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2017

Quantitative analysis of multilayer organization of proteins and RNA in nuclear speckles at super resolution

Fei, J., Jadaliha, M., Harmon, T. S., Li, I. T. S., Hua, B., Hao, Q., Holehouse, A. S., Reyer, M., Sun, Q., Freier, S. M., Pappu, R. V., Prasanth, K. V. & Ha, T., Dec 1 2017, In : Journal of cell science. 130, 24, p. 4180-4192 13 p.

Research output: Contribution to journalArticle

Site-specific regulation of histone H1 phosphorylation in pluripotent cell differentiation

Liao, R. & Mizzen, C. A., May 22 2017, In : Epigenetics and Chromatin. 10, 1, 29.

Research output: Contribution to journalArticle

Super-resolution imaging of synaptic and extra-synaptic AMPA receptors with Different-Sized fluorescent probes

Lee, S. H., Jin, C., Cai, E., Ge, P., Ishitsuka, Y., Teng, K. W., De Thomaz, A. A., Nall, D., Baday, M., Jeyifous, O., Demonte, D., Dundas, C. M., Park, S., Delgado, J. Y., Green, W. N. & Selvin, P. R., Jul 27 2017, In : eLife. 6, e27744.

Research output: Contribution to journalArticle

Temporal association of ORCA/LRWD1 to late-firing origins during G1 dictates heterochromatin replication and organization

Wang, Y., Khan, A., Marks, A. B., Smith, O. K., Giri, S., Lin, Y. C., Creager, R., MacAlpine, D. M., Prasanth, K. V., Aladjem, M. I. & Prasanth, S. G., Mar 17 2017, In : Nucleic acids research. 45, 5, p. 2490-2502 13 p.

Research output: Contribution to journalArticle

Temporal dynamics of neurogenomic plasticity in response to social interactions in male threespined sticklebacks

Bukhari, S. A., Saul, M. C., Seward, C. H., Zhang, H., Bensky, M., James, N., Zhao, S. D., Chandrasekaran, S., Stubbs, L. & Bell, A. M., Jul 2017, In : PLoS genetics. 13, 7, e1006840.

Research output: Contribution to journalArticle

The Drosophila Duox maturation factor is a key component of a positive feedback loop that sustains regeneration signaling

Khan, S. J., Abidi, S. N. F., Skinner, A., Tian, Y. & Smith-Bolton, R. K., Jul 2017, In : PLoS genetics. 13, 7, e1006937.

Research output: Contribution to journalArticle

The maternal-zygotic transition and zygotic activation of the Mnemiopsis leidyi genome occurs within the first three cleavage cycles

Davidson, P. L., Koch, B. J., Schnitzler, C. E., Henry, J. Q., Martindale, M. Q., Baxevanis, A. D. & Browne, W. E., Nov 2017, In : Molecular reproduction and development. 84, 11, p. 1218-1229 12 p.

Research output: Contribution to journalArticle

Transcriptional regulatory dynamics drive coordinated metabolic and neural response to social challenge in mice

Saul, M. C., Seward, C. H., Troy, J. M., Zhang, H., Sloofman, L. G., Lu, X., Weisner, P. A., Caetano-Anolles, D., Sun, H., Zhao, S. D., Chandrasekaran, S., Sinha, S. & Stubbs, L., Jun 2017, In : Genome Research. 27, 6, p. 959-972 14 p.

Research output: Contribution to journalArticle

α7β1 integrin regulation of gene transcription in skeletal muscle following an acute bout of eccentric exercise

Mahmassani, Z. S., Son, K., Pincu, Y., Munroe, M., Drnevich, J., Chen, J. & Boppart, M. D., May 11 2017, In : American Journal of Physiology - Cell Physiology. 312, 5, p. 638-650 13 p.

Research output: Contribution to journalArticle

2016

A rapid, gentle and scalable method for dissociation and fluorescent sorting of imaginal disc cells for mRNA sequencing

Khan, S. J., Abidi, S. N. F., Tian, Y., Skinner, A. & Smith-Bolton, R. K., Apr 2 2016, In : Fly. 10, 2, p. 73-80 8 p.

Research output: Contribution to journalArticle

A Unique Class of Neural Progenitors in the Drosophila Optic Lobe Generates Both Migrating Neurons and Glia

Chen, Z., Del Valle Rodriguez, A., Li, X., Erclik, T., Fernandes, V. M. & Desplan, C., Apr 26 2016, In : Cell Reports. 15, 4, p. 774-786 13 p.

Research output: Contribution to journalArticle

Collapsin response mediator protein-1 regulates Arp2/3-dependent actin assembly

Yu-Kemp, H. C. & Brieher, W. M., Jan 8 2016, In : Journal of Biological Chemistry. 291, 2, p. 658-664 7 p.

Research output: Contribution to journalArticle

Cytology of DNA Replication Reveals Dynamic Plasticity of Large-Scale Chromatin Fibers

Deng, X., Zhironkina, O. A., Cherepanynets, V. D., Strelkova, O. S., Kireev, I. I. & Belmont, A. S., Sep 26 2016, In : Current Biology. 26, 18, p. 2527-2534 8 p.

Research output: Contribution to journalArticle

Functional and prognostic significance of long non-coding RNA MALAT1 as a metastasis driver in ER negative lymph node negative breast cancer

Jadaliha, M., Zong, X., Malakar, P., Ray, T., Singh, D. K., Freier, S. M., Jensen, T., Prasanth, S. G., Karni, R., Ray, P. S. & Prasanth, K. V., Jan 1 2016, In : Oncotarget. 7, 26, p. 40418-40436 19 p.

Research output: Contribution to journalArticle

Hsp90 and p23 Molecular Chaperones Control Chromatin Architecture by Maintaining the Functional Pool of the RSC Chromatin Remodeler

Echtenkamp, F. J., Gvozdenov, Z., Adkins, N. L., Zhang, Y., Lynch-Day, M., Watanabe, S., Peterson, C. L. & Freeman, B. C., Dec 1 2016, In : Molecular cell. 64, 5, p. 888-899 12 p.

Research output: Contribution to journalArticle

Interphase H1 phosphorylation: Regulation and functions in chromatin

Liao, R. & Mizzen, C. A., Mar 1 2016, In : Biochimica et Biophysica Acta - Gene Regulatory Mechanisms. 1859, 3, p. 476-485 10 p.

Research output: Contribution to journalArticle

Labeling proteins inside living cells using external fluorophores for microscopy

Teng, K. W., Ishitsuka, Y., Ren, P., Youn, Y., Deng, X., Ge, P., Belmont, A. S. & Selvin, P. R., Dec 9 2016, In : eLife. 5, DECEMBER2016, e20378.

Research output: Contribution to journalArticle

Lens regeneration from the cornea requires suppression of Wnt/β-catenin signaling

Hamilton, P. W., Sun, Y. & Henry, J. J., Apr 1 2016, In : Experimental Eye Research. 145, p. 206-215 10 p.

Research output: Contribution to journalArticle

Leucyl-tRNA Synthetase Activates Vps34 in Amino Acid-Sensing mTORC1 Signaling

Yoon, M. S., Son, K., Arauz, E., Han, J. M., Kim, S. & Chen, J., Aug 9 2016, In : Cell Reports. 16, 6, p. 1510-1517 8 p.

Research output: Contribution to journalArticle

Long non-coding RNA malat-1 is dispensable during pressure overload-induced cardiac remodeling and failure in mice

Peters, T., Hermans-Beijnsberger, S., Beqqali, A., Bitsch, N., Nakagawa, S., Prasanth, K. V., De Windt, L. J., Van Oort, R. J., Heymans, S. & Schroen, B., Feb 2016, In : PloS one. 11, 2, e0150236.

Research output: Contribution to journalArticle

Melatonin signal transduction pathways require E-Box-Mediated transcription of Per1 and Per2 to reset the SCN clock at dusk

Kandalepas, P. C., Mitchell, J. W. & Gillette, M. U. G., Jun 2016, In : PloS one. 11, 6, e0157824.

Research output: Contribution to journalArticle

Multidentate Polymer Coatings for Compact and Homogeneous Quantum Dots with Efficient Bioconjugation

Ma, L., Tu, C., Le, P., Chitoor, S., Lim, S. J., Zahid, M. U., Teng, K. W., Ge, P., Selvin, P. R. & Smith, A. M., Mar 16 2016, In : Journal of the American Chemical Society. 138, 10, p. 3382-3394 13 p.

Research output: Contribution to journalArticle

Natural antisense RNA promotes 3′ end processing and maturation of MALAT1 lncRNA

Zong, X., Nakagawa, S., Freier, S. M., Fei, J., Ha, T., Prasanth, S. G. & Prasanth, K. V., Jan 29 2016, In : Nucleic acids research. 44, 6, p. 2898-2908 11 p.

Research output: Contribution to journalArticle

Orc5 induces large-scale chromatin decondensation in a GCN5-dependent manner

Giri, S., Chakraborty, A., Sathyan, K. M., Prasanth, K. V. & Prasanth, S. G., 2016, In : Journal of cell science. 129, 2, p. 417-429 13 p.

Research output: Contribution to journalArticle

Paraspeckles modulate the intranuclear distribution of paraspeckle-associated Ctn RNA

Anantharaman, A., Jadaliha, M., Tripathi, V., Nakagawa, S., Hirose, T., Jantsch, M. F., Prasanth, S. G. & Prasanth, K. V., Sep 26 2016, In : Scientific reports. 6, 34043.

Research output: Contribution to journalArticle

Phase correlation imaging of unlabeled cell dynamics

Ma, L., Rajshekhar, G., Wang, R., Bhaduri, B., Sridharan, S., Mir, M., Chakraborty, A., Iyer, R., Prasanth, S., Millet, L., Gillette, M. U. & Popescu, G., Sep 12 2016, In : Scientific reports. 6, 32702.

Research output: Contribution to journalArticle

Regulation and integrated functions of the actin cytoskeleton

Charras, G. & Brieher, W. M., Mar 15 2016, In : Molecular biology of the cell. 27, 6, p. 881 1 p.

Research output: Contribution to journalArticle

Single-Molecule Analysis of Lipid-Protein Interactions in Crude Cell Lysates

Arauz, E., Aggarwal, V., Jain, A., Ha, T. & Chen, J., May 3 2016, In : Analytical chemistry. 88, 8, p. 4269-4276 8 p.

Research output: Contribution to journalArticle

Tbx18 regulates the differentiation of periductal smooth muscle stroma and the maintenance of epithelial integrity in the prostate

Bolt, C. C., Negi, S., Guimarães-Camboa, N., Zhang, H., Troy, J. M., Lu, X., Kispert, A., Evans, S. M. & Stubbs, L., Apr 2016, In : PloS one. 11, 4, e0154413.

Research output: Contribution to journalArticle

The lens regenerative competency of limbal vs. central regions of mature Xenopus cornea epithelium

Hamilton, P. W. & Henry, J. J., Nov 1 2016, In : Experimental Eye Research. 152, p. 94-99 6 p.

Research output: Contribution to journalArticle

Transcription upregulation via force-induced direct stretching of chromatin

Tajik, A., Zhang, Y., Wei, F., Sun, J., Jia, Q., Zhou, W., Singh, R., Khanna, N., Belmont, A. S. & Wang, N., Dec 1 2016, In : Nature Materials. 15, 12, p. 1287-1296 10 p.

Research output: Contribution to journalArticle

ZSCAN5B and primate-specific paralogs bind RNA polymerase III genes and extra-TFIIIC (ETC) sites to modulate mitotic progression

Sun, Y., Zhang, H., Kazemian, M., Troy, J. M., Seward, C., Lu, X. & Stubbs, L., 2016, In : Oncotarget. 7, 45, p. 72571-72592 22 p.

Research output: Contribution to journalArticle

2015

A dietary phytochemical alters caste-associated gene expression in honey bees

Mao, W., Schuler, M. A. & Berenbaum, M. R., Aug 2015, In : Science Advances. 1, 7, e1500795.

Research output: Contribution to journalArticle

Association of ORCA/LRWD1 with repressive histone methyl transferases mediates heterochromatin organization

Giri, S. & Prasanth, S. G., Jan 1 2015, In : Nucleus. 6, 6, p. 435-441 7 p.

Research output: Contribution to journalArticle

BEND3 mediates transcriptional repression and heterochromatin organization

Khan, A. & Prasanth, S. G., Oct 20 2015, In : Transcription. 6, 5, p. 102-105 4 p.

Research output: Contribution to journalArticle

BEND3 represses rDNA transcription by stabilizing a NoRC component via USP21 deubiquitinase

Khan, A., Giri, S., Wang, Y., Chakraborty, A., Ghosh, A. K., Anantharaman, A., Aggarwal, V., Sathyan, K. M., Ha, T., Prasanth, K. V. & Prasanth, S. G., Jul 7 2015, In : Proceedings of the National Academy of Sciences of the United States of America. 112, 27, p. 8338-8343 6 p.

Research output: Contribution to journalArticle

Contribution of clinically derived mutations in ERG11 to azole resistance in Candida albicans

Flowers, S. A., Colón, B., Whaley, S. G., Schuler, M. A. & David Rogers, P., Jan 1 2015, In : Antimicrobial Agents and Chemotherapy. 59, 1, p. 450-460 11 p.

Research output: Contribution to journalArticle

CRISPR/Cas9-mediated genome modification in the mollusc, Crepidula fornicata

Perry, K. J. & Henry, J. Q., Feb 1 2015, In : Genesis. 53, 2, p. 237-244 8 p.

Research output: Contribution to journalArticle

Deployment of regulatory genes during gastrulation and germ layer specification in a model spiralian mollusc Crepidula

Perry, K. J., Lyons, D. C., Truchado-Garcia, M., Fischer, A. H. L., Helfrich, L. W., Johansson, K. B., Diamond, J. C., Grande, C. & Henry, J. Q., Oct 1 2015, In : Developmental Dynamics. 244, 10, p. 1215-1248 34 p.

Research output: Contribution to journalArticle

Glacier moraine formation-mimicking colloidal particle assembly in microchanneled, bioactive hydrogel for guided vascular network construction

Lee, M. K., Rich, M. H., Shkumatov, A., Jeong, J. H., Boppart, M. D., Bashir, R., Gillette, M. U., Lee, J. & Kong, H., Jan 1 2015, In : Advanced Healthcare Materials. 4, 2, p. 195-201 7 p.

Research output: Contribution to journalArticle

Growth differentiation factor-15 encodes a novel microRNA 3189 that functions as a potent regulator of cell death

Jones, M. F., Ling Li, X., Subramanian, M., Shabalina, S. A., Hara, T., Zhu, Y., Huang, J., Yang, Y., Wakefield, L. M., Prasanth, K. V. & Lal, A., Oct 9 2015, In : Cell Death and Differentiation. 22, 10, p. 1641-1653 13 p.

Research output: Contribution to journalArticle

Knockdown of nuclear-retained long noncoding RNAs using modified DNA antisense oligonucleotides

Zong, X., Huang, L., Tripathi, V., Peralta, R., Freier, S. M., Guo, S. & Prasanth, K. V., 2015, In : Methods in Molecular Biology. 1262, p. 321-331 11 p.

Research output: Contribution to journalArticle

Lysine deacetylases regulate the heat shock response including the age-associated impairment of HSF1

Zelin, E. & Freeman, B. C., Apr 10 2015, In : Journal of Molecular Biology. 427, 7, p. 1644-1654 11 p.

Research output: Contribution to journalArticle

MSX2 mediates entry of human pluripotent stem cells into mesendoderm by simultaneously suppressing SOX2 and activating NODAL signaling

Wu, Q., Zhang, L., Su, P., Lei, X., Liu, X., Wang, H., Lu, L., Bai, Y., Xiong, T., Li, D., Zhu, Z., Duan, E., Jiang, E., Feng, S., Han, M., Xu, Y., Wang, F. & Zhou, J., Dec 1 2015, In : Cell Research. 25, 12, p. 1314-1332 19 p.

Research output: Contribution to journalArticle

Orc1 binding to mitotic chromosomes precedes spatial patterning during G1 phase and assembly of the origin recognition complex in human cells

Kara, N., Hossain, M., Prasanth, S. G. & Stillman, B., May 8 2015, In : Journal of Biological Chemistry. 290, 19, p. 12355-12369 15 p.

Research output: Contribution to journalArticle

Overcoming steric hindrances during replication of peripheral heterochromatin

Zhironkina, O. A., Kurchashova, S. Y., Brattseva, A. L., Cherepaninets, V. D., Strelkova, O. S., Belmont, A. S. & Kireev, I. I., Mar 1 2015, In : Cell and Tissue Biology. 9, 2, p. 110-118 9 p.

Research output: Contribution to journalArticle

Rapid mitogenic regulation of the mTORC1 Inhibitor, DEPTOR, by phosphatidic acid

Yoon, M. S., Rosenberger, C. L., Wu, C., Truong, N., Sweedler, J. V. & Chen, J., May 7 2015, In : Molecular cell. 58, 3, p. 549-556 8 p.

Research output: Contribution to journalArticle

Roles of progesterone receptor A and B isoforms during human endometrial decidualization

Kaya, H. S., Hantak, A. M., Stubbs, L. J., Taylor, R. N., Bagchi, I. C. & Bagchi, M. K., Jun 1 2015, In : Molecular Endocrinology. 29, 6, p. 882-895 14 p.

Research output: Contribution to journalArticle

Synaptopodin couples epithelial contractility to α-actinin-4-dependent junction maturation

Kannan, N. & Tang, V. W., Oct 26 2015, In : Journal of Cell Biology. 211, 2, p. 407-434 28 p.

Research output: Contribution to journalArticle