BACKGROUND: Human immunodeficiency virus (HIV) research involves ongoing, repetitious sequencing of the HIV genome and the massive accumulation of associated investigational data. As a result, the storage of annotated DNA and/or protein sequences, as well as information retrieval, have become increasingly difficult tasks, with scientists extracting less information from their collected data than they should. OBJECTIVES: Our objective was to design and develop a software package to aid researchers in the storage, analysis and exploration of their HIV-associated data. RESULTS: HIVbase contains familiar, easy-to-use interfaces and functionality for integrating many types of disparate data. The software contains tools that allow for the mass import of raw genetic data, eliminate repetitious sequence translations, have the ability to identify automatically and store HIV regions of interest from nucleic acid or protein sequences, allow for the export of data in commonly used analysis-ready formats, and for unique querying approaches.
BACKGROUND:Human immunodeficiency virus (HIV) research involves ongoing, repetitious sequencing of the HIV genome and the massive accumulation of associated investigational data. As a result, the storage of annotated DNA and/or protein sequences, as well as information retrieval, have become increasingly difficult tasks, with scientists extracting less information from their collected data than they should. OBJECTIVES: Our objective was to design and develop a software package to aid researchers in the storage, analysis and exploration of their HIV-associated data. RESULTS: HIVbase contains familiar, easy-to-use interfaces and functionality for integrating many types of disparate data. The software contains tools that allow for the mass import of raw genetic data, eliminate repetitious sequence translations, have the ability to identify automatically and store HIV regions of interest from nucleic acid or protein sequences, allow for the export of data in commonly used analysis-ready formats, and for unique querying approaches.
Authors: Susanna L Lamers; Marco Salemi; Michael S McGrath; Gary B Fogel Journal: IEEE/ACM Trans Comput Biol Bioinform Date: 2008 Apr-Jun Impact factor: 3.710
Authors: Susanna L Lamers; Marco Salemi; Derek C Galligan; Alanna Morris; Rebecca Gray; Gary Fogel; Li Zhao; Michael S McGrath Journal: J Neurovirol Date: 2010-05 Impact factor: 2.643
Authors: Susanna L Lamers; Rebecca Rose; Sissy Cross; Christopher W Rodriguez; Andrew D Redd; Thomas C Quinn; David Serwadda; Joseph Kagaayi; Godfrey Kigozi; Ronald Galiwango; Ronald H Gray; M Kate Grabowski; Oliver Laeyendecker Journal: AIDS Res Hum Retroviruses Date: 2020-06 Impact factor: 2.205
Authors: Marco Salemi; Susanna L Lamers; Stephanie Yu; T de Oliveira; Walter M Fitch; Michael S McGrath Journal: J Virol Date: 2005-09 Impact factor: 5.103
Authors: Marco Salemi; Susanna L Lamers; Leanne C Huysentruyt; Derek Galligan; Rebecca R Gray; Alanna Morris; Michael S McGrath Journal: PLoS One Date: 2009-12-03 Impact factor: 3.240
Authors: Susanna L Lamers; Marco Salemi; Derek C Galligan; Tulio de Oliveira; Gary B Fogel; Sara C Granier; Li Zhao; Joseph N Brown; Alanna Morris; Eliezer Masliah; Michael S McGrath Journal: PLoS One Date: 2009-03-31 Impact factor: 3.240
Authors: Marco Salemi; Brant R Burkhardt; Rebecca R Gray; Guity Ghaffari; John W Sleasman; Maureen M Goodenow Journal: PLoS One Date: 2007-09-26 Impact factor: 3.240