Items where Year is 2005

Paper

Allemand, E., Guil, S., Myers, M., Moscat, J., Caceres, J. F., Krainer, A. R. (March 2005) Regulation of heterogenous nuclear ribonucleoprotein A1 transport by phosphorylation in cells stressed by osmotic shock. Proc Natl Acad Sci U S A, 102 (10). pp. 3605-10. ISSN 0027-8424 (Print)

Andersen, J. N., Del Vecchio, R. L., Kannan, N., Gergel, J., Neuwald, A. F., Tonks, N.K. (January 2005) Computational analysis of protein tyrosine phosphatases: practical guide to bioinformatics and data resources. Methods, 35 (1). pp. 90-114. ISSN 1046-2023 (Print)

Antonescu, C. R., Besmer, P., Guo, T., Arkun, K., Hom, G., Koryotowski, B., Leversha, M. A., Jeffrey, P. D., Desantis, D., Singer, S., Brennan, M. F., Maki, R. G., DeMatteo, R. P. (June 2005) Acquired resistance to imatinib in gastrointestinal stromal tumor occurs through secondary gene mutation. Clin Cancer Res, 11 (11). pp. 4182-90. ISSN 1078-0432 (Print)1078-0432 (Linking)

Bajaj, S., Mohanty, A. (May 2005) Recent advances in rice biotechnology-towards genetically superior transgenic rice. Plant Biotechnology Journal, 3 (3). pp. 275-307. ISSN 1467-7644

Bakker, B. L. G., DeWitt, M. A., Ji, C. R., Mishchenko, Y. (October 2005) Restoring the equivalence between the light-front and manifestly covariant formalisms. Physical Review D, 72 (7). ISSN 1550-7998

Barberis, D., Casazza, A., Sordella, R., Corso, S., Artigiani, S., Settleman, J., Comoglio, P. M., Tamagnone, L. (October 2005) p190 Rho-GTPase activating protein associates with plexins and it is required for semaphorin signalling. Journal of Cell Science, 118 (Pt 20). pp. 4689-700. ISSN 0021-9533

Barria, A., Malinow, R. (October 2005) NMDA receptor subunit composition controls synaptic plasticity by regulating binding to CaMKII. Neuron, 48 (2). pp. 289-301. ISSN 0896-6273 (Print)

Bedell, J. A., Budiman, M. A., Nunberg, A., Citek, R. W., Robbins, D., Jones, J., Flick, E., Rohlfing, T., Fries, J., Bradford, K., McMenamy, J., Smith, M., Holeman, H., Roe, B. A., Wiley, G., Korf, I. F., Rabinowicz, P. D., Lakey, N., McCombie, W. R., Jeddeloh, J. A., Martienssen, R. A. (January 2005) Sorghum genome sequencing by methylation filtration. PLoS Biology, 3 (1). e13. ISSN 1544-9173

Bejerano, G., Siepel, A. C., Kent, W. J., Haussler, D. (July 2005) Computational screening of conserved genomic DNA in search of functional noncoding elements. Nat Methods, 2 (7). pp. 535-45. ISSN 1548-7091 (Print)1548-7091

Bell, D. W., Gore, I., Okimoto, R. A., Godin-Heymann, N., Sordella, R., Mulloy, R., Sharma, S. V., Brannigan, B. W., Mohapatra, G., Settleman, J., Haber, D. A. (December 2005) Inherited susceptibility to lung cancer may be associated with the T790M drug resistance mutation in EGFR. Nature Genetics, 37 (12). pp. 1315-6. ISSN 1061-4036

Benezra, R., Henke, E., Ciarrocchi, A., Ruzinova, M., Solit, D., Rosen, N., Nolan, Daniel, Mittal, V., De Candia, P. (2005) Induction of complete regressions of oncogene-induced breast tumors in mice. Cold Spring Harbor Symposia on Quantitative Biology, 70 (1). pp. 375-381. ISSN 00917451 (ISSN)

Bernstein, Bradley E., Kamal, Michael, Lindblad-Toh, Kerstin, Bekiranov, Stefan, Bailey, Dione K., Huebert, Dana J., McMahon, Scott, Karlsson, Elinor K., Kulbokas Iii, Edward J., Gingeras, Thomas R., Schreiber, Stuart L., Lander, Eric S. (2005) Genomic Maps and Comparative Analysis of Histone Modifications in Human and Mouse. Cell, 120 (2). pp. 169-181. ISSN 0092-8674

Boehm, J., Malinow, R. (December 2005) AMPA receptor phosphorylation during synaptic plasticity. Biochem Soc Trans, 33 (Pt 6). pp. 1354-6. ISSN 0300-5127 (Print)

Bokil, H., Pesaran, B., Andersen, R. A., Mitra, P. P. (2005) A framework for detection and classification of events in neural activity. arXiv.

Bolduc, F. V., Shevell, M. I. (November 2005) Corrected head circumference centiles as a possible predictor of developmental performance in high-risk neonatal intensive care unit survivors. Dev Med Child Neurol, 47 (11). pp. 766-70. ISSN 0012-1622 (Print)

Bommert, P., Lunde, C., Nardmann, J., Vollbrecht, E., Running, M., Jackson, D. P., Hake, S., Werr, W. (March 2005) Thick tassel dwarf1 encodes a putative maize ortholog of the Arabidopsis CLAVATA1 leucine-rich repeat receptor-like kinase. Development, 132 (6). pp. 1235-1245. ISSN 0950-1991

Bommert, P., Satoh-Nagasawa, N., Jackson, D. P., Hirano, H.Y. (January 2005) Genetics and evolution of inflorescence and flower development in grasses. Plant Cell Physiol, 46 (1). pp. 69-78. ISSN 0032-0781 (Print)

Brenner, E. D., Katari, M. S., Stevenson, D. W., Rudd, S. A., Douglas, A. W., Moss, W. N., Twigg, R. W., Runko, S. J., Stellari, G. M., McCombie, W. R., Coruzzi, G. M. (October 2005) EST analysis in Ginkgo biloba: an assessment of conserved developmental regulators and gymnosperm specific genes. BMC Genomics, 6. p. 143. ISSN 1471-2164

Buell, C. R., McCombie, W. R., Wing, R. A., Yuan, Q., Ouyang, S., Liu, J., Zhu, W., Wang, A., Maiti, R., Haas, B., Wortman, J., Pertea, M., Jones, K. M., Kim, M., Overton, L., Tsitrin, T., Fadrosh, D., Bera, J., Weaver, J., Jin, S., Johri, S., Reardon, M., Webb, K., Hill, J., Moffat, K., Tallon, L., Van Aken, S., Lewis, M., Utterback, T., Feldblyum, T., Zismann, V., Iobst, S., Hsiao, J., De Vazeille, A. R., Salzberg, S. L., White, O., Fraser, C., Yu, Y., Kim, H., Rambo, T., Currie, J., Collura, K., Kernodle-Thompson, S., Wei, F., Kudrna, D., Ammiraju, J. S. S., Luo, M., Goicoechea, J. L., Henry, D., Oates, R., Palmer, M., Pries, G., Saski, C., Simmons, J., Soderlund, C., Nelson, W., De La Bastide, M., Spiegel, L., Nascimento, L., Huang, E., Preston, R., Zutavern, T., Palmer, L., O'Haughnessy, A., Dike, S., Minx, P., Cordum, H., Wilson, R., Jin, W., Lee, H. R., Jiang, J., Jackson, S. (2005) Sequence, annotation, and analysis of synteny between rice chromosome 3 and diverged grass species. The Rice Chromosome 3 Sequencing Consortium. Genome Research, 15 (9). pp. 1284-1291. ISSN 10889051 (ISSN)

Carninci, P., Kasukawa, T., Katayama, S., Gough, J., Frith, M. C., Maeda, N., Oyama, R., Ravasi, T., Lenhard, B., Wells, C., Kodzius, R., Shimokawa, K., Bajic, V. B., Brenner, S. E., Batalov, S., Forrest, A. R. R., Zavolan, M., Davis, M. J., Wilming, L. G., Aidinis, V., Allen, J. E., Ambesi-Impiombato, A., Apweiler, R., Aturaliya, R. N., Bailey, T. L., Bansal, M., Baxter, L., Beisel, K. W., Bersano, T., Bono, H., Chalk, A. M., Chiu, K. P., Choudhary, V., Christoffels, A., Clutterbuck, D. R., Crowe, M. L., Dalla, E., Dalrymple, B. P., de Bono, B., della Gatta, G., di Bernardo, D., Down, T., Engstrom, P., Fagiolini, M., Faulkner, G., Fletcher, C. F., Fukushima, T., Furuno, M., Futaki, S., Gariboldi, M., Georgii-Hemming, P., Gingeras, T. R., Gojobori, T., Green, R. E., Gustincich, S., Harbers, M., Hayashi, Y., Hensch, T. K., Hirokawa, N., Hill, D., Huminiecki, L., Iacono, M., Ikeo, K., Iwama, A., Ishikawa, T., Jakt, M., Kanapin, A., Katoh, M., Kawasawa, Y., Kelso, J., Kitamura, H., Kitano, H., Kollias, G., Krishnan, S. P. T., Kruger, A. F., Kummerfeld, S. K., Kurochkin, I. V., Lareau, L. F., Lazarevic, D., Lipovich, L., Liu, J., Liuni, S., McWilliam, S., Madan Babu, M., Madera, M., Marchionni, L., Matsuda, H., Matsuzawa, S., Miki, H., Mignone, F., Miyake, S., Morris, K., Mottagui-Tabar, S., Mulder, N., Nakano, N., Nakauchi, H., Ng, P., Nilsson, R., Nishiguchi, S., Nishikawa, S. (2005) The transcriptional landscape of the mammalian genome. Science, 309 (5740). pp. 1559-1563. ISSN 10959203 (ISSN)

Chan, H. M., Narita, M., Lowe, S. W., Livingstone, D. M. (January 2005) The p400 E1A-associated protein is a novel component of the p53 -> p21 senescence pathway. Genes Dev, 19 (2). pp. 196-201. ISSN 0890-9369

Charvin, G., Strick, T. R., Bensimon, D., Croquette, V. (2005) Tracking topoisomerase activity at the single-molecule level. Annual Review of Biophysics and Biomolecular Structure, 34. pp. 201-219. ISSN 1056-8700

Chen, N., Harris, T. W., Antoshechkin, I., Bastiani, C., Bieri, T., Blasiar, D., Bradnam, K., Canaran, P., Chan, J., Chen, C.-K., Chen, W. J., Cunningham, F., Davis, P., Kenny, E., Kishore, Ra.., Lawson, D., Lee, R., Muller, H. M., Nakamura, Ce., Pai, S., Ozersky, P., Petcherski, A., Rogers, An., Sabo, A., Schwarz, Er. M., Van Auken, K., Wang, Q., Durbin, R., Spieth, J., Sternberg, P. W., Stein, L. D. (January 2005) WormBase: a comprehensive data resource for Caenorhabditis biology and genomics. Nucleic Acids Res, 33 (Databa). D383-9. ISSN 1362-4962 (Electronic)

Chen, N., Pai, S., Zhao, Z., Mah, A., Newbury, R., Johnsen, R. C., Altun, Z., Moerman, D. G., Baillie, D. L., Stein, L. D. (January 2005) Identification of a nematode chemosensory gene family. Proc Natl Acad Sci U S A, 102 (1). pp. 146-51. ISSN 0027-8424 (Print)

Chen, Z., Trotman, L. C., Shaffer, D., Lin, H. K., Dotan, Z. A., Niki, M., Koutcher, J. A., Scher, H. I., Ludwig, T., Gerald, W., Cordon-Cardo, C., Pandolfi, P. P. (August 2005) Crucial role of p53-dependent cellular senescence in suppression of Pten-deficient tumorigenesis. Nature, 436 (7051). pp. 725-30. ISSN 1476-4687 (Electronic)0028-0836 (Linking)

Cheng, J., Kapranov, P., Drenkow, J., Dike, S., Brubaker, S., Patel, S., Long, J., Stern, D., Tammana, H., Helt, G., Sementchenko, V., Piccolboni, A., Bekiranov, S., Bailey, D. K., Ganesh, M., Ghosh, S., Bell, I., Gerhard, D. S., Gingeras, T. R. (2005) Transcriptional maps of 10 human chromosomes at 5-nucleotide resolution. Science, 308 (5725). pp. 1149-1154. ISSN 00368075 (ISSN) (Public Dataset)

Choisne, N., Demange, N., Orjeda, G., Samain, S., D'Hont, A., Cattolico, L., Pelletier, E., Couloux, A., Segurens, B., Wincker, P., Scarpelli, C., Weissenbach, J., Salanoubat, M., Quetier, F., Singh, N. K., Mohapatra, T., Sharma, T. R., Gaikwad, K., Singh, A., Dalal, V., Srivastava, S. K., Dixit, A., Pal, A. K., Ghazi, I. A., Yadav, M., Pandit, A., Bhargava, A., Sureshbabu, K., Dixit, R., Singh, H., Swain, S. C., Pal, S., Ragiba, M., Singh, P. K., Singhal, V., Mendiratta, S. D., Batra, K., Raghuvanshi, S., Mohanty, A., Bharti, A. K., Gaur, A., Gupta, V., Kumar, D., Vydianathan, R., Vij, S., Kapur, A., Khurana, P., Sharma, S., Khurana, J. P., Tyagi, A. K., Yuan, Q. P., Ouyang, S., Liu, J., Zhu, W., Wang, A. H., Lin, H. N., Hamilton, J., Haas, B., Wortman, J., Jones, K. M., Kim, M., Overton, L., Tsitrin, T., Fadrosh, D., Bera, J., Weaver, B., Jin, S. H., Johri, S., Reardon, M., Vuong, H., Tallon, L., Van Aken, S., Lewis, M., Utterback, T., Feldblyum, T., Zismann, V., Iobst, S., Hsiao, J., de Vazeille, A. R., Salzberg, S. L., White, O., Fraser, C., Buell, C. R., Yu, Y., Rambo, T., Currie, J., Collura, K., Kim, H. R., Stum, D., Wang, W. M., Kudrna, D., Mueller, C., Wing, R. A., Kramer, M., Spiegel, L., Nascimento, L., Preston, R., Zutavern, T., Palmer, L., O'Shaughnessy, A., McCombie, W. R. (September 2005) The sequence of rice chromosomes 11 and 12, rich in disease resistance genes and recent gene duplications. BMC Biology, 3. ISSN 1741-7007

Churchland, A. K., Lisberger, S. G. (2005) Discharge properties of MST neurons that project to the frontal pursuit area in macaque monkeys. Journal of Neurophysiology, 94 (2). pp. 1084-1090. ISSN 00223077 (ISSN)

Churchland, A. K., Lisberger, S. G. (October 2005) Relationship between extraretinal component of firing rate and eye speed in area MST of Macaque monkeys. Journal of Neurophysiology, 94 (4). pp. 2416-2426. ISSN 00223077 (ISSN)

Cline, H. T. (March 2005) Synaptogenesis: a balancing act between excitation and inhibition. Curr Biol, 15 (6). R203-5. ISSN 0960-9822 (Print)

Coghlan, A., Eichler, E. E., Oliver, S. G., Paterson, A. H., Stein, L. D. (December 2005) Chromosome evolution in eukaryotes: a multi-kingdom perspective. Trends in Genetics, 21 (12). pp. 673-682. ISSN 0168-9525

Cokol, M., Iossifov, I., Weinreb, C., Rzhetsky, A. (October 2005) Emergent behavior of growing knowledge about molecular interactions. Nat Biotechnol, 23 (10). pp. 1243-7. ISSN 1087-0156 (Print)1087-0156 (Linking)

Consugar, M. B., Anderson, S. A., Rossetti, S., Pankratz, S., Ward, C. J., Torra, R., Coto, E., El-Youssef, M., Kantarci, S., Utsch, B., Hildebrandt, F., Sweeney, W. E., Avner, E. D., Torres, V. E., Cunningham, J. M., Harris, P. C. (January 2005) Haplotype analysis improves molecular diagnostics of autosomal recessive polycystic kidney disease. American Journal of Kidney Diseases, 45 (1). pp. 77-87. ISSN 0272-6386

Coutinho, G., Xie, J. Y., Du, L. T., Brusco, A., Krainer, A. R., Gatti, R. A. (2005) Functional significance of deep intronic mutation in the ATM gene and evidence for an alternative Exon 28a. Human Mutation, 25 (2). pp. 118-124. ISSN 1059-7794

D'Adamo, D. R., Anderson, S. E., Albritton, K., Yamada, J., Riedel, E., Scheu, K., Schwartz, G. K., Chen, H., Maki, R. G. (October 2005) Phase II study of doxorubicin and bevacizumab for patients with metastatic soft-tissue sarcomas. J Clin Oncol, 23 (28). pp. 7135-42. ISSN 0732-183X (Print)0732-183X (Linking)

DeWeese, M. R., Hromádka, T., Zador, A. M. (November 2005) Reliability and representational bandwidth in the auditory cortex. Neuron, 48 (3). pp. 479-88. ISSN 0896-6273 (Print)

DeWeese, M. R., Zador, A. M. (October 2005) Neural gallops across auditory streams. Neuron, 48 (1). pp. 5-7. ISSN 0896-6273 (Print)

Del Vecchio, R. L., Tonks, N. K. (January 2005) The conserved immunoglobulin domain controls the subcellular localization of the homophilic adhesion receptor protein-tyrosine phosphatase mu. J Biol Chem, 280 (2). pp. 1603-12. ISSN 0021-9258 (Print)

Deregnaucourt, S., Mitra, P. P., Feher, O., Pytte, C., Tchernichovski, O. (February 2005) How sleep affects the developmental learning of bird song. Nature, 433 (7027). pp. 710-716. ISSN 0028-0836

Dickins, R. A., Hemann, M. T., Zilfou, J. T., Simpson, D. R., Ibarra, I., Hannon, G. J., Lowe, S. W. (November 2005) Probing tumor phenotypes using stable and regulated synthetic microRNA precursors. Nat Genet, 37 (11). pp. 1289-95. ISSN 1061-4036 (Print)

Dore, L. C., Vakoc, C. R., Blobel, G. A., Hardison, R. C., Bodine, D. M., Gallagher, P. G., Weiss, M. J. (November 2005) Genomic organization, chromatin structure, and transcriptional regulation of the murine Alpha Hemoglobin Stabilizing Protein (AHSP) gene. Blood, 106 (11). 1012A-1012A. ISSN 0006-4971

Duelli, D. M., Hearn, S., Myers, M. P., Lazebnik, Y. (November 2005) A primate virus generates transformed human cells by fusion. J Cell Biol, 171 (3). pp. 493-503. ISSN 0021-9525 (Print)

Dunn, E. F., Hammell, C. M., Hodge, C. A., Cole, C. N. (2005) Yeast poly(A)-binding protein, Pab1, and PAN, a poly(A) nuclease complex recruited by Pab1, connect mRNA biogenesis to export. Genes and Development, 19 (1). pp. 90-103. ISSN 08909369 (ISSN)

Egeblad, M., Littlepage, L. E., Werb, Z. (2005) The fibroblastic coconspirator in cancer progression. Cold Spring Harbor Symposia on Quantitative Biology, 70. pp. 383-388. ISSN 00917451 (ISSN)

Egger, V., Svoboda, K., Mainen, Z. F. (April 2005) Dendrodendritic synaptic signals in olfactory bulb granule cells: local spine boost and global low-threshold spike. J Neurosci, 25 (14). pp. 3521-30. ISSN 1529-2401 (Electronic)

Eilbeck, K., Lewis, S. E., Mungall, C. J., Yandell, M., Stein, L. D., Durbin, R., Ashburner, M. (2005) The Sequence Ontology: a tool for the unification of genome annotations. Genome Biology, 6 (5). R44. ISSN 1465-6914

Elgin, S. C. R., Haynes, K., Brower-Toland, B., Gracheva, E., Hannon, G. J., Caudy, A. A. (March 2005) RNAi-dependent assembly of heterochromatin in Drosophila. Faseb Journal, 19 (5). A1720-A1720. ISSN 0892-6638

Elledge, S. J., Hannon, G. J. (October 2005) An open letter to cancer researchers. Science, 310 (5747). 439-+. ISSN 0036-8075

Encinas, J. M., Manganas, L., Enikolopov, G. N. (May 2005) Nitric oxide and multiple sclerosis. Curr Neurol Neurosci Rep, 5 (3). pp. 232-8. ISSN 1528-4042 (Print)

Ende, G., Hubrich, P., Walter, S., Weber-Fahr, W., Kammerer, N., Braus, D. F., Henn, F. A. (April 2005) Further evidence for altered cerebellar neuronal integrity in schizophrenia. Am J Psychiatry, 162 (4). pp. 790-2. ISSN 0002-953X (Print)0002-953X (Linking)

Enikolopov, G. N., Hoffman, R., Li, L. N., Maletic-Savatic, M., Manganas, L. N., Mignone, J. L., Roig, J. L., Schones, D. E., Zhang, M. Q. (March 2005) Neural potential of stem cells in the hair follicle. Faseb Journal, 19 (4). A765-A765. ISSN 0892-6638

Esmon, C. A., Pedmale, U. V., Liscum, E. (2005) Plant tropisms: providing the power of movement to a sessile organism. Int J Dev Biol, 49 (5-6). pp. 665-74. ISSN 0214-6282 (Print)0214-6282

Fang, Y., Spector, D. L. (December 2005) Centromere positioning and dynamics in living Arabidopsis plants. Mol Biol Cell, 16 (12). pp. 5710-8. ISSN 1059-1524 (Print)

Felsen, G., Dan, Y. (December 2005) A natural approach to studying vision. Nat Neurosci, 8 (12). pp. 1643-6. ISSN 1097-6256 (Print)

Fernandez, Y., Verhaegen, M., Miller, T. P., Rush, J. L., Steiner, P., Opipari, A. W., Lowe, S. W., Soengas, M. S. (July 2005) Differential regulation of noxa in normal Melanocytes and melanoma cells by proteasome inhibition: Therapeutic implications. Cancer Research, 65 (14). pp. 6294-6304. ISSN 0008-5472

Finnberg, N., Gruber, J. J., Fei, P. W., Rudolph, D., Bric, A., Kim, S. H., Burns, T. F., Ajuha, H., Page, R., Wu, G. S., Chen, Y. H., McKenna, W. G., Bernhard, E., Lowe, S., Mak, T., El-Deiry, W. S. (March 2005) DR5 knockout mice are compromised in radiation-induced apoptosis. Molecular and Cellular Biology, 25 (5). pp. 2000-2013. ISSN 0270-7306

Foa, L., Jensen, K., Rajan, I., Bronson, Ki., Gasperini, Ro., Worley, P. F., Tu, J. C., Cline, H. T. (2005) Homer expression in the Xenopus tadpole nervous system. J Comp Neurol, 487 (1). pp. 42-53. ISSN 0021-9967 (Print)

Forstemann, K., Tomari, Y., Du, T. T., Vagin, V. V., Denli, A. M., Bratu, D. P., Klattenhoff, C., Theurkauf, W. E., Zamore, P. D. (July 2005) Normal microRNA maturation and germ-line stem cell maintenance requires loquacious, a double-stranded RNA- binding domain protein. Plos Biology, 3 (7). pp. 1187-1201. ISSN 1544-9173

Fouts, D. E., Mongodin, E. F., Mandrell, R. E., Miller, W. G., Rasko, D. A., Ravel, J., Brinkac, L. M., Deboy, R. T., Parker, C. T., Daugherty, S. C., Dodson, R. J., Scott Durkin, A., Madupu, R., Sullivan, S. A., Shetty, J. U., Ayodeji, M. A., Shvartsbeyn, A., Schatz, M. C., Badger, J. H., Fraser, C. M., Nelson, K. E. (2005) Major structural differences and novel potential virulence mechanisms from the genomes of multiple campylobacter species. PLoS Biology, 3 (1). ISSN 15449173 (ISSN)

Furukawa, H., Singh, S. K., Mancusso, R., Gouaux, E. (November 2005) Subunit arrangement and function in NMDA receptors. Nature, 438 (7065). pp. 185-192. ISSN 0028-08361476-4687 (Electronic)1476-4687 (Linking) (Public Dataset)

Fury, M. G., Antonescu, C. R., Van Zee, K. J., Brennan, M. F., Maki, R. G. (May 2005) A 14-year retrospective review of angiosarcoma: clinical characteristics, prognostic factors, and treatment outcomes with surgery and chemotherapy. Cancer J, 11 (3). pp. 241-7. ISSN 1528-9117 (Print)1528-9117 (Linking)

Galic, S., Hauser, C., Kahn, B. B., Haj, F. G., Neel, B. G., Tonks, N. K., Tiganis, T. (January 2005) Coordinated regulation of insulin signaling by the protein tyrosine phosphatases PTP1B and TCPTP. Molecular and Cellular Biology, 25 (2). pp. 819-829. ISSN 0270-7306

Galteland, E., Sivertsen, E. A., Svendsrud, D. H., Smedshammer, L., Kresse, S. H., Meza-Zepeda, L. A., Myklebost, O., Suo, Z., Mu, D., DeAngelis, P. M., Stokke, T. (December 2005) Translocation t(14;18) and gain of chromosome 18/BCL2: effects on BCL2 expression and apoptosis in B-cell non-Hodgkin's lymphomas. Leukemia, 19 (12). pp. 2313-2323. ISSN 0887-6924

Gao, M. Q., Li, G. Y., McCombie, W. R., Quiros, C. F. (September 2005) Comparative analysis of a transposon-rich Brassica oleracea BAC clone with its corresponding sequence in A-thaliana. Theoretical and Applied Genetics, 111 (5). pp. 949-955. ISSN 0040-5752

Garcia-Carbonero, R., Supko, J. G., Maki, R. G., Manola, J., Ryan, D. P., Harmon, D., Puchalski, T. A., Goss, G., Seiden, M. V., Waxman, A., Quigley, M. T., Lopez, T., Sancho, M. A., Jimeno, J., Guzman, C., Demetri, G. D. (August 2005) Ecteinascidin-743 (ET-743) for chemotherapy-naive patients with advanced soft tissue sarcomas: multicenter phase II and pharmacokinetic study. J Clin Oncol, 23 (24). pp. 5484-92. ISSN 0732-183X (Print)0732-183X (Linking)

Gendrel, A. V., Lippman, Z. , Martienssen, R., Colot, V. (March 2005) Profiling histone modification patterns in plants using genomic tiling microarrays. Nature Methods, 2 (3). pp. 213-218. ISSN 1548-7091

Gillis, J. A., Luk, W. P., Zhang, L., Skinner, F. K. (2005) Characterizing in vitro hippocampal ripples using time-frequency analysis. Neurocomputing, 65-66 (SPEC. ). pp. 357-364. ISSN 09252312 (ISSN)

Gillis, J. A., Luk, W. P., Zhang, L., Skinner, F. K. (2005) Decomposing rhythmic hippocampal data to obtain neuronal correlates. Journal of Neuroscience Methods, 147 (2). pp. 99-113. ISSN 01650270 (ISSN)

Gingeras, T. R., Higuchi, R., Kricka, L. J., Lo, Y. M. D., Wittwer, C. T. (2005) Fifty years of molecular (DNA/RNA) diagnostics. Clinical Chemistry, 51 (3). pp. 661-671. ISSN 00099147 (ISSN)

Gleiberman, A. S., Encinas, J. M., Mignone, J. L., Michurina, T., Rosenfeld, M. G., Enikolopov, G. (October 2005) Expression of nestin-green fluorescent protein transgene marks oval cells in the adult liver. Developmental Dynamics, 234 (2). pp. 413-421. ISSN 1058-8388

Gleiberman, A. S., Encinas, J. M., Roig, J. L., Michurina, T. V., Krasnov, P., Rosenfeld, M. G., Enikolopov, G. N. (July 2005) Stem cells for the anterior pituitary identified by nestin-GFP transgene expression. Developmental Biology, 283 (2). pp. 581-582. ISSN 0012-1606

Goldberg, E. M., Watanabe, S., Chang, S. Y., Joho, R. H., Huang, Z. J., Leonard, C. S., Rudy, B. (May 2005) Specific functions of synaptically localized potassium channels in synaptic transmission at the neocortical GABAergic fast-spiking cell synapse. Journal of Neuroscience, 25 (21). pp. 5230-5235. ISSN 0270-6474

Govek, E. E., Newey, S. E., Van Aelst, L. (January 2005) The role of the Rho GTPases in neuronal development. Genes Dev, 19 (1). pp. 1-49. ISSN 0890-9369 (Print)

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Vakoc, C. R., Mandat, S. A., Olenchock, B. A., Blobel, G. A. (2005) Histone H3 lysine 9 methylation and HP1γ are associated with transcription elongation through mammalian chromatin. Molecular Cell, 19 (3). pp. 381-391. ISSN 10972765 (ISSN)

Vakoc, C. R., Mandat, S. A., Olenschock, B. A., Blobel, G. A. (November 2005) Histone H3 lysine 9 methylation and HP1 gamma are associated with transcription elongation through mammalian chromatin. Blood, 106 (11). 493A-493A. ISSN 0006-4971

Varmus, H., Stillman, B. (December 2005) Support for the Human Cancer Genome Project. Science, 310 (5754). p. 1615. ISSN 0036-8075

Vaughn, M. W., Martienssen, R. (September 2005) It's a small RNA world, after all. Science, 309 (5740). pp. 1525-6. ISSN 1095-9203 (Electronic)

Vaughn, M. W., Martienssen, R. A. (March 2005) Finding the right template: RNA Pol IV, a plant-specific RNA polymerase. Mol Cell, 17 (6). pp. 754-6. ISSN 1097-2765 (Print)

Vaughn, M. W., Tanurdzic, M., Martienssen, R. (December 2005) Replication, repair, and reactivation. Dev Cell, 9 (6). pp. 724-5. ISSN 1534-5807 (Print)

Vengeliene, V., Vollmayr, B., Henn, F. A., Spanagel, R. (March 2005) Voluntary alcohol intake in two rat lines selectively bred for learned helpless and non-helpless behavior. Psychopharmacology (Berl), 178 (2-3). pp. 125-32. ISSN 0033-3158 (Print)0033-3158 (Linking)

Vengeliene, V., Vollmayr, B., Henn, F. A., Spanagel, R. (March 2005) Voluntary alcohol intake in two rat lines selectively bred for learned helpless and non-helpless behavior. Psychopharmacology (Berl), 178 (2-3). pp. 125-32. ISSN 0033-3158 (Print)0033-3158

Vollbrecht, E., Springer, P. S., Goh, L., Buckler, E. S. th, Martienssen, R. (August 2005) Architecture of floral branch systems in maize and related grasses. Nature, 436 (7054). pp. 1119-26. ISSN 1476-4687 (Electronic)

Wang, J., Smith, P. J., Krainer, A. R., Zhang, M. Q. (2005) Distribution of SR protein exonic splicing enhancer motifs in human protein-coding genes. Nucleic Acids Res, 33 (16). pp. 5053-62. ISSN 1362-4962 (Electronic)

Wang, Zihua, Wang, Baoshuang, Tang, Kun, Lee, Edmund JD, Chong, Samuel S, Lee, Caroline GL (July 2005) A functional polymorphism within the MRP1 gene locus identified through its genomic signature of positive selection. Human Molecular Genetics, 14 (14). pp. 2075-2087. ISSN 0964-6906

Warek, U., Bedell, J., Martienssen, R., Rabinowicz, P. (June 2005) Methylation filtration - A path to rapid gene discovery. Phytopathology, 95 (6). S109-S109. ISSN 0031-949X

Wehr, M., Zador, A. M. (August 2005) Synaptic mechanisms of forward suppression in rat auditory cortex. Neuron, 47 (3). pp. 437-45. ISSN 0896-6273 (Print)

Weimer, R. M., Richmond, J. E. (2005) Synaptic vesicle docking: a putative role for the Munc18/Sec1 protein family. Curr Top Dev Biol, 65. pp. 83-113. ISSN 0070-2153 (Print)

Wen, Q., Chklovskii, D. B. (December 2005) Segregation of the brain into gray and white matter: a design minimizing conduction delays. PLoS Comput Biol, 1 (7). e78. ISSN 1553-7358 (Electronic)

Westbrook, T. F., Martin, E. S., Schlabach, M. R., Leng, Y. M., Liang, A. C., Feng, B., Zhao, J. J., Roberts, T. M., Mandel, G., Hannon, G. J., DePinho, R. A., Chin, L., Elledge, S. J. (June 2005) A genetic screen for candidate tumor suppressors identifies REST. Cell, 121 (6). pp. 837-848. ISSN 0092-8674

Wing, R. A., Ammiraju, J. S. S., Luo, M. Z. X., Kim, H., Yu, Y. S., Kudrna, D., Goicoechea, J. L., Wang, W. M., Nelson, W., Rao, K., Brar, D., Mackill, D. J., Han, B., Soderlund, C., Stein, L., SanMiguel, P., Jackson, S. (September 2005) The Oryza Map Alignment Project: The golden path to unlocking the genetic potential of wild rice species. Plant Molecular Biology, 59 (1). pp. 53-62. ISSN 0167-4412

Witkowski, Jan (2005) Foreword. Microbial Forensics. xvii-xviii.

Wu, C., Asl, M. N., Gillis, J., Skinner, F. K., Zhang, L. (2005) An in vitro model of hippocampal sharp waves: Regional initiation and intracellular correlates. Journal of Neurophysiology, 94 (1). pp. 741-753. ISSN 00223077 (ISSN)

Wu, C., Luk, W. P., Gillis, J., Skinner, F., Zhang, L. (2005) Size does matter: Generation of intrinsic network rhythms in thick mouse hippocampal slices. Journal of Neurophysiology, 93 (4). pp. 2302-2317. ISSN 00223077 (ISSN)

Xia, S., Miyashita, T., Fu, T. F., Lin, W. Y., Wu, C. L., Pyzocha, L., Lin, I. R., Saitoe, M., Tully, T., Chiang, A. S. (April 2005) NMDA receptors mediate olfactory learning and memory in Drosophila. Curr Biol, 15 (7). pp. 603-15. ISSN 0960-9822 (Print)

Xuan, Z., Zhang, M. Q. (January 2005) From worm to human: bioinformatics approaches to identify FOXO target genes. Mech Ageing Dev, 126 (1). pp. 209-15. ISSN 0047-6374 (Print)

Xuan, Z. Y., Zhao, F., Wang, J., Chen, G., Zhang, M. Q. (2005) Genome-wide promoter extraction and analysis in human, mouse, and rat. Genome Biology, 6 (8). R72. ISSN 1465-6906

Yang, W., Jefferson, R. A., Huttner, E., Moore, J. M., Gagliano, W. B., Grossniklaus, U. (November 2005) An egg apparatus-specific enhancer of Arabidopsis, identified by enhancer detection. Plant Physiology, 139 (3). pp. 1421-1432. ISSN 0032-0889

Ying, H. Q., Chang, D. L. F., Zheng, H. W., McKeon, F., Xiao, Z. X. J. (July 2005) DNA-binding and transactivation activities are essential for TAp63 protein degradation. Molecular and Cellular Biology, 25 (14). pp. 6154-6164. ISSN 0270-7306

Yoon, Seungtai, Suh, Young Ju, Mendell, Nancy Role, Ye, Kenny Qian (December 2005) A Bayesian approach for applying Haseman-Elston methods. BMC Genetics, 6 Supp (SUPPL.). S39. ISSN 1471-2156

Zender, L., Spector, M. S., Xue, W., Flemming, P., Mu, D., Cordon-Cardo, C., Powers, S., Hannon, G. J., Lucito, R., Lowe, S. W. (October 2005) Representational oligonucleotide microarray (ROMA) identifies cIAP1/cIAP2 as candidate oncogenes in mouse and human hepatocarcinogenesis-validation of cIAP1 as a therapeutic target in liver cancer in a new mouse model of hepatocellular carcinoma. Hepatology, 42 (4). 244A-244A. ISSN 0270-9139

Zender, L., Xue, W., Cordon-Cardo, C., Hannon, G. J., Lucito, R., Powers, S., Flemming, P., Spector, M. S., Lowe, S. W. (2005) Generation and Analysis of Genetically Defined Liver Carcinomas Derived from Bipotential Liver Progenitors. Cold Spring Harb Symp Quant Biol, 70 (1). pp. 251-261. ISSN 1943-4456 (Electronic) 0091-7451 (Linking)

Zhang, M. Q. (July 2005) Using CorePromoter to find human core promoters. Curr Protoc Bioinformatics, Chapte. Unit 2.9. ISSN 1934-340X (Electronic)

Zhang, Y., Wolf-Yadlin, A., Ross, P. L., Pappin, D. J., Rush, J., Lauffenburger, D. A., White, F. M. (September 2005) Time-resolved mass spectrometry of tyrosine phosphorylation sites in the epidermal growth factor receptor signaling network reveals dynamic modules. Mol Cell Proteomics, 4 (9). pp. 1240-50. ISSN 1535-9476 (Print)1535-9476 (Linking)

Zhao, F., Xuan, Z., Liu, L., Zhang, M. Q. (January 2005) TRED: a Transcriptional Regulatory Element Database and a platform for in silico gene regulation studies. Nucleic Acids Res, 33 (Databa). D103-107. ISSN 1362-4962 (Electronic)

Zhao, Z. Y., Fang, L., Chen, N. S., Johnsen, R. C., Stein, L., Baillie, D. L. (November 2005) Distinct regulatory elements mediate similar expression patterns in the excretory cell of Caenorhabditis elegans. Journal of Biological Chemistry, 280 (46). pp. 38787-38794. ISSN 0021-9258

Zhu, X., Lin, C. R., Prefontaine, G. G., Tollkuhn, J., Rosenfeld, M. G. (June 2005) Genetic control of pituitary development and hypopituitarism. Curr Opin Genet Dev, 15 (3). pp. 332-40. ISSN 0959-437X (Print)0959-437X (Linking)

Zhu, Y., Pak, D., Qin, Y., McCormack, S. G., Kim, M. J., Baumgart, J. P., Velamoor, V., Auberson, Y. P., Osten, P., Van Aelst, L., Sheng, M., Zhu, J. J. (2005) Rap2-JNK removes synaptic AMPA receptors during depotentiation. Neuron, 46 (6). pp. 905-916. ISSN 08966273 (ISSN)

Zilfou, J. T., Spector, M. S., Lowe, S. W. (November 2005) Slugging it out: fine tuning the p53-PUMA death connection. Cell, 123 (4). pp. 545-8. ISSN 0092-8674 (Print)

Zink, M., Rapp, S., Gebicke-Haerter, P. J., Henn, F. A., Thome, J. (September 2005) Antidepressants differentially affect expression of complexin I and II RNA in rat hippocampus. Psychopharmacology (Berl), 181 (3). pp. 560-5. ISSN 0033-3158 (Print)0033-3158 (Linking)

de la Cruz, N., Bromberg, S., Pasko, D., Shimoyama, M., Twigger, S., Chen, J. L., Chen, C. F., Fan, C., Foote, C., Gopinath, G. R., Harris, G., Hughes, A., Ji, Y., Jin, W. H., Li, D. W., Mathis, J., Nenasheva, N., Nie, J., Nigam, R., Petri, V., Reilly, D., Wang, W. Y., Wu, W. H., Zuniga-Meyer, A., Zhao, L., Kwitek, A., Tonellato, P., Jacob, H. (January 2005) The Rat Genome Database (RGD): developments towards a phenome database. Nucleic Acids Research, 33. D485-D491. ISSN 0305-1048

van der Horst, E. H., Degenhardt, Y. Y., Strelow, A., Slavin, A., Chinn, L., Orf, J., Rong, M., Li, S., See, L. H., Nguyen, K. Q., Hoey, T., Wesche, H., Powers, S. (November 2005) Metastatic properties and genomic amplification of the tyrosine kinase gene ACK1. Proceedings of the National Academy of Sciences of the United States of America, 102 (44). pp. 15901-6. ISSN 0027-8424

Book Section

Chen, B., Trachtenberg, J.T., Holtmaat, A. J., Svoboda, K. (2005) Long-term, high-resolution imaging in the neocortex in vivo. In: Live cell imaging: a laboratory manual. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY, pp. 423-424. ISBN 0879696826

Furukawa, H, Hamada, T, Ishiguro, M, Hirota, H, Haga, T (2005) Determination of steric structure of muscarinic ligands bound to muscarinic receptors: approaches by TRNOE (transferred nuclear Overhauser effect). In: G protein-coupled receptors: structure, function, and ligand screening. CRC Press, pp. 261-281. ISBN 978-0-8493-2771-1

Jackson, D. P. (2005) Transcription Factor Movement Through Plasmadesmata. In: Plasmodesmata. Blackwell Publishing Ltd, pp. 113-134. ISBN 9780470988572

Pearlmutter, B. A., Asari, H., Zador, A. M. (2005) Neuronal predictions of sparse linear representations. In: 4th European Congress on Acoustics. Hirzel, L147-L152.

Prasanth, K. V. , Spector, D. L. (2005) The cell nucleus. In: Encyclopedia of life sciences. John Wiley & Sons, London ; New York. ISBN 0470016175

Rzhetsky, A., Iossifov, I., Koike, T., Krauthammer, M., Kra, P., Morris, M., Yu, H., Duboue, P. A., Weng, W., Wilbur, W. J., Hatzivassiloglou, V., Friedman, C. (2005) GeneWays: A System for Extracting, Analyzing, Visualizing, and Integrating Molecular Pathway Data. In: Databasing the Brain: From Data to Knowledge (Neuroinformatics). Wiley. ISBN 9780471309215

Siepel, Adam, Haussler, David (2005) Phylogenetic Hidden Markov Models. In: Statistical Methods in Molecular Evolution. Statistics for Biology and Health . Springer New York, pp. 325-351. ISBN 978-0-387-22333-9

Monograph

Stillman, Bruce (2005) Annual Report. Project Report. Cold Spring Harbor Laboratory, Cold Spring Harbor, NY.

Conference or Workshop Item

Maniar, H. D., Mitra, P. P. (2005) The concentration problem for vector fields. In: 5th International Conference on Bioelectromagnetism & Symposium on Noninvasive Functional Source Imaging, Minneapolis.

Menon, M., Schroeder, J. B., Riske, F. (August 2005) Evaluation of Depth Filtration for the Clarification of Perfusion Mammalian Cell Culture Harvest. In: ACS National Conference 229, San Diego, CA..

Mitra, P. P., Maniar, H. D. (2005) Local basis expansions for MEG Source Localization. In: 5th International Conference on Bioelectromagnetism & Symposium on Noninvasive Functional Source Imaging, Minneapolis.

Spruck, C. H., Smith, A. P. L., Reed, S. E., Sangfelt, O., Keck, J., Strohmaier, H., Mendez, J., Widschwendter, M., Stillman, B., Zetterberg, A., Reed, S. I. (2005) Deregulation of cyclin E and genomic instability. In: International Symposium on Hormonal Carcinogenesis IV, Valencia, Spain.

Stewart, D., Stillman, B. (2005) Molecular Approaches to Controlling Cancer. In: Cold Spring Harbor Symposia on Quantitative Biology LXX: Molecular Approaches to Controlling Cancer, Cold Spring Harbor.

Book

Witkowski, J. A., ed. (2005) The Inside Story: DNA to RNA to Protein. Cold Spring Harbor Laboratory Press. ISBN 978-087969750-1

Goldman, R. D., Spector, D. L. (2005) Live cell imaging : a laboratory manual. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, New York. ISBN 0879696834

Thesis

Chakraborty, S. (November 2005) Analysis and Modeling of Neural Connectivity in a Short Term Memory System. PhD thesis, Cold Spring Harbor Laboratory.

Ezhkova, E. (March 2005) Role of the Proteasome in Gene Control. PhD thesis, Cold Spring Harbor Laboratory.

Muratani, M. (April 2005) Regulation of Gene Expression by the Ubiquitin-Proteasome System. PhD thesis, Cold Spring Harbor Laboratory.

Song, J. J. (March 2005) STRUCTURAL AND BIOCHEMICAL STUDIES OF ARGONAUTE REVEAL THE SLICING MECHANISM OF RISC – RNAI EFFECTOR COMPLEX. PhD thesis, Cold Spring Harbor Laboratory.

Patent

Michael Wigler (2005) Complex combinatorial chemical libraries encoded with tags. United States Patent 6936477. .