Bioinformatics models in drug abuse and Neuro-AIDS: Using and developing databases
The magnitude of the problems of drug abuse and Neuro-AIDS warrants the development of novel approaches for testing hypotheses in diagnosis and treatment ranging from cell culture models to developing databases. In this study, cultured neurons were treated with/without HIV-TAT...
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Biomedical Informatics Publishing Group
2006
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| Online Access: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1891660/ |
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pubmed-18916602007-06-27 Bioinformatics models in drug abuse and Neuro-AIDS: Using and developing databases Shapshak, Paul Duncan, Robert Turchan, Jadwiga Nath, Avindra Minagar, Alireza Kangueane, Pandjassarame Davis, Wade Chiappelli, Francesco Elkomy, Fatten Seth, Raman Kazic, Toni Hypothesis The magnitude of the problems of drug abuse and Neuro-AIDS warrants the development of novel approaches for testing hypotheses in diagnosis and treatment ranging from cell culture models to developing databases. In this study, cultured neurons were treated with/without HIV-TAT, ENV, or cocaine in a 2x2x2 expression study design. RNA was purified, labeled, and expression data were produced and analyzed using ANOVA. Thus, we identified 35 genes that were significantly expressed across treatment conditions. A diagram is presented showing examples of molecular relationships involving a significantly expressed gene in the current study (SOX2). Also, we use this information to discuss examples of gene expression interactions as a means to portray significance and complexity of gene expression studies in Drug Abuse and Neuro-AIDS. Furthermore, we discuss here that critical interactions remain undetected, which may be unravelled by developing robust database systems containing large datasets and gleaned information from collaborating scientists . Hence, we are developing a public domain database we named The Agora database , that will served as a shared infrastructure to query, deposit, and review information related to drug abuse and dementias including Neuro-AIDS. A workflow of this database is also outlined in this paper. Biomedical Informatics Publishing Group 2006-02-22 /pmc/articles/PMC1891660/ /pubmed/17597862 Text en © 2006 Biomedical Informatics Publishing Group This is an open-access article, which permits unrestricted use, distribution, and reproduction in any medium, for non-commercial purposes, provided the original author and source are credited. |
| repository_type |
Open Access Journal |
| institution_category |
Foreign Institution |
| institution |
US National Center for Biotechnology Information |
| building |
NCBI PubMed |
| collection |
Online Access |
| language |
English |
| format |
Online |
| author |
Shapshak, Paul Duncan, Robert Turchan, Jadwiga Nath, Avindra Minagar, Alireza Kangueane, Pandjassarame Davis, Wade Chiappelli, Francesco Elkomy, Fatten Seth, Raman Kazic, Toni |
| spellingShingle |
Shapshak, Paul Duncan, Robert Turchan, Jadwiga Nath, Avindra Minagar, Alireza Kangueane, Pandjassarame Davis, Wade Chiappelli, Francesco Elkomy, Fatten Seth, Raman Kazic, Toni Bioinformatics models in drug abuse and Neuro-AIDS: Using and developing databases |
| author_facet |
Shapshak, Paul Duncan, Robert Turchan, Jadwiga Nath, Avindra Minagar, Alireza Kangueane, Pandjassarame Davis, Wade Chiappelli, Francesco Elkomy, Fatten Seth, Raman Kazic, Toni |
| author_sort |
Shapshak, Paul |
| title |
Bioinformatics models in drug abuse and Neuro-AIDS: Using and developing databases |
| title_short |
Bioinformatics models in drug abuse and Neuro-AIDS: Using and developing databases |
| title_full |
Bioinformatics models in drug abuse and Neuro-AIDS: Using and developing databases |
| title_fullStr |
Bioinformatics models in drug abuse and Neuro-AIDS: Using and developing databases |
| title_full_unstemmed |
Bioinformatics models in drug abuse and Neuro-AIDS: Using and developing databases |
| title_sort |
bioinformatics models in drug abuse and neuro-aids: using and developing databases |
| description |
The magnitude of the problems of drug abuse and Neuro-AIDS warrants the development of novel approaches for testing
hypotheses in diagnosis and treatment ranging from cell culture models to developing databases. In this study, cultured
neurons were treated with/without HIV-TAT, ENV, or cocaine in a 2x2x2 expression study design. RNA was purified, labeled,
and expression data were produced and analyzed using ANOVA. Thus, we identified 35 genes that were significantly expressed
across treatment conditions. A diagram is presented showing examples of molecular relationships involving a significantly
expressed gene in the current study (SOX2). Also, we use this information to discuss examples of gene expression interactions
as a means to portray significance and complexity of gene expression studies in Drug Abuse and Neuro-AIDS. Furthermore, we
discuss here that critical interactions remain undetected, which may be unravelled by developing robust database systems
containing large datasets and gleaned information from collaborating scientists . Hence, we are developing a public domain
database we named The Agora database , that will served as a shared infrastructure to query, deposit, and review information
related to drug abuse and dementias including Neuro-AIDS. A workflow of this database is also outlined in this paper. |
| publisher |
Biomedical Informatics Publishing Group |
| publishDate |
2006 |
| url |
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1891660/ |
| _version_ |
1611397251637182464 |