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Yes, Spatial transcriptomics and scRNA-Seq (single-cell RNA sequencing) are indeed related.
Single-cell RNA sequencing (scRNA-seq) has become essential for biomedical research over the past decade, particularly in developmental biology, cancer, immunology, and neuroscience. Most commercially available scRNA-seq protocols require cells to be recovered intact and viable from tissue. However, this process largely destroys the spatial context that could otherwise inform analyses of cell identity and function.
Spatial transcriptomics is a method that facilitates spatially resolved, high-dimensional assessment of gene transcription. It records the locations of hybridized mRNA molecules in tissue, images the positions of cells themselves prior to assessment, or employs spatial arrays of mRNA probes of pre-determined location.
The integration of spatial transcriptomics and scRNA-seq provides comprehensive insights into spatiotemporal patterns, marker genes, cellular interaction networks, and developmental trajectories. For example, single-cell spatial transcriptomic technology complements the cell-space location information lost during single-cell sequencing. This combined approach is improving our understanding of human tissues in research, diagnostic, and therapeutic settings.
References:
(1) An introduction to spatial transcriptomics for biomedical research …. https://genomemedicine.biomedcentral.com/articles/10.1186/s13073-022-01075-1.
(2) Advances in spatial transcriptomics and related data analysis …. https://translational-medicine.biomedcentral.com/articles/10.1186/s12967-023-04150-2.
(3) Frontiers | ScRNA-seq and spatial transcriptomics: exploring the …. https://www.frontiersin.org/articles/10.3389/fcvm.2023.1064949/full.The Species Hypothesis (SH) is a concept used in the field of biology, particularly in the study of Eukaryotes. It refers to any species-level group of individuals that share a given set of observed characters. In the context of DNA sequencing, these are sequences that share a given level of similarity, also known as operational taxonomic units (OTUs).
Each Species Hypothesis has a unique accession code, for example, SH037970.06FU, where SH translates into Species Hypothesis and is followed by a unique number, full stop, version number, and taxon acronym (FU for Fungi). The full name of the Species Hypothesis includes the Latin (or other) name given to the sequence, the SH accession code, the similarity level at which the SH was designated, and the INSDC/UNITE (nucleotide/fungal databases) accession number of the representative/reference sequence.
gDNA is genomic DNA present in every cell. This is in contrast to cDNA which is complementary DNA synthesized by inverse transcriptase on an RNA template.
gRNA is guide RNA that brings Cas enzyme to the exact DNA or RNA sequence to cut. See this What is CRISPR?
Here is an answer generated by AI:
DNA methylation, an epigenetic modification, can be measured using several methods:
- Chromatin Immunoprecipitation (ChIP): This method uses methylation-specific antibodies to purify methylated regions of the genome. The DNA is then analyzed by microarray or Next Generation Sequencing (NGS) to identify these regions.
- Bisulfite-based methods: These involve treating the DNA sample with bisulfite, which converts unmethylated cytosine bases to a uracil base, while leaving methylated residues as a cytosine. The treated DNA is then analyzed by microarray or NGS.
- Restriction enzyme-based DNA methylation analysis: This includes various methods like MS-AFLP, DMH, CHARM, MMASS, HELP, MS-MLPA, LUMA, RLGS, and MCA.
Each method has its own advantages and is used based on the specific requirements of the study.
Do you mean Warrior Gene?
This is monoamine oxidase A-low activity (MAOA-L). It is located on X-chromosome. its presence in men is linked to aggressive and violent behavior, particularly when provoked or challenged. This gene variant may be present in 30-40% of male population. Its high activity variant is MAOA-H.
Monoamine oxidase enzyme catalyzes the catabolism of serotonin and norepinephrine.
