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.
|Rodriguez-Garcia, M; Shen, Z; Barr, F D et al. (2017) Dendritic cells from the human female reproductive tract rapidly capture and respond to HIV. Mucosal Immunol 10:531-544|
|Dubrow, Robert; Qin, Li; Lin, Haiqun et al. (2017) Association of CD4+ T-cell Count, HIV-1 RNA Viral Load, and Antiretroviral Therapy With Kaposi Sarcoma Risk Among HIV-infected Persons in the United States and Canada. J Acquir Immune Defic Syndr 75:382-390|
|Kumar, Ranjit; Yi, Nengjun; Zhi, Degui et al. (2017) Identification of donor microbe species that colonize and persist long term in the recipient after fecal transplant for recurrent Clostridium difficile. NPJ Biofilms Microbiomes 3:12|
|Zhang, Yong; Kwon, Dongjin; Pohl, Kilian M (2017) Computing group cardinality constraint solutions for logistic regression problems. Med Image Anal 35:58-69|
|Willig, Amanda L; Kramer, Philip A; Chacko, Balu K et al. (2017) Monocyte bioenergetic function is associated with body composition in virologically suppressed HIV-infected women. Redox Biol 12:648-656|
|Crane, Heidi M; Nance, Robin M; Merrill, Joseph O et al. (2017) Not all non-drinkers with HIV are equal: demographic and clinical comparisons among current non-drinkers with and without a history of prior alcohol use disorders. AIDS Care 29:177-184|
|Khass, Mohamed; Schelonka, Robert L; Liu, Cun Ren et al. (2017) Alterations in B cell development, CDR-H3 repertoire and dsDNA-binding antibody production among C57BL/6 ?D-iD mice congenic for the lupus susceptibility loci sle1, sle2 or sle3. Autoimmunity 50:42-51|
|Robinson, Tanya O; Zhang, Mingce; Ochsenbauer, Christina et al. (2017) CD4 regulatory T cells augment HIV-1 expression of polarized M1 and M2 monocyte derived macrophages. Virology 504:79-87|
|Saag, Michael S; Westfall, Andrew O; Cole, Stephen R et al. (2017) Brief Report: Factors Associated With the Selection of Initial Antiretroviral Therapy From 2009 to 2012. J Acquir Immune Defic Syndr 74:60-64|
|Pham, Thieng; Perry, Jacob L; Dosey, Timothy L et al. (2017) The Rotavirus NSP4 Viroporin Domain is a Calcium-conducting Ion Channel. Sci Rep 7:43487|
Showing the most recent 10 out of 872 publications