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16S rRNA sequences of uncultivated hot spring cyanobacterial mat inhabitants retrieved as randomly primed cDNA.
Weller R, Weller JW, Ward DM. Weller R, et al. Among authors: weller jw. Appl Environ Microbiol. 1991 Apr;57(4):1146-51. doi: 10.1128/AEM.57.4.1146-1151.1991. Appl Environ Microbiol. 1991. PMID: 1711832 Free PMC article.
Probing the initiation complex formation on E coli ribosomes using short complementary DNA oligomers.
Weller J, Hill WE. Weller J, et al. Biochimie. 1991 Jul-Aug;73(7-8):971-81. doi: 10.1016/0300-9084(91)90138-q. Biochimie. 1991. PMID: 1720673
Probing the interactions of poly(U) and tRNA(Phe) with nucleotides 1530-1542 and 1390-1417 of 16 S rRNA of Escherichia coli.
Weller J, Hill WE. Weller J, et al. J Biol Chem. 1994 Jul 29;269(30):19369-74. J Biol Chem. 1994. PMID: 8034702
Probing dynamic changes in rRNA conformation in the 30S subunit of the Escherichia coli ribosome.
Weller JW, Hill WE. Weller JW, et al. Biochemistry. 1992 Mar 17;31(10):2748-57. doi: 10.1021/bi00125a015. Biochemistry. 1992. PMID: 1547215
Secondary structure in the target as a confounding factor in synthetic oligomer microarray design.
Ratushna VG, Weller JW, Gibas CJ. Ratushna VG, et al. Among authors: weller jw. BMC Genomics. 2005 Mar 8;6:31. doi: 10.1186/1471-2164-6-31. BMC Genomics. 2005. PMID: 15755320 Free PMC article.
Application of equilibrium models of solution hybridization to microarray design and analysis.
Gharaibeh RZ, Newton JM, Weller JW, Gibas CJ. Gharaibeh RZ, et al. Among authors: weller jw. PLoS One. 2010 Jun 10;5(6):e11048. doi: 10.1371/journal.pone.0011048. PLoS One. 2010. PMID: 20548788 Free PMC article.
A white-box approach to microarray probe response characterization: the BaFL pipeline.
Thompson KJ, Deshmukh H, Solka JL, Weller JW. Thompson KJ, et al. Among authors: weller jw. BMC Bioinformatics. 2009 Dec 29;10:449. doi: 10.1186/1471-2105-10-449. BMC Bioinformatics. 2009. PMID: 20040098 Free PMC article.
Spectral embedding finds meaningful (relevant) structure in image and microarray data.
Higgs BW, Weller J, Solka JL. Higgs BW, et al. BMC Bioinformatics. 2006 Feb 16;7:74. doi: 10.1186/1471-2105-7-74. BMC Bioinformatics. 2006. PMID: 16483359 Free PMC article.
ArrayInitiative - a tool that simplifies creating custom Affymetrix CDFs.
Overall CC, Carr DA, Tabari ES, Thompson KJ, Weller JW. Overall CC, et al. Among authors: weller jw. BMC Bioinformatics. 2011 May 6;12:136. doi: 10.1186/1471-2105-12-136. BMC Bioinformatics. 2011. PMID: 21548938 Free PMC article.
A network inference workflow applied to virulence-related processes in Salmonella typhimurium.
Taylor RC, Singhal M, Weller J, Khoshnevis S, Shi L, McDermott J. Taylor RC, et al. Ann N Y Acad Sci. 2009 Mar;1158:143-58. doi: 10.1111/j.1749-6632.2008.03762.x. Ann N Y Acad Sci. 2009. PMID: 19348639
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