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Long Cai - Publications

Affiliations: 
California Institute of Technology, Pasadena, CA 
Area:
single cell time-lapse fluorescence microscopy
Website:
http://www.cce.caltech.edu/faculty/cai/index.html
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40 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
2023 Takei Y, Yang Y, White J, Yun J, Prasad M, Ombelets LJ, Schindler S, Cai L. High-resolution spatial multi-omics reveals cell-type specific nuclear compartments. Biorxiv : the Preprint Server For Biology. PMID 37214923 DOI: 10.1101/2023.05.07.539762  0.312
2021 Cable J, Elowitz MB, Domingos AI, Habib N, Itzkovitz S, Hamidzada H, Balzer MS, Yanai I, Liberali P, Whited J, Streets A, Cai L, Stergachis AB, Hong CKY, Keren L, et al. Single cell biology-a Keystone Symposia report. Annals of the New York Academy of Sciences. PMID 34605044 DOI: 10.1111/nyas.14692  0.621
2021 Chow KK, Budde MW, Granados AA, Cabrera M, Yoon S, Cho S, Huang TH, Koulena N, Frieda KL, Cai L, Lois C, Elowitz MB. Imaging cell lineage with a synthetic digital recording system. Science (New York, N.Y.). 372. PMID 33833095 DOI: 10.1126/science.abb3099  0.607
2021 Takei Y, Yun J, Zheng S, Ollikainen N, Pierson N, White J, Shah S, Thomassie J, Suo S, Eng CL, Guttman M, Yuan GC, Cai L. Integrated spatial genomics reveals global architecture of single nuclei. Nature. PMID 33505024 DOI: 10.1038/s41586-020-03126-2  0.34
2020 Askary A, Sanchez-Guardado L, Linton JM, Chadly DM, Budde MW, Cai L, Lois C, Elowitz MB. Publisher Correction: In situ readout of DNA barcodes and single base edits facilitated by in vitro transcription. Nature Biotechnology. PMID 31988471 DOI: 10.1038/S41587-020-0432-4  0.575
2019 Askary A, Sanchez-Guardado L, Linton JM, Chadly DM, Budde MW, Cai L, Lois C, Elowitz MB. In situ readout of DNA barcodes and single base edits facilitated by in vitro transcription. Nature Biotechnology. PMID 31740838 DOI: 10.1038/S41587-019-0299-4  0.642
2019 Zhou W, Yui MA, Williams BA, Yun J, Wold BJ, Cai L, Rothenberg EV. Single-Cell Analysis Reveals Regulatory Gene Expression Dynamics Leading to Lineage Commitment in Early T Cell Development. Cell Systems. PMID 31629685 DOI: 10.1016/J.Cels.2019.09.008  0.414
2019 Eng CL, Lawson M, Zhu Q, Dries R, Koulena N, Takei Y, Yun J, Cronin C, Karp C, Yuan GC, Cai L. Transcriptome-scale super-resolved imaging in tissues by RNA seqFISH. Nature. PMID 30911168 DOI: 10.1038/S41586-019-1049-Y  0.427
2018 Zhu Q, Shah S, Dries R, Cai L, Yuan GC. Identification of spatially associated subpopulations by combining scRNAseq and sequential fluorescence in situ hybridization data. Nature Biotechnology. PMID 30371680 DOI: 10.1038/Nbt.4260  0.413
2018 Guo J, Grow EJ, Mlcochova H, Maher GJ, Lindskog C, Nie X, Guo Y, Takei Y, Yun J, Cai L, Kim R, Carrell DT, Goriely A, Hotaling JM, Cairns BR. The adult human testis transcriptional cell atlas. Cell Research. PMID 30315278 DOI: 10.1038/S41422-018-0099-2  0.369
2018 Shah S, Takei Y, Zhou W, Lubeck E, Yun J, Eng CL, Koulena N, Cronin C, Karp C, Liaw EJ, Amin M, Cai L. Dynamics and Spatial Genomics of the Nascent Transcriptome by Intron seqFISH. Cell. PMID 29887381 DOI: 10.1016/J.Cell.2018.05.035  0.457
2017 Lignell A, Kerosuo L, Streichan SJ, Cai L, Bronner ME. Identification of a neural crest stem cell niche by Spatial Genomic Analysis. Nature Communications. 8: 1830. PMID 29184067 DOI: 10.1038/S41467-017-01561-W  0.392
2017 Eng CL, Shah S, Thomassie J, Cai L. Profiling the transcriptome with RNA SPOTs. Nature Methods. PMID 29131163 DOI: 10.1038/Nmeth.4500  0.344
2017 Shah S, Lubeck E, Zhou W, Cai L. seqFISH Accurately Detects Transcripts in Single Cells and Reveals Robust Spatial Organization in the Hippocampus. Neuron. 94: 752-758.e1. PMID 28521130 DOI: 10.1016/J.Neuron.2017.05.008  0.392
2017 Shah S, Lubeck E, Zhou W, Cai L. Editorial Note to: In Situ Transcription Profiling of Single Cells Reveals Spatial Organization of Cells in the Mouse Hippocampus. Neuron. 94: 745-746. PMID 28521128 DOI: 10.1016/J.Neuron.2017.05.009  0.349
2017 Yuan GC, Cai L, Elowitz M, Enver T, Fan G, Guo G, Irizarry R, Kharchenko P, Kim J, Orkin S, Quackenbush J, Saadatpour A, Schroeder T, Shivdasani R, Tirosh I. Challenges and emerging directions in single-cell analysis. Genome Biology. 18: 84. PMID 28482897 DOI: 10.1186/S13059-017-1218-Y  0.65
2017 Takei Y, Shah S, Harvey S, Qi LS, Cai L. Multiplexed Dynamic Imaging of Genomic Loci by Combined CRISPR Imaging and DNA Sequential FISH. Biophysical Journal. PMID 28427715 DOI: 10.1016/J.Bpj.2017.03.024  0.366
2016 Frieda KL, Linton JM, Hormoz S, Choi J, Chow KK, Singer ZS, Budde MW, Elowitz MB, Cai L. Synthetic recording and in situ readout of lineage information in single cells. Nature. PMID 27869821 DOI: 10.1038/Nature20777  0.671
2016 Shah S, Lubeck E, Zhou W, Cai L. In Situ Transcription Profiling of Single Cells Reveals Spatial Organization of Cells in the Mouse Hippocampus. Neuron. 92: 342-357. PMID 27764670 DOI: 10.1016/J.Neuron.2016.10.001  0.396
2016 Letsou W, Cai L. Noncommutative Biology: Sequential Regulation of Complex Networks. Plos Computational Biology. 12: e1005089. PMID 27560383 DOI: 10.1371/Journal.Pcbi.1005089  0.374
2016 Shah S, Lubeck E, Schwarzkopf M, He TF, Greenbaum A, Sohn CH, Lignell A, Choi HM, Gradinaru V, Pierce NA, Cai L. Single-molecule RNA detection at depth via hybridization chain reaction and tissue hydrogel embedding and clearing. Development (Cambridge, England). PMID 27342713 DOI: 10.1242/Dev.138560  0.369
2016 Coskun AF, Cai L. Dense transcript profiling in single cells by image correlation decoding. Nature Methods. PMID 27271198 DOI: 10.1038/Nmeth.3895  0.451
2015 Lin Y, Sohn CH, Dalal CK, Cai L, Elowitz MB. Combinatorial gene regulation by modulation of relative pulse timing. Nature. PMID 26466562 DOI: 10.1038/Nature15710  0.624
2015 Niu Y, Zhang R, Luo Z, Li L, Cai L, Li G, Xie J. Contributions of long-term tillage systems on crop production and soil properties in the semiarid Loess Plateau of China. Journal of the Science of Food and Agriculture. PMID 26300314 DOI: 10.1002/jsfa.7382  0.37
2015 Tong Y, Lu Q, Zhang Y, Zhan F, Cai L, Guan X, Ying X, Lu Z, Liu J, Cheng J. Association of functional genetic variants in PPARγ and PPARα encoding peroxisome proliferator-activated receptors with ischemic stroke in a unique Chinese population. International Journal of Cardiology. 190: 205-7. PMID 25920026 DOI: 10.1016/j.ijcard.2015.04.105  0.318
2015 Huang W, Cai L, Chen C, Xie X, Zhao Q, Zhao X, Zhou HY, Han B, Peng C. Computational analysis of spiro-oxindole inhibitors of the MDM2-p53 interaction: insights and selection of novel inhibitors. Journal of Biomolecular Structure & Dynamics. 1-11. PMID 25808617 DOI: 10.1080/07391102.2015.1031178  0.339
2014 Dalal CK, Cai L, Lin Y, Rahbar K, Elowitz MB. Pulsatile dynamics in the yeast proteome. Current Biology : Cb. 24: 2189-94. PMID 25220054 DOI: 10.1016/J.Cub.2014.07.076  0.608
2014 Singer ZS, Yong J, Tischler J, Hackett JA, Altinok A, Surani MA, Cai L, Elowitz MB. Dynamic heterogeneity and DNA methylation in embryonic stem cells. Molecular Cell. 55: 319-31. PMID 25038413 DOI: 10.1016/J.Molcel.2014.06.029  0.637
2014 Lubeck E, Coskun AF, Zhiyentayev T, Ahmad M, Cai L. Single-cell in situ RNA profiling by sequential hybridization. Nature Methods. 11: 360-1. PMID 24681720 DOI: 10.1038/Nmeth.2892  0.361
2014 Cai L. Imaging Chromosome Structure in Bacteria by Super-Resolution Microscopy Biophysical Journal. 106: 375a. DOI: 10.1016/J.Bpj.2013.11.2120  0.452
2014 Chen Y, Zhiyentayev T, Wu D, Cai L, Phillips R. Dynamic Gene Expression and Design Principles of Viral Infection Pathway Biophysical Journal. 106. DOI: 10.1016/J.Bpj.2013.11.2111  0.352
2013 Cai L. Turning single cells into microarrays by super-resolution barcoding. Briefings in Functional Genomics. 12: 75-80. PMID 23178478 DOI: 10.1093/Bfgp/Els054  0.444
2013 Lubeck E, Cai L. Towards Single-Cell Systems Biology through Super-Resolution Imaging and Molecular Barcoding Biophysical Journal. 104: 371a. DOI: 10.1016/J.Bpj.2012.11.2062  0.424
2012 Lubeck E, Cai L. Single-cell systems biology by super-resolution imaging and combinatorial labeling. Nature Methods. 9: 743-8. PMID 22660740 DOI: 10.1038/Nmeth.2069  0.42
2010 Cai L. FM Signaling in Single Cells Biophysical Journal. 98: 14. DOI: 10.1016/J.Bpj.2009.12.088  0.419
2009 Friedman N, Cai L, Xie XS. Stochasticity in gene expression as observed by single-molecule experiments in live cells Israel Journal of Chemistry. 49: 333-342. DOI: 10.1560/Ijc.49.3-4.333  0.534
2008 Choi PJ, Cai L, Frieda K, Xie XS. A stochastic single-molecule event triggers phenotype switching of a bacterial cell. Science (New York, N.Y.). 322: 442-6. PMID 18927393 DOI: 10.1126/Science.1161427  0.686
2008 Cai L, Dalal CK, Elowitz MB. Frequency-modulated nuclear localization bursts coordinate gene regulation. Nature. 455: 485-90. PMID 18818649 DOI: 10.1038/Nature07292  0.604
2006 Friedman N, Cai L, Xie XS. Linking stochastic dynamics to population distribution: an analytical framework of gene expression. Physical Review Letters. 97: 168302. PMID 17155441 DOI: 10.1103/Physrevlett.97.168302  0.529
2006 Cai L, Friedman N, Xie XS. Stochastic protein expression in individual cells at the single molecule level. Nature. 440: 358-62. PMID 16541077 DOI: 10.1038/Nature04599  0.566
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