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  1. 1.   Context-Dependent Function of Long Noncoding RNA PURPL in Transcriptome Regulation during p53 Activation
  2. Hartford, Corrine Corrina R; Shrestha, Roshan L; Pongor, Lorinc; Zhao,Yongmei; Chen, Xiongfong; Fromont,Caroline; Chaudhary, Ritu; Li, Xiao Ling; Pasterczyk, Katherine R; Kumar, Ravi; Muys, Bruna R; Tsitsipatis, Dimitrios; Chari,Raj; Gorospe, Myriam; Aladjem, Mirit I; Khan, Javed; Basrai, Munira A; Grammatikakis, Ioannis; Lal, Ashish
  3. Molecular and Cellular Biology. 2022, Nov 07; 42(12): e0028922.
  1. 2.   Correlating SHAPE signatures with three-dimensional RNA structures
  2. Bindewald, E.; Wendeler, M.; Legiewicz, M.; Bona, M. K.; Wang, Y.; Pritt, M. J.; Le Grice, S. F. J.; Shapiro, B. A.
  3. Rna-a Publication of the Rna Society. 2011, Sep; 17(9): 1688-1696.
  1. 3.   Architecture and secondary structure of an entire HIV-1 RNA genome
  2. Watts, J. M.; Dang, K. K.; Gorelick, R. J.; Leonard, C. W.; Bess, J. W.; Swanstrom, R.; Burch, C. L.; Weeks, K. M.
  3. Nature. 2009 460(7256): 711-U87.
  1. 4.   Bridging the gap in RNA structure prediction
  2. Shapiro, B. A.; Yingling, Y. G.; Kasprzak, W.; Bindewald, E.
  3. Current Opinion in Structural Biology. 2007, Apr; 17(2): 157-165.
  1. 5.   Graphical exploratory data analysis of RNA secondary structure dynamics predicted by the massively parallel genetic algorithm
  2. Shapiro, B. A.; Kasprzak, W.; Grunewald, C.; Aman, J.
  3. Journal of Molecular Graphics & Modelling. 2006, Dec; 25(4): 514-531.
  1. 6.   Examining interactions of HIV-1 reverse transcriptase with single-stranded template nucleotides by nucleoside analog interference
  2. Dash, C.; Fisher, T. S.; Prasad, V. R.; Le Grice, S. F. J.
  3. Journal of Biological Chemistry. 2006, Sep; 281(38): 27873-27881.
  1. 7.   Preconceptional fasting of fathers alters serum glucose in offspring of mice
  2. Anderson, L. M.; Riffle, L.; Wilson, R.; Travlos, G. S.; Lubomirski, M. S.; Alvord, W. G.
  3. Nutrition. 2006, MAR; 22(3): 327-331.
  1. 8.   Comprehensive analysis of pathway or functionally related gene expression in the National Cancer Institute's anticancer screen
  2. Huang, R.; Wallqvist, A.; Covell, D. G.
  3. Genomics. 2006, MAR; 87(3): 315-328.
  1. 9.   WholePathwayScope: a comprehensive pathway-based analysis tool for high-throughput data
  2. Yi, M.; Horton, J. D.; Cohen, J. C.; Hobbs, H. H.; Stephens, R. M.
  3. Bmc Bioinformatics. 2006, JAN 19; 7
  1. 10.   RNA secondary structure prediction from sequence alignments using a network of k-nearest neighbor classifiers
  2. Bindewald, E.; Shapiro, B. A.
  3. Rna-a Publication of the Rna Society. 2006 12(3): 342-352.
  1. 11.   Structure of a V3-containing HIV-1 gp120 core
  2. Huang, C. C.; Tang, M.; Zhang, M. Y.; Majeed, S.; Montabana, E.; Stanfield, R. L.; Dimitrov, D. S.; Korber, B.; Sodroski, J.; Wilson, I. A.; Wyatt, R.; Kwong, P. D.
  3. Science. 2005, NOV 11; 310(5750): 1025-1028.
  1. 12.   Effect of posttranscriptional regulatory elements on transgene expression and virus production in the context of retrovirus vectors
  2. Hlavaty, J.; Schittmayer, M.; Stracke, A.; Jandl, G.; Knapp, E.; Felber, B. K.; Salmons, B.; Gunzburg, W. H.; Renner, M.
  3. Virology. 2005, OCT 10; 341(1): 1-11.
  1. 13.   Virion envelope content, infectivity, and neutralization sensitivity of simian immunodeficiency virus
  2. Yuste, E.; Johnson, W.; Pavlakis, G. N.; Desrosiers, R. C.
  3. Journal of Virology. 2005, OCT; 79(19): 12455-12463.
  1. 14.   Structure-based discovery of nonpeptidic small organic compounds to block the T cell response to myelin basic protein
  2. Koehler, N. K. U.; Yang, C. Y.; Varady, J.; Lu, Y. P.; Wu, X. W.; Liu, M.; Yin, D. X.; Bartels, M.; Xu, B. Y.; Roller, P. P.; Long, Y. Q.; Li, P.; Kattah, M.; Cohn, M. L.; Moran, K.; Tilley, E.; Richert, J. R.; Wang, S. M.
  3. Journal of Medicinal Chemistry. 2004, OCT 7; 47(21): 4989-4997.
  1. 15.   Anti-HIV cyclotides
  2. Gustafson, K. R.; McKee, T. C.; Bokesch, H. R.
  3. Current Protein & Peptide Science. 2004, OCT; 5(5): 331-340.
  1. 16.   Predictive values of traditional animal bioassay studies for human perinatal carcinogenesis risk determination
  2. Anderson, L. M.
  3. Toxicology and Applied Pharmacology. 2004, SEP 1; 199(2): 162-174.
  1. 17.   Susceptibility to astrocytoma in mice mutant for Nf1 and Trp53 is linked to chromosome 11 and subject to epigenetic effects
  2. Reilly, K. M.; Tuskan, R. G.; Christy, E.; Loisel, D. A.; Ledger, J.; Bronson, R. T.; Smith, C. D.; Tsang, S.; Munroe, D. J.; Jacks, T.
  3. Proceedings of the National Academy of Sciences of the United States of America. 2004, AUG 31; 101(35): 13008-13013.
  1. 18.   Site-specific mutagenesis in Escherichia coli by N-2- deoxyguanosine adducts derived from the highly carcinogenic fjord-region benzo c phenanthrene 3,4-diol 1,2-epoxides
  2. Ramos, L. A.; Ponten, I.; Dipple, A.; Kumar, S.; Yagi, H.; Sayer, J. M.; Kroth, H.; Kalena, G.; Jerina, D. M.
  3. Chemical Research in Toxicology. 2002 15(12): 1619-1626.
  1. 19.   Differences between the mutational consequences of replication of cis- and trans-opened benzo[a]pyrene 7,8-diol 9,10-epoxide- deoxyguanosine adducts in M13mp7L2 constructs
  2. Ponten, I.; Kroth, H.; Sayer, J. M.; Dipple, A.; Jerina, D. M.
  3. Chemical Research in Toxicology. 2001 14(6): 720-726.
  1. 20.   Factors determining mutagenic potential for individual cis and trans opened benzo[c]phenanthrene diol epoxide-deoxyadenosine adducts
  2. Ponten, I.; Sayer, J. M.; Pilcher, A. S.; Yagi, H.; Kumar, S.; Jerina, D. M.; Dipple, A.
  3. Biochemistry. 2000 39(14): 4136-4144.
  1. 21.   Mutational spectra for polycyclic aromatic hydrocarbons in the supF target gene
  2. Bigger, C. A. H.; Ponten, I.; Page, J. E.; Dipple, A.
  3. Mutation Research - Fundamental & Molecular Mechanisms of Mutagenesis. 2000 450(1-2 Special Issue SI): 75-93.
  1. 22.   Mutational consequences of replication of M13mp7L2 constructs containing cis-opened benzo
  2. Page, J. E.; Pilcher, A. S.; Yagi, H.; Sayer, J. M.; Jerina, D. M.; Dipple, A.
  3. Chemical Research in Toxicology. 1999 12(3): 258-263.
  1. 23.   Site-specific mutagenesis with benzo
  2. Page, J. E.; Liang, C. Y.; Sayer, J. M.; Jerina, D. M.; Dipple, A.
  3. Polycyclic Aromatic Compounds. 1999 16(1-4): 99-108.
  1. 24.   DNA reactions, mutagenic action and stealth properties of polycyclic aromatic hydrocarbon carcinogens (Review)
  2. Dipple, A.; Khan, Q. A.; Page, J. E.; Ponten, I.; Szeliga, J.
  3. International Journal of Oncology. 1999 14(1): 103-111.
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