Laboratory of Robert H. Singer, Ph.D.

Publications

Visualization of Early RNA Replication Kinetics of SARS-CoV-2 by Using Single Molecule RNA-FISH Combined with Immunofluorescence.
Pathak R, Eliscovich C, Mena I, Cupic A, Rutkowska M, Chandran K, Jangra RK, García-Sastre A, Singer RH, Kalpana GV.
Viruses. 2024 Feb 7;16(2):262. doi: 10.3390/v16020262.PMID: 38400039
Real-time single-molecule imaging of transcriptional regulatory networks in living cells.
Hwang DW, Maekiniemi A, Singer RH, Sato H.
Nat Rev Genet. 2024 Apr;25(4):272-285. doi: 10.1038/s41576-023-00684-9. Epub 2024 Jan 9.PMID: 38195868
RNA and Protein Detection by Single-Molecule Fluorescent in Situ Hybridization (smFISH) Combined with Immunofluorescence in the Budding Yeast S. cerevisiae.
Maekiniemi A, Singer RH.
Methods Mol Biol. 2024;2784:45-58. doi: 10.1007/978-1-0716-3766-1_3.PMID: 38502477
Michael R. Green (1954-2023).
Roeder RG, Deibler SK, Jacobson A, Lillie JW, Rosbash M, Singer RH, Wajapeyee N
.Mol Cell. 2023 Jul 6;83(13):2152-2154. doi: 10.1016/j.molcel.2023.06.027.PMID: 37419086
Maintenance of a short-lived protein required for long-term memory involves cycles of transcription and local translation.
Das S, Lituma PJ, Castillo PE, Singer RH.
Neuron. 2023 Jul 5;111(13):2051-2064.e6. doi: 10.1016/j.neuron.2023.04.005. Epub 2023 Apr 25.PMID: 37100055
Global analysis of contact-dependent human-to-mouse intercellular mRNA and lncRNA transfer in cell culture.
Dasgupta S, Dayagi DY, Haimovich G, Wyler E, Olender T, Singer RH, Landthaler M, Gerst JE.
Elife. 2023 May 30;12:e83584. doi: 10.7554/eLife.83584.PMID: 37249209
mRNA Localization and Local Translation of the Microtubule Severing Enzyme, Fidgetin-Like 2, in Polarization, Migration and Outgrowth.
Birnbaum R, Biswas J, Singer RH, Sharp DJ.
bioRxiv 2023 Apr 17:2023.04.17.537087. doi: 10.1101/2023.04.17.537087.PMID: 37131812
Phosphorylation alters FMRP granules and determines their transport or protein synthesis abilities.
Kharod SC, Hwang DW, Choi H, Yoon KJ, Castillo PE, Singer RH, Yoon YJ.
bioRxiv 2023 Nov 15:2023.03.15.532613. doi: 10.1101/2023.03.15.532613.PMID: 37781583
Lysosomal release of amino acids at ER three-way junctions regulates transmembrane and secretory protein mRNA translation.
Choi H, Liao YC, Yoon YJ, Grimm J, Lavis LD, Singer RH, Lippincott-Schwartz J.
bioRxiv 2023 Aug 3:2023.08.01.551382. doi: 10.1101/2023.08.01.551382.PMID: 37577585
Single-molecule imaging of microRNA-mediated gene silencing in cells.
Kobayashi H, Singer RH.
Nat Commun. 2022 Mar 17;13(1):1435. doi: 10.1038/s41467-022-29046-5.PMID: 35301300
Tagged actin mRNA dysregulation in IGF2BP1[Formula: see text] mice.
Núñez L, Buxbaum AR, Katz ZB, Lopez-Jones M, Nwokafor C, Czaplinski K, Pan F, Rosenberg J, Monday HR, Singer RH.
Proc Natl Acad Sci U S A. 2022 Sep 13;119(37):e2208465119. doi: 10.1073/pnas.2208465119. Epub 2022 Sep 6.PMID: 36067310
A single-cell transcriptomic atlas of complete insect nervous systems across multiple life stages.
Corrales M, Cocanougher BT, Kohn AB, Wittenbach JD, Long XS, Lemire A, Cardona A, Singer RH, Moroz LL, Zlatic M.
Neural Dev. 2022 Aug 24;17(1):8. doi: 10.1186/s13064-022-00164-6.PMID: 36002881
Inhibition of coronavirus HCoV-OC43 by targeting the eIF4F complex.
Feng Y, Grotegut S, Jovanovic P, Gandin V, Olson SH, Murad R, Beall A, Colayco S, De-Jesus P, Chanda S, English BP, Singer RH, Jackson M, Topisirovic I, Ronai ZA.
Front Pharmacol. 2022 Dec 1;13:1029093. doi: 10.3389/fphar.2022.1029093. eCollection 2022.PMID: 36532738.
An improved imaging system that corrects MS2-induced RNA destabilization.
Li W, Maekiniemi A, Sato H, Osman C, Singer RH.
Nat Methods. 2022 Dec;19(12):1558-1562. doi: 10.1038/s41592-022-01658-1. Epub 2022 Nov 10.PMID: 36357695 Free PMC article.
Visualization of early RNA replication kinetics of SARS-CoV-2 by using single molecule RNA-FISH.
Pathak R, Eliscovich C, Mena I, Dixit U, García-Sastre A, Singer RH, Kalpana GV.
bioRxiv 2022 Dec 12:2022.12.10.517707. doi: 10.1101/2022.12.10.517707.PMID: 36561180
Cap-dependent translation initiation monitored in living cells.
Gandin V, English BP, Freeman M, Leroux LP, Preibisch S, Walpita D, Jaramillo M, Singer RH.
Nat Commun. 2022 Nov 2;13(1):6558. doi: 10.1038/s41467-022-34052-8.PMID: 36323665
Correction: A single-cell transcriptomic atlas of complete insect nervous systems across multiple life stages.
Corrales M, Cocanougher BT, Kohn AB, Wittenbach JD, Long XS, Lemire A, Cardona A, Singer RH, Moroz LL, Zlatic M.
Neural Dev. 2022 Oct 26;17(1):11. doi: 10.1186/s13064-022-00167-3.PMID: 36289550
Real-time imaging of Arc/Arg3.1 transcription ex vivo reveals input-specific immediate early gene dynamics.
Lituma PJ, Singer RH, Das S, Castillo PE.
Proc Natl Acad Sci U S A. 2022 Sep 20;119(38):e2123373119. doi: 10.1073/pnas.2123373119. Epub 2022 Sep 12.PMID: 36095210
Presynaptic FMRP and local protein synthesis support structural and functional plasticity of glutamatergic axon terminals.
Monday HR, Kharod SC, Yoon YJ, Singer RH, Castillo PE.
Neuron. 2022 Aug 17;110(16):2588-2606.e6. doi: 10.1016/j.neuron.2022.05.024. Epub 2022 Jun 20.PMID: 35728596
CPEB3-dependent increase in GluA2 subunits impairs excitatory transmission onto inhibitory interneurons in a mouse model of fragile X.
Hwang JY, Monday HR, Yan J, Gompers A, Buxbaum AR, Sawicka KJ, Singer RH, Castillo PE, Zukin RS.
Cell Rep. 2022 Jun 7;39(10):110853. doi: 10.1016/j.celrep.2022.110853.PMID: 35675768
Bromodomains regulate dynamic targeting of the PBAF chromatin-remodeling complex to chromatin hubs.
Kenworthy CA, Haque N, Liou SH, Chandris P, Wong V, Dziuba P, Lavis LD, Liu WL, Singer RH, Coleman RA.
Biophys J. 2022 May 3;121(9):1738-1752. doi: 10.1016/j.bpj.2022.03.027. Epub 2022 Mar 30.PMID: 35364106
Periodontal disease and incident prediabetes and diabetes: The Hispanic Community Health Study/Study of Latinos.
Laniado N, Khambaty T, Hua S, Kaplan R, Llabre MM, Schneiderman N, Singer RH, Qi Q, Cai J, Finlayson TL, Whalen AM, Isasi CR.
J Clin Periodontol. 2022 Apr;49(4):313-321. doi: 10.1111/jcpe.13599. Epub 2022 Feb 23.PMID: 35112368
Targeted RNA editing: novel tools to study post-transcriptional regulation.
Xu W, Biswas J, Singer RH, Rosbash M.
Mol Cell. 2022 Jan 20;82(2):389-403. doi: 10.1016/j.molcel.2021.10.010. Epub 2021 Nov 4.PMID: 34739873
Detecting the Non-conventional mRNA Splicing and Translational Activation of HAC1 in Budding Yeast.
Li W, Singer RH.
Methods Mol Biol. 2022;2378:113-120. doi: 10.1007/978-1-0716-1732-8_8.PMID: 34985697
Imaging Organization of RNA Processing within the Nucleus.
Biswas J, Li W, Singer RH, Coleman RA.
Cold Spring Harb Perspect Biol. 2021 Dec 1;13(12):a039453. doi: 10.1101/cshperspect.a039453.PMID: 34127450
Cellular variability of nonsense-mediated mRNA decay.
Sato H, Singer RH.
Nat Commun. 2021 Dec 10;12(1):7203. doi: 10.1038/s41467-021-27423-0.PMID: 34893608
A DNA repair pathway can regulate transcriptional noise to promote cell fate transitions.
Desai RV, Chen X, Martin B, Chaturvedi S, Hwang DW, Li W, Yu C, Ding S, Thomson M, Singer RH, Coleman RA, Hansen MMK, Weinberger LS
.Science. 2021 Aug 20;373(6557):eabc6506. doi: 10.1126/science.abc6506. Epub 2021 Jul 22.PMID: 34301855
Author Correction: Intracellular mRNA transport and localized translation.
Das S, Vera M, Gandin V, Singer RH, Tutucci E.
Nat Rev Mol Cell Biol. 2021 Jul;22(7):505. doi: 10.1038/s41580-021-00374-6.PMID: 33911234
Intracellular mRNA transport and localized translation.
Das S, Vera M, Gandin V, Singer RH, Tutucci E.
Nat Rev Mol Cell Biol. 2021 Jul;22(7):483-504. doi: 10.1038/s41580-021-00356-8. Epub 2021 Apr 9. PMID: 33837370
Protocol for using TRIBE to study RNA-protein interactions and nuclear organization in mammalian cells.
Biswas J, Rosbash M, Singer RH, Rahman R.
STAR Protoc. 2021 Jun 30;2(3):100634. doi: 10.1016/j.xpro.2021.100634. eCollection 2021 Sep 17.PMID: 34258595 .
Structure of the p53/RNA polymerase II assembly.
Liou SH, Singh SK, Singer RH, Coleman RA, Liu WL.
Commun Biol. 2021 Mar 25;4(1):397. doi: 10.1038/s42003-021-01934-4.PMID: 33767390
Correction to Rational Design of Fluorogenic and Spontaneously Blinking Labels for Super-Resolution Imaging.
Zheng Q, Ayala AX, Chung I, Weigel AV, Ranjan A, Falco N, Grimm JB, Tkachuk AN, Wu C, Lippincott-Schwartz J, Singer RH, Lavis LD.
ACS Cent Sci. 2020 Oct 28;6(10):1844. doi: 10.1021/acscentsci.0c01119. Epub 2020 Sep 16.
PMID: 33145421
2020 Distance Meeting: Farewell to Professor David Yaffe - A pillar of the myogenesis field.
Singer RH.
Eur J Transl Myol. 2020 Sep 9;30(3):9327. doi: 10.4081/ejtm.2020.9327. eCollection 2020 Sep 30. PMID: 33117513
Quantitative Kinetic Analyses of Histone Turnover Using Imaging and Flow Cytometry.
Sato H, Singer RH, Greally JM.
Bio Protoc. 2020 Sep 5;10(17):e3738. doi: 10.21769/bioprotoc.3738. PMID: 33043098
Mitochondrial volume fraction and translation duration impact mitochondrial mRNA localization and protein synthesis.
Tsuboi T, Viana MP, Xu F, Yu J, Chanchani R, Arceo XG, Tutucci E, Choi J, Chen YS, Singer RH, Rafelski SM, Zid BM.
Elife. 2020 Aug 7;9:e57814. doi: 10.7554/eLife.57814. PMID: 32762840
New Generations of MS2 Variants and MCP Fusions to Detect Single mRNAs in Living Eukaryotic Cells.
Pichon X, Robert MC, Bertrand E, Singer RH, Tutucci E.
Methods Mol Biol. 2020;2166:121-144. doi: 10.1007/978-1-0716-0712-1_7.
PMID: 32710406
Simultaneous Detection of mRNA and Protein in S. cerevisiae by Single-Molecule FISH and Immunofluorescence.
Tutucci E, Singer RH.
Methods Mol Biol. 2020;2166:51-69. doi: 10.1007/978-1-0716-0712-1_4. PMID: 32710403
MS2-TRIBE Evaluates Both Protein-RNA Interactions and Nuclear Organization of Transcription by RNA Editing.
Biswas J, Rahman R, Gupta V, Rosbash M, Singer RH.
iScience. 2020 Jul 24;23(7):101318. doi: 10.1016/j.isci.2020.101318. Epub 2020 Jun 28.
PMID: 32674054
Single-molecule imaging of transcription dynamics in somatic stem cells.
Wheat JC, Sella Y, Willcockson M, Skoultchi AI, Bergman A, Singer RH, Steidl U.
Nature. 2020 Jul;583(7816):431-436. doi: 10.1038/s41586-020-2432-4. Epub 2020 Jun 24.
PMID: 32581360
Single molecule mRNA fluorescent in situ hybridization combined with immunofluorescence in S. cerevisiae: Dataset and quantification.
Maekiniemi A, Singer RH, Tutucci E.
Data Brief. 2020 Apr 11;30:105511. doi: 10.1016/j.dib.2020.105511. eCollection 2020 Jun.
PMID: 32368581
Imaging of DNA and RNA in Living Eukaryotic Cells to Reveal Spatiotemporal Dynamics of Gene Expression.
Sato H, Das S, Singer RH, Vera M.
Annu Rev Biochem. 2020 Jun 20;89:159-187. doi: 10.1146/annurev-biochem-011520-104955. Epub 2020 Mar 16. PMID: 32176523
Zipcode Binding Protein 1 (ZBP1; IGF2BP1): A Model for Sequence-Specific RNA Regulation.
Biswas J, Nunez L, Das S, Yoon YJ, Eliscovich C, Singer RH.
Cold Spring Harb Symp Quant Biol. 2019;84:1-10. doi: 10.1101/sqb.2019.84.039396. Epub 2020 Feb 21.
PMID: 32086331
Sam68 Enables Metabotropic Glutamate Receptor-Dependent LTD in Distal Dendritic Regions of CA1 Hippocampal Neurons.
Klein ME, Younts TJ, Cobo CF, Buxbaum AR, Aow J, Erdjument-Bromage H, Richard S, Malinow R, Neubert TA, Singer RH, Castillo PE, Jordan BA.
Cell Rep. 2019 Nov 12;29(7):1789-1799.e6. doi: 10.1016/j.celrep.2019.10.030.
PMID: 31722197
Rational Design of Fluorogenic and Spontaneously Blinking Labels for Super-Resolution Imaging.
Zheng Q, Ayala AX, Chung I, Weigel AV, Ranjan A, Falco N, Grimm JB, Tkachuk AN, Wu C, Lippincott-Schwartz J, Singer RH, Lavis LD.
ACS Cent Sci. 2019 Sep 25;5(9):1602-1613. doi: 10.1021/acscentsci.9b00676. Epub 2019 Sep 5.
PMID: 31572787
The structural basis for RNA selectivity by the IMP family of RNA-binding proteins.
Biswas J, Patel VL, Bhaskar V, Chao JA, Singer RH, Eliscovich C.
Nat Commun. 2019 Sep 30;10(1):4440. doi: 10.1038/s41467-019-12193-7.
PMID: 31570709
Mamo decodes hierarchical temporal gradients into terminal neuronal fate.
Liu LY, Long X, Yang CP, Miyares RL, Sugino K, Singer RH, Lee T.
Elife. 2019 Sep 23;8:e48056. doi: 10.7554/eLife.48056. PMID: 31545163
Retargeting of macroH2A following mitosis to cytogenetic-scale heterochromatic domains.
Sato H, Wu B, Delahaye F, Singer RH, Greally JM.
J Cell Biol 218(6):1810-1823 (2019 June 3). PMCID: PMC6548134
Fluorescence Imaging Methods to Investigate Translation in Single Cells.
Biswas J, Liu Y, Singer RH, Wu B.
Cold Spring Harb Perspect Biol 11(4):a032722 (2019 April 1).
Neurotransmitter identity is acquired in a lineage-restricted manner in the Drosophila CNS.
Lacin H, Chen HM, Long X, Singer RH, Lee T, Truman JW.
Elife 8:e43701 (2019 March 26). PMCID: PMC6504232
Imaging cell-type-specific dynamics of mRNAs in living mouse brain.
Nwokafor C, Singer RH, Lim H.
Methods 157:110-105 (2019 March 15). PMCID: PMC6351228
The travels of mRNAs in neurons: do they know where they are going?
Das S, Singer RH, Yoon YJ.
Curr Opin Neurobiol 57:110-116 (2019 February 18).
Mapping Neurotransmitter Identity in the Whole-Mount Drosophila Brain Using Multiplex High-Throughput Fluorescence in Situ Hybridization.
Meissner GW, Nern A, Singer RH, Wong AM, Malkesman O, Long X.
Genetics 211(2):473-482 (2019 February). PMCID: PMC6366916
Bidirectional Analysis of Cryba4-Crybb1 Nascent Transcription and Nuclear Accumulation of Crybb3 mRNAs in Lens Fibers.
Limi S, Zhao Y, Guo P, Lopez-Jones M, Zheng D, Singer RH, Skoultchi AI, Cvekl A.
Invest Ophthalmol Vis Sci 60(1):234-244 (2019 January 2). PMCID: PMC6336207
Single-mRNA detection in living S. cerevisiae using a re-engineered MS2 system.
Tutucci E, Vera M, Singer RH.
Nat Protoc 13(10):2268-2296 (2018 October).
Transcriptional burst fraction and size dynamics during lens fiber cell differentiation and detailed insights into the denucleation process.
Limi S, Senecal A, Coleman RA, Lopez-Jones M, Guo P, Polumbo C, Singer RH, Skoultchi AI, Cvekl A.
J Biol Chem 293(34):13176-13190 (2018 August 24). PMCID: PMC6109918
A transgenic mouse for imaging activity-dependent dynamics of endogenous Arc mRNA in live neurons.
Das S, Moon HC, Singer RH, Park HY.
Sci Adv 4(6):eaar3448 (2018 June 20). PMCID: PMC6010337
Imaging mRNA In Vivo, from Birth to Death.
Tutucci E, Livingston NM, Singer RH, Wu B.
Annu Rev Biophys 47:85-106 (2018 May 20).
Transvection Goes Live-Visualizing Enhancer-Promoter Communication between Chromosomes.
Tsai A, Singer RH, Crocker J.
Mol Cell 70(2):195-196 (2018 April 19).
Dual inhibition of MDMX and MDM2 as a therapeutic strategy in leukemia.
Carvajal LA, Neriah DB, Senecal A, Benard L, Thiruthuvanathan V, Yatsenko T, Narayanagari SR, Wheat JC, Todorova TI, Mitchell K, Kenworthy C, Guerlavais V, Annis DA, Bartholdy B, Will B, Anampa JD, Mantzaris I, Aivado M, Singer RH, Coleman RA, Verma A, St.
Sci Transl Med 10(436):eaao3003 (2018 April 11).
An improved MS2 system for accurate reporting of the mRNA life cycle.
Tutucci E, Vera M, Biswas J, Garcia J, Parker R, Singer RH.
Nat Methods 15(1):81-89 (2018 January). PMCID: PMC5843578
Intercellular mRNA trafficking via membrane nanotube-like extensions in mammalian cells.
Haimovich G, Ecker CM, Dunagin MC, Eggan E, Raj A, Gerst JE, Singer RH.
Proc Natl Acad Sci U S A 114(46):E9873-E9882 (2017 November 14). PMCID: PMC5699038
Nuclear microenvironments modulate transcription from low-affinity enhancers.
Tsai A, Muthusamy AK, Alves MR, Lavis LD, Singer RH, Stern DL, Crocker J.
Elife 6:e28975 (2017 November 2). PMCID: PMC5695909
Localization of TFPI-2 in the nucleus modulates MMP-2 gene expression in breast cancer cells.
Wang G, Zeng Y, Chen S, Li D, Li W, Zhou Y, Singer RH, Gu W.
Sci Rep 7(1):13575 (2017 October 19). PMCID: PMC5648759
Quantitative mRNA imaging throughout the entire Drosophila brain.
Long X, Colonell J, Wong AM, Singer RH, Lionnet T.
Nat Methods 14(7):703-706 (2017 July).
Binding of DEAD-box helicase Dhh1 to the 5'-untranslated region of ASH1 mRNA represses localized translation of ASH1 in yeast cells.
Zhang Q, Meng X, Li D, Chen S, Luo J, Zhu L, Singer RH, Gu W.
J Biol Chem 292(23):9787-9800 (2017 June 9). PMCID: PMC5465500
RNP transport in cell biology: the long and winding road.
Eliscovich C, Singer RH.
Curr Opin Cell Biol 45:38-46 (2017 April). PMCID: PMC5482755
Imaging mRNA and protein interactions within neurons.
Eliscovich C, Shenoy SM, Singer RH.
Proc Natl Acad Sci U S A 114(10):E1875-E1884 (2017 March 7). PMCID: PMC5347572
Macrophage-dependent tumor cell transendothelial migration is mediated by Notch1/MenaINV-initiated invadopodium formation.
Pignatelli J, Bravo-Cordero JJ, Roh-Johnson M, Gandhi SJ, Wang Y, Chen X, Eddy RJ, Xue A, Singer RH, Hodgson L, Oktay MH, Condeelis JS.
Sci Rep 6(37874):1-15 (2016 November 30). PMCID: PMC5129016
Single-Cell and Single-Molecule Analysis of Gene Expression Regulation.
Vera M, Biswas J, Senecal A, Singer RH, Park HY.
Annu Rev Genet 50:267-291 (2016 November 23). PMCID: PMC5149423
IMP1, an mRNA binding protein that reduces the metastatic potential of breast cancer in a mouse model.
Nwokafor CU, Sellers RS, Singer RH.
Oncotarget 7(45):72662-72671 (2016 November 8). PMCID: PMC5341935
Glutamate-induced RNA localization and translation in neurons.
Yoon YJ, Wu B, Buxbaum AR, Das S, Tsai A, English BP, Grimm JB, Lavis LD, Singer RH.
Proc Natl Acad Sci U S A 113(44):E6877-E6886 (2016 November 1). PMCID: PMC5098659
Subnuclear positioning and interchromosomal clustering of the GAL1-10 locus are controlled by separable, interdependent mechanisms.
Brickner DG, Sood V, Tutucci E, Coukos R, Viets K, Singer RH, Brickner JH.
Mol Biol Cell 27(19):2980-2993 (2016 October 1). PMCID: PMC5042583
Imaging Transcription: Past, Present, and Future.
Coleman RA, Liu Z, Darzacq X, Tjian R, Singer RH, Lionnet T.
Cold Spring Harb Symp Quant Biol 80:1-8 (2016 July 31). PMCID: PMC4915995
Translation dynamics of single mRNAs in live cells and neurons.
Wu B, Eliscovich C, Yoon YJ, Singer RH.
Science 352(6292):1430-1435 (2016 2016 Jun 17). PMCID: PMC4939616
Comment in Science. 2016 Jun 17;352(6292):1391-2.
IMP1 suppresses breast tumor growth and metastasis through the regulation of its target mRNAs.
Wang G, Huang Z, Liu X, Huang W, Chen S, Zhou Y, Li D, Singer RH, Gu W.
Oncotarget 7(13):15690-15702 (2016 March 26). PMCID: PMC4941270
Mapping translation 'hot-spots' in live cells by tracking single molecules of mRNA and ribosomes.
Katz ZB, English BP, Lionnet T, Yoon YJ, Monnier N, Ovryn B, Bathe M, Singer RH.
Elife 5:e10415 (2016 January 13). PMCID: PMC4764586
Assembly and Molecular Architecture of the Phosphoinositide 3-Kinase p85α Homodimer.
LoPiccolo J, Kim SJ, Shi Y, Wu B, Wu H, Chait BT, Singer RH, Sali A, Brenowitz M, Bresnick AR, Backer JM.
J Biol Chem 290(51):30390-30405 (2015 December 18). PMCID: PMC4683262
CASFISH: CRISPR/Cas9-mediated in situ labeling of genomic loci in fixed cells.
Deng W, Shi X, Tjian R, Lionnet T, Singer RH.
Proc Natl Acad Sci U S A 112(38):11870-11875 (2015 September 22). PMCID: PMC4586837
Inferring transient particle transport dynamics in live cells.
Monnier N, Barry Z, Park HY, Su KC, Katz Z, English BP, Dey A, Pan K, Cheeseman IM, Singer RH, Bathe M.
Nat Methods 12(9):838-840 (2015 September). PMCID: PMC4733533
A three-camera imaging microscope for high-speed single-molecule tracking and super-resolution imaging in living cells.
English BP, Singer RH.
Proc SPIE 9550(08):1-6 (2015 August 21). PMCID: PMC4724806
Single-molecule insights into mRNA dynamics in neurons.
Buxbaum AR, Yoon YJ, Singer RH, Park HY.
Trends Cell Biol 25(8):468-475 (2015 August). PMCID: PMC4515374
Comment in Nat Methods. 2015 Aug;12(9):813.
Quantifying Protein-mRNA Interactions in Single Live Cells.
Wu B, Buxbaum AR, Katz ZB, Yoon YJ, Singer RH.
Cell 162(1):211-220 (2015 July 2). PMCID: PMC4491145
Promoter-Autonomous Functioning in a Controlled Environment using Single Molecule FISH.
Hocine S, Vera M, Zenklusen D, Singer RH.
Sci Rep 5:9934 (2015 May 28). PMCID: PMC4446897
Nuclear accessibility of β-actin mRNA is measured by 3D single-molecule real-time tracking.
Smith CS, Preibisch S, Joseph A, Abrahamsson S, Rieger B, Myers E, Singer RH, Grunwald D.
J Cell Biol 209(4):609-619 (2015 May 25). PMCID: PMC4442804
Cellular Levels of Signaling Factors Are Sensed by β-actin Alleles to Modulate Transcriptional Pulse Intensity.
Kalo A, Kanter I, Shraga A, Sheinberger J, Tzemach H, Kinor N, Singer RH, Lionnet T, Shav-Tal Y.
Cell Rep 11:1-14 (2015 April 21). PMCID: PMC4743029
Synonymous modification results in high-fidelity gene expression of repetitive protein and nucleotide sequences.
Wu B, Miskolci V, Sato H, Tutucci E, Kenworthy CA, Donnelly SK, Yoon YJ, Cox D, Singer RH, Hodgson L.
Genes Dev 29(8):876-886 (2015 April 15). PMCID: PMC4403262
Dynamic visualization of transcription and RNA subcellular localization in zebrafish.
Campbell PD, Chao JA, Singer RH, Marlow FL.
Development 142(7):1368-1374 (2015 April 1). PMCID: PMC4378251
Reminiscences on my life with RNA: a self-indulgent perspective.
Singer RH.
RNA 21(4):508-509 (2015 April). PMCID: PMC4371258
An RNA biosensor for imaging the first round of translation from single cells to living animals.
Halstead JM, Lionnet T, Wilbertz JH, Wippich F, Ephrussi A, Singer RH, Chao JA.
Science 347(6228):1367-1671 (2015 March 20). PMCID: PMC4451088
Comment in Science. 2015 Mar 20;347(6228):1316-7.
A general method to improve fluorophores for live-cell and single-molecule microscopy.
Grimm JB, English BP, Chen J, Slaughter JP, Zhang Z, Revyakin A, Patel R, Macklin JJ, Normanno D, Singer RH, Lionnet T, Lavis LD.
Nat Methods 12(3):244-250 (2015 March). PMCID: PMC4344395
Specific interaction of KIF11 with ZBP1 regulates the transport of β-actin mRNA and cell motility.
Song T, Zheng Y, Wang Y, Katz Z, Liu X, Chen S, Singer RH, Gu W.
J Cell Sci 128(5):1001-1010 (2015 March 1). PMCID: PMC4342582
In the right place at the right time: visualizing and understanding mRNA localization.
Buxbaum AR, Haimovich G, Singer RH.
Nat Rev Mol Cell Biol 16:95-109 (2015 February). PMCID: PMC4484810
Photoswitchable Red Fluorescent Protein with a Large Stokes Shift.
Piatkevich KD, English BP, Malashkevich VN, Xiao H, Almo SC, Singer RH, Verkhusha VV.
Chem Biol 21(10):1402-1414 (2014 October 23). PMCID: PMC4224599
The translation elongation factor eEF1A1 couples transcription to translation during heat shock response.
Vera M, Pani B, Griffiths LA, Muchardt C, Abbott CM, Singer RH, Nudler E.
Elife 3:e03164 (2014 September 16). PMCID: PMC4164936
Efficient Bayesian-based multiview deconvolution.
Preibisch S, Amat F, Stamataki E, Sarov M, Singer RH, Myers E, Tomancak P.
Nat Methods 11(6):645-648 (2014 April 20). PMCID: PMC4153441
Gene Regulation: The HSP70 Gene Jumps When Shocked.
Vera M, Singer RH.
Curr Biol 24(10):R396-R398 (2014 May 19). PMCID: PMC4156153
Dynamics of survival of motor neuron (SMN) protein interaction with the mRNA-binding protein IMP1 facilitates its trafficking into motor neuron axons.
Fallini C, Rouanet JP, Donlin-Asp PG, Guo P, Zhang H, Singer RH, Rossoll W, Bassell GJ.
Dev Neurobiol 74(3):319-332 (2014 March 2014). PMCID: PMC3906212
Visualization of Dynamics of Single Endogenous mRNA Labeled in Live Mouse.
Park HY, Lim H, Yoon YJ, Follenzi A, Nwokafor C, Lopez-Jones M, Meng X, Singer RH.
Science 343(6169):422-424 (2014 January 24). PMCID: PMC4111226
Comment in Science. 2014 Jan 24;343(6169):375-6.
Single β-Actin mRNA Detection in Neurons Reveals a Mechanism for Regulating Its Translatability.
Buxbaum AR, Wu B, Singer RH.
Science 343(6169):419-422 (2014 January 24). PMCID: PMC4121734
Comment in Science. 2014 Jan 24;343(6169):375-6.
Background free imaging of single mRNAs in live cells using split fluorescent proteins.
Wu B, Chen J, Singer RH.
Sci Rep 4:3615 (2014 January 9). PMCID: PMC3885884
Direct observation of frequency modulated transcription in single cells using light activation.
Larson DR, Fritzsch C, Sun L, Meng X, Lawrence DS, Singer RH.
Elife 2:e00750 (2013 September 24). PMCID: PMC3780543
Eukaryotic transcriptional dynamics: from single molecules to cell populations.
Coulon A, Chow CC, Singer RH, Larson DR.
Nat Rev Genet 14(8):572-584 (2013 August). PMCID: PMC3807637
mRNA on the move: the road to its biological destiny.
Eliscovich C, Buxbaum AR, Katz ZB, Singer RH.
J Biol Chem 288(28):20361-20368 (2013 July 12). PMCID: PMC3711302
Single-cell analysis of RNA-mediated histone H3.3 recruitment to a cytomegalovirus promoter-regulated transcription site.
Newhart A, Rafalska-Metcalf IU, Yang T, Joo LM, Powers SL, Kossenkov AV, Lopez-Jones M, Singer RH, Showe LC, Skordalakes E, Janicki SM.
J Biol Chem 288(27):19882-19899 (2013 July 5). PMCID: PMC3707690
The fate of the messenger is pre-determined: A new model for regulation of gene expression.
Haimovich G, Choder M, Singer RH, Trcek T.
Biochim Biophys Acta 1829(6-7):643-653 (2013 June-July). PMCID: PMC3891481
Colocalization of Different Influenza Viral RNA Segments in the Cytoplasm before Viral Budding as Shown by Single-molecule Sensitivity FISH Analysis.
Chou YY, Heaton NS, Gao Q, Palese P, Singer RH, Lionnet T.
PLoS Pathog 9(5):e1003358 (2013 May). PMCID: PMC3649991
Temporal and spatial characterization of nonsense-mediated mRNA decay.
Trcek T, Sato H, Singer RH, Maquat LE.
Genes Dev 27(5):541-551 (2013 March 1). PMCID: PMC3605467
Single-molecule analysis of gene expression using two-color RNA labeling in live yeast.
Hocine S, Raymond P, Zenklusen D, Chao JA, Singer RH.
Nat Methods 10(2):119-121 (2013 February). PMCID: PMC3899799
Time-integrated fluorescence cumulant analysis and its application in living cells.
Wu B, Singer RH, Mueller JD.
Methods Enzymol 518:99-119 (2013 January 29). PMCID: PMC4152916
Nuclear Pore Component Nup98 Is a Potential Tumor Suppressor and Regulates Posttranscriptional Expression of Select p53 Target Genes.
Singer S, Zhao R, Barsotti AM, Ouwehand A, Fazollahi M, Coutavas E, Breuhahn K, Neumann O, Longerich T, Pusterla T, Powers MA, Giles KM, Leedman PJ, Hess J, Grunwald D, Bussemaker HJ, Singer RH, Schirmacher P, Prives C.
Mol Cell 48(5):799-810 (2012 December 14). PMCID: PMC3525737
Imaging translation in single cells using fluorescent microscopy.
Chao JA, Yoon YJ, Singer RH.
Cold Spring Harb Perspect Biol 4(11):1-12 (2012 November). PMCID: PMC3536344
β-Actin mRNA compartmentalization enhances focal adhesion stability and directs cell migration.
Katz ZB, Wells AL, Park HY, Wu B, Shenoy SM, Singer RH.
Genes Dev 26(17):1885-1890 (2012 September 1). PMCID: PMC3435492
Imaging Translation in Single Cells Using Fluorescent Microscopy
Chao JA, Yoon YJ, Singer RH.
In Protein Synthesis and Translational Control, eds Hershey JWB, Sonenberg N, Mathews MB, 225-236. Cold Spring Harbor Laboratory Press (2012 August 14).
Fluorescence fluctuation spectroscopy enables quantitative imaging of single mRNAs in living cells.
Wu B, Chao JA, Singer RH.
Biophys J 102(12):2936-2944 (2012 June 20). PMCID: PMC3379624
Transcription goes digital.
Lionnet T, Singer RH.
EMBO Rep 13(4):313-321 (2012 April). PMCID: PMC3321162
An Unbiased Analysis Method to Quantify mRNA Localization Reveals Its Correlation with Cell Motility
Park HY, Trcek T, Wells AL, Chao JA, Singer RH.
Cell Reports 1(2):179-184 (2012 February 23). PMCID: PMC4079260
Multiscale dynamics in nucleocytoplasmic transport.
Grünwald D, Singer RH.
Curr Opin Cell Biol 24(1):100-106 (2012 February). PMCID: PMC3294057
Single-mRNA counting using fluorescent in situ hybridization in budding yeast.
Trcek T, Chao JA, Larson DR, Park HY, Zenklusen D, Shenoy SM, Singer RH.
Nat Protoc 7(2):408-419 (2012 February). PMCID: PMC4112553
Transgenic expression of ZBP1 in neurons suppresses cocaine-associated conditioning.
Lapidus KA, Nwokafor C, Scott D, Baroni TE, Tenenbaum SA, Hiroi N, Singer RH, Czaplinski K.
Learn Mem 19(2):35-42 (2012 February). PMCID: PMC3262972
IGF2BP1 promotes cell migration by regulating MK5 and PTEN signaling.
Stöhr N, Köhn M, Lederer M, Glaß M, Reinke C, Singer RH, Hüttelmaier S.
Genes Dev 26(2):176-189 (2012 January 15). PMCID: PMC3273841
Regulation of local expression of cell adhesion and motility-related mRNAs in breast cancer cells by IMP1/ZBP1.
Gu W, Katz Z, Wu B, Park HY, Li D, Lin S, Wells AL, Singer RH.
J Cell Sci 125(1):81-91 (2012 January 1). PMCID: PMC3269024
Spatial arrangement of an RNA zipcode identifies mRNAs under post-transcriptional control.
Patel VL, Mitra S, Harris R, Buxbaum AR, Lionnet T, Brenowitz M, Girvin M, Levy M, Almo SC, Singer RH, Chao JA.
Genes Dev 26(1):43-53 (2012 January 1). PMCID: PMC3258965
Single-Molecule mRNA Decay Measurements Reveal Promoter-Regulated mRNA Stability in Yeast.
Trcek T, Larson DR, Moldón A, Query CC, Singer RH.
Cell 147(7):1484-1497 (2011 December 23). PMCID: PMC3286490
Comment in Cell. 2011 Dec 23;147(7):1438-9.
A Date with Telomerase: Pick You Up at S Phase.
Hocine S, Singer RH.
Mol Cell 44(5):685-686 (2011 December 9). PMCID: PMC4755293
Cotranscriptional effect of a premature termination codon revealed by live-cell imaging.
de Turris V, Nicholson P, Orozco RZ, Singer RH, Mühlemann O.
RNA 17(12):2094-2107 (2011 December). PMCID: PMC3222123
Variegated gene expression caused by cell-specific long-range DNA interactions.
Noordermeer D, de Wit E, Klous P, van de Werken H, Simonis M, Lopez-Jones M, Eussen B, de Klein A, Singer RH, de Laat W.
Nat Cell Biol 13(8):944-951 (2011 August). PMCID: PMC3151580
Nuclear export dynamics of RNA-protein complexes.
Grünwald D, Singer RH, Rout M.
Nature 475(7356):333-341 (2011 July 20). PMCID: PMC3154952
Nuclear Physics: Quantitative Single-Cell Approaches to Nuclear Organization and Gene Expression.
Lionnet T, Wu B, Grünwald D, Singer RH, Larson DR.
Cold Spring Harb Symp Quant Biol 75:113-126 (2011 June 14). PMCID: PMC3145213
Modern fluorescent proteins and imaging technologies to study gene expression, nuclear localization, and dynamics.
Wu B, Piatkevich KD, Lionnet T, Singer RH, Verkhusha VV.
Curr Opin Cell Biol 23(3):310-317 (2011 June). PMCID: PMC3143818
Real-Time Observation of Transcription Initiation and Elongation on an Endogenous Yeast Gene.
Larson DR, Zenklusen D, Wu B, Chao JA, Singer RH.
Science 332(6028):475-478 (2011 April 22). PMCID: PMC3152976
Comment in Science. 2011 Apr 22;332(6028):431-2.; Nat Rev Genet. 2011 Jun;12(6):382.
The Survival of Motor Neuron (SMN) Protein Interacts with the mRNA-Binding Protein HuD and Regulates Localization of Poly(A) mRNA in Primary Motor Neuron Axons.
Fallini C, Zhang H, Su Y, Silani V, Singer RH, Rossoll W, Bassell GJ.
J Neurosci 31(10):3914-3925 (2011 March 9). PMCID: PMC3070748
A transgenic mouse for in vivo detection of endogenous labeled mRNA.
Lionnet T, Czaplinski K, Darzacq X, Shav-Tal Y, Wells AL, Chao JA, Park HY, de Turris V, Lopez-Jones M, Singer RH.
Nat Methods 8(2):165-170 (2011 February). PMCID: PMC3076588
Transcription of functionally related constitutive genes is not coordinated.
Gandhi S, Zenklusen D, Lionnet T, Singer RH.
Nat Struct Mol Biol 18(1):27-34 (2011 January). PMCID: PMC3058351
A nucleoporin, Nup60p, affects the nuclear and cytoplasmic localization of ASH1 mRNA in S. cerevisiae.
Powrie EA, Zenklusen D, Singer RH.
RNA 17(1):134-144 (2011 January). PMCID: PMC3004054
RNA processing and export.
Hocine S, Singer RH, Grünwald D.
Cold Spring Harb Perspect Biol 2(12):a000752 (2010 December). PMCID: PMC2982171
RNA Processing and Export.
Hocine S, Singer RH, Grünwald D.
In The Nucleus, eds Misteli T, Spector DL, 381-400. Cold Spring Harbor Laboratory Press (2010 November 22).
In vivo imaging of labelled endogenous β-actin mRNA during nucleocytoplasmic transport.
Grünwald D, Singer RH.
Nature 467(7315):604-607 (2010 September 30). PMCID: PMC3005609
The cytoplasmic fate of an mRNP is determined cotranscriptionally: exception or rule?
Trcek T, Singer RH.
Genes Dev 24(17):1827-1831 (2010 September 1). PMCID: PMC2932966
Transcription, one allele at a time.
Lionnet T, Singer RH.
Genome Biol 11(8):129-132 (2010 August 27). PMCID: PMC2945777
Stable morphology, but dynamic internal reorganisation, of interphase human chromosomes in living cells.
Müller I, Boyle S, Singer RH, Bickmore WA, Chubb JR.
PLoS One 5(7):e11560 (2010 July 13). PMCID: PMC2903487
Altered dynamics of intestinal cell maturation in Apc1638N/+ mice.
Wang D, Pezo RC, Corner G, Sison C, Lesser ML, Shenoy SM, Mariadason JM, Singer RH, Augenlicht LH.
Cancer Res 70(13):5348-5357 (2010 July 1). PMCID: PMC2906237
Single mRNA tracking in live cells.
Park HY, Buxbaum AR, Singer RH.
Methods Enzymol 472:387-406 (2010 June 28). PMCID: PMC3158948
The life of an mRNA in space and time.
Ben-Ari Y, Brody Y, Kinor N, Mor A, Tsukamoto T, Spector DL, Singer RH, Shav-Tal Y.
J Cell Sci 123(10):1761-1774 (2010 May 15). PMCID: PMC2864715
Metabolic cycling in single yeast cells from unsynchronized steady-state populations limited on glucose or phosphate.
Silverman SJ, Petti AA, Slavov N, Parsons L, Briehof R, Thiberge SY, Zenklusen D, Gandhi SJ, Larson DR, Singer RH, Botstein D.
Proc Natl Acad Sci U S A 107(15):6946-6951 (2010 April 13). PMCID: PMC2872461
Analyzing mRNA Expression Using Single mRNA Resolution Fluorescent In Situ Hybridization.
Zenklusen D, Singer RH.
Methods Enzymol 470(26):641-659 (2010 March 25). PMCID: PMC3162037
ZBP1 recognition of β-actin zipcode induces RNA looping.
Chao JA, Patskovsky Y, Patel V, Levy M, Almo SC, Singer RH.
Genes Dev 24(2):148-158 (2010 January 15). PMCID: PMC2807350
Visualization and Quantification of Single RNA Molecules in Living Cells.
Shav-Tal Y, Shenoy SM, Singer RH.
In Live Cell Imaging: A Laboratory Manual, Second Edition, eds Goldman RD, Swedlow JR, Spector DL, 697-712. Cold Spring Harbor Laboratory Press (2009 December 30).
Rrp17p Is a Eukaryotic Exonuclease Required for 5' End Processing of Pre-60S Ribosomal RNA.
Oeffinger M, Zenklusen D, Ferguson A, Wei KE, El Hage A, Tollervey D, Chait BT, Singer RH, Rout MP.
Mol Cell 36(5):768-781 (2009 December 11). PMCID: PMC2806520
A single molecule view of gene expression.
Larson DR, Singer RH, Zenklusen D.
Trends Cell Biol 19(11):630-637 (2009 November). PMCID: PMC2783999
Blocking β-catenin binding to the ZBP1 promoter represses ZBP1 expression, leading to increased proliferation and migration of metastatic breast-cancer cells.
Gu W, Pan F, Singer RH.
J Cell Sci 122(11):1895-1905 (2009 June 1). PMCID: PMC2684840
Imaging Transcription in Living Cells.
Darzacq X, Yao J, Larson DR, Causse SZ, Bosanac L, de Turris V, Ruda VM, Lionnet T, Zenklusen D, Guglielmi B, Tjian R, Singer RH.
Annu Rev Biophys 38:173-196 (2009 June). PMCID: PMC3166783
A der(8)t(8;11) chromosome in the Karpas-620 myeloma cell line expresses only Cyclin D1: Yet both Cyclin D1 and MYC are repositioned in close proximity to the 3′ IGH enhancer.
Dib A, Glebov OK, Shou Y, Singer RH, Kuehl WM.
DNA Repair 8(3):330-335 (2009 March 1). PMCID: PMC2678939
Butyrate and vitamin D3 induce transcriptional attenuation at the cyclin D1 locus in colonic carcinoma cells.
Maier S, Daroqui MC, Scherer S, Roepcke S, Velcich A, Shenoy SM, Singer RH, Augenlicht LH.
J Cell Physiol 218(3):638-642 (2009 March). PMCID: PMC2763190
Dendritic RNA Transport: Dynamic Spatio-Temporal Control of Neuronal Gene Expression.
Dictenberg JB, Singer RH.
In Encyclopedia of Neuroscience, ed Squire LR, 3:437-444. Elsevier (2009 January 11).
Cell Biology of mRNA Decay.
Grünwald D, Singer RH, Czaplinski K.
Methods Enzymol 448(27):553-577 (2008 December 15). PMCID: PMC3152983
RNA in Cells.
de Turris V, Singer RH.
In Single Molecule Dynamics in Life Science, eds Yanagida T, Ishii Yoshiharu, 171-190. Wiley-VCH (2008 December 15).
Single-RNA counting reveals alternative modes of gene expression in yeast.
Zenklusen D, Larson DR, Singer RH.
Nat Struct Mol Biol 15(12):1263-1271 (2008 December). PMCID: PMC3154325
Calibrating excitation light fluxes for quantitative light microscopy in cell biology.
Grünwald D, Shenoy SM, Burke S, Singer RH.
Nat Protoc 3(11):1809-1814 (2008 November). PMCID: PMC3109976
The Dynamics of Mammalian P Body Transport, Assembly and Disassembly In Vivo.
Aizer A, Brody Y, Ler LW, Sonenberg N, Singer RH, Shav-Tal Y.
Mol Biol Cell 19(10):4154-4166 (2008 October). PMCID: PMC2555939
Highways for mRNA Transport.
Singer RH.
Cell 134(5):722-723 (2008 September 5). PMCID: PMC3148588
Feedback regulation between ZBP1 and β-catenin mRNAs in breast cancer cells.
Gu W, Wells AL, Pan F, Singer RH.
Mol Cell Biol 28(16):4963-4974 (2008 August). PMCID: PMC2519696
Nuclear microenvironment in cancer diagnosis and treatment.
Pezo RC, Singer RH.
J Cell Biochem 104(6):1953-1963 (2008 August 15). PMCID: PMC3098524
A role for VICKZ proteins in the progression of colorectal carcinomas: Regulating lamellipodia formation.
Vainer G, Vainer-Mossel E, Pikarsky A, Shenoy SM, Oberman F, Yeffet A, Singer RH, Pikarsky E, Yisraeli JK.
J Pathol 215(4):445-456 (2008 August). PMCID: PMC3148580
Single-Cell Transcription Site Activation Predicts Chemotherapy Response in Human Colorectal Tumors.
Pezo RC, Gandhi SJ, Shirley LA, Pestell RG, Augenlicht LH, Singer RH.
Cancer Res 68(13):4977-4982 (2008 July 1). PMCID: PMC3107669
A Direct Role for FMRP in Activity-Dependent Dendritic mRNA Transport Links Filopodial-Spine Morphogenesis to Fragile X Syndrome.
Dictenberg JB, Swanger SA, Antar LN, Singer RH, Bassell GJ.
Dev Cell 14(6):926-939 (2008 June 10). PMCID: PMC2453222
The Dynamic Range of Transcription.
Darzacq X, Singer RH.
Mol Cell 30(5):545-546 (2008 June 5). PMCID: PMC3148947
Translation of ASH1 mRNA is repressed by Puf6p-Fun12p/eIF5B interaction and released by CK2 phosphorylation.
Deng Y, Singer RH, Gu W.
Genes Dev 22(8):1037-1050 (2008 April 15). PMCID: PMC2335325
Mechanisms and cellular roles of local protein synthesis in mammalian cells.
Rodriguez AJ, Czaplinski K, Condeelis JS, Singer RH.
Curr Opin Cell Biol 20(2):144-149 (2008 April). PMCID: PMC2404115
Myo2p, a class V myosin in budding yeast, associates with a large ribonucleic acid–protein complex that contains mRNAs and subunits of the RNA-processing body.
Chang W, Zaarour RF, Reck-Peterson S, Rinn J, Singer RH, Snyder M, Novick P, Mooseker MS.
RNA 14(3):491-502 (2008 March). PMCID: PMC2248268
Structural basis for the coevolution of a viral RNA–protein complex.
Chao JA, Patskovsky Y, Almo SC, Singer RH.
Nat Struct Mol Biol 15(1):103-105 (2008 January). PMCID: PMC3152963
Imaging Real-Time Gene Expression in Living Systems.
Wells AL, Condeelis JS, Singer RH, Zenklusen D.
In Single-Molecule Techniques: A Laboratory Manual, eds Selvin PR, Ha T, 209-238. Cold Spring Harbor Laboratory Press (2007 December).
ZBP2 facilitates binding of ZBP1 to β-actin mRNA during transcription.
Pan F, Huttelmaier S, Singer RH, Gu W.
Mol Cell Biol 27(23):8340-8351 (2007 December). PMCID: PMC2169170
Imaging real-time gene expression in living systems with single-transcript resolution: construct design and imaging system setup.
Wells AL, Condeelis JS, Singer RH, Zenklusen D.
CSH Protoc 2007(11):top28 (2007 November). PMCID: PMC4956922
Imaging Real-Time Gene Expression in Living Systems with Single-Transcript Resolution: Single mRNA Particle Tracking with ImageJ-Based Analysis.
Wells AL, Condeelis JS, Singer RH, Zenklusen D.
CSH Protoc 2007(11):prot4872 (2007 November). PMCID: PMC4963622
Imaging real-time gene expression in living systems with single-transcript resolution: image analysis of single mRNA transcripts.
Wells AL, Condeelis JS, Singer RH, Zenklusen D.
CSH Protoc 2007(11):prot4871 (2007 November). PMCID: PMC4947526
Imaging real-time gene expression in living yeast.
Zenklusen D, Wells AL, Condeelis JS, Singer RH.
CSH Protoc 2007(11):prot4870 (2007 November). PMCID: PMC4956917
Imaging real-time gene expression in Mammalian cells with single-transcript resolution.
Wells AL, Condeelis JS, Singer RH, Zenklusen D.
CSH Protoc 2007(11):prot4869 (2007 November). PMCID: PMC4949394
The spatial order of transcription in mammalian cells.
Levsky JM, Shenoy SM, Chubb JR, Hall CB, Capodieci P, Singer RH.
J Cell Biochem 102(3):609-617 (2007 October 15). PMCID: PMC4956920
ZBP1 enhances cell polarity and reduces chemotaxis.
Lapidus K, Wyckoff J, Mouneimne G, Lorenz M, Soon L, Condeelis JS, Singer RH.
J Cell Sci 120(18):3173-3178 (2007 September 15). PMCID: PMC4956933
In vivo dynamics of RNA polymerase II transcription.
Darzacq X, Shav-Tal Y, de Turris V, Brody Y, Shenoy SM, Phair RD, Singer RH.
Nat Struct Mol Biol 14(9):796-806 (2007 September). PMCID: PMC4942130
Comment in Nat Struct Mol Biol. 2007 Sep;14(9):788-90.
QNQKE targeting motif for the SMN-Gemin multiprotein complexin neurons.
Zhang HL, Xing L, Singer RH, Bassell GJ.
J Neurosci Res 85(12):2657-2667 (2007 September).
Molecular restoration of archived transcriptional profiles by complementary-template reverse-transcription (CT-RT).
Loudig O, Milova E, Brandwein-Gensler M, Massimi A, Belbin TJ, Childs G, Singer RH, Rohan T, Prystowsky MB.
Nucleic Acids Res 35(15):e94 (2007 August). PMCID: PMC1976468
Yeast Mitochondrial Transcriptomics.
Garcia M, Darzacq X, Devaux F, Singer RH, Jacq C.
In Methods in Molecular Biology: Mitochondria Practical Protocols, eds Leister D, Herrmann J. Humana Press (2007 June 12). PMCID: PMC4943872
Dissecting Cellular Activity from Single Genes to Single mRNAs.
Darzacq X, Singer RH, Shav-Tal Y.
In New Frontiers in Ultrasensitive Bioanalysis: Advanced Analytical Chemistry Applications in Nanobiotechnology, Single Molecule Detection, and Single Cell Analysis, ed Xu XN, 29-39. Wiley-Interscience (2007 April 13).
Imaging mRNA movement from transcription sites to translation sites.
Rodriguez AJ, Condeelis J, Singer RH, Dictenberg JB.
Semin Cell Dev Biol 18(2):202-208 (2007 April). PMCID: PMC4956988
Localized Translation through Messenger RNA Localization.
Gavis ER, Singer RH, Huttelmaier S.
In Translational Control in Biology and Medicine, eds Mathews MB, Hershey J, 689-718. Cold Spring Harbor Laboratory Press (2007 March).
YRA1 Autoregulation Requires Nuclear Export and Cytoplasmic Edc3p-Mediated Degradation of Its Pre-mRNA.
Dong S, Li C, Zenklusen D, Singer RH, Jacobson A, He F.
Mol Cell 25(4):559-573 (2007 February 23). PMCID: PMC1858660
Mitochondria-associated Yeast mRNAs and the Biogenesis of Molecular Complexes.
Garcia M, Darzacq X, Delaveau T, Jourdren L, Singer RH, Jacq C.
Mol Biol Cell 18(2):362-368 (2007 February). PMCID: PMC1783778
Dynamic association and localization of human H/ACA RNP proteins.
Kittur N, Darzacq X, Roy S, Singer RH, Meier UT.
RNA 12(12):2057-2062 (2006 December). PMCID: PMC1664726
Pathways for mRNA localization in the cytoplasm.
Czaplinski K, Singer RH.
Trends Biochem Sci 31(12):687-693 (2006 December).
ZBP1 regulates mRNA stability during cellular stress.
Stöhr N, Lederer M, Reinke C, Meyer S, Hatzfeld M, Singer RH, Huttelmaier S.
J Cell Biol 175(4):527-534 (2006 November 20). PMCID: PMC2064588
Visualization of mRNA translation in living cells.
Rodriguez AJ, Shenoy SM, Singer RH, Condeelis J.
J Cell Biol 175(1):67-76 (2006 October 9). PMCID: PMC2064499
A peptide motif in Raver1 mediates splicing repression by interaction with the PTB RRM2 domain.
Rideau AP, Gooding C, Simpson PJ, Monie TP, Lorenz M, Huttelmaier S, Singer RH, Matthews S, Curry S, Smith CW.
Nat Struct Mol Biol 13(9):839-848 (2006 September).
Multiprotein Complexes of the Survival of Motor Neuron Protein SMN with Gemins Traffic to Neuronal Processes and Growth Cones of Motor Neurons.
Zhang HL, Xing L, Rossoll W, Wichterle H, Singer RH, Bassell GJ.
J Neurosci 26(33):8622-8632 (2006 August 15). PMCID: PMC4956918
Gene expression within a dynamic nuclear landscape.
Shav-Tal Y, Darzacq X, Singer RH.
EMBO J 25(15):3469-3479 (2006 August). PMCID: PMC1538565
Nucleus and gene regulation.
Pederson T, Singer RH.
Curr Opin Cell Biol 18(3):229-230 (2006 June). PMCID: PMC4982365
Transcriptional pulsing of a developmental gene.
Chubb JR, Trcek T, Shenoy SM, Singer RH.
Curr Biol 16(10):1018-1025 (2006 May 23). PMCID: PMC4764056
Comment in Curr Biol. 2006 May 23;16(10):R371-3.
Stepwise RNP assembly at the site of H/ACA RNA transcription in human cells.
Darzacq X, Kittur N, Roy S, Shav-Tal Y, Singer RH, Meier UT.
J Cell Biol 173(2):207-219 (2006 April 24). PMCID: PMC2063812
Developmental timing in Dictyostelium is regulated by the Set1 histone methyltransferase.
Chubb JR, Bloomfield G, Xu Q, Kaller M, Ivens A, Skelton J, Turner BM, Nellen W, Shaulsky G, Kay RR, Bickmore WA, Singer RH.
Dev Biol 292(2):519-532 (2006 April 15).
Assembling an intermediate filament network by dynamic cotranslation.
Chang L, Shav-Tal Y, Trcek T, Singer RH, Goldman RD.
J Cell Biol 172(5):747-758 (2006 February 27). PMCID: PMC2063706
Spatial regulation of beta-actin translation by Src-dependent phosphorylation of ZBP1.
Huttelmaier S, Zenklusen D, Lederer M, Dictenberg J, Lorenz M, Meng X, Bassell GJ, Condeelis J, Singer RH.
Nature 438(7067):512-515 (2005 November 24).
Comment in Nature. 2005 Nov 24;438(7067):432-5.
Single Cell Gene Expression Profiling: Multiplexed Expression Fluorescence in situ Hybridization (FISH): Application to the Analysis of Cultured Cells.
Levsky JM, Braut SA, Singer RH.
In Cell Biology: A Laboratory Handbook, Third Edition, ed Celis JE, 4:121-130. Academic Press (2005 November 16).
The Great Escape: When Cancer Cells Hijack the Genes for Chemotaxis and Motility.
Condeelis J, Singer RH, Segall JE.
Annu Rev Cell Dev Biol 21:695-718 (2005 November).
In Situ Hybridization to RNA.
Huang S, Singer RH.
In Basic Methods in Microscopy, eds Spector DL, Goldman RD, 277-290. Cold Spring Harbor Laboratory Press (2005 October 28).
Imaging of gene expression in living cells and tissues.
Singer RH, Lawrence DS, Ovryn B, Condeelis J.
J Biomed Optics 10(5):0514061-0514069 (2005 September/October).
RNA localization.
Shav-Tal Y, Singer RH.
J Cell Sci 118(18):4077-4081 (2005 September 15).
Gene expression profiling in single cells within tissue.
Capodieci P, Donovan M, Buchinsky H, Jeffers Y, Cordon-Cardo C, Gerald W, Edelson J, Shenoy SM, Singer RH.
Nat Methods 2(9):663-665 (2005 September). PMCID: PMC1976602
Localization of all seven messenger RNAs for the actin-polymerization nucleator Arp2/3 complex in the protrusions of fibroblasts.
Mingle LA, Okuhama NN, Shi J, Singer RH, Condeelis J, Liu G.
J Cell Sci 118(11):2425-2433 (2005 June 1). PMCID: PMC1283079
Comment in Nat Rev Mol Cell Biol. 2011 Dec;12(12):771.
Dynamics of transcription and mRNA export.
Darzacq X, Singer RH, Shav-Tal Y.
Curr Opin Cell Biol 17(3):332-339 (2005 June). PMCID: PMC4943869
Promotion of importin alpha-mediated nuclear import by the phosphorylation-dependent binding of cargo protein to 14-3-3.
Faul C, Huttelmaier S, Oh J, Hachet V, Singer RH, Mundel P.
J Cell Biol 169(3):415-424 (2005 May 9). PMCID: PMC2171942
Dynamic Sorting of Nuclear Components into Distinct Nucleolar Caps during Transcriptional Inhibition.
Shav-Tal Y, Blechman J, Darzacq X, Montagna C, Dye BT, Patton JG, Singer RH, Zipori D.
Mol Biol Cell 16(5):2395-2413 (2005 May). PMCID: PMC1087244
How and why does beta-actin mRNA target?
Condeelis JS, Singer RH.
Biol Cell 97(1):97-110 (2005 January).
Identification and testing of a gene expression signature of invasive carcinoma cells within primary mammary tumors.
Wang W, Goswami S, Lapidus K, Wells AL, Wyckoff JB, Sahai E, Singer RH, Segall JE, Condeelis JS.
Cancer Res 64(23):8585-8594 (2004 December 1).
She2p Is a Novel RNA Binding Protein with a Basic Helical Hairpin Motif.
Niessing D, Huttelmaier S, Zenklusen D, Singer RH, Burley SK.
Cell 119(4):491-502 (2004 November 12).
Imaging of Single mRNAs in the Cytoplasm of Living Cells.
Shav-Tal Y, Shenoy SM, Singer RH.
In Live Cell Imaging: A Laboratory Manual, eds Goldman RD, Spector DL, 603-615. Cold Spring Harbor Laboratory Press (2004 October).
Imaging gene expression in single living cells.
Shav-Tal Y, Singer RH, Darzacq X.
Nat Rev Mol Cell Biol 5(10):855-862 (2004 October). PMCID: PMC4942131
Dynamics of Single mRNPs in Nuclei of Living Cells.
Shav-Tal Y, Darzacq X, Shenoy SM, Fusco D, Janicki SM, Spector DL, Singer RH.
Science 304(5678):1797-1800 (2004 June 18). PMCID: PMC4765737
A new yeast PUF family protein, Puf6p, represses ASH1 mRNA translation and is required for its localization.
Gu W, Deng Y, Zenklusen D, Singer RH.
Genes Dev 18(12):1452-1465 (2004 June 15). PMCID: PMC423195
Imaging sites of N-WASP activity in lamellipodia and invadopodia of carcinoma cells.
Lorenz M, Yamaguchi H, Wang Y, Singer RH, Condeelis J.
Curr Biol 14(8):697-703 (2004 April 20).
From Silencing to Gene Expression: Real-Time Analysis in Single Cells.
Janicki SM, Tsukamoto T, Salghetti SE, Tansey WP, Sachidanandam R, Prasanth KV, Ried T, Shav-Tal Y, Bertrand E, Singer RH, Spector DL.
Cell 116(5):683-698 (2004 March 5). PMCID: PMC4942132
Comment in Cell. 2004 Mar 5;116(5):633-4.
Measurement of barbed ends, actin polymerization, and motility in live carcinoma cells after growth factor stimulation.
Lorenz M, DesMarais V, Macaluso F, Singer RH, Condeelis J.
Cell Motil Cytoskeleton 57(4):207-217 (2004 April).
Imaging of Single mRNAs in the Cytoplasm of Living Cells.
Fusco D, Bertrand E, Singer RH.
In RNA Trafficking and Nuclear Structure Dynamics, ed Jeanteur P, 135-150. Springer-Verlag (2004 February 29). PMCID: PMC4975164
The PTB interacting protein raver1 regulates alpha-tropomyosin alternative splicing.
Gromak N, Rideau A, Southby J, Scadden AD, Gooding C, Huttelmaier S, Singer RH, Smith CW.
EMBO J 22(23):6356-6364 (2003 December 1). PMCID: PMC291850
RNA asymmetric distribution and daughter/mother differentiation in yeast.
Darzacq X, Powrie E, Gu W, Singer RH, Zenklusen D.
Curr Opin Microbiol 6(6):1-7 (2003 December). PMCID: PMC4956921
Localization of a ß-Actin Messenger Ribonucleoprotein Complex with Zipcode-Binding Protein Modulates the Density of Dendritic Filopodia and Filopodial Synapses.
Eom T, Antar LN, Singer RH, Bassell GJ.
J Neurosci 23(32):10433-10444 (2003 November 12).
RNA Localization and Signal Transduction.
Latham V, Singer RH.
In Handbook of Cell Signalling, eds Bradshaw RA, Dennis EA, 3:293-297. Academic Press (2003 November 7).
RNA localization: visualization in real-time.
Singer RH.
Curr Biol 13(17):R673-R675 (2003 September 2).
Role of the parafusin orthologue, PRP1, in microneme exocytosis and cell invasion in Toxoplasma gondii.
Matthiesen SH, Shenoy SM, Kim K, Singer RH, Satir BH.
Cell Microbiol 5(9):613-624 (2003 September).
Active transport of the survival motor neuron protein and the role of exon-7 in cytoplasmic localization.
Zhang HL, Pan F, Hong D, Shenoy SM, Singer RH, Bassell GJ.
J Neurosci 23(16):6627-6637 (2003 July 23).
Fluorescence in situ hybridization: past, present and future.
Levsky JM, Singer RH.
J Cell Sci 116(14):2833-2838 (2003 July 15).
Asymmetric Distribution of Nuclear Pore Complexes and the Cytoplasmic Localization of ß2-Tubulin mRNA in Chlamydomonas reinhardtii.
Colón-Ramos DA, Salisbury JL, Sanders MA, Shenoy SM, Singer RH, Garciá-Blanco MA.
Dev Cell 4(6):941-952 (2003 June).
Activity-Dependent Trafficking and Dynamic Localization of Zipcode Binding Protein 1 and beta-Actin mRNA in Dendrites and Spines of Hippocampal Neurons.
Tiruchinapalli DM, Oleynikov Y, Kelic S, Shenoy SM, Hartley A, Stanton PK, Singer RH, Bassell GJ.
J Neurosci 23(8):3251-3261 (2003 April 15).
Visualization of single molecules of mRNA in situ.
Femino AM, Fogarty K, Lifshitz LM, Carrington W, Singer RH.
Methods Enzymol 361:245-304 (2003).
Real-time visualization of ZBP1 association with beta-actin mRNA during transcription and localization.
Oleynikov Y, Singer RH.
Curr Biol 13(3):199-207 (2003 February 4). PMCID: PMC4765734
Single mRNA molecules demonstrate probabilistic movement in living mammalian cells.
Fusco D, Accornero N, Lavoie B, Shenoy SM, Blanchard JM, Singer RH, Bertrand E.
Curr Biol 13(2):161-167 (2003 January 21). PMCID: PMC4764064
Two ZBP1 KH domains facilitate beta-actin mRNA localization, granule formation, and cytoskeletal attachment.
Farina KL, Huttelmaier S, Musunuru K, Darnell R, Singer RH.
J Cell Biol 160(1):77-87 (2003 January 6). PMCID: PMC2172732
Gene expression and the myth of the average cell.
Levsky JM, Singer RH.
Trends Cell Biol 13(1):4-6 (2003 January).
Asymmetric sorting of ash1p in yeast results from inhibition of translation by localization elements in the mRNA.
Chartrand P, Meng XH, Huttelmaier S, Donato D, Singer RH.
Mol Cell 10(6):1319-1330 (2002 December).
Single cell behavior in metastatic primary mammary tumors correlated with gene expression patterns revealed by molecular profiling.
Wang W, Wyckoff JB, Frohlich VC, Oleynikov Y, Huttelmaier S, Zavadil J, Cermak L, Bottinger EP, Singer RH, White JG, Segall JE, Condeelis JS.
Cancer Res 62(21):6278-6288 (2002 November 1).
Novel detection and differential utilization of a c-myc transcriptional block in colon cancer chemoprevention.
Wilson AJ, Velcich A, Arango D, Kurland AR, Shenoy SM, Pezo RC, Levsky JM, Singer RH, Augenlicht LH.
Cancer Res 62(21):6006-6010 (2002 November 1).
The nuclear connection in RNA transport and localization.
Farina KL, Singer RH.
Trends Cell Biol 12(10):466-472 (2002 October).
An active precursor in assembly of yeast nuclear ribonuclease P.
Srisawat C, Houser-Scott F, Bertrand E, Xiao S, Singer RH, Engelke DR.
RNA 8(10):1348-1360 (2002 October). PMCID: PMC1370342
Single-cell gene expression profiling.
Levsky JM, Shenoy SM, Pezo RC, Singer RH.
Science 297(5582):836-840 (2002 August 2).
Interactions of elongation factor 1alpha with F-actin and beta-actin mRNA: implications for anchoring mRNA in cell protrusions.
Liu G, Grant WM, Persky D, Latham VM Jr, Singer RH, Condeelis J.
Mol Biol Cell 13(2):579-592 (2002 February). PMCID: PMC65651
A predominantly nuclear protein affecting cytoplasmic localization of beta-actin mRNA in fibroblasts and neurons.
Gu W, Pan F, Zhang H, Bassell GJ, Singer RH.
J Cell Biol 156(1):41-51 (2002 January 7). PMCID: PMC2173579
A parafusin-related Toxoplasma protein in Ca2+-regulated secretory organelles.
Matthiesen SH, Shenoy SM, Kim K, Singer RH, Satir BH.
Eur J Cell Biol 80(12):775-783 (2001 December).
Raver1, a dual compartment protein, is a ligand for PTB/hnRNPI and microfilament attachment proteins.
Huttlemaier S, Illenberger S, Grosheva I, Rudiger M, Singer RH, Jockusch BM.
J Cell Biol 155(5):775-86 (2001 November 26). PMCID: PMC2150882
Neurotrophin-induced transport of a beta-actin mRNP complex increases beta-actin levels and stimulates growth cone motility.
Zhang HL, Eom T, Oleynikov Y, Shenoy SM, Liebelt DA, Dictenberg JB, Singer RH, Bassell GJ.
Neuron 31(2):261-275 (2001 August 2).
A Rho-dependent signaling pathway operating through myosin localizes beta-actin mRNA in fibroblasts.
Latham VM, Yu EH, Tullio AN, Adelstein RS, Singer RH.
Curr Biol 11(13):1010-1016 (2001 July 10).
RNP localization and transport in yeast.
Chartrand P, Singer RH, Long RM.
Annu Rev Cell Dev Biol 17:297-310 (2001).
The physiological significance of beta -actin mRNA localization in determining cell polarity and directional motility.
Shestakova EA, Singer RH, Condeelis J.
Proc Natl Acad Sci U S A 98(13):7045-7050 (2001 June 19). PMCID: PMC34620
Terminal minihelix: A novel RNA motif that directs polymerase III transcripts to the cell cytoplasm.
Gwizdek C, Bertrand E, Dargemont C, Lefebvre JC, Blanchard JM, Singer RH, Doglio A.
J Biol Chem 276(28):25910-25918 (2001 July 13).
An exclusively nuclear RNA-binding protein affects asymmetric localization of ASH1 mRNA and Ash1p in yeast.
Long RM, Gu W, Meng X, Gonsalvez G, Singer RH, Chartrand P.
J Cell Biol 153(2):307-318 (2001 April 16). PMCID: PMC2169461
Neuronal RNA localization and the cytoskeleton.
Bassell GJ, Singer RH.
Results Probl Cell Differ 34:41-56 (2001).
Determination of Transgenic Loci by Expression FISH.
Fan Y, Braut SA, Lin Q, Singer RH, Skoultchi AI.
Genomics 71(1):66-69 (2001 January 1).
The odyssey of a regulated transcript.
Vilardell J, Chartrand P, Singer RH, Warner JR.
RNA 6(12):1773-1780 (2000 December). PMCID: PMC1370047
She2p is a novel RNA-binding protein that recruits the Myo4p-She3p complex to ASH1 mRNA.
Long RM, Gu W, Lorimer E, Singer RH, Chartrand P.
EMBO J 19(23):6592-6601 (2000 December 1). PMCID: PMC305871
A CBF5 mutation that disrupts nucleolar localization of early tRNA biosynthesis in yeast also suppresses tRNA gene-mediated transcriptional silencing.
Kendall A, Hull MW, Bertrand E, Good PD, Singer RH, Engelke DR.
Proc Natl Acad Sci U S A 97(24):13108-13113 (2000 November 21). PMCID: PMC27186
Sensitive and high-resolution detection of RNA in situ.
Chartrand P, Bertrand E, Singer RH, Long RM.
Methods Enzymol 318:493-506 (2000 June 16).
Trypanosoma cruzi infection affects actin mRNA regulation in heart muscle cells.
Pereira MC, Singer RH, de Meirelles MN.
J Eukaryot Microbiol 47(3):271-279 (2000 May-June).
Ultrastructural distribution of poly (A)+ RNA during Trypanosoma cruzi-cardiomyocyte interaction in vitro: a quantitative analysis of the total mRNA content by in situ hybridization.
Pereira MC, Singer RH, de Meirelles MN.
J Eukaryot Microbiol 47(3):264-270 (2000 May-June).
Trypanosoma cruzi-cardiomyocytes: new contributions regarding a better understanding of this interaction.
Meirelles MN, Pereira MC, Singer RH, Soeiro MN, Garzoni LR, Silva DT, Barbosa HS, Araujo-Jorge TC, Masuda MO, Capella MA, Lopes AG, Vermelho AB.
Mem Inst Oswaldo Cruz 94:149-152 (1999).
Neurotrophin Regulation of beta-Actin mRNA and Protein Localization within Growth Cones.
Zhang H, Singer RH, Bassell GJ.
J Cell Biol 147(1):59-70 (1999 October 4). PMCID: PMC2164987
In Situ Reverse Transcription for Detection of Hybridization between Oligonucleotides and Their Intracellular Targets.
Politz JC, Singer RH.
Methods 18(3):281-285 (1999 July).
A small nucleolar RNA:ribozyme hybrid cleaves a nucleolar RNA target in vivo with near-perfect efficiency.
Samarsky DA, Ferbeyre G, Bertrand E, Singer RH, Cedergren R, Fournier MJ.
Proc Natl Acad Sci U S A 96(12):6609-14 (1999 June 8). PMCID: PMC21962
Short Dysfunctional Telomeres Impair Tumorigenesis in the INK4(∆2/3) Cancer-Prone Mouse.
Greenberg RA, Chin L, Femino A, Lee KH, Gottlieb GJ, Singer RH, Greider CW, DePinho RA.
Cell 97(4):515-525 (1999 May 14).
Correlation of ß-Actin Messenger RNA Localization with Metastatic Potential in Rat Adenocarcinoma Cell Lines.
Shestakova EA, Wyckoff J, Jones J, Singer RH, Condeelis J.
Cancer Res 59(6):1202-1205 (1999 March 15).
Structural elements required for the localization of ASH1 mRNA and of a green fluorescent protein reporter particle in vivo.
Chartrand P, Meng X, Singer RH, Long RM.
Curr Biol 9(6):333-338 (1999 March 15).
Movement of nuclear poly(A) RNA throughout the interchromatin space in living cells.
Politz JC, Tuft RA, Pederson T, Singer RH.
Curr Biol 9(6):285-291 (1999 March 5).
The travels of mRNAs through all cells large and small.
Bassell GJ, Oleynikov Y, Singer RH.
FASEB J 13(3):447-454 (1999 March).
Comment in FASEB J. 1999 Mar;13(3):419-20.
3'-End modification of the adenoviral VA1 gene affects its expression in human cells: consequences for the design of chimeric VA1 RNA ribozymes.
Barcellini-Couget S, Fenard D, Bertrand E, Singer RH, Lefebvre JC, Doglio A.
Antisense Nucleic Acid Drug Dev 8(5):379-90 (1998 October).
Localization of ASH1 mRNA Particles in Living Yeast.
Bertrand E, Chartrand P, Schaefer M, Shenoy SM, Singer RH, Long RM.
Mol Cell 2(4):437-445 (1998 October).
RNA localization: different zipcodes, same postman?
Oleynikov Y, Singer RH.
Trends Cell Biol 8(10):381-383 (1998 October).
Nucleolar localization of early tRNA processing.
Bertrand E, Houser-Scott F, Kendall A, Singer RH, Engelke DR.
Genes Dev 12(16):2463-2468 (1998 August 15). PMCID: PMC317091
The snoRNA box C/D motif directs nucleolar targeting and also couples snoRNA synthesis and localization.
Samarsky DA, Fournier MJ, Singer RH, Bertrand E.
EMBO J 17(13):3747-3757 (1998 July 1). PMCID: PMC1170710
Triplet-repeat transcripts: A role for RNA in disease.
Singer RH.
Science 280(5364):696-697 (1998 May 1).
Visualization of Single RNA Transcripts in Situ.
Femino AM, Fay FS, Fogarty K, Singer RH.
Science 280(5363):585-590 (1998 April 24).
Integrin binding and mechanical tension induce movement of mRNA and ribosomes to focal adhesions.
Chicurel ME, Singer RH, Meyer CJ, Ingber DE.
Nature 392(6677):730-733 (1998 April 16).
Sorting of beta-actin mRNA and protein to neurites and growth cones in culture.
Bassell GJ, Zhang H, Byrd AL, Femino AM, Singer RH, Taneja KL, Lifshitz LM, Herman IM, Kosik KS.
J Neurosci 18(1):251-265 (1998 January 1).
In Situ Hybridization to RNA.
Singer RH.
In Cells: A Laboratory Manual, eds Spector DL, Goldman RD, Leinwand LA, 3:116.111-116.116. Cold Spring Harbor Laboratory Press (1997 December 1).
Compartmentalization of eukaryotic gene expression: causes and effects.
Singer RH, Green MR.
Cell 91(3):291-294 (1997 October 31).
Mating Type Switching in Yeast Controlled by Asymmetric Localization of ASH1 mRNA.
Long RM, Singer RH, Meng X, Gonzalez I, Nasmyth K, Jansen RP.
Science 277(5324):383-387 (1997 July 18).
Expansion of a CUG trinucleotide repeat in the 3' untranslated region of myotonic dystrophy protein kinase transcripts results in nuclear retention of transcripts.
Davis BM, McCurrach ME, Taneja KL, Singer RH, Housman DE.
Proc Natl Acad Sci U S A 94(14):7388-7393 (1997 July 8). PMCID: PMC23831
Nuclear domains of the RNA subunit of RNase P.
Jacobson MR, Cao LG, Taneja K, Singer RH, Wang YL, Pederson T.
J Cell Sci 110(7):829-837 (1997 April).
Characterization of a beta-actin mRNA zipcode-binding protein.
Ross AF, Oleynikov Y, Kislauskis EH, Taneja KL, Singer RH.
Mol Cell Biol 17(4):2158-2165 (1997 April). PMCID: PMC232064
beta-Actin messenger RNA localization and protein synthesis augment cell motility.
Kislauskis EH, Zhu X, Singer RH.
J Cell Biol 136(6):1263-1270 (1997 March 24). PMCID: PMC2132521
The intracellular RNA sorting system: Postal zones, zip codes, mail bags and mail boxes.
Steward O, Singer RH.
In mRNA Metabolism & Post-Transcriptional Gene Regulation, eds Harford J, Morris D. Wiley-Liss (1997 March).
Quantitative digital analysis of diffuse and concentrated nuclear distributions of nascent transcripts, SC35 and poly(A).
Fay FS, Taneja KL, Shenoy S, Lifshitz L, Singer RH.
Exp Cell Res 231(1):27-37 (1997 February 25).
mRNA and cytoskeletal filaments.
Bassell G, Singer RH.
Curr Opin Cell Biol 9(1):109-115 (1997 February).
RNA: traffic report.
Singer RH.
Trends Cell Biol 6(12):486-489 (1996 December).
Human immunodeficiency virus detection in lymph nodes by image analysis of in situ hybridization: basis of a diagnostic test for cadaveric donors.
Mathijs JM, Shenoy SM, Singer RH.
Transplant Proc 28(5):2945-2949 (1996 October).
Triplet repeats and human disease.
Singer RH.
Mol Med Today 2(2):65-69 (1996 February).
Characterization of hybridization between synthetic oligodeoxynucleotides and RNA in living cells.
Politz JC, Taneja KL, Singer RH.
Nucleic Acids Res 23(24):4946-4953 (1995 December 25). PMCID: PMC307498
Spatial consequences of defective processing of specific yeast mRNAs revealed by fluorescent in situ hybridization.
Long RM, Elliott DJ, Stutz F, Rosbash M, Singer RH.
RNA 1(10):1071-1078 (1995 December). PMCID: PMC1369333
Foci of trinucleotide repeat transcripts in nuclei of myotonic dystrophy cells and tissues.
Taneja KL, McCurrach M, Schalling M, Housman D, Singer RH.
J Cell Biol 128(6):995-1002 (1995 March). PMCID: PMC2120416
The mechanism of mRNA localization: its effect on cell polarity.
Kislauskis EH, Ross A, Latham VM, Zhu X-C, Bassell GJ, Taneja KL, Singer RH.
In Localized RNAs, ed Lipshitz H. Springer-Verlag Telos (1995 January).
Localization of pre-mRNA splicing in mammalian nuclei.
Zhang G, Taneja KL, Singer RH, Green MR.
Nature 372(6508):809-812 (1994 December 22).
Comment in Nature. 1994 Dec 22-29;372(6508):727-8.
Sequences responsible for intracellular localization of beta-actin messenger RNA also affect cell phenotype.
Kislauskis EH, Zhu X, Singer RH.
J Cell Biol 127(2):441-451 (1994 October). PMCID: PMC2120214
Comment in Nat Rev Mol Cell Biol. 2011 Dec;12(12):771.
Actin filaments and the spatial positioning of mRNAs.
Bassell GJ, Taneja KL, Kislauskis EH, Sundell CL, Powers CM, Ross A, Singer RH.
Adv Exp Med Biol 358:183-189 (1994 September).
Localization of HIV RNA in mitochondria of infected cells: potential role in cytopathogenicity.
Somasundaran M, Zapp ML, Beattie LK, Pang L, Byron KS, Bassell GJ, Sullivan JL, Singer RH.
J Cell Biol 126(6):1353-1360 (1994 September). PMCID: PMC2290946
Beta-actin mRNA localization is regulated by signal transduction mechanisms.
Latham VM Jr, Kislauskis EH, Singer RH, Ross AF.
J Cell Biol 126(5):1211-1219 (1994 September). PMCID: PMC2120163
Single mRNAs visualized by ultrastructural in situ hybridization are principally localized at actin filament intersections in fibroblasts.
Bassell GJ, Powers CM, Taneja KL, Singer RH.
J Cell Biol 126(4):863-876 (1994 August). PMCID: PMC2120111
Association of poly(A) mRNA with microtubules in cultured neurons.
Bassell GJ, Singer RH, Kosik KS.
Neuron 12(3):571-582 (1994 March).
RNA travel: tracks from DNA to cytoplasm.
Rosbash M, Singer RH.
Cell 75(3):399-401 (1993 November 5).
RNA zipcodes for cytoplasmic addresses.
Singer RH.
Curr Biol 3(10):719-721 (1993).
Isoform-specific 3'-untranslated sequences sort alpha-cardiac and beta-cytoplasmic actin messenger RNAs to different cytoplasmic compartments.
Kislauskis EH, Li Z, Singer RH, Taneja KL.
J Cell Biol 123(1):165-172 (1993 October). PMCID: PMC2119818
Spatial organization of mRNA within cells.
Singer RH.
J Cell Biochem 52(2):125-126 (1993 June).
Gene expression at single cell resolution associated with development of the bone cell phenotype: ultrastructural and in situ hybridization analysis.
Pockwinse SM, Lawrence JB, Singer RH, Stein JL, Lian JB, Stein GS.
Bone 14(3):347-352 (1993 May).
Determinants of mRNA localization.
Kislauskis EH, Singer RH.
Curr Opin Cell Biol 4(6):975-978 (1992 December).
Poly(A) RNA codistribution with microfilaments: evaluation by in situ hybridization and quantitative digital imaging microscopy.
Taneja KL, Lifshitz LM, Fay FS, Singer RH.
J Cell Biol 119(5):1245-1260 (1992 December). PMCID: PMC2289709
Ultrastructural in situ hybridization using immunoglod.
Bassell G, Singer R.
In Immunoelectron microscopy in virus diagnosis and research, eds Hyatt AD, Eaton BT. CRC Press (1992 November 10).
The cytoskeleton and mRNA localization.
Singer RH.
Curr Opin Cell Biol 4(1):15-19 (1992 February).
Fluorescent detection of nuclear RNA and DNA: implications for genome organization.
Johnson CV, Singer RH, Lawrence JB.
Methods Cell Biol 35:73-99 (1991).
Requirement of microfilaments in sorting of actin messenger RNA.
Sundell CL, Singer RH.
Science 253(5025):1275-1277 (1991 Sep 13).
Localizing DNA and RNA within nuclei and chromosomes by fluorescence in situ hybridization.
McNeil JA, Johnson CV, Carter KC, Singer RH, Lawrence JB.
Genet Anal Tech Appl 8(2):41-58 (1991 April).
Spatial organization of nucleic acid sequences within cells.
Lawrence JB, Singer RH.
Semin Cell Biol 2(2):83-101 (1991 April).
Distribution of myosin heavy chain mRNA in embryonic muscle tissue visualized by ultrastructural in situ hybridization.
Pomeroy ME, Lawrence JB, Singer RH, Billings-Gagliardi S.
Dev Biol 143(1):58-67 (1991 January).
Actin mRNA localizes in the absence of protein synthesis.
Sundell CL, Singer RH.
J Cell Biol 111(6):2397-2403 (1990 December). PMCID: PMC2116407
Detection and localization of actin mRNA isoforms in chicken muscle cells by in situ hybridization using biotinated oligonucleotide probes.
Taneja KL, Singer RH.
J Cell Biochem 44(4):241-252 (1990 December).
Interphase and metaphase resolution of different distances within the human dystrophin gene.
Lawrence JB, Singer RH, McNeil JA.
Science 249(4971):928-932 (1990 August 24).
Subcellular localization of low-abundance human immunodeficiency virus nucleic acid sequences visualized by fluorescence in situ hybridization.
Lawrence JB, Marselle LM, Byron KS, Johnson CV, Sullivan JL, Singer RH.
Proc Natl Acad Sci U S A 87(14):5420-5424 (1990 July). PMCID: PMC54336
Detection of HIV in Clinical Specimens.
Singer R, Byron K, Lawrence JB, Sullivan JL, Yin S and Lederman L.
In Techniques in HIV Research, eds Aldovini A, Walker B. Oxford Univ Press (1990 May).
Diagnostic Applications of Non-Isotopic in situ Hybridization for HIV or EBV Nucleic Acids.
Singer R, Lawrence J, Bashir R, Byron K, Sullivan J.
In Modern Pathology of AIDS and Other Retroviral Infections, eds Racz P, Haase AT, Gluckman, JC, 29-41. S Karger Publishing (1990 March).
Progress Toward Ultrastructural Identification of Individual mRNAs in Thin Section: Myosin heavy-chain mRNA in Developing Myotubes.
Silva F, Lawrence JB, Singer RH.
In Techniques in Immunocytochemistry, eds Bullock GR, Petrusz P, 4:147-164. Academic Press (1989).
Human type II collagen gene (COL2A1) assigned to chromosome 12q13.1-q13.2 by in situ hybridization with biotinylated DNA probe.
Takahashi E, Hori T, Lawrence JB, McNeil J, Singer RH, O'Connell P, Leppert M, White R.
Jinrui Idengaku Zasshi (Jpn J Hum Genet) 34:307-311 (1989 December).
Detection of Epstein-Barr virus by in situ hybridization. Progress toward development of a nonisotopic diagnostic test.
Bashir R, Hochberg F, Singer RH.
Am J Pathol 135(6):1035-1044 (1989 December). PMCID: PMC1880496
Detection of HIV-1-infected cells from patients using nonisotopic in situ hybridization.
Singer RH, Byron KS, Lawrence JB, Sullivan JL.
Blood 74(6):2295-2301 (1989 November 1).
Detection of Epstein-Barr Virus in CNS Lymphomas by in situ Hybridization.
Bashir RM, Harris NL, Hochberg FH, Singer RH.
Neurology 39(6):813-817 (1989 June).
Ultrastructural visualization of cytoskeletal mRNAs and their associated proteins using double-label in situ hybridization.
Singer RH, Langevin GL, Lawrence JB.
J Cell Biol 108(6):2343-2353 (1989 June). PMCID: PMC2115600
Highly localized tracks of specific transcripts within interphase nuclei visualized by in situ hybridization.
Lawrence JB, Singer RH, Marselle LM.
Cell 57(3):493-502 (1989 May 5).
Temporal resolution and sequential expression of muscle-specific genes revealed by in situ hybridization.
Lawrence JB, Taneja K, Singer RH.
Dev Biol 133(1):235-246 (1989 May).
Strategies for ultrastructural visualization of biotinated probes hybridized to messenger RNA in situ.
Singer RH, Lawrence JB, Silva F, Langevin GL, Pomeroy M, Billings-Gagliardi S.
Curr Top Microbiol Immunol 143:55-69 (1989).
Sensitive, high-resolution chromatin and chromosome mapping in situ: presence and orientation of two closely integrated copies of EBV in a lymphoma line.
Lawrence JB, Villnave CA, Singer RH.
Cell 52(1):51-61 (1988 January 15).
Intracellular distribution of histone mRNAs in human fibroblasts studied by in situ hybridization.
Lawrence JB, Singer RH, Villnave CA, Stein JL, Stein GS.
Proc Natl Acad Sci U S A 85(2):463-467 (1988 January). PMCID: PMC279570
Double Labeling in situ Hybridization Using Non-Isotopic and Isotopic Detection.
Singer RH, Lawrence JB, Langevin GL, Rashtchian RN, Johnson CA, Cremer T, Tesin D, Manuelidis L, Ward DC.
Acta Histochem Cytochem 20:589-598 (1987).
Use of oligodeoxynucleotide probes for quantitative in situ hybridization to actin mRNA.
Taneja K, Singer RH.
Anal Biochem 166(2):389-398 (1987 November 1).
Amino acid sequences that determine the nuclear localization of yeast histone 2B.
Moreland RB, Langevin GL, Singer RH, Garcea RL, Hereford LM.
Mol Cell Biol 7(11):4048-4057 (1987 November). PMCID: PMC368075
Toward a Rapid and Sensitive in situ Hybridization Methodology Using Isotopic and Non-Isotopic Probes.
Singer RH, Lawrence JB, Rashtchian RN.
In In situ Hybridization: Application to the Central Nervous System, eds Valentino K, Eberwine J, Barchas J, 71-96. Oxford University Press: New York (1987).
Location of a polypeptide sequence within the alpha-subunit of the acetylcholine receptor containing the cholinergic binding site.
Oblas B, Singer RH, Boyd ND.
Mol Pharmacol 29(6):649-656 (1986 June).
Optimization of in situ Hybridization Using Isotopic and Non-Isotopic Detection Methods.
Singer RH, Lawrence JB, Villnave C.
BioTechniques 4(3):230-250 (1986 May/June).
Intracellular localization of messenger RNAs for cytoskeletal proteins.
Lawrence JB, Singer RH.
Cell 45(3):407-415 (1986 May 9).
Quantitative analysis of in situ hybridization methods for the detection of actin gene expression.
Lawrence JB, Singer RH.
Nucleic Acids Res 13(5):1777-1799 (1985 March 11). PMCID: PMC341111
Filament-directed intercellular contacts during differentiation of cultured chick myoblasts.
Singer RH, Pudney JA.
Tissue Cell 16(1):17-29 (1984).
Analysis of receptor-ligand interactions using nitrocellulose gel transfer: application to Torpedo acetylcholine receptor and alpha-bungarotoxin.
Oblas B, Boyd ND, Singer RH.
Anal Biochem 130(1):1-8 (1983 April 1).
Actin gene expression visualized in chicken muscle tissue culture by using in situ hybridization with a biotinated nucleotide analog.
Singer RH, Ward DC.
Proc Natl Acad Sci U S A 79(23):7331-7335 (1982 December). PMCID: PMC347333
Increased turnover of proteins from the sarcoplasmic reticulum of dystrophic chicken muscle cells in tissue culture.
Ettienne EM, Swartz K, Singer RH.
J Biol Chem 256(12):6408-6412 (1981 June 25).
Sea urchin tube feet: unique structures that allow a cytological and molecular approach to the study of actin and its gene expression.
Kabat-Zinn J, Singer RH.
J Cell Biol 89(1):109-114 (1981 April). PMCID: PMC2111775
Intracellular filament bundles in whole mounts of chick and human myoblasts extracted with triton X-100.
Pudney J, Singer RH.
Tissue Cell 12(4):595-612 (1980).
Nerve Growth Factor Production by Muscle Cells.
Murphy R, Singer RH, Pantazis N, Saide J, Arnason B and Young M.
In Muscle Regeneration, ed Mauro A, 443. Raven Press: New York (1979).
Electron microscopic visualization of the filamentous reticulum in whole cultured presumptive chick myoblasts.
Pudney J, Singer RH.
Am J Anat 156(3):321-336 (1979 November).
Ca2+ binding, ATP-dependent Ca2+ transport, and total tissue Ca2+ in embryonic and adult avian dystrophic pectoralis.
Ettienne EM, Singer RH.
J Membr Biol 44(3-4):195-210 (1978 December 29).
The capacity of polyadenylated RNA from myogenic cells treated with actinomycin D to direct protein synthesis in a cell-free system.
Kessler-Icekson G, Singer RH, Yaffe D.
Eur J Biochem 88(2):403-410 (1978 August 1).
Stability of polyadenylated RNA in differentiating myogenic cells.
Singer RH, Kessler-Icekson G.
Eur J Biochem 88(2):395-402 (1978 August 1).
Actin-containing microprocesses in the fusion of cultured chick myoblasts.
Huang HL, Singer RH, Lazarides E.
Muscle Nerve 1(3):219-229 (1978 May).
Aberrant 35S Methionine Incorporation and Calcium Uptake into Dystrophic Pectoralis, Cardiac and Brain Membrane Vesicles.
Ettienne E, Singer R.
In Calcium Binding Proteins and Calcium Function: Proceedings of the International Symposium on Calcium-Binding Proteins and Calcium Function in Health and Disease, June 5-9, 1977, eds Wasserman RH, et al, 491-495. Elsevier North-Holland (1977).
Synthesis and secretion of a high molecular weight form of nerve growth factor by skeletal muscle cells in culture.
Murphy RA, Singer RH, Saide JD, Pantazis NJ, Blanchard MH, Byron KS, Arnason BG, Young M.
Proc Natl Acad Sci U S A 74(10):4496-4500 (1977 October). PMCID: PMC431970
Methods with insect cells in suspension culture. I. Aedes albopictus.
Spradling A, Singer RH, Lengyel J, Penman S.
Methods Cell Biol 10:185-194 (1975).
The Relation of Protein Synthesis Regulation and mRNA Metabolism.
Penman S, Goldstein E, Reichman M, Singer RH.
Karolinska Symposium 6:168 (1973).
The relation of protein synthesis regulation and RNA metabolism.
Penman S, Goldstein E, Reichman M, Singer R.
Acta Endocrinol Suppl (Copenh) 180:168-191 (1973).
Messenger RNA in HeLa cells: kinetics of formation and decay.
Singer RH, Penman S.
J Mol Biol 78(2):321-334 (1973 August 5).
Stability of HeLa cell mRNA in actinomycin.
Singer RH, Penman S.
Nature 240(5376):100-102 (1972 November 10).
Transcription and Translation in Mammalian Cells.
Penman S, Price R, Perlman S, Singer RH.
Proc Aust Biochem Soc 5:262 (1972).
Analysis of limb morphogenesis in a model system.
Singer RH.
Dev Biol 28(1):113-122 (1972 May).
The Photodynamic Action of Light on Hydra.
Singer RH, Rushforth N, Burnett A.
J Exp Zool 154(2):169-173 (1963).