad. Sci. U.S.A. 2013, 110(52), 21148-21152 DOI: 10.1073/pnas.1321511111
Ni, X.; Zhuo, M.; Su, Z.; Duan, J.; Gao, Y.; Wang, Z.; Zong, C.; Bai, H.; Chapman, A.R.; Zhao, J.; Xu, L.; An, T.; Ma, Q.; Wang, Y.; Wu, M.; Sun, Y.; Wang, S.; Li, Z.; Yang, X.; Yong, J.; Su, X.; Lu, Y.; Bai, F.; Xie, X.S.; Wang, J. Reproducible copy number variation patterns among single circulating tumor cells of lung cancer patients. Proc. Natl. Acad. Sci. U.S.A. 2013, 110(52), 21083-21088 DOI: 10.1073/pnas.1320659110
Ji, M.; Orringer, D.A.; Freudiger, C.W.; Ramkissoon, S.; Liu, X.; Lau, D.; Golby, A.J.; Norton, I.; Hayashi, M.; Agar, N.Y.R.; Young, G.S.; Spino, C.; Santagata, S.; Camelo-Piragua, S.; Ligon, K.L.; Sagher, O.; Xie, X.S. Rapid, Label-Free Detection of Brain Tumors with Stimulated Raman Scattering Microscopy. Sci Transl Med 2013, 5(201), 201ra119-201ra119 DOI: 10.1126/scitranslmed.3005954
Xu, X.; Ge, H.; Gu, C.; Gao, Y.Q.; Wang, S.S.; Thio, B.J.R.; Hynes, J.T.; Xie, X.S.; Cao, J. Modeling Spatial Correlation of DNA Deformation: DNA Allostery in Protein Binding. J. Phys. Chem. B 2013, 117(42), 13378-13387 DOI: 10.1021/jp4047243
Gebhardt, J.C.M.; Suter, D.M.; Roy, R.; Zhao, Z.W.; Chapman, A.R.; Basu, S.; Maniatis, T.; Xie, X.S. Single-molecule imaging of transcription factor binding to DNA in live mammalian cells. Nat Meth 2013, 10(5), 421-426 DOI: 10.1038/nmeth.2411
Fu, D.; Holtom, G.; Freudiger, C.; Zhang, X.; Xie, X.S. Hyperspectral Imaging with Stimulated Raman Scattering by Chirped Femtosecond Lasers. J. Phys. Chem. B 2013, 117(16), 4634-4640 DOI: 10.1021/jp308938t
Kim, S.; Brostromer, E.; Xing, D.; Jin, J.; Chong, S.; Ge, H.; Wang, S.; Gu, C.; Yang, L.; Gao, Y.Q.; Su, X.; Sun, Y.; Xie, X.S. Probing Allostery Through DNA. Science 2013, 339(6121), 816-819 DOI: 10.1126/science.1229223
Kong, L.; Ji, M.; Holtom, G.R.; Fu, D.; Freudiger, C.W.; Xie, X.S. Multicolor stimulated Raman scattering microscopy with a rapidly tunable optical parametric oscillator. Opt. Lett. 2013, 38(2), 145 DOI: 10.1364/ol.38.000145
Zong, C.; Lu, S.; Chapman, A.R.; Xie, X.S. Genome-Wide Detection of Single-Nucleotide and Copy-Number Variations of a Single Human Cell. Science 2012, 338(6114), 1622-1626 DOI: 10.1126/science.1229164
Lu, S.; Zong, C.; Fan, W.; Yang, M.; Li, J.; Chapman, A.R.; Zhu, P.; Hu, X.; Xu, L.; Yan, L.; Bai, F.; Qiao, J.; Tang, F.; Li, R.; Xie, X.S. Probing Meiotic Recombination and Aneuploidy of Single Sperm Cells by Whole-Genome Sequencing. Science 2012, 338(6114), 1627-1630 DOI: 10.1126/science.1229112
Freudiger, C.W.; Pfannl, R.; Orringer, D.A.; Saar, B.G.; Ji, M.; Zeng, Q.; Ottoboni, L.; Ying, W.; Waeber, C.; Sims, J.R.; De Jager, P.L.; Sagher, O.; Philbert, M.A.; Xu, X.; Kesari, S.; Xie, X.S.; Young, G.S. Multicolored stain-free histopathology with coherent Raman imaging. Lab. Invest. 2012, 92(10), 1492-1502 DOI: 10.1038/labinvest.2012.109
Lu, F.; Ji, M.; Fu, D.; Ni, X.; Freudiger, C.W.; Holtom, G.; Xie, X.S. Multicolor stimulated Raman scattering microscopy. Mol Phys 2012, 110(15-16), 1927-1932 DOI: 10.1080/00268976.2012.695028
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Jones, D.J.; Potma, E.O.; Cheng, J.; Burfeindt, B.; Pang, Y.; Ye, J.; Xie, X.S. Synchronization of two passively mode-locked, picosecond lasers within 20 fs for coherent anti-Stokes Raman scattering microscopy. Rev. Sci. Instrum 2002, 73, 2843 DOI:
Cheng, J.; Xie, X.S. Green's function formulation for third-harmonic generation microscopy. JOSAB 2002, 19, 1604 DOI:
Potma, E.O.; Jones, D.J.; Cheng, J.; Xie, X.S.; Ye, J. High-sensitivity coherent anti-Stokes Raman scattering microscopy with two tightly synchronized picosecond lasers. Optics Lett 2002, 27, 1168 DOI:
Cheng, J.; Jia, Y.K.; Zheng, G.; Xie, X.S. Laser-Scanning Coherent Anti-Stokes Raman Scattering Microscopy and Applications to Cell Biology. Biophys. J 2002, 83, 502 DOI:
Cheng, J.; Volkmer, A.; Xie, X.S. Theoretical and experimental characterization of coherent anti-Stokes Raman scattering microscopy. JOSA B 2002, 19, 1363 DOI:
Krug, J.T.I.; Sánchez, E.J.; Xie, X.S. Design of near-field probes with optimal field enhancement by finite difference time domain electromagnetic simulation. J. Chem. Phys 2002, 116(24), 10895 DOI:
Volkmer, A.; Book, L.D.; Xie, X.S. Time-resolved coherent anti-Stokes Raman scattering microscopy: Imaging based on Raman free induction decay. Appl. Phys. Lett 2002, 80, 1505 DOI:
Xie, S. Single-Molecule Approach to Enzymology. Single Mol. 2001, 2(4), 229-236 DOI: 10.1002/1438-5171(200112)2:4<229::aid-simo229>3.0.co;2-9
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Sánchez, E.J.; Novotny, L.; Xie, X.S. Near-field Fluorescence Microscopy Based on Two-Photon Excitation With Metal Tips. Phys. Rev. Lett 1999, 82, 4014 DOI:
Ying, L.; Xie, X.S. Optical Detection of Single Molecule and its Applications. Daxue Huaxue 1999, 14, 1 DOI:
Lu, H.P.; Xie, X.S. Single-Molecule Spectroscopy Studies of Molecular Dynamics in Chemical and Biological Systems. Z. Phys. Chem. (Muenchen) 1999, 212, 59 DOI:
Lu, H.P.; Xun, L.; Xie, X.S. Single Molecule Enzymatic Dynamics. Science 1998, 282, 1877 DOI:
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Lu, H.P.; Xie, X.S. Single-Molecule Kinetics of Interfacial Electron Transfer Temperature. J. Phys. Chem 1997, 101, 2753 DOI:
Lu, H.P.; Xie, X.S. Single-Molecule Spectral Fluctuations at Room Temperature. Nature 1997, 385, 143 DOI:
Xie, X.S. Single-Molecule Spectroscopy and Dynamics at Room Temperature. Acc. Chem. Res 1996, 29, 598 DOI:
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Holtom, G.R.; Crowell, R.A.; Xie, X.S. A High Repetition Rate Femtosecond Optical Parametric Oscillator-Amplifier System Near 3 Microns. J. Optic. Soc. Am. B 1995, 12, 1723 DOI:
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Dunn, R.C.; Allen, E.V.; Joyce, S.A.; Anderson, G.A.; Xie, X.S. Near-field Fluorescent Imaging of Single Proteins. Ultramicroscopy 1995, 57, 113 DOI:
Crowell, R.A.; Holtom, G.R.; Xie, X.S. The Infrared Free Induction Decay of Liquid Water Molecules. J. Phys. Chem 1995, 99, 1840 DOI:
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Crowell, R.A.; Holtom, G.R.; Xie, X.S. Liquid Water Dynamics Probed by Femtosecond Infrared Spectroscopy. Ultrafast Phenomena IX (Springer-Verlag) 1994, 156 DOI:
Xie, X.S.; Holtom, G.R.; Mets, L.; Dunn, R.C. Near-field Time-Resolved Spectroscopy on Single Molecules and Photosynthetic Membranes. Ultrafast Phenomena IX (Springer-Verlag) 1994, 124 DOI:
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