Detailed Analysis of Dorsal-Ventral Gradients of Gene Expression in the Hippocampus of Adult Rats
Abstract
:1. Introduction
2. Results
2.1. Function-Related Differences in Gene Expression between the Dorsal and Ventral Hippocampus
2.1.1. Genes Related to Classical Neurotransmitters
2.1.2. Genes Related to Peptide or Protein Ligands and Their Receptors
2.1.3. Genes Related to Other Signaling Pathways
2.2. Cell-Specific Differences in Gene Expression between the Dorsal and Ventral Hippocampus
2.3. Differences in the Dorsoventral Gradient between Datasets Are Related to Genes Expressed in All Cell Types
2.4. Genes with Stable Dorsoventral Gradients of Expression
2.5. Differential Alternative Splicing between the Dorsal and Ventral Hippocampus
2.6. Analysis of Differential Expression of Transposable Elements
3. Discussion
3.1. Technical Issues
3.2. Functional Importance of Dorsoventral Gradients
3.3. Expression of Transposable Elements
4. Materials and Methods
4.1. Animals
4.2. Sample Acquisition for RNA-seq
4.3. RNA Extraction, cDNA Library Construction, RNA-seq and Data Analysis
4.4. Bioinformatic Analysis
4.4.1. Read Mapping and Counting
4.4.2. Gene Ontology and Visualisation
4.4.3. RNA-seq Data Access
5. Conclusions
Supplementary Materials
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Acknowledgments
Conflicts of Interest
References
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Beletskiy, A.; Positselskaya, E.; Vinarskaya, A.K.; Spivak, Y.S.; Dobryakova, Y.V.; Tyulenev, I.; Markevich, V.A.; Bolshakov, A.P. Detailed Analysis of Dorsal-Ventral Gradients of Gene Expression in the Hippocampus of Adult Rats. Int. J. Mol. Sci. 2022, 23, 9948. https://doi.org/10.3390/ijms23179948
Beletskiy A, Positselskaya E, Vinarskaya AK, Spivak YS, Dobryakova YV, Tyulenev I, Markevich VA, Bolshakov AP. Detailed Analysis of Dorsal-Ventral Gradients of Gene Expression in the Hippocampus of Adult Rats. International Journal of Molecular Sciences. 2022; 23(17):9948. https://doi.org/10.3390/ijms23179948
Chicago/Turabian StyleBeletskiy, Alexander, Ekaterina Positselskaya, Aliya Kh. Vinarskaya, Yulia S. Spivak, Yulia V. Dobryakova, Iliya Tyulenev, Vladimir A. Markevich, and Alexey P. Bolshakov. 2022. "Detailed Analysis of Dorsal-Ventral Gradients of Gene Expression in the Hippocampus of Adult Rats" International Journal of Molecular Sciences 23, no. 17: 9948. https://doi.org/10.3390/ijms23179948