and the development of functional annotation. PGAP is a stand-alone tool that conducts analysis related to pan-genome, genetic variation, evolution, and functional aspects of gene clusters[56]. The software uses two methods to calculate all of the analyses: (i) the GF method to detect homologo...
We calculated the recall and precision of minigraph SVs (non-reference alleles in the genome graph) over the 287 probands against the SVs obtained with PBSV (Methods), which uses unassembled PacBio HiFi reads aligned to the GRCh38 reference genome. This yields a two-dimensional distribution ...
8 Research Uses Marmosets and tamarins are well suited for some types of research due to their relatively small body size, more affordable housing and animal care costs, high reproductive capacity in captivity (especially true of marmosets), and earlier age of sexual maturity in comparison to ...
As an example of SV-overlap influencing adaptation, KNAT3 (AT5G25220) is a class II knotted1-like gene that uses BLH1 to directly regulates ABI3 expression to modulate seed germination and early seedling development. The knat3 mutants are less sensitive to ABA or salinity exposure during seed...
Panzoom is a small library (~3.7kb gzipped) to add panning and zooming functionality to an element. Rather than using absolute positioning or setting width and height, Panzoom uses CSS transforms to take advantage of hardware/GPU acceleration in the browser, which means the element can be ...
their functions. Thus, the pangenome has provided insights into a trait, salt tolerance, that is not only agronomically important but that is growing importance in the context of climate change and current agricultural uses. The current graph can be further augmented to embed the novel variants ...
The following example uses the arrow keys to pan a simple SVG graphic (blue circle): SVG Pan.In this example, panning (and zooming in the next example) is implemented by manipulating the value of the svg element’s viewBox attribute. The value of the viewBox attribute (a string of four...
/* get the tag's command line arguments ready. subst_pcnt_f() uses a * static counter, that's why we do it here instead of after we fork. */ if (colle->pcnt_f) { c_cmdline = subst_pcnt_f(colle); } else { c_cmdline = colle->cmdline; }...
For each sample, we assigned purity estimates using four methods: ESTIMATE, which uses gene expression profiles of 141 immune genes and 141 stromal genes6; ABSOLUTE, which uses somatic copy-number data (estimations were available for only 11 cancer types)7; LUMP (leukocytes unmethylation for ...
Of note, pan-cancer analysis uses data from different databases to analyze the relationship between genes and tumor-related factors in different tumor types, thus providing the corresponding biological targets for the diagnosis and treatment of tumors. The CKAP2L gene is located on chromosome 2 and...