The DNA Sequencing and Analysis Core has been in operation for the past twenty-one years and has provided CFAR members with state-of-the-art automated sequencing (DNA Sequencing Facility) and computer analysis capabilities (Molecular and Genetic Bioinformatics Facility). Core functions have included development of new methodologies for the automated sequencing process, training of investigators in the use of sequence analysis tools, development of new molecular biology approaches to characterize HIV/SIV genetic diversity, as well as supporting multidisciplinary and multi-institutional projects and collaborations. In the last budget period, the DNA Sequencing Facility has supported 62 CFAR investigators and provided essential services for over 100 AIDS related grants and contracts. 194 million base pairs of primary sequence were determined, generating over $2,100,000 in user charge-backs. Recently implemented automation has increased core efficiency and allowed to reduce user chargebacks from $8 to $6 per sequencing reaction. During the same time period, the Molecular and Genetic Bioinformatics Facility has actively supported over 30 CFAR investigators, and provided essential services for 62 AIDS related grants and contracts.
Specific Aims of the Core are: 1. To continue to provide automated DNA sequencing capabilities to CFAR members through the availability and maintenance of dedicated Applied Biosystems DNA Sequencers with capillary electrophoresis systems. 2. To establish new methods, technologies and reagents to assist investigators in the characterization of HIV/SIV genetic diversity. 3. To provide and maintain a comprehensive set of modem bioinformatic databases and analytical tools for the analysis of genetic information, including gene and genomic sequences. 4. To provide technical support and training in the use of these bioinformatic resources.
Studies of HIV pathogenesis, gene functions, immune responses and escape, vaccine development and drug discovery all necessitate access to rapid nucleotide sequence determinations and sophisticated bioinformatics analyses. The DNA Sequencing and Analysis Core thus supports the entire spectrum of AIDS related basic science research programs and has established itself as an integral component of the AIDS Center. Support of the DNA Sequencing Core is essential for the continuing success of AIDS investigators at UAB.
|Salazar-Gonzalez, Jesus F; Salazar, Maria G; Tully, Damien C et al. (2016) Use of Dried Blood Spots to Elucidate Full-Length Transmitted/Founder HIV-1 Genomes. Pathog Immun 1:129-153|
|Abedini-Nassab, Roozbeh; Joh, Daniel Y; Van Heest, Melissa et al. (2016) Magnetophoretic Conductors and Diodes in a 3D Magnetic Field. Adv Funct Mater 26:4026-4034|
|Dalecki, Alex G; Malalasekera, Aruni P; Schaaf, Kaitlyn et al. (2016) Combinatorial phenotypic screen uncovers unrecognized family of extended thiourea inhibitors with copper-dependent anti-staphylococcal activity. Metallomics 8:412-21|
|Pettit, April C; Mendes, Adell; Jenkins, Cathy et al. (2016) Timing of Antiretroviral Treatment, Immunovirologic Status, and TB Risk: Implications for Testing and Treatment. J Acquir Immune Defic Syndr 72:572-8|
|Friedman, Gregory K; Moore, Blake P; Nan, Li et al. (2016) Pediatric medulloblastoma xenografts including molecular subgroup 3 and CD133+ and CD15+ cells are sensitive to killing by oncolytic herpes simplex viruses. Neuro Oncol 18:227-35|
|Demark-Wahnefried, Wendy; Nix, Jeffery W; Hunter, Gary R et al. (2016) Feasibility outcomes of a presurgical randomized controlled trial exploring the impact of caloric restriction and increased physical activity versus a wait-list control on tumor characteristics and circulating biomarkers in men electing prostatectomy for BMC Cancer 16:61|
|Merlin, Jessica S; Tamhane, Ashutosh; Starrels, Joanna L et al. (2016) Factors Associated with Prescription of Opioids and Co-prescription of Sedating Medications in Individuals with HIV. AIDS Behav 20:687-98|
|Khan, Shahzada; Woodruff, Erik M; Trapecar, Martin et al. (2016) Dampened antiviral immunity to intravaginal exposure to RNA viral pathogens allows enhanced viral replication. J Exp Med 213:2913-2929|
|Kumar, Ashish; Zhang, Jennifer; Tallaksen-Greene, Sara et al. (2016) Allelic series of Huntington's disease knock-in mice reveals expression discorrelates. Hum Mol Genet 25:1619-36|
|Qin, Hongwei; Buckley, Jessica A; Li, Xinru et al. (2016) Inhibition of the JAK/STAT Pathway Protects Against Î±-Synuclein-Induced Neuroinflammation and Dopaminergic Neurodegeneration. J Neurosci 36:5144-59|
Showing the most recent 10 out of 784 publications