Publications by authors named "Arkobrato Gupta"
Herpes Simplex Virus 1 evades the host immune system by expressing a protein, ICP47, that binds to and inhibits the heterodimeric Transporter Associated with Antigen Processing (TAP). We screened a library of 1786 variants in TAP2, one of the components of the TAP heterodimer, and identified 39 variants that were resistant to inhibition by ICP47. Of these 39 variants, five were individually tested, and three (T257I, S274H, and T244R) were confirmed to be significantly resistant to inhibition by ICP47.
View Article and Find Full Text PDFObjective: The behavioral and diagnostic heterogeneity within human opioid use disorder (OUD) diagnosis is not readily captured in current animal models, limiting translational relevance of the mechanistic research that is conducted in experimental animals. We hypothesize that a non-linear clustering of OUD-like behavioral traits will capture population heterogeneity and yield subpopulations of OUD vulnerable rats with distinct behavioral and neurocircuit profiles.
Methods: Over 900 male and female heterogeneous stock rats, a line capturing genetic and behavioral heterogeneity present in humans, were assessed for several measures of heroin use and rewarded and non-rewarded seeking behaviors.
Article Synopsis
- The study investigates the genetic factors influencing individual differences in opioid use disorder (OUD) vulnerability by conducting a genome-wide association study using over 850 rats.
- Researchers identified genetic variants linked to behaviors related to OUD, such as pain response, heroin use, and seeking behaviors, through a controlled environment that mimics human conditions.
- Key findings reveal several heritable behaviors and specific genetic variants related to pain sensitivity, heroin consumption patterns, and the neurological processes involved, highlighting potential targets for understanding and treating OUD.
Article Synopsis
- Genome-wide association studies (GWAS) have found many genetic variants linked to traits and diseases, but understanding how these variants function remains difficult, especially when variants affect multiple traits.
- The proposed graph-GPA 2.0 (GGPA 2.0) framework merges GWAS data for various phenotypes and includes functional annotations, leading to improved detection of disease-associated variants and better estimation of disease relationships.
- In analyses of autoimmune and psychiatric disorders, GGPA 2.0 identified significant epigenetic marks related to specific immune cells and brain regions, while also revealing shared genetic connections between conditions like bipolar disorder and schizophrenia.
Article Synopsis
- Gene expression profiling technologies are vital in fields like cancer research, as they help discover potential therapeutic targets by analyzing gene activity.
- The study emphasizes the importance of using statistical power analysis to ensure that transcriptomic experiments yield meaningful biological insights, highlighting differences in data characteristics among technologies like bulk RNA-seq and single-cell RNA-seq.
- The paper reviews existing tools for power analysis in bulk RNA-seq and scRNA-seq while noting the lack of tools for high-throughput spatial transcriptomics and discusses factors that could affect power analysis in that context.